---
_id: '13271'
abstract:
- lang: eng
text: "In this paper, we prove the convexity of trace functionals (A,B,C)↦Tr|BpACq|s,\r\nfor
parameters (p, q, s) that are best possible, where B and C are any n-by-n positive-definite
matrices, and A is any n-by-n matrix. We also obtain the monotonicity versions
of trace functionals of this type. As applications, we extend some results in
Carlen et al. (Linear Algebra Appl 490:174–185, 2016), Hiai and Petz (Publ Res
Inst Math Sci 48(3):525-542, 2012) and resolve a conjecture in Al-Rashed and Zegarliński
(Infin Dimens Anal Quantum Probab Relat Top 17(4):1450029, 2014) in the matrix
setting. Other conjectures in Al-Rashed and Zegarliński (Infin Dimens Anal Quantum
Probab Relat Top 17(4):1450029, 2014) will also be discussed. We also show that
some related trace functionals are not concave in general. Such concavity results
were expected to hold in different problems."
acknowledgement: I am grateful to Boguslaw Zegarliński for asking me the questions
in [3] and for helpful communication. I also want to thank Paata Ivanisvili for
drawing [25] to my attention and for useful correspondence. Many thanks to the anonymous
referee for the valuable comments and for pointing out some errors in an earlier
version of the paper. This work is partially supported by the European Union’s Horizon
2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement
No. 754411 and the Lise Meitner fellowship, Austrian Science Fund (FWF) M3337.
article_processing_charge: No
article_type: original
author:
- first_name: Haonan
full_name: Zhang, Haonan
id: D8F41E38-9E66-11E9-A9E2-65C2E5697425
last_name: Zhang
citation:
ama: Zhang H. Some convexity and monotonicity results of trace functionals. Annales
Henri Poincare. 2023. doi:10.1007/s00023-023-01345-7
apa: Zhang, H. (2023). Some convexity and monotonicity results of trace functionals.
Annales Henri Poincare. Springer Nature. https://doi.org/10.1007/s00023-023-01345-7
chicago: Zhang, Haonan. “Some Convexity and Monotonicity Results of Trace Functionals.”
Annales Henri Poincare. Springer Nature, 2023. https://doi.org/10.1007/s00023-023-01345-7.
ieee: H. Zhang, “Some convexity and monotonicity results of trace functionals,”
Annales Henri Poincare. Springer Nature, 2023.
ista: Zhang H. 2023. Some convexity and monotonicity results of trace functionals.
Annales Henri Poincare.
mla: Zhang, Haonan. “Some Convexity and Monotonicity Results of Trace Functionals.”
Annales Henri Poincare, Springer Nature, 2023, doi:10.1007/s00023-023-01345-7.
short: H. Zhang, Annales Henri Poincare (2023).
date_created: 2023-07-23T22:01:15Z
date_published: 2023-07-08T00:00:00Z
date_updated: 2023-12-13T11:33:46Z
day: '08'
department:
- _id: JaMa
doi: 10.1007/s00023-023-01345-7
ec_funded: 1
external_id:
arxiv:
- '2108.05785'
isi:
- '001025709100001'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2108.05785
month: '07'
oa: 1
oa_version: Preprint
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
- _id: eb958bca-77a9-11ec-83b8-c565cb50d8d6
grant_number: M03337
name: Curvature-dimension in noncommutative analysis
publication: Annales Henri Poincare
publication_identifier:
issn:
- 1424-0637
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Some convexity and monotonicity results of trace functionals
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13258'
abstract:
- lang: eng
text: Many human interactions feature the characteristics of social dilemmas where
individual actions have consequences for the group and the environment. The feedback
between behavior and environment can be studied with the framework of stochastic
games. In stochastic games, the state of the environment can change, depending
on the choices made by group members. Past work suggests that such feedback can
reinforce cooperative behaviors. In particular, cooperation can evolve in stochastic
games even if it is infeasible in each separate repeated game. In stochastic games,
participants have an interest in conditioning their strategies on the state of
the environment. Yet in many applications, precise information about the state
could be scarce. Here, we study how the availability of information (or lack thereof)
shapes evolution of cooperation. Already for simple examples of two state games
we find surprising effects. In some cases, cooperation is only possible if there
is precise information about the state of the environment. In other cases, cooperation
is most abundant when there is no information about the state of the environment.
We systematically analyze all stochastic games of a given complexity class, to
determine when receiving information about the environment is better, neutral,
or worse for evolution of cooperation.
acknowledgement: 'This work was supported by the European Research Council CoG 863818
(ForM-SMArt) (to K.C.), the European Research Council Starting Grant 850529: E-DIRECT
(to C.H.), the European Union’s Horizon 2020 research and innovation program under
the Marie Sklodowska-Curie Grant Agreement #754411 and the French Agence Nationale
de la Recherche (under the Investissement d’Avenir programme, ANR-17-EURE-0010)
(to M.K.).'
article_number: '4153'
article_processing_charge: Yes
article_type: original
author:
- first_name: Maria
full_name: Kleshnina, Maria
id: 4E21749C-F248-11E8-B48F-1D18A9856A87
last_name: Kleshnina
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
- first_name: Stepan
full_name: Simsa, Stepan
id: 409d615c-2f95-11ee-b934-90a352102c1e
last_name: Simsa
orcid: 0000-0001-6687-1210
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Martin A.
full_name: Nowak, Martin A.
last_name: Nowak
citation:
ama: Kleshnina M, Hilbe C, Simsa S, Chatterjee K, Nowak MA. The effect of environmental
information on evolution of cooperation in stochastic games. Nature Communications.
2023;14. doi:10.1038/s41467-023-39625-9
apa: Kleshnina, M., Hilbe, C., Simsa, S., Chatterjee, K., & Nowak, M. A. (2023).
The effect of environmental information on evolution of cooperation in stochastic
games. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-023-39625-9
chicago: Kleshnina, Maria, Christian Hilbe, Stepan Simsa, Krishnendu Chatterjee,
and Martin A. Nowak. “The Effect of Environmental Information on Evolution of
Cooperation in Stochastic Games.” Nature Communications. Springer Nature,
2023. https://doi.org/10.1038/s41467-023-39625-9.
ieee: M. Kleshnina, C. Hilbe, S. Simsa, K. Chatterjee, and M. A. Nowak, “The effect
of environmental information on evolution of cooperation in stochastic games,”
Nature Communications, vol. 14. Springer Nature, 2023.
ista: Kleshnina M, Hilbe C, Simsa S, Chatterjee K, Nowak MA. 2023. The effect of
environmental information on evolution of cooperation in stochastic games. Nature
Communications. 14, 4153.
mla: Kleshnina, Maria, et al. “The Effect of Environmental Information on Evolution
of Cooperation in Stochastic Games.” Nature Communications, vol. 14, 4153,
Springer Nature, 2023, doi:10.1038/s41467-023-39625-9.
short: M. Kleshnina, C. Hilbe, S. Simsa, K. Chatterjee, M.A. Nowak, Nature Communications
14 (2023).
date_created: 2023-07-23T22:01:11Z
date_published: 2023-07-12T00:00:00Z
date_updated: 2023-12-13T11:42:38Z
day: '12'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1038/s41467-023-39625-9
ec_funded: 1
external_id:
isi:
- '001029450400031'
pmid:
- '37438341'
file:
- access_level: open_access
checksum: 5aceefdfe76686267b93ae4fe81899f1
content_type: application/pdf
creator: dernst
date_created: 2023-07-31T11:32:36Z
date_updated: 2023-07-31T11:32:36Z
file_id: '13337'
file_name: 2023_NatureComm_Kleshnina.pdf
file_size: 1601682
relation: main_file
success: 1
file_date_updated: 2023-07-31T11:32:36Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '863818'
name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '13336'
relation: research_data
status: public
scopus_import: '1'
status: public
title: The effect of environmental information on evolution of cooperation in stochastic
games
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2023'
...
---
_id: '13263'
abstract:
- lang: eng
text: "Motivation: Boolean networks are simple but efficient mathematical formalism
for modelling complex biological systems. However, having only two levels of activation
is sometimes not enough to fully capture the dynamics of real-world biological
systems. Hence, the need for multi-valued networks (MVNs), a generalization of
Boolean networks. Despite the importance of MVNs for modelling biological systems,
only limited progress has been made on developing theories, analysis methods,
and tools that can support them. In particular, the recent use of trap spaces
in Boolean networks made a great impact on the field of systems biology, but there
has been no similar concept defined and studied for MVNs to date.\r\n\r\nResults:
In this work, we generalize the concept of trap spaces in Boolean networks to
that in MVNs. We then develop the theory and the analysis methods for trap spaces
in MVNs. In particular, we implement all proposed methods in a Python package
called trapmvn. Not only showing the applicability of our approach via a realistic
case study, we also evaluate the time efficiency of the method on a large collection
of real-world models. The experimental results confirm the time efficiency, which
we believe enables more accurate analysis on larger and more complex multi-valued
models."
acknowledgement: This work was supported by L’Institut Carnot STAR, Marseille, France,
and by the European Union’s Horizon 2020 research and innovation programme under
the Marie Skłodowska-Curie Grant Agreement No. [101034413].
article_processing_charge: Yes
article_type: original
author:
- first_name: Van Giang
full_name: Trinh, Van Giang
last_name: Trinh
- first_name: Belaid
full_name: Benhamou, Belaid
last_name: Benhamou
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
- first_name: Samuel
full_name: Pastva, Samuel
id: 07c5ea74-f61c-11ec-a664-aa7c5d957b2b
last_name: Pastva
orcid: 0000-0003-1993-0331
citation:
ama: 'Trinh VG, Benhamou B, Henzinger TA, Pastva S. Trap spaces of multi-valued
networks: Definition, computation, and applications. Bioinformatics. 2023;39(Supplement_1):i513-i522.
doi:10.1093/bioinformatics/btad262'
apa: 'Trinh, V. G., Benhamou, B., Henzinger, T. A., & Pastva, S. (2023). Trap
spaces of multi-valued networks: Definition, computation, and applications. Bioinformatics.
Oxford Academic. https://doi.org/10.1093/bioinformatics/btad262'
chicago: 'Trinh, Van Giang, Belaid Benhamou, Thomas A Henzinger, and Samuel Pastva.
“Trap Spaces of Multi-Valued Networks: Definition, Computation, and Applications.”
Bioinformatics. Oxford Academic, 2023. https://doi.org/10.1093/bioinformatics/btad262.'
ieee: 'V. G. Trinh, B. Benhamou, T. A. Henzinger, and S. Pastva, “Trap spaces of
multi-valued networks: Definition, computation, and applications,” Bioinformatics,
vol. 39, no. Supplement_1. Oxford Academic, pp. i513–i522, 2023.'
ista: 'Trinh VG, Benhamou B, Henzinger TA, Pastva S. 2023. Trap spaces of multi-valued
networks: Definition, computation, and applications. Bioinformatics. 39(Supplement_1),
i513–i522.'
mla: 'Trinh, Van Giang, et al. “Trap Spaces of Multi-Valued Networks: Definition,
Computation, and Applications.” Bioinformatics, vol. 39, no. Supplement_1,
Oxford Academic, 2023, pp. i513–22, doi:10.1093/bioinformatics/btad262.'
short: V.G. Trinh, B. Benhamou, T.A. Henzinger, S. Pastva, Bioinformatics 39 (2023)
i513–i522.
date_created: 2023-07-23T22:01:12Z
date_published: 2023-06-30T00:00:00Z
date_updated: 2023-12-13T11:41:52Z
day: '30'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1093/bioinformatics/btad262
ec_funded: 1
external_id:
isi:
- '001027457000060'
pmid:
- '37387165'
file:
- access_level: open_access
checksum: ba3abe1171df1958413b7c7f957f5486
content_type: application/pdf
creator: dernst
date_created: 2023-07-31T11:09:05Z
date_updated: 2023-07-31T11:09:05Z
file_id: '13335'
file_name: 2023_Bioinformatics_Trinh.pdf
file_size: 641736
relation: main_file
success: 1
file_date_updated: 2023-07-31T11:09:05Z
has_accepted_license: '1'
intvolume: ' 39'
isi: 1
issue: Supplement_1
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: i513-i522
pmid: 1
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Bioinformatics
publication_identifier:
eissn:
- 1367-4811
issn:
- 1367-4803
publication_status: published
publisher: Oxford Academic
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/giang-trinh/trap-mvn
scopus_import: '1'
status: public
title: 'Trap spaces of multi-valued networks: Definition, computation, and applications'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 39
year: '2023'
...
---
_id: '13316'
abstract:
- lang: eng
text: Although budding yeast has been extensively used as a model organism for studying
organelle functions and intracellular vesicle trafficking, whether it possesses
an independent endocytic early/sorting compartment that sorts endocytic cargos
to the endo-lysosomal pathway or the recycling pathway has long been unclear.
The structure and properties of the endocytic early/sorting compartment differ
significantly between organisms; in plant cells, the trans-Golgi network (TGN)
serves this role, whereas in mammalian cells a separate intracellular structure
performs this function. The yeast syntaxin homolog Tlg2p, widely localizing to
the TGN and endosomal compartments, is presumed to act as a Q-SNARE for endocytic
vesicles, but which compartment is the direct target for endocytic vesicles remained
unanswered. Here we demonstrate by high-speed and high-resolution 4D imaging of
fluorescently labeled endocytic cargos that the Tlg2p-residing compartment within
the TGN functions as the early/sorting compartment. After arriving here, endocytic
cargos are recycled to the plasma membrane or transported to the yeast Rab5-residing
endosomal compartment through the pathway requiring the clathrin adaptors GGAs.
Interestingly, Gga2p predominantly localizes at the Tlg2p-residing compartment,
and the deletion of GGAs has little effect on another TGN region where Sec7p is
present but suppresses dynamics of the Tlg2-residing early/sorting compartment,
indicating that the Tlg2p- and Sec7p-residing regions are discrete entities in
the mutant. Thus, the Tlg2p-residing region seems to serve as an early/sorting
compartment and function independently of the Sec7p-residing region within the
TGN.
acknowledgement: 'This work was supported by JSPS KAKENHI grant #18K062291, and the
Takeda Science Foundation to JYT., as well as JSPS KAKENHI grant #19K065710, the
Takeda Science Foundation, and Life Science Foundation of Japan to JT.'
article_number: e84850
article_processing_charge: Yes
article_type: original
author:
- first_name: Junko Y.
full_name: Toshima, Junko Y.
last_name: Toshima
- first_name: Ayana
full_name: Tsukahara, Ayana
last_name: Tsukahara
- first_name: Makoto
full_name: Nagano, Makoto
last_name: Nagano
- first_name: Takuro
full_name: Tojima, Takuro
last_name: Tojima
- first_name: Daria E
full_name: Siekhaus, Daria E
id: 3D224B9E-F248-11E8-B48F-1D18A9856A87
last_name: Siekhaus
orcid: 0000-0001-8323-8353
- first_name: Akihiko
full_name: Nakano, Akihiko
last_name: Nakano
- first_name: Jiro
full_name: Toshima, Jiro
last_name: Toshima
citation:
ama: Toshima JY, Tsukahara A, Nagano M, et al. The yeast endocytic early/sorting
compartment exists as an independent sub-compartment within the trans-Golgi network.
eLife. 2023;12. doi:10.7554/eLife.84850
apa: Toshima, J. Y., Tsukahara, A., Nagano, M., Tojima, T., Siekhaus, D. E., Nakano,
A., & Toshima, J. (2023). The yeast endocytic early/sorting compartment exists
as an independent sub-compartment within the trans-Golgi network. ELife.
eLife Sciences Publications. https://doi.org/10.7554/eLife.84850
chicago: Toshima, Junko Y., Ayana Tsukahara, Makoto Nagano, Takuro Tojima, Daria
E Siekhaus, Akihiko Nakano, and Jiro Toshima. “The Yeast Endocytic Early/Sorting
Compartment Exists as an Independent Sub-Compartment within the Trans-Golgi Network.”
ELife. eLife Sciences Publications, 2023. https://doi.org/10.7554/eLife.84850.
ieee: J. Y. Toshima et al., “The yeast endocytic early/sorting compartment
exists as an independent sub-compartment within the trans-Golgi network,” eLife,
vol. 12. eLife Sciences Publications, 2023.
ista: Toshima JY, Tsukahara A, Nagano M, Tojima T, Siekhaus DE, Nakano A, Toshima
J. 2023. The yeast endocytic early/sorting compartment exists as an independent
sub-compartment within the trans-Golgi network. eLife. 12, e84850.
mla: Toshima, Junko Y., et al. “The Yeast Endocytic Early/Sorting Compartment Exists
as an Independent Sub-Compartment within the Trans-Golgi Network.” ELife,
vol. 12, e84850, eLife Sciences Publications, 2023, doi:10.7554/eLife.84850.
short: J.Y. Toshima, A. Tsukahara, M. Nagano, T. Tojima, D.E. Siekhaus, A. Nakano,
J. Toshima, ELife 12 (2023).
date_created: 2023-07-30T22:01:02Z
date_published: 2023-07-21T00:00:00Z
date_updated: 2023-12-13T11:37:36Z
day: '21'
ddc:
- '570'
department:
- _id: DaSi
doi: 10.7554/eLife.84850
external_id:
isi:
- '001035372800001'
pmid:
- '37477116'
file:
- access_level: open_access
checksum: 2af111a00cf5e3a956f7f0fd13199b15
content_type: application/pdf
creator: dernst
date_created: 2023-07-31T07:43:00Z
date_updated: 2023-07-31T07:43:00Z
file_id: '13324'
file_name: 2023_eLife_Toshima.pdf
file_size: 11980913
relation: main_file
success: 1
file_date_updated: 2023-07-31T07:43:00Z
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
publication: eLife
publication_identifier:
eissn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: The yeast endocytic early/sorting compartment exists as an independent sub-compartment
within the trans-Golgi network
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2023'
...
---
_id: '13317'
abstract:
- lang: eng
text: We prove the Eigenstate Thermalisation Hypothesis (ETH) for local observables
in a typical translation invariant system of quantum spins with L-body interactions,
where L is the number of spins. This mathematically verifies the observation first
made by Santos and Rigol (Phys Rev E 82(3):031130, 2010, https://doi.org/10.1103/PhysRevE.82.031130)
that the ETH may hold for systems with additional translational symmetries for
a naturally restricted class of observables. We also present numerical support
for the same phenomenon for Hamiltonians with local interaction.
acknowledgement: "LE, JH, and VR were supported by ERC Advanced Grant “RMTBeyond”
No. 101020331. SS was supported by KAKENHI Grant Number JP22J14935 from the Japan
Society for the Promotion of Science (JSPS) and Forefront Physics and Mathematics
Program to Drive Transformation (FoPM), a World-leading Innovative Graduate Study
(WINGS) Program, the University of Tokyo.\r\nOpen access funding provided by The
University of Tokyo."
article_number: '128'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Shoki
full_name: Sugimoto, Shoki
last_name: Sugimoto
- first_name: Sven Joscha
full_name: Henheik, Sven Joscha
id: 31d731d7-d235-11ea-ad11-b50331c8d7fb
last_name: Henheik
orcid: 0000-0003-1106-327X
- first_name: Volodymyr
full_name: Riabov, Volodymyr
id: 1949f904-edfb-11eb-afb5-e2dfddabb93b
last_name: Riabov
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
citation:
ama: Sugimoto S, Henheik SJ, Riabov V, Erdös L. Eigenstate thermalisation hypothesis
for translation invariant spin systems. Journal of Statistical Physics.
2023;190(7). doi:10.1007/s10955-023-03132-4
apa: Sugimoto, S., Henheik, S. J., Riabov, V., & Erdös, L. (2023). Eigenstate
thermalisation hypothesis for translation invariant spin systems. Journal of
Statistical Physics. Springer Nature. https://doi.org/10.1007/s10955-023-03132-4
chicago: Sugimoto, Shoki, Sven Joscha Henheik, Volodymyr Riabov, and László Erdös.
“Eigenstate Thermalisation Hypothesis for Translation Invariant Spin Systems.”
Journal of Statistical Physics. Springer Nature, 2023. https://doi.org/10.1007/s10955-023-03132-4.
ieee: S. Sugimoto, S. J. Henheik, V. Riabov, and L. Erdös, “Eigenstate thermalisation
hypothesis for translation invariant spin systems,” Journal of Statistical
Physics, vol. 190, no. 7. Springer Nature, 2023.
ista: Sugimoto S, Henheik SJ, Riabov V, Erdös L. 2023. Eigenstate thermalisation
hypothesis for translation invariant spin systems. Journal of Statistical Physics.
190(7), 128.
mla: Sugimoto, Shoki, et al. “Eigenstate Thermalisation Hypothesis for Translation
Invariant Spin Systems.” Journal of Statistical Physics, vol. 190, no.
7, 128, Springer Nature, 2023, doi:10.1007/s10955-023-03132-4.
short: S. Sugimoto, S.J. Henheik, V. Riabov, L. Erdös, Journal of Statistical Physics
190 (2023).
date_created: 2023-07-30T22:01:02Z
date_published: 2023-07-21T00:00:00Z
date_updated: 2023-12-13T11:38:44Z
day: '21'
ddc:
- '510'
- '530'
department:
- _id: LaEr
doi: 10.1007/s10955-023-03132-4
ec_funded: 1
external_id:
arxiv:
- '2304.04213'
isi:
- '001035677200002'
file:
- access_level: open_access
checksum: c2ef6b2aecfee1ad6d03fab620507c2c
content_type: application/pdf
creator: dernst
date_created: 2023-07-31T07:49:31Z
date_updated: 2023-07-31T07:49:31Z
file_id: '13325'
file_name: 2023_JourStatPhysics_Sugimoto.pdf
file_size: 612755
relation: main_file
success: 1
file_date_updated: 2023-07-31T07:49:31Z
has_accepted_license: '1'
intvolume: ' 190'
isi: 1
issue: '7'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 62796744-2b32-11ec-9570-940b20777f1d
call_identifier: H2020
grant_number: '101020331'
name: Random matrices beyond Wigner-Dyson-Mehta
publication: Journal of Statistical Physics
publication_identifier:
eissn:
- 1572-9613
issn:
- 0022-4715
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Eigenstate thermalisation hypothesis for translation invariant spin systems
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 190
year: '2023'
...
---
_id: '13278'
abstract:
- lang: eng
text: We present a numerical analysis of spin-1/2 fermions in a one-dimensional
harmonic potential in the presence of a magnetic point-like impurity at the center
of the trap. The model represents a few-body analogue of a magnetic impurity in
the vicinity of an s-wave superconductor. Already for a few particles we find
a ground-state level crossing between sectors with different fermion parities.
We interpret this crossing as a few-body precursor of a quantum phase transition,
which occurs when the impurity "breaks" a Cooper pair. This picture is further
corroborated by analyzing density-density correlations in momentum space. Finally,
we discuss how the system may be realized with existing cold-atoms platforms.
article_number: '006'
article_processing_charge: No
article_type: original
author:
- first_name: Lukas
full_name: Rammelmüller, Lukas
last_name: Rammelmüller
- first_name: David
full_name: Huber, David
last_name: Huber
- first_name: Matija
full_name: Čufar, Matija
last_name: Čufar
- first_name: Joachim
full_name: Brand, Joachim
last_name: Brand
- first_name: Hans-Werner
full_name: Hammer, Hans-Werner
last_name: Hammer
- first_name: Artem
full_name: Volosniev, Artem
id: 37D278BC-F248-11E8-B48F-1D18A9856A87
last_name: Volosniev
orcid: 0000-0003-0393-5525
citation:
ama: Rammelmüller L, Huber D, Čufar M, Brand J, Hammer H-W, Volosniev A. Magnetic
impurity in a one-dimensional few-fermion system. SciPost Physics. 2023;14(1).
doi:10.21468/scipostphys.14.1.006
apa: Rammelmüller, L., Huber, D., Čufar, M., Brand, J., Hammer, H.-W., & Volosniev,
A. (2023). Magnetic impurity in a one-dimensional few-fermion system. SciPost
Physics. SciPost Foundation. https://doi.org/10.21468/scipostphys.14.1.006
chicago: Rammelmüller, Lukas, David Huber, Matija Čufar, Joachim Brand, Hans-Werner
Hammer, and Artem Volosniev. “Magnetic Impurity in a One-Dimensional Few-Fermion
System.” SciPost Physics. SciPost Foundation, 2023. https://doi.org/10.21468/scipostphys.14.1.006.
ieee: L. Rammelmüller, D. Huber, M. Čufar, J. Brand, H.-W. Hammer, and A. Volosniev,
“Magnetic impurity in a one-dimensional few-fermion system,” SciPost Physics,
vol. 14, no. 1. SciPost Foundation, 2023.
ista: Rammelmüller L, Huber D, Čufar M, Brand J, Hammer H-W, Volosniev A. 2023.
Magnetic impurity in a one-dimensional few-fermion system. SciPost Physics. 14(1),
006.
mla: Rammelmüller, Lukas, et al. “Magnetic Impurity in a One-Dimensional Few-Fermion
System.” SciPost Physics, vol. 14, no. 1, 006, SciPost Foundation, 2023,
doi:10.21468/scipostphys.14.1.006.
short: L. Rammelmüller, D. Huber, M. Čufar, J. Brand, H.-W. Hammer, A. Volosniev,
SciPost Physics 14 (2023).
date_created: 2023-07-24T10:48:23Z
date_published: 2023-01-24T00:00:00Z
date_updated: 2023-12-13T11:39:32Z
day: '24'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.21468/scipostphys.14.1.006
external_id:
arxiv:
- '2204.01606'
isi:
- '001000325800008'
file:
- access_level: open_access
checksum: ffdb70b9ae7aa45ea4ea6096ecbd6431
content_type: application/pdf
creator: dernst
date_created: 2023-07-31T08:44:38Z
date_updated: 2023-07-31T08:44:38Z
file_id: '13328'
file_name: 2023_SciPostPhysics_Rammelmueller.pdf
file_size: 1163444
relation: main_file
success: 1
file_date_updated: 2023-07-31T08:44:38Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
issue: '1'
keyword:
- General Physics and Astronomy
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: SciPost Physics
publication_identifier:
issn:
- 2542-4653
publication_status: published
publisher: SciPost Foundation
quality_controlled: '1'
scopus_import: '1'
status: public
title: Magnetic impurity in a one-dimensional few-fermion system
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2023'
...
---
_id: '13274'
abstract:
- lang: eng
text: Viscous flows through pipes and channels are steady and ordered until, with
increasing velocity, the laminar motion catastrophically breaks down and gives
way to turbulence. How this apparently discontinuous change from low- to high-dimensional
motion can be rationalized within the framework of the Navier-Stokes equations
is not well understood. Exploiting geometrical properties of transitional channel
flow we trace turbulence to far lower Reynolds numbers (Re) than previously possible
and identify the complete path that reversibly links fully turbulent motion to
an invariant solution. This precursor of turbulence destabilizes rapidly with
Re, and the accompanying explosive increase in attractor dimension effectively
marks the transition between deterministic and de facto stochastic dynamics.
acknowledgement: We thank Baofang Song as well as the developers of Channelflow for
sharing their numerical codes, and Mukund Vasudevan and Holger Kantz for fruitful
discussions. This work was supported by a grant from the Simons Foundation (662960,
B. H.).
article_number: '034002'
article_processing_charge: No
article_type: original
author:
- first_name: Chaitanya S
full_name: Paranjape, Chaitanya S
id: 3D85B7C4-F248-11E8-B48F-1D18A9856A87
last_name: Paranjape
- first_name: Gökhan
full_name: Yalniz, Gökhan
id: 66E74FA2-D8BF-11E9-8249-8DE2E5697425
last_name: Yalniz
orcid: 0000-0002-8490-9312
- first_name: Yohann
full_name: Duguet, Yohann
last_name: Duguet
- first_name: Nazmi B
full_name: Budanur, Nazmi B
id: 3EA1010E-F248-11E8-B48F-1D18A9856A87
last_name: Budanur
orcid: 0000-0003-0423-5010
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Paranjape CS, Yalniz G, Duguet Y, Budanur NB, Hof B. Direct path from turbulence
to time-periodic solutions. Physical Review Letters. 2023;131(3). doi:10.1103/physrevlett.131.034002
apa: Paranjape, C. S., Yalniz, G., Duguet, Y., Budanur, N. B., & Hof, B. (2023).
Direct path from turbulence to time-periodic solutions. Physical Review Letters.
American Physical Society. https://doi.org/10.1103/physrevlett.131.034002
chicago: Paranjape, Chaitanya S, Gökhan Yalniz, Yohann Duguet, Nazmi B Budanur,
and Björn Hof. “Direct Path from Turbulence to Time-Periodic Solutions.” Physical
Review Letters. American Physical Society, 2023. https://doi.org/10.1103/physrevlett.131.034002.
ieee: C. S. Paranjape, G. Yalniz, Y. Duguet, N. B. Budanur, and B. Hof, “Direct
path from turbulence to time-periodic solutions,” Physical Review Letters,
vol. 131, no. 3. American Physical Society, 2023.
ista: Paranjape CS, Yalniz G, Duguet Y, Budanur NB, Hof B. 2023. Direct path from
turbulence to time-periodic solutions. Physical Review Letters. 131(3), 034002.
mla: Paranjape, Chaitanya S., et al. “Direct Path from Turbulence to Time-Periodic
Solutions.” Physical Review Letters, vol. 131, no. 3, 034002, American
Physical Society, 2023, doi:10.1103/physrevlett.131.034002.
short: C.S. Paranjape, G. Yalniz, Y. Duguet, N.B. Budanur, B. Hof, Physical Review
Letters 131 (2023).
date_created: 2023-07-24T09:43:59Z
date_published: 2023-07-21T00:00:00Z
date_updated: 2023-12-13T11:40:19Z
day: '21'
department:
- _id: GradSch
- _id: BjHo
doi: 10.1103/physrevlett.131.034002
external_id:
arxiv:
- '2306.05098'
isi:
- '001052929900004'
intvolume: ' 131'
isi: 1
issue: '3'
keyword:
- General Physics and Astronomy
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2306.05098
month: '07'
oa: 1
oa_version: Preprint
project:
- _id: 238598C6-32DE-11EA-91FC-C7463DDC885E
grant_number: '662960'
name: 'Revisiting the Turbulence Problem Using Statistical Mechanics: Experimental
Studies on Transitional and Turbulent Flows'
publication: Physical Review Letters
publication_identifier:
eissn:
- 1079-7114
issn:
- 0031-9007
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
status: public
title: Direct path from turbulence to time-periodic solutions
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 131
year: '2023'
...
---
_id: '13261'
abstract:
- lang: eng
text: Chromosomes in the eukaryotic nucleus are highly compacted. However, for many
functional processes, including transcription initiation, the pairwise motion
of distal chromosomal elements such as enhancers and promoters is essential and
necessitates dynamic fluidity. Here, we used a live-imaging assay to simultaneously
measure the positions of pairs of enhancers and promoters and their transcriptional
output while systematically varying the genomic separation between these two DNA
loci. Our analysis reveals the coexistence of a compact globular organization
and fast subdiffusive dynamics. These combined features cause an anomalous scaling
of polymer relaxation times with genomic separation leading to long-ranged correlations.
Thus, encounter times of DNA loci are much less dependent on genomic distance
than predicted by existing polymer models, with potential consequences for eukaryotic
gene expression.
acknowledgement: This work was supported in part by the U.S. National Science Foundation,
the Center for the Physics of Biological Function (grant PHY-1734030), and the National
Institutes of Health (grants R01GM097275, U01DA047730, and U01DK127429). D.B.B.
was supported by the NOMIS Foundation as a fellow and by an EMBO postdoctoral fellowship
(ALTF 343-2022). H.C. was supported by a Charles H. Revson Biomedical Science Fellowship.
article_processing_charge: No
article_type: original
author:
- first_name: David
full_name: Brückner, David
id: e1e86031-6537-11eb-953a-f7ab92be508d
last_name: Brückner
orcid: 0000-0001-7205-2975
- first_name: Hongtao
full_name: Chen, Hongtao
last_name: Chen
- first_name: Lev
full_name: Barinov, Lev
last_name: Barinov
- first_name: Benjamin
full_name: Zoller, Benjamin
last_name: Zoller
- first_name: Thomas
full_name: Gregor, Thomas
last_name: Gregor
citation:
ama: Brückner D, Chen H, Barinov L, Zoller B, Gregor T. Stochastic motion and transcriptional
dynamics of pairs of distal DNA loci on a compacted chromosome. Science.
2023;380(6652):1357-1362. doi:10.1126/science.adf5568
apa: Brückner, D., Chen, H., Barinov, L., Zoller, B., & Gregor, T. (2023). Stochastic
motion and transcriptional dynamics of pairs of distal DNA loci on a compacted
chromosome. Science. American Association for the Advancement of Science.
https://doi.org/10.1126/science.adf5568
chicago: Brückner, David, Hongtao Chen, Lev Barinov, Benjamin Zoller, and Thomas
Gregor. “Stochastic Motion and Transcriptional Dynamics of Pairs of Distal DNA
Loci on a Compacted Chromosome.” Science. American Association for the
Advancement of Science, 2023. https://doi.org/10.1126/science.adf5568.
ieee: D. Brückner, H. Chen, L. Barinov, B. Zoller, and T. Gregor, “Stochastic motion
and transcriptional dynamics of pairs of distal DNA loci on a compacted chromosome,”
Science, vol. 380, no. 6652. American Association for the Advancement of
Science, pp. 1357–1362, 2023.
ista: Brückner D, Chen H, Barinov L, Zoller B, Gregor T. 2023. Stochastic motion
and transcriptional dynamics of pairs of distal DNA loci on a compacted chromosome.
Science. 380(6652), 1357–1362.
mla: Brückner, David, et al. “Stochastic Motion and Transcriptional Dynamics of
Pairs of Distal DNA Loci on a Compacted Chromosome.” Science, vol. 380,
no. 6652, American Association for the Advancement of Science, 2023, pp. 1357–62,
doi:10.1126/science.adf5568.
short: D. Brückner, H. Chen, L. Barinov, B. Zoller, T. Gregor, Science 380 (2023)
1357–1362.
date_created: 2023-07-23T22:01:12Z
date_published: 2023-06-29T00:00:00Z
date_updated: 2023-12-13T11:41:07Z
day: '29'
department:
- _id: EdHa
doi: 10.1126/science.adf5568
external_id:
isi:
- '001106405600028'
intvolume: ' 380'
isi: 1
issue: '6652'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1126/science.adf5568
month: '06'
oa: 1
oa_version: Preprint
page: 1357-1362
project:
- _id: 34e2a5b5-11ca-11ed-8bc3-b2265616ef0b
grant_number: 343-2022
name: A mechano-chemical theory for stem cell fate decisions in organoid development
publication: Science
publication_identifier:
eissn:
- 1095-9203
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: Stochastic motion and transcriptional dynamics of pairs of distal DNA loci
on a compacted chromosome
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 380
year: '2023'
...
---
_id: '13336'
article_processing_charge: No
author:
- first_name: Maria
full_name: Kleshnina, Maria
id: 4E21749C-F248-11E8-B48F-1D18A9856A87
last_name: Kleshnina
citation:
ama: 'Kleshnina M. kleshnina/stochgames_info: The effect of environmental information
on evolution of cooperation in stochastic games. 2023. doi:10.5281/ZENODO.8059564'
apa: 'Kleshnina, M. (2023). kleshnina/stochgames_info: The effect of environmental
information on evolution of cooperation in stochastic games. Zenodo. https://doi.org/10.5281/ZENODO.8059564'
chicago: 'Kleshnina, Maria. “Kleshnina/Stochgames_info: The Effect of Environmental
Information on Evolution of Cooperation in Stochastic Games.” Zenodo, 2023. https://doi.org/10.5281/ZENODO.8059564.'
ieee: 'M. Kleshnina, “kleshnina/stochgames_info: The effect of environmental information
on evolution of cooperation in stochastic games.” Zenodo, 2023.'
ista: 'Kleshnina M. 2023. kleshnina/stochgames_info: The effect of environmental
information on evolution of cooperation in stochastic games, Zenodo, 10.5281/ZENODO.8059564.'
mla: 'Kleshnina, Maria. Kleshnina/Stochgames_info: The Effect of Environmental
Information on Evolution of Cooperation in Stochastic Games. Zenodo, 2023,
doi:10.5281/ZENODO.8059564.'
short: M. Kleshnina, (2023).
date_created: 2023-07-31T11:30:46Z
date_published: 2023-06-20T00:00:00Z
date_updated: 2023-12-13T11:42:37Z
day: '20'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.5281/ZENODO.8059564
main_file_link:
- open_access: '1'
url: https://doi.org/10.5281/zenodo.8059564
month: '06'
oa: 1
oa_version: Published Version
publisher: Zenodo
related_material:
record:
- id: '13258'
relation: used_in_publication
status: public
status: public
title: 'kleshnina/stochgames_info: The effect of environmental information on evolution
of cooperation in stochastic games'
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13443'
abstract:
- lang: eng
text: 'The ages of solar-like stars have been at the center of many studies such
as exoplanet characterization or Galactic-archeology. While ages are usually computed
from stellar evolution models, relations linking ages to other stellar properties,
such as rotation and magnetic activity, have been investigated. With the large
catalog of 55,232 rotation periods, Prot, and photometric magnetic activity index,
Sph from Kepler data, we have the opportunity to look for such magneto-gyro-chronology
relations. Stellar ages are obtained with two stellar evolution codes that include
treatment of angular momentum evolution, hence using Prot as input in addition
to classical atmospheric parameters. We explore two different ways of predicting
stellar ages on three subsamples with spectroscopic observations: solar analogs,
late-F and G dwarfs, and K dwarfs. We first perform a Bayesian analysis to derive
relations between Sph and ages between 1 and 5 Gyr, and other stellar properties.
For late-F and G dwarfs, and K dwarfs, the multivariate regression favors the
model with Prot and Sph with median differences of 0.1% and 0.2%, respectively.
We also apply Machine Learning techniques with a Random Forest algorithm to predict
ages up to 14 Gyr with the same set of input parameters. For late-F, G and K dwarfs
together, predicted ages are on average within 5.3% of the model ages and improve
to 3.1% when including Prot. These are very promising results for a quick age
estimation for solar-like stars with photometric observations, especially with
current and future space missions.'
acknowledgement: 'This paper includes data collected by the Kepler mission and obtained
from the MAST data archive at the Space Telescope Science Institute (STScI). Funding
for the Kepler mission is provided by the NASA Science Mission Directorate. STScI
is operated by the Association of Universities for Research in Astronomy, Inc.,
under NASA contract NAS 5–26555. We acknowledge that this research was supported
in part by the National Science Foundation under grant No. NSF PHY-1748958. S.M.
acknowledges support from the Spanish Ministry of Science and Innovation (MICINN)
with the Ramón y Cajal fellowship No. RYC-2015-17697, the grant No. PID2019-107061GB-C66,
and through AEI under the Severo Ochoa Centres of Excellence Programme 2020–2023
(CEX2019-000920-S). S.M. and D.G.R. acknowledge support from the Spanish Ministry
of Science and Innovation (MICINN) with the grant No. PID2019-107187GB-I00. Z.R.C.
acknowledges support from National Aeronautics and Space Administration via the
TESS Guest Investigator Program (grant No. 80NSSC18K18584). The work presented here
was partially supported by the NASA grant NNX17AF27G. A.R.G.S. acknowledges the
support by FCT through national funds and by FEDER through COMPETE2020 by the following
grants: UIDB/04434/2020 and UIDP/04434/2020. A.R.G.S. is supported by FCT through
the work contract No. 2020.02480.CEECIND/CP1631/CT0001. R.A.G., L.A., and S.N.B.
acknowledge the support from PLATO and GOLF CNES grants. S.N.B. acknowledges support
from PLATO ASI-INAF agreement No. 2015-019-R.1-2018.'
article_number: '131'
article_processing_charge: Yes
article_type: original
author:
- first_name: Savita
full_name: Mathur, Savita
last_name: Mathur
- first_name: Zachary R.
full_name: Claytor, Zachary R.
last_name: Claytor
- first_name: Ângela R. G.
full_name: Santos, Ângela R. G.
last_name: Santos
- first_name: Rafael A.
full_name: García, Rafael A.
last_name: García
- first_name: Louis
full_name: Amard, Louis
last_name: Amard
- first_name: Lisa Annabelle
full_name: Bugnet, Lisa Annabelle
id: d9edb345-f866-11ec-9b37-d119b5234501
last_name: Bugnet
orcid: 0000-0003-0142-4000
- first_name: Enrico
full_name: Corsaro, Enrico
last_name: Corsaro
- first_name: Alfio
full_name: Bonanno, Alfio
last_name: Bonanno
- first_name: Sylvain N.
full_name: Breton, Sylvain N.
last_name: Breton
- first_name: Diego
full_name: Godoy-Rivera, Diego
last_name: Godoy-Rivera
- first_name: Marc H.
full_name: Pinsonneault, Marc H.
last_name: Pinsonneault
- first_name: Jennifer
full_name: van Saders, Jennifer
last_name: van Saders
citation:
ama: Mathur S, Claytor ZR, Santos ÂRG, et al. Magnetic activity evolution of solar-like
stars. I. Sph–age relation derived from Kepler observations. The Astrophysical
Journal. 2023;952(2). doi:10.3847/1538-4357/acd118
apa: Mathur, S., Claytor, Z. R., Santos, Â. R. G., García, R. A., Amard, L., Bugnet,
L. A., … van Saders, J. (2023). Magnetic activity evolution of solar-like stars.
I. Sph–age relation derived from Kepler observations. The Astrophysical Journal.
American Astronomical Society. https://doi.org/10.3847/1538-4357/acd118
chicago: Mathur, Savita, Zachary R. Claytor, Ângela R. G. Santos, Rafael A. García,
Louis Amard, Lisa Annabelle Bugnet, Enrico Corsaro, et al. “Magnetic Activity
Evolution of Solar-like Stars. I. Sph–Age Relation Derived from Kepler Observations.”
The Astrophysical Journal. American Astronomical Society, 2023. https://doi.org/10.3847/1538-4357/acd118.
ieee: S. Mathur et al., “Magnetic activity evolution of solar-like stars.
I. Sph–age relation derived from Kepler observations,” The Astrophysical Journal,
vol. 952, no. 2. American Astronomical Society, 2023.
ista: Mathur S, Claytor ZR, Santos ÂRG, García RA, Amard L, Bugnet LA, Corsaro E,
Bonanno A, Breton SN, Godoy-Rivera D, Pinsonneault MH, van Saders J. 2023. Magnetic
activity evolution of solar-like stars. I. Sph–age relation derived from Kepler
observations. The Astrophysical Journal. 952(2), 131.
mla: Mathur, Savita, et al. “Magnetic Activity Evolution of Solar-like Stars. I.
Sph–Age Relation Derived from Kepler Observations.” The Astrophysical Journal,
vol. 952, no. 2, 131, American Astronomical Society, 2023, doi:10.3847/1538-4357/acd118.
short: S. Mathur, Z.R. Claytor, Â.R.G. Santos, R.A. García, L. Amard, L.A. Bugnet,
E. Corsaro, A. Bonanno, S.N. Breton, D. Godoy-Rivera, M.H. Pinsonneault, J. van
Saders, The Astrophysical Journal 952 (2023).
date_created: 2023-08-01T14:19:16Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2023-12-13T12:00:15Z
day: '01'
ddc:
- '520'
department:
- _id: LiBu
doi: 10.3847/1538-4357/acd118
external_id:
isi:
- '001034185700001'
file:
- access_level: open_access
checksum: f12452834d7ed6748dbf5ace18af4723
content_type: application/pdf
creator: dernst
date_created: 2023-08-02T07:42:26Z
date_updated: 2023-08-02T07:42:26Z
file_id: '13448'
file_name: 2023_AstrophysicalJour_Mathur.pdf
file_size: 4192386
relation: main_file
success: 1
file_date_updated: 2023-08-02T07:42:26Z
has_accepted_license: '1'
intvolume: ' 952'
isi: 1
issue: '2'
keyword:
- Space and Planetary Science
- Astronomy and Astrophysics
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
publication: The Astrophysical Journal
publication_identifier:
eissn:
- 1538-4357
issn:
- 0004-637X
publication_status: published
publisher: American Astronomical Society
quality_controlled: '1'
status: public
title: Magnetic activity evolution of solar-like stars. I. Sph–age relation derived
from Kepler observations
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 952
year: '2023'
...
---
_id: '13259'
abstract:
- lang: eng
text: Plants can regenerate their bodies via de novo establishment of shoot apical
meristems (SAMs) from pluripotent callus. Only a small fraction of callus cells
is eventually specified into SAMs but the molecular mechanisms underlying fate
specification remain obscure. The expression of WUSCHEL (WUS) is an early hallmark
of SAM fate acquisition. Here, we show that a WUS paralog, WUSCHEL-RELATED HOMEOBOX
13 (WOX13), negatively regulates SAM formation from callus in Arabidopsis thaliana.
WOX13 promotes non-meristematic cell fate via transcriptional repression of WUS
and other SAM regulators and activation of cell wall modifiers. Our Quartz-Seq2–based
single cell transcriptome revealed that WOX13 plays key roles in determining cellular
identity of callus cell population. We propose that reciprocal inhibition between
WUS and WOX13 mediates critical cell fate determination in pluripotent cell population,
which has a major impact on regeneration efficiency.
acknowledgement: Wethank Y.Iwayama, K.Ohtawa, K.Fukumoto,andN. Mataga (RIKENRRD) for
technical assistance in Quartz-Seq2analyses; M. Mouri(RIKENCSRS)for technical support
with plasmid construction and transactivation assay; Y. Ikeda (NAIST) for technical
support with tissue culture; and A. Furuta for technical support in bulk RNA-seq
analysis. We also thank the Single-cell Omics Laboratory for technical consultation
in scRNA-seq analyses, the members of the Laboratory for Bioinformatics Research
at the RIKEN Center for Biosystems Dynamics Research, and A. Matsushima and T. Ichikawa
for IT infrastructure management. This work was supported by JSPS KAKENHI(17K15146,19H05670,20K06712,20H04894,20H05431,and
22H04713 to M.I. and 20H03284 and 20H05911 to K.S.), by the JST FOREST Program (JPMJFR214H
to M.I.), by The Naito Foundation to M.I.; by Takeda Science Foundation to M.I,and
by the Shiseido Female Researcher Science Grant to M.I. This work was partially
supported by RIKENE pigenome Control Program, Medical Research Center Initiative
for High Depth Omics, and JST CREST(JPMJCR16G3and JPMJCR1926)to I.N.
article_processing_charge: Yes
article_type: original
author:
- first_name: Nao
full_name: Ogura, Nao
last_name: Ogura
- first_name: Yohei
full_name: Sasagawa, Yohei
last_name: Sasagawa
- first_name: Tasuku
full_name: Ito, Tasuku
id: d5a17a4a-e534-11eb-93ec-91fa2aa9bd57
last_name: Ito
orcid: 0000-0002-2482-9089
- first_name: Toshiaki
full_name: Tameshige, Toshiaki
last_name: Tameshige
- first_name: Satomi
full_name: Kawai, Satomi
last_name: Kawai
- first_name: Masaki
full_name: Sano, Masaki
last_name: Sano
- first_name: Yuki
full_name: Doll, Yuki
last_name: Doll
- first_name: Akira
full_name: Iwase, Akira
last_name: Iwase
- first_name: Ayako
full_name: Kawamura, Ayako
last_name: Kawamura
- first_name: Takamasa
full_name: Suzuki, Takamasa
last_name: Suzuki
- first_name: Itoshi
full_name: Nikaido, Itoshi
last_name: Nikaido
- first_name: Keiko
full_name: Sugimoto, Keiko
last_name: Sugimoto
- first_name: Momoko
full_name: Ikeuchi, Momoko
last_name: Ikeuchi
citation:
ama: Ogura N, Sasagawa Y, Ito T, et al. WUSCHEL-RELATED HOMEOBOX 13 suppresses de
novo shoot regeneration via cell fate control of pluripotent callus. Science
Advances. 2023;9(27):eadg6983. doi:10.1126/sciadv.adg6983
apa: Ogura, N., Sasagawa, Y., Ito, T., Tameshige, T., Kawai, S., Sano, M., … Ikeuchi,
M. (2023). WUSCHEL-RELATED HOMEOBOX 13 suppresses de novo shoot regeneration via
cell fate control of pluripotent callus. Science Advances. American Association
for the Advancement of Science. https://doi.org/10.1126/sciadv.adg6983
chicago: Ogura, Nao, Yohei Sasagawa, Tasuku Ito, Toshiaki Tameshige, Satomi Kawai,
Masaki Sano, Yuki Doll, et al. “WUSCHEL-RELATED HOMEOBOX 13 Suppresses de Novo
Shoot Regeneration via Cell Fate Control of Pluripotent Callus.” Science Advances.
American Association for the Advancement of Science, 2023. https://doi.org/10.1126/sciadv.adg6983.
ieee: N. Ogura et al., “WUSCHEL-RELATED HOMEOBOX 13 suppresses de novo shoot
regeneration via cell fate control of pluripotent callus,” Science Advances,
vol. 9, no. 27. American Association for the Advancement of Science, p. eadg6983,
2023.
ista: Ogura N, Sasagawa Y, Ito T, Tameshige T, Kawai S, Sano M, Doll Y, Iwase A,
Kawamura A, Suzuki T, Nikaido I, Sugimoto K, Ikeuchi M. 2023. WUSCHEL-RELATED
HOMEOBOX 13 suppresses de novo shoot regeneration via cell fate control of pluripotent
callus. Science Advances. 9(27), eadg6983.
mla: Ogura, Nao, et al. “WUSCHEL-RELATED HOMEOBOX 13 Suppresses de Novo Shoot Regeneration
via Cell Fate Control of Pluripotent Callus.” Science Advances, vol. 9,
no. 27, American Association for the Advancement of Science, 2023, p. eadg6983,
doi:10.1126/sciadv.adg6983.
short: N. Ogura, Y. Sasagawa, T. Ito, T. Tameshige, S. Kawai, M. Sano, Y. Doll,
A. Iwase, A. Kawamura, T. Suzuki, I. Nikaido, K. Sugimoto, M. Ikeuchi, Science
Advances 9 (2023) eadg6983.
date_created: 2023-07-23T22:01:11Z
date_published: 2023-07-07T00:00:00Z
date_updated: 2023-12-13T11:59:29Z
day: '07'
ddc:
- '580'
doi: 10.1126/sciadv.adg6983
external_id:
isi:
- '001030983100012'
pmid:
- '37418524'
file:
- access_level: open_access
checksum: f59217e1083767777318b5d0cc5e141d
content_type: application/pdf
creator: dernst
date_created: 2023-08-01T06:40:35Z
date_updated: 2023-08-01T06:40:35Z
file_id: '13338'
file_name: 2023_ScienceAdvance_Ogura.pdf
file_size: 1759993
relation: main_file
success: 1
file_date_updated: 2023-08-01T06:40:35Z
has_accepted_license: '1'
intvolume: ' 9'
isi: 1
issue: '27'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: eadg6983
pmid: 1
publication: Science Advances
publication_identifier:
eissn:
- 2375-2548
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: WUSCHEL-RELATED HOMEOBOX 13 suppresses de novo shoot regeneration via cell
fate control of pluripotent callus
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2023'
...
---
_id: '13976'
abstract:
- lang: eng
text: Conflicts and natural disasters affect entire populations of the countries
involved and, in addition to the thousands of lives destroyed, have a substantial
negative impact on the scientific advances these countries provide. The unprovoked
invasion of Ukraine by Russia, the devastating earthquake in Turkey and Syria,
and the ongoing conflicts in the Middle East are just a few examples. Millions
of people have been killed or displaced, their futures uncertain. These events
have resulted in extensive infrastructure collapse, with loss of electricity,
transportation, and access to services. Schools, universities, and research centers
have been destroyed along with decades’ worth of data, samples, and findings.
Scholars in disaster areas face short- and long-term problems in terms of what
they can accomplish now for obtaining grants and for employment in the long run.
In our interconnected world, conflicts and disasters are no longer a local problem
but have wide-ranging impacts on the entire world, both now and in the future.
Here, we focus on the current and ongoing impact of war on the scientific community
within Ukraine and from this draw lessons that can be applied to all affected
countries where scientists at risk are facing hardship. We present and classify
examples of effective and feasible mechanisms used to support researchers in countries
facing hardship and discuss how these can be implemented with help from the international
scientific community and what more is desperately needed. Reaching out, providing
accessible training opportunities, and developing collaborations should increase
inclusion and connectivity, support scientific advancements within affected communities,
and expedite postwar and disaster recovery.
acknowledgement: "Our article is dedicated to all freedom-loving people around the
world and to the people of Ukraine who fight for our freedom. Special thanks to
Anita Bandrowski, Oleksandra V. Ivashchenko, and Sanita Reinsone for the helpful
review, valuable criticism, and useful suggestions while preparing this manuscript,
and to Tetiana Yes'kova for helping with Ukrainian translation.\r\nAll authors volunteered
their time. No funding supported work on this article."
article_processing_charge: Yes
article_type: original
author:
- first_name: Walter
full_name: Wolfsberger, Walter
last_name: Wolfsberger
- first_name: Karishma
full_name: Chhugani, Karishma
last_name: Chhugani
- first_name: Khrystyna
full_name: Shchubelka, Khrystyna
last_name: Shchubelka
- first_name: Alina
full_name: Frolova, Alina
last_name: Frolova
- first_name: Yuriy
full_name: Salyha, Yuriy
last_name: Salyha
- first_name: Oksana
full_name: Zlenko, Oksana
last_name: Zlenko
- first_name: Mykhailo
full_name: Arych, Mykhailo
last_name: Arych
- first_name: Dmytro
full_name: Dziuba, Dmytro
last_name: Dziuba
- first_name: Andrii
full_name: Parkhomenko, Andrii
last_name: Parkhomenko
- first_name: Volodymyr
full_name: Smolanka, Volodymyr
last_name: Smolanka
- first_name: Zeynep H.
full_name: Gümüş, Zeynep H.
last_name: Gümüş
- first_name: Efe
full_name: Sezgin, Efe
last_name: Sezgin
- first_name: Alondra
full_name: Diaz-Lameiro, Alondra
last_name: Diaz-Lameiro
- first_name: Viktor R.
full_name: Toth, Viktor R.
last_name: Toth
- first_name: Megi
full_name: Maci, Megi
last_name: Maci
- first_name: Eric
full_name: Bortz, Eric
last_name: Bortz
- first_name: Fyodor
full_name: Kondrashov, Fyodor
id: 44FDEF62-F248-11E8-B48F-1D18A9856A87
last_name: Kondrashov
orcid: 0000-0001-8243-4694
- first_name: Patricia M.
full_name: Morton, Patricia M.
last_name: Morton
- first_name: Paweł P.
full_name: Łabaj, Paweł P.
last_name: Łabaj
- first_name: Veronika
full_name: Romero, Veronika
last_name: Romero
- first_name: Jakub
full_name: Hlávka, Jakub
last_name: Hlávka
- first_name: Serghei
full_name: Mangul, Serghei
last_name: Mangul
- first_name: Taras K.
full_name: Oleksyk, Taras K.
last_name: Oleksyk
citation:
ama: 'Wolfsberger W, Chhugani K, Shchubelka K, et al. Scientists without borders:
Lessons from Ukraine. GigaScience. 2023;12. doi:10.1093/gigascience/giad045'
apa: 'Wolfsberger, W., Chhugani, K., Shchubelka, K., Frolova, A., Salyha, Y., Zlenko,
O., … Oleksyk, T. K. (2023). Scientists without borders: Lessons from Ukraine.
GigaScience. Oxford Academic. https://doi.org/10.1093/gigascience/giad045'
chicago: 'Wolfsberger, Walter, Karishma Chhugani, Khrystyna Shchubelka, Alina Frolova,
Yuriy Salyha, Oksana Zlenko, Mykhailo Arych, et al. “Scientists without Borders:
Lessons from Ukraine.” GigaScience. Oxford Academic, 2023. https://doi.org/10.1093/gigascience/giad045.'
ieee: 'W. Wolfsberger et al., “Scientists without borders: Lessons from Ukraine,”
GigaScience, vol. 12. Oxford Academic, 2023.'
ista: 'Wolfsberger W, Chhugani K, Shchubelka K, Frolova A, Salyha Y, Zlenko O, Arych
M, Dziuba D, Parkhomenko A, Smolanka V, Gümüş ZH, Sezgin E, Diaz-Lameiro A, Toth
VR, Maci M, Bortz E, Kondrashov F, Morton PM, Łabaj PP, Romero V, Hlávka J, Mangul
S, Oleksyk TK. 2023. Scientists without borders: Lessons from Ukraine. GigaScience.
12.'
mla: 'Wolfsberger, Walter, et al. “Scientists without Borders: Lessons from Ukraine.”
GigaScience, vol. 12, Oxford Academic, 2023, doi:10.1093/gigascience/giad045.'
short: W. Wolfsberger, K. Chhugani, K. Shchubelka, A. Frolova, Y. Salyha, O. Zlenko,
M. Arych, D. Dziuba, A. Parkhomenko, V. Smolanka, Z.H. Gümüş, E. Sezgin, A. Diaz-Lameiro,
V.R. Toth, M. Maci, E. Bortz, F. Kondrashov, P.M. Morton, P.P. Łabaj, V. Romero,
J. Hlávka, S. Mangul, T.K. Oleksyk, GigaScience 12 (2023).
date_created: 2023-08-06T22:01:13Z
date_published: 2023-07-27T00:00:00Z
date_updated: 2023-12-13T12:01:46Z
day: '27'
department:
- _id: FyKo
doi: 10.1093/gigascience/giad045
external_id:
isi:
- '001081086100001'
pmid:
- '37496156'
intvolume: ' 12'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1093/gigascience/giad045
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
publication: GigaScience
publication_identifier:
eissn:
- 2047-217X
publication_status: epub_ahead
publisher: Oxford Academic
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Scientists without borders: Lessons from Ukraine'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2023'
...
---
_id: '13973'
abstract:
- lang: eng
text: We construct families of log K3 surfaces and study the arithmetic of their
members. We use this to produce explicit surfaces with an order 5 Brauer–Manin
obstruction to the integral Hasse principle.
acknowledgement: "This paper was completed as part of a project which received funding
from the\r\nEuropean Union’s Horizon 2020 research and innovation programme under
the Marie\r\nSkłodowska-Curie grant agreement No. 754411."
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Julian
full_name: Lyczak, Julian
id: 3572849A-F248-11E8-B48F-1D18A9856A87
last_name: Lyczak
citation:
ama: Lyczak J. Order 5 Brauer–Manin obstructions to the integral Hasse principle
on log K3 surfaces. Annales de l’Institut Fourier. 2023;73(2):447-478.
doi:10.5802/aif.3529
apa: Lyczak, J. (2023). Order 5 Brauer–Manin obstructions to the integral Hasse
principle on log K3 surfaces. Annales de l’Institut Fourier. Association
des Annales de l’Institut Fourier. https://doi.org/10.5802/aif.3529
chicago: Lyczak, Julian. “Order 5 Brauer–Manin Obstructions to the Integral Hasse
Principle on Log K3 Surfaces.” Annales de l’Institut Fourier. Association
des Annales de l’Institut Fourier, 2023. https://doi.org/10.5802/aif.3529.
ieee: J. Lyczak, “Order 5 Brauer–Manin obstructions to the integral Hasse principle
on log K3 surfaces,” Annales de l’Institut Fourier, vol. 73, no. 2. Association
des Annales de l’Institut Fourier, pp. 447–478, 2023.
ista: Lyczak J. 2023. Order 5 Brauer–Manin obstructions to the integral Hasse principle
on log K3 surfaces. Annales de l’Institut Fourier. 73(2), 447–478.
mla: Lyczak, Julian. “Order 5 Brauer–Manin Obstructions to the Integral Hasse Principle
on Log K3 Surfaces.” Annales de l’Institut Fourier, vol. 73, no. 2, Association
des Annales de l’Institut Fourier, 2023, pp. 447–78, doi:10.5802/aif.3529.
short: J. Lyczak, Annales de l’Institut Fourier 73 (2023) 447–478.
date_created: 2023-08-06T22:01:12Z
date_published: 2023-05-12T00:00:00Z
date_updated: 2023-12-13T12:03:04Z
day: '12'
ddc:
- '510'
department:
- _id: TiBr
doi: 10.5802/aif.3529
ec_funded: 1
external_id:
arxiv:
- '2005.14013'
isi:
- '001000279500001'
file:
- access_level: open_access
checksum: daf53fc614c894422e4c0fb3d2a2ae3e
content_type: application/pdf
creator: dernst
date_created: 2023-08-07T07:19:42Z
date_updated: 2023-08-07T07:19:42Z
file_id: '13977'
file_name: 2023_AnnalesFourier_Lyczak.pdf
file_size: 1529821
relation: main_file
success: 1
file_date_updated: 2023-08-07T07:19:42Z
has_accepted_license: '1'
intvolume: ' 73'
isi: 1
issue: '2'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 447-478
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Annales de l'Institut Fourier
publication_identifier:
issn:
- 0373-0956
publication_status: published
publisher: Association des Annales de l'Institut Fourier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Order 5 Brauer–Manin obstructions to the integral Hasse principle on log K3
surfaces
tmp:
image: /image/cc_by_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nd/4.0/legalcode
name: Creative Commons Attribution-NoDerivatives 4.0 International (CC BY-ND 4.0)
short: CC BY-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 73
year: '2023'
...
---
_id: '13974'
abstract:
- lang: eng
text: The Tverberg theorem is one of the cornerstones of discrete geometry. It states
that, given a set X of at least (d+1)(r−1)+1 points in Rd, one can find a partition
X=X1∪⋯∪Xr of X, such that the convex hulls of the Xi, i=1,…,r, all share a common
point. In this paper, we prove a trengthening of this theorem that guarantees
a partition which, in addition to the above, has the property that the boundaries
of full-dimensional convex hulls have pairwise nonempty intersections. Possible
generalizations and algorithmic aspects are also discussed. As a concrete application,
we show that any n points in the plane in general position span ⌊n/3⌋ vertex-disjoint
triangles that are pairwise crossing, meaning that their boundaries have pairwise
nonempty intersections; this number is clearly best possible. A previous result
of Álvarez-Rebollar et al. guarantees ⌊n/6⌋pairwise crossing triangles. Our result
generalizes to a result about simplices in Rd, d≥2.
acknowledgement: "Part of the research leading to this paper was done during the 16th
Gremo Workshop on Open Problems (GWOP), Waltensburg, Switzerland, June 12–16, 2018.
We thank Patrick Schnider for suggesting the problem, and Stefan Felsner, Malte
Milatz, and Emo Welzl for fruitful discussions during the workshop. We also thank
Stefan Felsner and Manfred Scheucher for finding, communicating the example from
Sect. 3.3, and the kind permission to include their visualization of the point set.
We thank Dömötör Pálvölgyi, the SoCG reviewers, and DCG reviewers for various helpful
comments.\r\nR. Fulek gratefully acknowledges support from Austrian Science Fund
(FWF), Project M2281-N35. A. Kupavskii was supported by the Advanced Postdoc.Mobility
Grant no. P300P2_177839 of the Swiss National Science Foundation. Research by P.
Valtr was supported by the Grant no. 18-19158 S of the Czech Science Foundation
(GAČR)."
article_processing_charge: No
article_type: original
author:
- first_name: Radoslav
full_name: Fulek, Radoslav
id: 39F3FFE4-F248-11E8-B48F-1D18A9856A87
last_name: Fulek
orcid: 0000-0001-8485-1774
- first_name: Bernd
full_name: Gärtner, Bernd
last_name: Gärtner
- first_name: Andrey
full_name: Kupavskii, Andrey
last_name: Kupavskii
- first_name: Pavel
full_name: Valtr, Pavel
last_name: Valtr
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: Fulek R, Gärtner B, Kupavskii A, Valtr P, Wagner U. The crossing Tverberg theorem.
Discrete and Computational Geometry. 2023. doi:10.1007/s00454-023-00532-x
apa: Fulek, R., Gärtner, B., Kupavskii, A., Valtr, P., & Wagner, U. (2023).
The crossing Tverberg theorem. Discrete and Computational Geometry. Springer
Nature. https://doi.org/10.1007/s00454-023-00532-x
chicago: Fulek, Radoslav, Bernd Gärtner, Andrey Kupavskii, Pavel Valtr, and Uli
Wagner. “The Crossing Tverberg Theorem.” Discrete and Computational Geometry.
Springer Nature, 2023. https://doi.org/10.1007/s00454-023-00532-x.
ieee: R. Fulek, B. Gärtner, A. Kupavskii, P. Valtr, and U. Wagner, “The crossing
Tverberg theorem,” Discrete and Computational Geometry. Springer Nature,
2023.
ista: Fulek R, Gärtner B, Kupavskii A, Valtr P, Wagner U. 2023. The crossing Tverberg
theorem. Discrete and Computational Geometry.
mla: Fulek, Radoslav, et al. “The Crossing Tverberg Theorem.” Discrete and Computational
Geometry, Springer Nature, 2023, doi:10.1007/s00454-023-00532-x.
short: R. Fulek, B. Gärtner, A. Kupavskii, P. Valtr, U. Wagner, Discrete and Computational
Geometry (2023).
date_created: 2023-08-06T22:01:12Z
date_published: 2023-07-27T00:00:00Z
date_updated: 2023-12-13T12:03:35Z
day: '27'
department:
- _id: UlWa
doi: 10.1007/s00454-023-00532-x
external_id:
arxiv:
- '1812.04911'
isi:
- '001038546500001'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1812.04911
month: '07'
oa: 1
oa_version: Preprint
project:
- _id: 261FA626-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02281
name: Eliminating intersections in drawings of graphs
publication: Discrete and Computational Geometry
publication_identifier:
eissn:
- 1432-0444
issn:
- 0179-5376
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '6647'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: The crossing Tverberg theorem
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13975'
abstract:
- lang: eng
text: "We consider the spectrum of random Laplacian matrices of the form Ln=An−Dn
where An\r\n is a real symmetric random matrix and Dn is a diagonal matrix whose
entries are equal to the corresponding row sums of An. If An is a Wigner matrix
with entries in the domain of attraction of a Gaussian distribution, the empirical
spectral measure of Ln is known to converge to the free convolution of a semicircle
distribution and a standard real Gaussian distribution. We consider real symmetric
random matrices An with independent entries (up to symmetry) whose row sums converge
to a purely non-Gaussian infinitely divisible distribution, which fall into the
class of Lévy–Khintchine random matrices first introduced by Jung [Trans Am Math
Soc, 370, (2018)]. Our main result shows that the empirical spectral measure of
Ln converges almost surely to a deterministic limit. A key step in the proof
is to use the purely non-Gaussian nature of the row sums to build a random operator
to which Ln converges in an appropriate sense. This operator leads to a recursive
distributional equation uniquely describing the Stieltjes transform of the limiting
empirical spectral measure."
acknowledgement: "The first author thanks Yizhe Zhu for pointing out reference [30].
We thank David Renfrew for comments on an earlier draft. We thank the anonymous
referee for a careful reading and helpful comments.\r\nOpen access funding provided
by Institute of Science and Technology (IST Austria)."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Andrew J
full_name: Campbell, Andrew J
id: 582b06a9-1f1c-11ee-b076-82ffce00dde4
last_name: Campbell
- first_name: Sean
full_name: O’Rourke, Sean
last_name: O’Rourke
citation:
ama: Campbell AJ, O’Rourke S. Spectrum of Lévy–Khintchine random laplacian matrices.
Journal of Theoretical Probability. 2023. doi:10.1007/s10959-023-01275-4
apa: Campbell, A. J., & O’Rourke, S. (2023). Spectrum of Lévy–Khintchine random
laplacian matrices. Journal of Theoretical Probability. Springer Nature.
https://doi.org/10.1007/s10959-023-01275-4
chicago: Campbell, Andrew J, and Sean O’Rourke. “Spectrum of Lévy–Khintchine Random
Laplacian Matrices.” Journal of Theoretical Probability. Springer Nature,
2023. https://doi.org/10.1007/s10959-023-01275-4.
ieee: A. J. Campbell and S. O’Rourke, “Spectrum of Lévy–Khintchine random laplacian
matrices,” Journal of Theoretical Probability. Springer Nature, 2023.
ista: Campbell AJ, O’Rourke S. 2023. Spectrum of Lévy–Khintchine random laplacian
matrices. Journal of Theoretical Probability.
mla: Campbell, Andrew J., and Sean O’Rourke. “Spectrum of Lévy–Khintchine Random
Laplacian Matrices.” Journal of Theoretical Probability, Springer Nature,
2023, doi:10.1007/s10959-023-01275-4.
short: A.J. Campbell, S. O’Rourke, Journal of Theoretical Probability (2023).
date_created: 2023-08-06T22:01:13Z
date_published: 2023-07-26T00:00:00Z
date_updated: 2023-12-13T12:00:50Z
day: '26'
ddc:
- '510'
department:
- _id: LaEr
doi: 10.1007/s10959-023-01275-4
external_id:
arxiv:
- '2210.07927'
isi:
- '001038341000001'
has_accepted_license: '1'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1007/s10959-023-01275-4
month: '07'
oa: 1
oa_version: Published Version
publication: Journal of Theoretical Probability
publication_identifier:
eissn:
- 1572-9230
issn:
- 0894-9840
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Spectrum of Lévy–Khintchine random laplacian matrices
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13257'
abstract:
- lang: eng
text: The magnetotropic susceptibility is the thermodynamic coefficient associated
with the rotational anisotropy of the free energy in an external magnetic field
and is closely related to the magnetic susceptibility. It emerges naturally in
frequency-shift measurements of oscillating mechanical cantilevers, which are
becoming an increasingly important tool in the quantitative study of the thermodynamics
of modern condensed-matter systems. Here we discuss the basic properties of the
magnetotropic susceptibility as they relate to the experimental aspects of frequency-shift
measurements, as well as to the interpretation of those experiments in terms of
the intrinsic properties of the system under study.
acknowledgement: "We thank Aharon Kapitulnik, Philip Moll, and Andreas Rydh for illuminating
discussions. The work at the Los Alamos National Laboratory is supported by National
Science Foundation Cooperative Agreements No. DMR-1157490 and No. DMR-1644779, the
state of Florida, and the U.S. Department of Energy. A.S. acknowledges support from
the DOE/BES Science of 100T grant. B.J.R. acknowledges funding from the National
Science Foundation under Grant No.\r\nDMR-1752784."
article_number: '035111'
article_processing_charge: No
article_type: original
author:
- first_name: A.
full_name: Shekhter, A.
last_name: Shekhter
- first_name: R. D.
full_name: Mcdonald, R. D.
last_name: Mcdonald
- first_name: B. J.
full_name: Ramshaw, B. J.
last_name: Ramshaw
- first_name: Kimberly A
full_name: Modic, Kimberly A
id: 13C26AC0-EB69-11E9-87C6-5F3BE6697425
last_name: Modic
orcid: 0000-0001-9760-3147
citation:
ama: Shekhter A, Mcdonald RD, Ramshaw BJ, Modic KA. Magnetotropic susceptibility.
Physical Review B. 2023;108(3). doi:10.1103/PhysRevB.108.035111
apa: Shekhter, A., Mcdonald, R. D., Ramshaw, B. J., & Modic, K. A. (2023). Magnetotropic
susceptibility. Physical Review B. American Physical Society. https://doi.org/10.1103/PhysRevB.108.035111
chicago: Shekhter, A., R. D. Mcdonald, B. J. Ramshaw, and Kimberly A Modic. “Magnetotropic
Susceptibility.” Physical Review B. American Physical Society, 2023. https://doi.org/10.1103/PhysRevB.108.035111.
ieee: A. Shekhter, R. D. Mcdonald, B. J. Ramshaw, and K. A. Modic, “Magnetotropic
susceptibility,” Physical Review B, vol. 108, no. 3. American Physical
Society, 2023.
ista: Shekhter A, Mcdonald RD, Ramshaw BJ, Modic KA. 2023. Magnetotropic susceptibility.
Physical Review B. 108(3), 035111.
mla: Shekhter, A., et al. “Magnetotropic Susceptibility.” Physical Review B,
vol. 108, no. 3, 035111, American Physical Society, 2023, doi:10.1103/PhysRevB.108.035111.
short: A. Shekhter, R.D. Mcdonald, B.J. Ramshaw, K.A. Modic, Physical Review B 108
(2023).
date_created: 2023-07-23T22:01:10Z
date_published: 2023-07-15T00:00:00Z
date_updated: 2023-12-13T11:58:57Z
day: '15'
department:
- _id: KiMo
doi: 10.1103/PhysRevB.108.035111
external_id:
arxiv:
- '2208.10038'
isi:
- '001062708600002'
intvolume: ' 108'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2208.10038
month: '07'
oa: 1
oa_version: Preprint
publication: Physical Review B
publication_identifier:
eissn:
- 2469-9969
issn:
- 2469-9950
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Magnetotropic susceptibility
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 108
year: '2023'
...
---
_id: '13972'
abstract:
- lang: eng
text: This Special Collection is dedicated to the field of photocatalytic synthesis
and contains a diverse selection of original research contributions. It includes
studies on catalyst development, mechanistic investigations, method development
and the use of enabling technologies, illustrating the many facets of state-of-the-art
research in photocatalytic synthesis. Further, emerging topics are surveyed and
discussed in three reviews and a concept article.
article_number: e202300683
article_processing_charge: No
article_type: letter_note
author:
- first_name: Line
full_name: Næsborg, Line
last_name: Næsborg
- first_name: Bartholomäus
full_name: Pieber, Bartholomäus
id: 93e5e5b2-0da6-11ed-8a41-af589a024726
last_name: Pieber
orcid: 0000-0001-8689-388X
- first_name: Oliver S.
full_name: Wenger, Oliver S.
last_name: Wenger
citation:
ama: 'Næsborg L, Pieber B, Wenger OS. Special Collection: Photocatalytic synthesis.
ChemCatChem. 2023. doi:10.1002/cctc.202300683'
apa: 'Næsborg, L., Pieber, B., & Wenger, O. S. (2023). Special Collection: Photocatalytic
synthesis. ChemCatChem. Wiley. https://doi.org/10.1002/cctc.202300683'
chicago: 'Næsborg, Line, Bartholomäus Pieber, and Oliver S. Wenger. “Special Collection:
Photocatalytic Synthesis.” ChemCatChem. Wiley, 2023. https://doi.org/10.1002/cctc.202300683.'
ieee: 'L. Næsborg, B. Pieber, and O. S. Wenger, “Special Collection: Photocatalytic
synthesis,” ChemCatChem. Wiley, 2023.'
ista: 'Næsborg L, Pieber B, Wenger OS. 2023. Special Collection: Photocatalytic
synthesis. ChemCatChem., e202300683.'
mla: 'Næsborg, Line, et al. “Special Collection: Photocatalytic Synthesis.” ChemCatChem,
e202300683, Wiley, 2023, doi:10.1002/cctc.202300683.'
short: L. Næsborg, B. Pieber, O.S. Wenger, ChemCatChem (2023).
date_created: 2023-08-06T22:01:12Z
date_published: 2023-07-27T00:00:00Z
date_updated: 2023-12-13T12:02:26Z
day: '27'
department:
- _id: BaPi
doi: 10.1002/cctc.202300683
external_id:
isi:
- '001037859900001'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1002/cctc.202300683
month: '07'
oa: 1
oa_version: Published Version
publication: ChemCatChem
publication_identifier:
eissn:
- 1867-3899
issn:
- 1867-3880
publication_status: epub_ahead
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Special Collection: Photocatalytic synthesis'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13968'
abstract:
- lang: eng
text: The use of multimodal readout mechanisms next to label-free real-time monitoring
of biomolecular interactions can provide valuable insight into surface-based reaction
mechanisms. To this end, the combination of an electrolyte-gated field-effect
transistor (EG-FET) with a fiber optic-coupled surface plasmon resonance (FO-SPR)
probe serving as gate electrode has been investigated to deconvolute surface mass
and charge density variations associated to surface reactions. However, applying
an electrochemical potential on such gold-coated FO-SPR gate electrodes can induce
gradual morphological changes of the thin gold film, leading to an irreversible
blue-shift of the SPR wavelength and a substantial signal drift. We show that
mild annealing leads to optical and electronic signal stabilization (20-fold lower
signal drift than as-sputtered fiber optic gates) and improved overall analytical
performance characteristics. The thermal treatment prevents morphological changes
of the thin gold-film occurring during operation, hence providing reliable and
stable data immediately upon gate voltage application. Thus, the readout output
of both transducing principles, the optical FO-SPR and electronic EG-FET, stays
constant throughout the whole sensing time-window and the long-term effect of
thermal treatment is also improved, providing stable signals even after 1 year
of storage. Annealing should therefore be considered a necessary modification
for applying fiber optic gate electrodes in real-time multimodal investigations
of surface reactions at the solid-liquid interface.
acknowledged_ssus:
- _id: EM-Fac
acknowledgement: "This project has received funding from the European Union’s Horizon
2020 Research and Innovation Programme under the Marie Skłodowska-Curie grant agreement
No. 813863–BORGES. We further thank the office of the Federal Government of Lower
Austria, K3-Group–Culture, Science and Education, for their financial support as
part of the project “Responsive Wound Dressing”. We gratefully acknowledge the financial
support from the Austrian Research Promotion Agency (FFG; 888067).\r\nWe thank the
Electron Microscopy Facility at IST Austria for their support with sputter coating
the FO tips and Bernhard Pichler from AIT for software development to facilitate
data evaluation."
article_number: '1202132'
article_processing_charge: Yes
article_type: original
author:
- first_name: Roger
full_name: Hasler, Roger
last_name: Hasler
- first_name: Marie Helene
full_name: Steger-Polt, Marie Helene
last_name: Steger-Polt
- first_name: Ciril
full_name: Reiner-Rozman, Ciril
last_name: Reiner-Rozman
- first_name: Stefan
full_name: Fossati, Stefan
last_name: Fossati
- first_name: Seungho
full_name: Lee, Seungho
id: BB243B88-D767-11E9-B658-BC13E6697425
last_name: Lee
orcid: 0000-0002-6962-8598
- first_name: Patrik
full_name: Aspermair, Patrik
last_name: Aspermair
- first_name: Christoph
full_name: Kleber, Christoph
last_name: Kleber
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
- first_name: Jakub
full_name: Dostalek, Jakub
last_name: Dostalek
- first_name: Wolfgang
full_name: Knoll, Wolfgang
last_name: Knoll
citation:
ama: 'Hasler R, Steger-Polt MH, Reiner-Rozman C, et al. Optical and electronic signal
stabilization of plasmonic fiber optic gate electrodes: Towards improved real-time
dual-mode biosensing. Frontiers in Physics. 2023;11. doi:10.3389/fphy.2023.1202132'
apa: 'Hasler, R., Steger-Polt, M. H., Reiner-Rozman, C., Fossati, S., Lee, S., Aspermair,
P., … Knoll, W. (2023). Optical and electronic signal stabilization of plasmonic
fiber optic gate electrodes: Towards improved real-time dual-mode biosensing.
Frontiers in Physics. Frontiers. https://doi.org/10.3389/fphy.2023.1202132'
chicago: 'Hasler, Roger, Marie Helene Steger-Polt, Ciril Reiner-Rozman, Stefan Fossati,
Seungho Lee, Patrik Aspermair, Christoph Kleber, Maria Ibáñez, Jakub Dostalek,
and Wolfgang Knoll. “Optical and Electronic Signal Stabilization of Plasmonic
Fiber Optic Gate Electrodes: Towards Improved Real-Time Dual-Mode Biosensing.”
Frontiers in Physics. Frontiers, 2023. https://doi.org/10.3389/fphy.2023.1202132.'
ieee: 'R. Hasler et al., “Optical and electronic signal stabilization of
plasmonic fiber optic gate electrodes: Towards improved real-time dual-mode biosensing,”
Frontiers in Physics, vol. 11. Frontiers, 2023.'
ista: 'Hasler R, Steger-Polt MH, Reiner-Rozman C, Fossati S, Lee S, Aspermair P,
Kleber C, Ibáñez M, Dostalek J, Knoll W. 2023. Optical and electronic signal stabilization
of plasmonic fiber optic gate electrodes: Towards improved real-time dual-mode
biosensing. Frontiers in Physics. 11, 1202132.'
mla: 'Hasler, Roger, et al. “Optical and Electronic Signal Stabilization of Plasmonic
Fiber Optic Gate Electrodes: Towards Improved Real-Time Dual-Mode Biosensing.”
Frontiers in Physics, vol. 11, 1202132, Frontiers, 2023, doi:10.3389/fphy.2023.1202132.'
short: R. Hasler, M.H. Steger-Polt, C. Reiner-Rozman, S. Fossati, S. Lee, P. Aspermair,
C. Kleber, M. Ibáñez, J. Dostalek, W. Knoll, Frontiers in Physics 11 (2023).
date_created: 2023-08-06T22:01:11Z
date_published: 2023-07-14T00:00:00Z
date_updated: 2023-12-13T12:04:10Z
day: '14'
ddc:
- '530'
department:
- _id: MaIb
doi: 10.3389/fphy.2023.1202132
external_id:
isi:
- '001038636400001'
file:
- access_level: open_access
checksum: fb36dda665e57bab006a000bf0faacd5
content_type: application/pdf
creator: dernst
date_created: 2023-08-07T07:48:11Z
date_updated: 2023-08-07T07:48:11Z
file_id: '13978'
file_name: 2023_FrontiersPhysics_Hasler.pdf
file_size: 2421758
relation: main_file
success: 1
file_date_updated: 2023-08-07T07:48:11Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
publication: Frontiers in Physics
publication_identifier:
eissn:
- 2296-424X
publication_status: published
publisher: Frontiers
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Optical and electronic signal stabilization of plasmonic fiber optic gate
electrodes: Towards improved real-time dual-mode biosensing'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 11
year: '2023'
...
---
_id: '14042'
abstract:
- lang: eng
text: Long-time and large-data existence of weak solutions for initial- and boundary-value
problems concerning three-dimensional flows of incompressible fluids is nowadays
available not only for Navier–Stokes fluids but also for various fluid models
where the relation between the Cauchy stress tensor and the symmetric part of
the velocity gradient is nonlinear. The majority of such studies however concerns
models where such a dependence is explicit (the stress is a function of the velocity
gradient), which makes the class of studied models unduly restrictive. The same
concerns boundary conditions, or more precisely the slipping mechanisms on the
boundary, where the no-slip is still the most preferred condition considered in
the literature. Our main objective is to develop a robust mathematical theory
for unsteady internal flows of implicitly constituted incompressible fluids with
implicit relations between the tangential projections of the velocity and the
normal traction on the boundary. The theory covers numerous rheological models
used in chemistry, biorheology, polymer and food industry as well as in geomechanics.
It also includes, as special cases, nonlinear slip as well as stick–slip boundary
conditions. Unlike earlier studies, the conditions characterizing admissible classes
of constitutive equations are expressed by means of tools of elementary calculus.
In addition, a fully constructive proof (approximation scheme) is incorporated.
Finally, we focus on the question of uniqueness of such weak solutions.
acknowledgement: "M. Bulíček and J. Málek acknowledge the support of the project No.
20-11027X financed by the Czech Science foundation (GAČR). M. Bulíček and J. Málek
are members of the Nečas Center for Mathematical Modelling.\r\nOpen access publishing
supported by the National Technical Library in Prague."
article_number: '72'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Miroslav
full_name: Bulíček, Miroslav
last_name: Bulíček
- first_name: Josef
full_name: Málek, Josef
last_name: Málek
- first_name: Erika
full_name: Maringová, Erika
id: dbabca31-66eb-11eb-963a-fb9c22c880b4
last_name: Maringová
citation:
ama: Bulíček M, Málek J, Maringová E. On unsteady internal flows of incompressible
fluids characterized by implicit constitutive equations in the bulk and on the
boundary. Journal of Mathematical Fluid Mechanics. 2023;25(3). doi:10.1007/s00021-023-00803-w
apa: Bulíček, M., Málek, J., & Maringová, E. (2023). On unsteady internal flows
of incompressible fluids characterized by implicit constitutive equations in the
bulk and on the boundary. Journal of Mathematical Fluid Mechanics. Springer
Nature. https://doi.org/10.1007/s00021-023-00803-w
chicago: Bulíček, Miroslav, Josef Málek, and Erika Maringová. “On Unsteady Internal
Flows of Incompressible Fluids Characterized by Implicit Constitutive Equations
in the Bulk and on the Boundary.” Journal of Mathematical Fluid Mechanics.
Springer Nature, 2023. https://doi.org/10.1007/s00021-023-00803-w.
ieee: M. Bulíček, J. Málek, and E. Maringová, “On unsteady internal flows of incompressible
fluids characterized by implicit constitutive equations in the bulk and on the
boundary,” Journal of Mathematical Fluid Mechanics, vol. 25, no. 3. Springer
Nature, 2023.
ista: Bulíček M, Málek J, Maringová E. 2023. On unsteady internal flows of incompressible
fluids characterized by implicit constitutive equations in the bulk and on the
boundary. Journal of Mathematical Fluid Mechanics. 25(3), 72.
mla: Bulíček, Miroslav, et al. “On Unsteady Internal Flows of Incompressible Fluids
Characterized by Implicit Constitutive Equations in the Bulk and on the Boundary.”
Journal of Mathematical Fluid Mechanics, vol. 25, no. 3, 72, Springer Nature,
2023, doi:10.1007/s00021-023-00803-w.
short: M. Bulíček, J. Málek, E. Maringová, Journal of Mathematical Fluid Mechanics
25 (2023).
date_created: 2023-08-13T22:01:13Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2023-12-13T12:08:08Z
day: '01'
ddc:
- '510'
department:
- _id: JuFi
doi: 10.1007/s00021-023-00803-w
external_id:
arxiv:
- '2301.12834'
isi:
- '001040354900001'
file:
- access_level: open_access
checksum: c549cd8f0dd02ed60477a05ca045f481
content_type: application/pdf
creator: dernst
date_created: 2023-08-14T07:24:17Z
date_updated: 2023-08-14T07:24:17Z
file_id: '14046'
file_name: 2023_JourMathFluidMech_Bulicek.pdf
file_size: 845748
relation: main_file
success: 1
file_date_updated: 2023-08-14T07:24:17Z
has_accepted_license: '1'
intvolume: ' 25'
isi: 1
issue: '3'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
publication: Journal of Mathematical Fluid Mechanics
publication_identifier:
eissn:
- 1422-6952
issn:
- 1422-6928
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: On unsteady internal flows of incompressible fluids characterized by implicit
constitutive equations in the bulk and on the boundary
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 25
year: '2023'
...
---
_id: '14041'
abstract:
- lang: eng
text: Tissue morphogenesis and patterning during development involve the segregation
of cell types. Segregation is driven by differential tissue surface tensions generated
by cell types through controlling cell-cell contact formation by regulating adhesion
and actomyosin contractility-based cellular cortical tensions. We use vertebrate
tissue cell types and zebrafish germ layer progenitors as in vitro models of 3-dimensional
heterotypic segregation and developed a quantitative analysis of their dynamics
based on 3D time-lapse microscopy. We show that general inhibition of actomyosin
contractility by the Rho kinase inhibitor Y27632 delays segregation. Cell type-specific
inhibition of non-muscle myosin2 activity by overexpression of myosin assembly
inhibitor S100A4 reduces tissue surface tension, manifested in decreased compaction
during aggregation and inverted geometry observed during segregation. The same
is observed when we express a constitutively active Rho kinase isoform to ubiquitously
keep actomyosin contractility high at cell-cell and cell-medium interfaces and
thus overriding the interface-specific regulation of cortical tensions. Tissue
surface tension regulation can become an effective tool in tissue engineering.
acknowledgement: "We thank Marton Gulyas (ELTE Eötvös University) for development
of videomicroscopy experiment manager and image analysis software. Authors are grateful
to Gabor Forgacs (University of Missouri) for critical reading of earlier versions
of this manuscript as well as to Zsuzsa Akos and Andras Czirok (ELTE Eötvös University)
for fruitful discussions. This work was supported by EU FP7, ERC COLLMOT Project
No 227878 to TV, the National Research Development and Innovation Fund of Hungary,
K119359 and also Project No 2018-1.2.1-NKP-2018-00005 to LN. This project has received
funding from the European Union’s Horizon 2020 research and innovation programme
under the Marie Sklodowska-Curie grant agreement No 955576. MV was supported by
the Ja´nos Bolyai Fellowship of the Hungarian Academy of Sciences.\r\nOpen access
funding provided by Eötvös Loránd University."
article_number: '817'
article_processing_charge: Yes
article_type: original
author:
- first_name: Elod
full_name: Méhes, Elod
last_name: Méhes
- first_name: Enys
full_name: Mones, Enys
last_name: Mones
- first_name: Máté
full_name: Varga, Máté
last_name: Varga
- first_name: Áron
full_name: Zsigmond, Áron
last_name: Zsigmond
- first_name: Beáta
full_name: Biri-Kovács, Beáta
last_name: Biri-Kovács
- first_name: László
full_name: Nyitray, László
last_name: Nyitray
- first_name: Vanessa
full_name: Barone, Vanessa
id: 419EECCC-F248-11E8-B48F-1D18A9856A87
last_name: Barone
orcid: 0000-0003-2676-3367
- first_name: Gabriel
full_name: Krens, Gabriel
id: 2B819732-F248-11E8-B48F-1D18A9856A87
last_name: Krens
orcid: 0000-0003-4761-5996
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
- first_name: Tamás
full_name: Vicsek, Tamás
last_name: Vicsek
citation:
ama: Méhes E, Mones E, Varga M, et al. 3D cell segregation geometry and dynamics
are governed by tissue surface tension regulation. Communications Biology.
2023;6. doi:10.1038/s42003-023-05181-7
apa: Méhes, E., Mones, E., Varga, M., Zsigmond, Á., Biri-Kovács, B., Nyitray, L.,
… Vicsek, T. (2023). 3D cell segregation geometry and dynamics are governed by
tissue surface tension regulation. Communications Biology. Springer Nature.
https://doi.org/10.1038/s42003-023-05181-7
chicago: Méhes, Elod, Enys Mones, Máté Varga, Áron Zsigmond, Beáta Biri-Kovács,
László Nyitray, Vanessa Barone, Gabriel Krens, Carl-Philipp J Heisenberg, and
Tamás Vicsek. “3D Cell Segregation Geometry and Dynamics Are Governed by Tissue
Surface Tension Regulation.” Communications Biology. Springer Nature, 2023.
https://doi.org/10.1038/s42003-023-05181-7.
ieee: E. Méhes et al., “3D cell segregation geometry and dynamics are governed
by tissue surface tension regulation,” Communications Biology, vol. 6.
Springer Nature, 2023.
ista: Méhes E, Mones E, Varga M, Zsigmond Á, Biri-Kovács B, Nyitray L, Barone V,
Krens G, Heisenberg C-PJ, Vicsek T. 2023. 3D cell segregation geometry and dynamics
are governed by tissue surface tension regulation. Communications Biology. 6,
817.
mla: Méhes, Elod, et al. “3D Cell Segregation Geometry and Dynamics Are Governed
by Tissue Surface Tension Regulation.” Communications Biology, vol. 6,
817, Springer Nature, 2023, doi:10.1038/s42003-023-05181-7.
short: E. Méhes, E. Mones, M. Varga, Á. Zsigmond, B. Biri-Kovács, L. Nyitray, V.
Barone, G. Krens, C.-P.J. Heisenberg, T. Vicsek, Communications Biology 6 (2023).
date_created: 2023-08-13T22:01:13Z
date_published: 2023-08-04T00:00:00Z
date_updated: 2023-12-13T12:07:33Z
day: '04'
ddc:
- '570'
department:
- _id: CaHe
- _id: Bio
doi: 10.1038/s42003-023-05181-7
external_id:
isi:
- '001042544100001'
pmid:
- '37542157'
file:
- access_level: open_access
checksum: 1f9324f736bdbb76426b07736651c4cd
content_type: application/pdf
creator: dernst
date_created: 2023-08-14T07:17:36Z
date_updated: 2023-08-14T07:17:36Z
file_id: '14045'
file_name: 2023_CommBiology_Mehes.pdf
file_size: 10181997
relation: main_file
success: 1
file_date_updated: 2023-08-14T07:17:36Z
has_accepted_license: '1'
intvolume: ' 6'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
pmid: 1
publication: Communications Biology
publication_identifier:
eissn:
- 2399-3642
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: 3D cell segregation geometry and dynamics are governed by tissue surface tension
regulation
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2023'
...
---
_id: '14039'
abstract:
- lang: eng
text: Membranes are essential for life. They act as semi-permeable boundaries that
define cells and organelles. In addition, their surfaces actively participate
in biochemical reaction networks, where they confine proteins, align reaction
partners, and directly control enzymatic activities. Membrane-localized reactions
shape cellular membranes, define the identity of organelles, compartmentalize
biochemical processes, and can even be the source of signaling gradients that
originate at the plasma membrane and reach into the cytoplasm and nucleus. The
membrane surface is, therefore, an essential platform upon which myriad cellular
processes are scaffolded. In this review, we summarize our current understanding
of the biophysics and biochemistry of membrane-localized reactions with particular
focus on insights derived from reconstituted and cellular systems. We discuss
how the interplay of cellular factors results in their self-organization, condensation,
assembly, and activity, and the emergent properties derived from them.
acknowledgement: We acknowledge funding from the Austrian Science Fund (FWF F79, P32814-B,
and P35061-B to S.M.; P34607-B to M.L.; and P30584-B and P33066-B to T.A.L.) and
the European Research Council (ERC) under the European Union’s Horizon 2020 research
and innovation program (grant agreement no. 101045340 to M.L.). We are grateful
for comments on the manuscript by Justyna Sawa-Makarska, Verena Baumann, Marko Kojic,
Philipp Radler, Ronja Reinhardt, and Sumire Antonioli.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Thomas A.
full_name: Leonard, Thomas A.
last_name: Leonard
- first_name: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
- first_name: Sascha
full_name: Martens, Sascha
last_name: Martens
citation:
ama: Leonard TA, Loose M, Martens S. The membrane surface as a platform that organizes
cellular and biochemical processes. Developmental Cell. 2023;58(15):1315-1332.
doi:10.1016/j.devcel.2023.06.001
apa: Leonard, T. A., Loose, M., & Martens, S. (2023). The membrane surface as
a platform that organizes cellular and biochemical processes. Developmental
Cell. Elsevier. https://doi.org/10.1016/j.devcel.2023.06.001
chicago: Leonard, Thomas A., Martin Loose, and Sascha Martens. “The Membrane Surface
as a Platform That Organizes Cellular and Biochemical Processes.” Developmental
Cell. Elsevier, 2023. https://doi.org/10.1016/j.devcel.2023.06.001.
ieee: T. A. Leonard, M. Loose, and S. Martens, “The membrane surface as a platform
that organizes cellular and biochemical processes,” Developmental Cell,
vol. 58, no. 15. Elsevier, pp. 1315–1332, 2023.
ista: Leonard TA, Loose M, Martens S. 2023. The membrane surface as a platform that
organizes cellular and biochemical processes. Developmental Cell. 58(15), 1315–1332.
mla: Leonard, Thomas A., et al. “The Membrane Surface as a Platform That Organizes
Cellular and Biochemical Processes.” Developmental Cell, vol. 58, no. 15,
Elsevier, 2023, pp. 1315–32, doi:10.1016/j.devcel.2023.06.001.
short: T.A. Leonard, M. Loose, S. Martens, Developmental Cell 58 (2023) 1315–1332.
date_created: 2023-08-13T22:01:12Z
date_published: 2023-08-07T00:00:00Z
date_updated: 2023-12-13T12:09:20Z
day: '07'
ddc:
- '570'
department:
- _id: MaLo
doi: 10.1016/j.devcel.2023.06.001
external_id:
isi:
- '001059110400001'
pmid:
- '37419118'
file:
- access_level: open_access
checksum: d8c5dc97cd40c26da2ec98ae723ab368
content_type: application/pdf
creator: dernst
date_created: 2023-08-14T07:57:55Z
date_updated: 2023-08-14T07:57:55Z
file_id: '14049'
file_name: 2023_DevelopmentalCell_Leonard.pdf
file_size: 3184217
relation: main_file
success: 1
file_date_updated: 2023-08-14T07:57:55Z
has_accepted_license: '1'
intvolume: ' 58'
isi: 1
issue: '15'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 1315-1332
pmid: 1
project:
- _id: fc38323b-9c52-11eb-aca3-ff8afb4a011d
grant_number: P34607
name: "Understanding bacterial cell division by in vitro\r\nreconstitution"
- _id: bd6ae2ca-d553-11ed-ba76-a4aa239da5ee
grant_number: '101045340'
name: Synthetic and structural biology of Rab GTPase networks
publication: Developmental Cell
publication_identifier:
eissn:
- 1878-1551
issn:
- 1534-5807
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: The membrane surface as a platform that organizes cellular and biochemical
processes
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 58
year: '2023'
...
---
_id: '14040'
abstract:
- lang: eng
text: Robust oxygenic photosynthesis requires a suite of accessory factors to ensure
efficient assembly and repair of the oxygen-evolving photosystem two (PSII) complex.
The highly conserved Ycf48 assembly factor binds to the newly synthesized D1 reaction
center polypeptide and promotes the initial steps of PSII assembly, but its binding
site is unclear. Here we use cryo-electron microscopy to determine the structure
of a cyanobacterial PSII D1/D2 reaction center assembly complex with Ycf48 attached.
Ycf48, a 7-bladed beta propeller, binds to the amino-acid residues of D1 that
ultimately ligate the water-oxidising Mn4CaO5 cluster, thereby preventing the
premature binding of Mn2+ and Ca2+ ions and protecting the site from damage. Interactions
with D2 help explain how Ycf48 promotes assembly of the D1/D2 complex. Overall,
our work provides valuable insights into the early stages of PSII assembly and
the structural changes that create the binding site for the Mn4CaO5 cluster.
acknowledged_ssus:
- _id: EM-Fac
- _id: LifeSc
- _id: ScienComp
acknowledgement: P.J.N. and J.W.M. are grateful for the support of the Biotechnology
& Biological Sciences Research Council (awards BB/L003260/1 and BB/P00931X/1). J.
Knoppová, R.S. and J. Komenda were supported by the Czech Science Foundation (project
19-29225X) and by ERC project Photoredesign (no. 854126) and L.A.S. was supported
by the Scientific Service Units (SSU) of IST Austria through resources provided
by the Electron Microscopy Facility (EMF), the Life Science Facility (LSF) and the
IST high-performance computing cluster.
article_number: '4681'
article_processing_charge: Yes
article_type: original
author:
- first_name: Ziyu
full_name: Zhao, Ziyu
last_name: Zhao
- first_name: Irene
full_name: Vercellino, Irene
id: 3ED6AF16-F248-11E8-B48F-1D18A9856A87
last_name: Vercellino
orcid: 0000-0001-5618-3449
- first_name: Jana
full_name: Knoppová, Jana
last_name: Knoppová
- first_name: Roman
full_name: Sobotka, Roman
last_name: Sobotka
- first_name: James W.
full_name: Murray, James W.
last_name: Murray
- first_name: Peter J.
full_name: Nixon, Peter J.
last_name: Nixon
- first_name: Leonid A
full_name: Sazanov, Leonid A
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
- first_name: Josef
full_name: Komenda, Josef
last_name: Komenda
citation:
ama: Zhao Z, Vercellino I, Knoppová J, et al. The Ycf48 accessory factor occupies
the site of the oxygen-evolving manganese cluster during photosystem II biogenesis.
Nature Communications. 2023;14. doi:10.1038/s41467-023-40388-6
apa: Zhao, Z., Vercellino, I., Knoppová, J., Sobotka, R., Murray, J. W., Nixon,
P. J., … Komenda, J. (2023). The Ycf48 accessory factor occupies the site of the
oxygen-evolving manganese cluster during photosystem II biogenesis. Nature
Communications. Springer Nature. https://doi.org/10.1038/s41467-023-40388-6
chicago: Zhao, Ziyu, Irene Vercellino, Jana Knoppová, Roman Sobotka, James W. Murray,
Peter J. Nixon, Leonid A Sazanov, and Josef Komenda. “The Ycf48 Accessory Factor
Occupies the Site of the Oxygen-Evolving Manganese Cluster during Photosystem
II Biogenesis.” Nature Communications. Springer Nature, 2023. https://doi.org/10.1038/s41467-023-40388-6.
ieee: Z. Zhao et al., “The Ycf48 accessory factor occupies the site of the
oxygen-evolving manganese cluster during photosystem II biogenesis,” Nature
Communications, vol. 14. Springer Nature, 2023.
ista: Zhao Z, Vercellino I, Knoppová J, Sobotka R, Murray JW, Nixon PJ, Sazanov
LA, Komenda J. 2023. The Ycf48 accessory factor occupies the site of the oxygen-evolving
manganese cluster during photosystem II biogenesis. Nature Communications. 14,
4681.
mla: Zhao, Ziyu, et al. “The Ycf48 Accessory Factor Occupies the Site of the Oxygen-Evolving
Manganese Cluster during Photosystem II Biogenesis.” Nature Communications,
vol. 14, 4681, Springer Nature, 2023, doi:10.1038/s41467-023-40388-6.
short: Z. Zhao, I. Vercellino, J. Knoppová, R. Sobotka, J.W. Murray, P.J. Nixon,
L.A. Sazanov, J. Komenda, Nature Communications 14 (2023).
date_created: 2023-08-13T22:01:13Z
date_published: 2023-08-04T00:00:00Z
date_updated: 2023-12-13T12:06:56Z
day: '04'
ddc:
- '570'
department:
- _id: LeSa
doi: 10.1038/s41467-023-40388-6
external_id:
isi:
- '001042606700004'
file:
- access_level: open_access
checksum: 3b9043df3d51c300f9be95eac3ff9d0b
content_type: application/pdf
creator: dernst
date_created: 2023-08-14T07:01:12Z
date_updated: 2023-08-14T07:01:12Z
file_id: '14044'
file_name: 2023_NatureComm_Zhao.pdf
file_size: 2315325
relation: main_file
success: 1
file_date_updated: 2023-08-14T07:01:12Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese
cluster during photosystem II biogenesis
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2023'
...
---
_id: '13967'
abstract:
- lang: eng
text: 'A classic solution technique for Markov decision processes (MDP) and stochastic
games (SG) is value iteration (VI). Due to its good practical performance, this
approximative approach is typically preferred over exact techniques, even though
no practical bounds on the imprecision of the result could be given until recently.
As a consequence, even the most used model checkers could return arbitrarily wrong
results. Over the past decade, different works derived stopping criteria, indicating
when the precision reaches the desired level, for various settings, in particular
MDP with reachability, total reward, and mean payoff, and SG with reachability.In
this paper, we provide the first stopping criteria for VI on SG with total reward
and mean payoff, yielding the first anytime algorithms in these settings. To this
end, we provide the solution in two flavours: First through a reduction to the
MDP case and second directly on SG. The former is simpler and automatically utilizes
any advances on MDP. The latter allows for more local computations, heading towards
better practical efficiency.Our solution unifies the previously mentioned approaches
for MDP and SG and their underlying ideas. To achieve this, we isolate objective-specific
subroutines as well as identify objective-independent concepts. These structural
concepts, while surprisingly simple, form the very essence of the unified solution.'
acknowledgement: This research was funded in part by DFG projects 383882557 “SUV”
and 427755713 “GOPro”.
article_processing_charge: No
author:
- first_name: Jan
full_name: Kretinsky, Jan
id: 44CEF464-F248-11E8-B48F-1D18A9856A87
last_name: Kretinsky
orcid: 0000-0002-8122-2881
- first_name: Tobias
full_name: Meggendorfer, Tobias
id: b21b0c15-30a2-11eb-80dc-f13ca25802e1
last_name: Meggendorfer
orcid: 0000-0002-1712-2165
- first_name: Maximilian
full_name: Weininger, Maximilian
id: 02ab0197-cc70-11ed-ab61-918e71f56881
last_name: Weininger
citation:
ama: 'Kretinsky J, Meggendorfer T, Weininger M. Stopping criteria for value iteration
on stochastic games with quantitative objectives. In: 38th Annual ACM/IEEE
Symposium on Logic in Computer Science. Vol 2023. Institute of Electrical
and Electronics Engineers; 2023. doi:10.1109/LICS56636.2023.10175771'
apa: 'Kretinsky, J., Meggendorfer, T., & Weininger, M. (2023). Stopping criteria
for value iteration on stochastic games with quantitative objectives. In 38th
Annual ACM/IEEE Symposium on Logic in Computer Science (Vol. 2023). Boston,
MA, United States: Institute of Electrical and Electronics Engineers. https://doi.org/10.1109/LICS56636.2023.10175771'
chicago: Kretinsky, Jan, Tobias Meggendorfer, and Maximilian Weininger. “Stopping
Criteria for Value Iteration on Stochastic Games with Quantitative Objectives.”
In 38th Annual ACM/IEEE Symposium on Logic in Computer Science, Vol. 2023.
Institute of Electrical and Electronics Engineers, 2023. https://doi.org/10.1109/LICS56636.2023.10175771.
ieee: J. Kretinsky, T. Meggendorfer, and M. Weininger, “Stopping criteria for value
iteration on stochastic games with quantitative objectives,” in 38th Annual
ACM/IEEE Symposium on Logic in Computer Science, Boston, MA, United States,
2023, vol. 2023.
ista: 'Kretinsky J, Meggendorfer T, Weininger M. 2023. Stopping criteria for value
iteration on stochastic games with quantitative objectives. 38th Annual ACM/IEEE
Symposium on Logic in Computer Science. LICS: Symposium on Logic in Computer Science
vol. 2023.'
mla: Kretinsky, Jan, et al. “Stopping Criteria for Value Iteration on Stochastic
Games with Quantitative Objectives.” 38th Annual ACM/IEEE Symposium on Logic
in Computer Science, vol. 2023, Institute of Electrical and Electronics Engineers,
2023, doi:10.1109/LICS56636.2023.10175771.
short: J. Kretinsky, T. Meggendorfer, M. Weininger, in:, 38th Annual ACM/IEEE Symposium
on Logic in Computer Science, Institute of Electrical and Electronics Engineers,
2023.
conference:
end_date: 2023-06-29
location: Boston, MA, United States
name: 'LICS: Symposium on Logic in Computer Science'
start_date: 2023-06-26
date_created: 2023-08-06T22:01:10Z
date_published: 2023-07-01T00:00:00Z
date_updated: 2023-12-13T12:06:10Z
day: '01'
department:
- _id: KrCh
doi: 10.1109/LICS56636.2023.10175771
external_id:
arxiv:
- '2304.09930'
isi:
- '001036707700042'
intvolume: ' 2023'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2304.09930
month: '07'
oa: 1
oa_version: Preprint
publication: 38th Annual ACM/IEEE Symposium on Logic in Computer Science
publication_identifier:
isbn:
- '9798350335873'
issn:
- 1043-6871
publication_status: published
publisher: Institute of Electrical and Electronics Engineers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Stopping criteria for value iteration on stochastic games with quantitative
objectives
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2023
year: '2023'
...
---
_id: '13965'
abstract:
- lang: eng
text: Many modes and mechanisms of epigenetic inheritance have been elucidated in
eukaryotes. Most of them are relatively short-term, generally not exceeding one
or a few organismal generations. However, emerging evidence indicates that one
mechanism, cytosine DNA methylation, can mediate epigenetic inheritance over much
longer timescales, which are mostly or completely inaccessible in the laboratory.
Here we discuss the evidence for, and mechanisms and implications of, such long-term
epigenetic inheritance. We argue that compelling evidence supports the long-term
epigenetic inheritance of gene body methylation, at least in the model angiosperm
Arabidopsis thaliana, and that variation in such methylation can therefore serve
as an epigenetic basis for phenotypic variation in natural populations.
article_number: '102087'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Elizabeth
full_name: Hollwey, Elizabeth
id: b8c4f54b-e484-11eb-8fdc-a54df64ef6dd
last_name: Hollwey
- first_name: Amy
full_name: Briffa, Amy
last_name: Briffa
- first_name: Martin
full_name: Howard, Martin
last_name: Howard
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
citation:
ama: Hollwey E, Briffa A, Howard M, Zilberman D. Concepts, mechanisms and implications
of long-term epigenetic inheritance. Current Opinion in Genetics and Development.
2023;81(8). doi:10.1016/j.gde.2023.102087
apa: Hollwey, E., Briffa, A., Howard, M., & Zilberman, D. (2023). Concepts,
mechanisms and implications of long-term epigenetic inheritance. Current Opinion
in Genetics and Development. Elsevier. https://doi.org/10.1016/j.gde.2023.102087
chicago: Hollwey, Elizabeth, Amy Briffa, Martin Howard, and Daniel Zilberman. “Concepts,
Mechanisms and Implications of Long-Term Epigenetic Inheritance.” Current Opinion
in Genetics and Development. Elsevier, 2023. https://doi.org/10.1016/j.gde.2023.102087.
ieee: E. Hollwey, A. Briffa, M. Howard, and D. Zilberman, “Concepts, mechanisms
and implications of long-term epigenetic inheritance,” Current Opinion in Genetics
and Development, vol. 81, no. 8. Elsevier, 2023.
ista: Hollwey E, Briffa A, Howard M, Zilberman D. 2023. Concepts, mechanisms and
implications of long-term epigenetic inheritance. Current Opinion in Genetics
and Development. 81(8), 102087.
mla: Hollwey, Elizabeth, et al. “Concepts, Mechanisms and Implications of Long-Term
Epigenetic Inheritance.” Current Opinion in Genetics and Development, vol.
81, no. 8, 102087, Elsevier, 2023, doi:10.1016/j.gde.2023.102087.
short: E. Hollwey, A. Briffa, M. Howard, D. Zilberman, Current Opinion in Genetics
and Development 81 (2023).
date_created: 2023-08-06T22:01:10Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2023-12-13T12:05:31Z
day: '01'
ddc:
- '570'
department:
- _id: DaZi
doi: 10.1016/j.gde.2023.102087
external_id:
isi:
- '001047020200001'
pmid:
- '37441873'
file:
- access_level: open_access
checksum: a294cd9506b80ed6ef218ef44ed32765
content_type: application/pdf
creator: dernst
date_created: 2023-08-07T08:32:26Z
date_updated: 2023-08-07T08:32:26Z
file_id: '13980'
file_name: 2023_CurrentOpinionGenetics_Hollwey.pdf
file_size: 2568632
relation: main_file
success: 1
file_date_updated: 2023-08-07T08:32:26Z
has_accepted_license: '1'
intvolume: ' 81'
isi: 1
issue: '8'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
pmid: 1
publication: Current Opinion in Genetics and Development
publication_identifier:
eissn:
- 1879-0380
issn:
- 0959-437X
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Concepts, mechanisms and implications of long-term epigenetic inheritance
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 81
year: '2023'
...
---
_id: '14058'
abstract:
- lang: eng
text: "Females and males across species are subject to divergent selective pressures
arising\r\nfrom di↵erent reproductive interests and ecological niches. This often
translates into a\r\nintricate array of sex-specific natural and sexual selection
on traits that have a shared\r\ngenetic basis between both sexes, causing a genetic
sexual conflict. The resolution of\r\nthis conflict mostly relies on the evolution
of sex-specific expression of the shared genes,\r\nleading to phenotypic sexual
dimorphism. Such sex-specific gene expression is thought\r\nto evolve via modifications
of the genetic networks ultimately linked to sex-determining\r\ntranscription
factors. Although much empirical and theoretical evidence supports this\r\nstandard
picture of the molecular basis of sexual conflict resolution, there still are
a\r\nfew open questions regarding the complex array of selective forces driving
phenotypic\r\ndi↵erentiation between the sexes, as well as the molecular mechanisms
underlying sexspecific adaptation. I address some of these open questions in my
PhD thesis.\r\nFirst, how do patterns of phenotypic sexual dimorphism vary within
populations,\r\nas a response to the temporal and spatial changes in sex-specific
selective forces? To\r\ntackle this question, I analyze the patterns of sex-specific
phenotypic variation along\r\nthree life stages and across populations spanning
the whole geographical range of Rumex\r\nhastatulus, a wind-pollinated angiosperm,
in the first Chapter of the thesis.\r\nSecond, how do gene expression patterns
lead to phenotypic dimorphism, and what\r\nare the molecular mechanisms underlying
the observed transcriptomic variation? I\r\naddress this question by examining
the sex- and tissue-specific expression variation in\r\nnewly-generated datasets
of sex-specific expression in heads and gonads of Drosophila\r\nmelanogaster.
I additionally used two complementary approaches for the study of the\r\ngenetic
basis of sex di↵erences in gene expression in the second and third Chapters of\r\nthe
thesis.\r\nThird, how does intersex correlation, thought to be one of the main
aspects constraining the ability for the two sexes to decouple, interact with
the evolution of sexual\r\ndimorphism? I develop models of sex-specific stabilizing
selection, mutation and drift\r\nto formalize common intuition regarding the patterns
of covariation between intersex\r\ncorrelation and sexual dimorphism in the fourth
Chapter of the thesis.\r\nAlltogether, the work described in this PhD thesis provides
useful insights into the\r\nlinks between genetic, transcriptomic and phenotypic
layers of sex-specific variation,\r\nand contributes to our general understanding
of the dynamics of sexual dimorphism\r\nevolution."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Gemma
full_name: Puixeu Sala, Gemma
id: 33AB266C-F248-11E8-B48F-1D18A9856A87
last_name: Puixeu Sala
orcid: 0000-0001-8330-1754
citation:
ama: 'Puixeu Sala G. The molecular basis of sexual dimorphism: Experimental and
theoretical characterization of phenotypic, transcriptomic and genetic patterns
of sex-specific adaptation. 2023. doi:10.15479/at:ista:14058'
apa: 'Puixeu Sala, G. (2023). The molecular basis of sexual dimorphism: Experimental
and theoretical characterization of phenotypic, transcriptomic and genetic patterns
of sex-specific adaptation. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:14058'
chicago: 'Puixeu Sala, Gemma. “The Molecular Basis of Sexual Dimorphism: Experimental
and Theoretical Characterization of Phenotypic, Transcriptomic and Genetic Patterns
of Sex-Specific Adaptation.” Institute of Science and Technology Austria, 2023.
https://doi.org/10.15479/at:ista:14058.'
ieee: 'G. Puixeu Sala, “The molecular basis of sexual dimorphism: Experimental and
theoretical characterization of phenotypic, transcriptomic and genetic patterns
of sex-specific adaptation,” Institute of Science and Technology Austria, 2023.'
ista: 'Puixeu Sala G. 2023. The molecular basis of sexual dimorphism: Experimental
and theoretical characterization of phenotypic, transcriptomic and genetic patterns
of sex-specific adaptation. Institute of Science and Technology Austria.'
mla: 'Puixeu Sala, Gemma. The Molecular Basis of Sexual Dimorphism: Experimental
and Theoretical Characterization of Phenotypic, Transcriptomic and Genetic Patterns
of Sex-Specific Adaptation. Institute of Science and Technology Austria, 2023,
doi:10.15479/at:ista:14058.'
short: 'G. Puixeu Sala, The Molecular Basis of Sexual Dimorphism: Experimental and
Theoretical Characterization of Phenotypic, Transcriptomic and Genetic Patterns
of Sex-Specific Adaptation, Institute of Science and Technology Austria, 2023.'
date_created: 2023-08-15T10:20:40Z
date_published: 2023-08-15T00:00:00Z
date_updated: 2023-12-13T12:15:36Z
day: '15'
ddc:
- '576'
degree_awarded: PhD
department:
- _id: GradSch
- _id: NiBa
- _id: BeVi
doi: 10.15479/at:ista:14058
ec_funded: 1
file:
- access_level: closed
checksum: 4e44e169f2724ee8c9324cd60bcc2b71
content_type: application/zip
creator: gpuixeus
date_created: 2023-08-16T18:15:17Z
date_updated: 2023-08-17T06:55:24Z
file_id: '14075'
file_name: Thesis_latex_forpdfa.zip
file_size: 10891454
relation: source_file
- access_level: open_access
checksum: e10b04cd8f3fecc0d9ef6e6868b6e1e8
content_type: application/pdf
creator: gpuixeus
date_created: 2023-08-18T10:47:55Z
date_updated: 2023-08-18T10:47:55Z
file_id: '14079'
file_name: PhDThesis_PuixeuG.pdf
file_size: 19856686
relation: main_file
success: 1
file_date_updated: 2023-08-18T10:47:55Z
has_accepted_license: '1'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: '230'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: 9B9DFC9E-BA93-11EA-9121-9846C619BF3A
grant_number: '25817'
name: 'Sexual conflict: resolution, constraints and biomedical implications'
publication_identifier:
isbn:
- 978-3-99078-035-0
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '9803'
relation: research_data
status: public
- id: '12933'
relation: research_data
status: public
- id: '6831'
relation: part_of_dissertation
status: public
- id: '14077'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
title: 'The molecular basis of sexual dimorphism: Experimental and theoretical characterization
of phenotypic, transcriptomic and genetic patterns of sex-specific adaptation'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2023'
...
---
_id: '14077'
abstract:
- lang: eng
text: "The regulatory architecture of gene expression is known to differ substantially
between sexes in Drosophila, but most studies performed\r\nso far used whole-body
data and only single crosses, which may have limited their scope to detect patterns
that are robust across tissues\r\nand biological replicates. Here, we use allele-specific
gene expression of parental and reciprocal hybrid crosses between 6 Drosophila\r\nmelanogaster
inbred lines to quantify cis- and trans-regulatory variation in heads and gonads
of both sexes separately across 3 replicate\r\ncrosses. Our results suggest that
female and male heads, as well as ovaries, have a similar regulatory architecture.
On the other hand,\r\ntestes display more and substantially different cis-regulatory
effects, suggesting that sex differences in the regulatory architecture that\r\nhave
been previously observed may largely derive from testis-specific effects. We also
examine the difference in cis-regulatory variation\r\nof genes across different
levels of sex bias in gonads and heads. Consistent with the idea that intersex
correlations constrain expression\r\nand can lead to sexual antagonism, we find
more cis variation in unbiased and moderately biased genes in heads. In ovaries,
reduced cis\r\nvariation is observed for male-biased genes, suggesting that cis
variants acting on these genes in males do not lead to changes in ovary\r\nexpression.
Finally, we examine the dominance patterns of gene expression and find that sex-
and tissue-specific patterns of inheritance\r\nas well as trans-regulatory variation
are highly variable across biological crosses, although these were performed in
highly controlled\r\nexperimental conditions. This highlights the importance of
using various genetic backgrounds to infer generalizable patterns."
acknowledged_ssus:
- _id: ScienComp
acknowledgement: We thank members of the Vicoso Group for comments on the manuscript,
the Scientific Computing Unit at ISTA for technical support, and 2 anonymous reviewers
for useful feedback. GP is the recipient of a DOC Fellowship of the Austrian Academy
of Sciences at the Institute of Science and Technology Austria (DOC 25817) and received
funding from the European Union’s Horizon 2020 research and innovation program under
the Marie Skłodowska-Curie Grant (agreement no. 665385).
article_processing_charge: Yes
article_type: original
author:
- first_name: Gemma
full_name: Puixeu Sala, Gemma
id: 33AB266C-F248-11E8-B48F-1D18A9856A87
last_name: Puixeu Sala
orcid: 0000-0001-8330-1754
- first_name: Ariana
full_name: Macon, Ariana
id: 2A0848E2-F248-11E8-B48F-1D18A9856A87
last_name: Macon
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: 'Puixeu Sala G, Macon A, Vicoso B. Sex-specific estimation of cis and trans
regulation of gene expression in heads and gonads of Drosophila melanogaster.
G3: Genes, Genomes, Genetics. 2023;13(8). doi:10.1093/g3journal/jkad121'
apa: 'Puixeu Sala, G., Macon, A., & Vicoso, B. (2023). Sex-specific estimation
of cis and trans regulation of gene expression in heads and gonads of Drosophila
melanogaster. G3: Genes, Genomes, Genetics. Oxford University Press. https://doi.org/10.1093/g3journal/jkad121'
chicago: 'Puixeu Sala, Gemma, Ariana Macon, and Beatriz Vicoso. “Sex-Specific Estimation
of Cis and Trans Regulation of Gene Expression in Heads and Gonads of Drosophila
Melanogaster.” G3: Genes, Genomes, Genetics. Oxford University Press, 2023.
https://doi.org/10.1093/g3journal/jkad121.'
ieee: 'G. Puixeu Sala, A. Macon, and B. Vicoso, “Sex-specific estimation of cis
and trans regulation of gene expression in heads and gonads of Drosophila melanogaster,”
G3: Genes, Genomes, Genetics, vol. 13, no. 8. Oxford University Press,
2023.'
ista: 'Puixeu Sala G, Macon A, Vicoso B. 2023. Sex-specific estimation of cis and
trans regulation of gene expression in heads and gonads of Drosophila melanogaster.
G3: Genes, Genomes, Genetics. 13(8).'
mla: 'Puixeu Sala, Gemma, et al. “Sex-Specific Estimation of Cis and Trans Regulation
of Gene Expression in Heads and Gonads of Drosophila Melanogaster.” G3: Genes,
Genomes, Genetics, vol. 13, no. 8, Oxford University Press, 2023, doi:10.1093/g3journal/jkad121.'
short: 'G. Puixeu Sala, A. Macon, B. Vicoso, G3: Genes, Genomes, Genetics 13 (2023).'
date_created: 2023-08-18T06:52:14Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2023-12-13T12:15:37Z
day: '01'
ddc:
- '570'
department:
- _id: BeVi
- _id: NiBa
- _id: GradSch
doi: 10.1093/g3journal/jkad121
ec_funded: 1
external_id:
isi:
- '001002997200001'
file:
- access_level: open_access
checksum: c62e29fc7c5efbf8356f4c60cab4a2d1
content_type: application/pdf
creator: dernst
date_created: 2023-11-07T09:00:19Z
date_updated: 2023-11-07T09:00:19Z
file_id: '14498'
file_name: 2023_G3_Puixeu.pdf
file_size: 845642
relation: main_file
success: 1
file_date_updated: 2023-11-07T09:00:19Z
has_accepted_license: '1'
intvolume: ' 13'
isi: 1
issue: '8'
keyword:
- Genetics (clinical)
- Genetics
- Molecular Biology
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: 9B9DFC9E-BA93-11EA-9121-9846C619BF3A
grant_number: '25817'
name: 'Sexual conflict: resolution, constraints and biomedical implications'
publication: 'G3: Genes, Genomes, Genetics'
publication_identifier:
issn:
- 2160-1836
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
related_material:
record:
- id: '12933'
relation: research_data
status: public
- id: '14058'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Sex-specific estimation of cis and trans regulation of gene expression in heads
and gonads of Drosophila melanogaster
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2023'
...
---
_id: '14082'
abstract:
- lang: eng
text: Epithelial barrier function is commonly analyzed using transepithelial electrical
resistance, which measures ion flux across a monolayer, or by adding traceable
macromolecules and monitoring their passage across the monolayer. Although these
methods measure changes in global barrier function, they lack the sensitivity
needed to detect local or transient barrier breaches, and they do not reveal the
location of barrier leaks. Therefore, we previously developed a method that we
named the zinc-based ultrasensitive microscopic barrier assay (ZnUMBA), which
overcomes these limitations, allowing for detection of local tight junction leaks
with high spatiotemporal resolution. Here, we present expanded applications for
ZnUMBA. ZnUMBA can be used in Xenopus embryos to measure the dynamics of barrier
restoration and actin accumulation following laser injury. ZnUMBA can also be
effectively utilized in developing zebrafish embryos as well as cultured monolayers
of Madin–Darby canine kidney (MDCK) II epithelial cells. ZnUMBA is a powerful
and flexible method that, with minimal optimization, can be applied to multiple
systems to measure dynamic changes in barrier function with spatiotemporal precision.
acknowledged_ssus:
- _id: PreCl
- _id: Bio
acknowledgement: "The authors thank their respective lab members for feedback and
helpful discussions. We thank the bioimaging and zebrafish facilities of IST Austria
for their support.\r\nThis work was supported by the National Institutes of Health
[R01GM112794 to A.L.M.], by Grants-in-Aid for Scientific Research from the Japan
Society for the Promotion of Science [21K06156 to T.H.], by the Grant Program for
Biomedical Engineering Research from the Nakatani Foundation for Advancement of
Measuring Technologies in Biomedical Engineering [to T.H.] and by funding from the
European Research Council [advanced grant 742573 to C.-P.H.]. "
article_number: jcs260668
article_processing_charge: No
article_type: original
author:
- first_name: Tomohito
full_name: Higashi, Tomohito
last_name: Higashi
- first_name: Rachel E.
full_name: Stephenson, Rachel E.
last_name: Stephenson
- first_name: Cornelia
full_name: Schwayer, Cornelia
id: 3436488C-F248-11E8-B48F-1D18A9856A87
last_name: Schwayer
orcid: 0000-0001-5130-2226
- first_name: Karla
full_name: Huljev, Karla
id: 44C6F6A6-F248-11E8-B48F-1D18A9856A87
last_name: Huljev
- first_name: Atsuko Y.
full_name: Higashi, Atsuko Y.
last_name: Higashi
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
- first_name: Hideki
full_name: Chiba, Hideki
last_name: Chiba
- first_name: Ann L.
full_name: Miller, Ann L.
last_name: Miller
citation:
ama: Higashi T, Stephenson RE, Schwayer C, et al. ZnUMBA - a live imaging method
to detect local barrier breaches. Journal of Cell Science. 2023;136(15).
doi:10.1242/jcs.260668
apa: Higashi, T., Stephenson, R. E., Schwayer, C., Huljev, K., Higashi, A. Y., Heisenberg,
C.-P. J., … Miller, A. L. (2023). ZnUMBA - a live imaging method to detect local
barrier breaches. Journal of Cell Science. The Company of Biologists. https://doi.org/10.1242/jcs.260668
chicago: Higashi, Tomohito, Rachel E. Stephenson, Cornelia Schwayer, Karla Huljev,
Atsuko Y. Higashi, Carl-Philipp J Heisenberg, Hideki Chiba, and Ann L. Miller.
“ZnUMBA - a Live Imaging Method to Detect Local Barrier Breaches.” Journal
of Cell Science. The Company of Biologists, 2023. https://doi.org/10.1242/jcs.260668.
ieee: T. Higashi et al., “ZnUMBA - a live imaging method to detect local
barrier breaches,” Journal of Cell Science, vol. 136, no. 15. The Company
of Biologists, 2023.
ista: Higashi T, Stephenson RE, Schwayer C, Huljev K, Higashi AY, Heisenberg C-PJ,
Chiba H, Miller AL. 2023. ZnUMBA - a live imaging method to detect local barrier
breaches. Journal of Cell Science. 136(15), jcs260668.
mla: Higashi, Tomohito, et al. “ZnUMBA - a Live Imaging Method to Detect Local Barrier
Breaches.” Journal of Cell Science, vol. 136, no. 15, jcs260668, The Company
of Biologists, 2023, doi:10.1242/jcs.260668.
short: T. Higashi, R.E. Stephenson, C. Schwayer, K. Huljev, A.Y. Higashi, C.-P.J.
Heisenberg, H. Chiba, A.L. Miller, Journal of Cell Science 136 (2023).
date_created: 2023-08-20T22:01:13Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2023-12-13T12:11:18Z
day: '01'
ddc:
- '570'
department:
- _id: CaHe
- _id: EvBe
doi: 10.1242/jcs.260668
ec_funded: 1
external_id:
isi:
- '001070149000001'
file:
- access_level: closed
checksum: a399389b7e3d072f1788b63e612a10b3
content_type: application/pdf
creator: dernst
date_created: 2023-08-21T07:37:54Z
date_updated: 2023-08-21T07:37:54Z
embargo: 2024-08-10
embargo_to: open_access
file_id: '14092'
file_name: 2023_JourCellScience_Higashi.pdf
file_size: 18665315
relation: main_file
file_date_updated: 2023-08-21T07:37:54Z
has_accepted_license: '1'
intvolume: ' 136'
isi: 1
issue: '15'
language:
- iso: eng
month: '08'
oa_version: None
project:
- _id: 260F1432-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742573'
name: Interaction and feedback between cell mechanics and fate specification in
vertebrate gastrulation
publication: Journal of Cell Science
publication_identifier:
eissn:
- 1477-9137
issn:
- 0021-9533
publication_status: published
publisher: The Company of Biologists
quality_controlled: '1'
scopus_import: '1'
status: public
title: ZnUMBA - a live imaging method to detect local barrier breaches
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 136
year: '2023'
...
---
_id: '13988'
abstract:
- lang: eng
text: Most permissionless blockchains inherently suffer from throughput limitations.
Layer-2 systems, such as side-chains or Rollups, have been proposed as a possible
strategy to overcome this limitation. Layer-2 systems interact with the main-chain
in two ways. First, users can move funds from/to the main-chain to/from the layer-2.
Second, layer-2 systems periodically synchronize with the main-chain to keep some
form of log of their activity on the main-chain - this log is key for security.
Due to this interaction with the main-chain, which is necessary and recurrent,
layer-2 systems impose some load on the main-chain. The impact of such load on
the main-chain has been, so far, poorly understood. In addition to that, layer-2
approaches typically sacrifice decentralization and security in favor of higher
throughput. This paper presents an experimental study that analyzes the current
state of Ethereum layer-2 projects. Our goal is to assess the load they impose
on Ethereum and to understand their scalability potential in the long-run. Our
analysis shows that the impact of any given layer-2 on the main-chain is the result
of both technical aspects (how state is logged on the main-chain) and user behavior
(how often users decide to transfer funds between the layer-2 and the main-chain).
Based on our observations, we infer that without efficient mechanisms that allow
users to transfer funds in a secure and fast manner directly from one layer-2
project to another, current layer-2 systems will not be able to scale Ethereum
effectively, regardless of their technical solutions. Furthermore, from our results,
we conclude that the layer-2 systems that offer similar security guarantees as
Ethereum have limited scalability potential, while approaches that offer better
performance, sacrifice security and lead to an increase in centralization which
runs against the end-goals of permissionless blockchains.
acknowledgement: This work was supported in part by the Coordenação de Aperfeiçoamento
de Pessoal de Nivel Superior (CAPES)—Brazil (CAPES), in part by the Fundação para
a Ciência e Tecnologia (FCT) under Project UIDB/50021/2020 and Grant 2020.05270.BD,
in part by the Project COSMOS (via the Orçamento de Estado (OE) with ref. PTDC/EEI-COM/29271/2017
and via the ‘‘Programa Operacional Regional de Lisboa na sua componente Fundo Europeu
de Desenvolvimento Regional (FEDER)’’ with ref. Lisboa-01-0145-FEDER-029271), and
in part by the project Angainor with reference LISBOA-01-0145-FEDER-031456 as well
as supported by Meta Platforms for the project key Transparency at Scale.
article_processing_charge: Yes
article_type: original
author:
- first_name: Ray
full_name: Neiheiser, Ray
id: f09651b9-fec0-11ec-b5d8-934aff0e52a4
last_name: Neiheiser
orcid: 0000-0001-7227-8309
- first_name: Gustavo
full_name: Inacio, Gustavo
last_name: Inacio
- first_name: Luciana
full_name: Rech, Luciana
last_name: Rech
- first_name: Carlos
full_name: Montez, Carlos
last_name: Montez
- first_name: Miguel
full_name: Matos, Miguel
last_name: Matos
- first_name: Luis
full_name: Rodrigues, Luis
last_name: Rodrigues
citation:
ama: Neiheiser R, Inacio G, Rech L, Montez C, Matos M, Rodrigues L. Practical limitations
of Ethereum’s layer-2. IEEE Access. 2023;11:8651-8662. doi:10.1109/access.2023.3237897
apa: Neiheiser, R., Inacio, G., Rech, L., Montez, C., Matos, M., & Rodrigues,
L. (2023). Practical limitations of Ethereum’s layer-2. IEEE Access. Institute
of Electrical and Electronics Engineers. https://doi.org/10.1109/access.2023.3237897
chicago: Neiheiser, Ray, Gustavo Inacio, Luciana Rech, Carlos Montez, Miguel Matos,
and Luis Rodrigues. “Practical Limitations of Ethereum’s Layer-2.” IEEE Access.
Institute of Electrical and Electronics Engineers, 2023. https://doi.org/10.1109/access.2023.3237897.
ieee: R. Neiheiser, G. Inacio, L. Rech, C. Montez, M. Matos, and L. Rodrigues, “Practical
limitations of Ethereum’s layer-2,” IEEE Access, vol. 11. Institute of
Electrical and Electronics Engineers, pp. 8651–8662, 2023.
ista: Neiheiser R, Inacio G, Rech L, Montez C, Matos M, Rodrigues L. 2023. Practical
limitations of Ethereum’s layer-2. IEEE Access. 11, 8651–8662.
mla: Neiheiser, Ray, et al. “Practical Limitations of Ethereum’s Layer-2.” IEEE
Access, vol. 11, Institute of Electrical and Electronics Engineers, 2023,
pp. 8651–62, doi:10.1109/access.2023.3237897.
short: R. Neiheiser, G. Inacio, L. Rech, C. Montez, M. Matos, L. Rodrigues, IEEE
Access 11 (2023) 8651–8662.
date_created: 2023-08-09T12:09:57Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2023-12-13T12:14:52Z
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ddc:
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department:
- _id: ElKo
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- General Engineering
- General Materials Science
- General Computer Science
- Electrical and Electronic Engineering
language:
- iso: eng
month: '08'
oa: 1
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publication: IEEE Access
publication_identifier:
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publication_status: published
publisher: Institute of Electrical and Electronics Engineers
quality_controlled: '1'
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status: public
title: Practical limitations of Ethereum’s layer-2
tmp:
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name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
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user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
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year: '2023'
...
---
_id: '12933'
abstract:
- lang: eng
text: Datasets of the publication "Sex-specific estimation of cis and trans regulation
of gene expression in heads and gonads of Drosophila melanogaster".
article_processing_charge: No
author:
- first_name: Gemma
full_name: Puixeu Sala, Gemma
id: 33AB266C-F248-11E8-B48F-1D18A9856A87
last_name: Puixeu Sala
orcid: 0000-0001-8330-1754
citation:
ama: 'Puixeu Sala G. Data from: Sex-specific estimation of cis and trans regulation
of gene expression in heads and gonads of Drosophila melanogaster. 2023. doi:10.15479/AT:ISTA:12933'
apa: 'Puixeu Sala, G. (2023). Data from: Sex-specific estimation of cis and trans
regulation of gene expression in heads and gonads of Drosophila melanogaster.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:12933'
chicago: 'Puixeu Sala, Gemma. “Data from: Sex-Specific Estimation of Cis and Trans
Regulation of Gene Expression in Heads and Gonads of Drosophila Melanogaster.”
Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:12933.'
ieee: 'G. Puixeu Sala, “Data from: Sex-specific estimation of cis and trans regulation
of gene expression in heads and gonads of Drosophila melanogaster.” Institute
of Science and Technology Austria, 2023.'
ista: 'Puixeu Sala G. 2023. Data from: Sex-specific estimation of cis and trans
regulation of gene expression in heads and gonads of Drosophila melanogaster,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:12933.'
mla: 'Puixeu Sala, Gemma. Data from: Sex-Specific Estimation of Cis and Trans
Regulation of Gene Expression in Heads and Gonads of Drosophila Melanogaster.
Institute of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:12933.'
short: G. Puixeu Sala, (2023).
contributor:
- first_name: Ariana
id: 2A0848E2-F248-11E8-B48F-1D18A9856A87
last_name: Macon
- first_name: Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
date_created: 2023-05-10T10:00:49Z
date_published: 2023-05-15T00:00:00Z
date_updated: 2023-12-13T12:15:36Z
day: '15'
ddc:
- '570'
department:
- _id: GradSch
- _id: NiBa
- _id: BeVi
doi: 10.15479/AT:ISTA:12933
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file_id: '12944'
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publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '14058'
relation: used_in_publication
status: public
- id: '14077'
relation: used_in_publication
status: public
status: public
title: 'Data from: Sex-specific estimation of cis and trans regulation of gene expression
in heads and gonads of Drosophila melanogaster'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14245'
abstract:
- lang: eng
text: We establish effective counting results for lattice points in families of
domains in real, complex and quaternionic hyperbolic spaces of any dimension.
The domains we focus on are defined as product sets with respect to an Iwasawa
decomposition. Several natural diophantine problems can be reduced to counting
lattice points in such domains. These include equidistribution of the ratio of
the length of the shortest solution (x,y) to the gcd equation bx−ay=1 relative
to the length of (a,b), where (a,b) ranges over primitive vectors in a disc whose
radius increases, the natural analog of this problem in imaginary quadratic number
fields, as well as equidistribution of integral solutions to the diophantine equation
defined by an integral Lorentz form in three or more variables. We establish an
effective rate of convergence for these equidistribution problems, depending on
the size of the spectral gap associated with a suitable lattice subgroup in the
isometry group of the relevant hyperbolic space. The main result underlying our
discussion amounts to establishing effective joint equidistribution for the horospherical
component and the radial component in the Iwasawa decomposition of lattice elements.
acknowledgement: The authors thank the referee for important comments which led to
significant improvements is the presentation of several results in the paper. They
also thank Ami Paz for preparing the figures for this paper. Horesh thanks Ami Paz
and Yakov Karasik for helpful discussions. Nevo thanks John Parker and Rene Rühr
for providing some very useful references. Nevo is supported by ISF Grant No. 2095/15.
article_processing_charge: Yes
article_type: original
author:
- first_name: Tal
full_name: Horesh, Tal
id: C8B7BF48-8D81-11E9-BCA9-F536E6697425
last_name: Horesh
- first_name: Amos
full_name: Nevo, Amos
last_name: Nevo
citation:
ama: 'Horesh T, Nevo A. Horospherical coordinates of lattice points in hyperbolic
spaces: Effective counting and equidistribution. Pacific Journal of Mathematics.
2023;324(2):265-294. doi:10.2140/pjm.2023.324.265'
apa: 'Horesh, T., & Nevo, A. (2023). Horospherical coordinates of lattice points
in hyperbolic spaces: Effective counting and equidistribution. Pacific Journal
of Mathematics. Mathematical Sciences Publishers. https://doi.org/10.2140/pjm.2023.324.265'
chicago: 'Horesh, Tal, and Amos Nevo. “Horospherical Coordinates of Lattice Points
in Hyperbolic Spaces: Effective Counting and Equidistribution.” Pacific Journal
of Mathematics. Mathematical Sciences Publishers, 2023. https://doi.org/10.2140/pjm.2023.324.265.'
ieee: 'T. Horesh and A. Nevo, “Horospherical coordinates of lattice points in hyperbolic
spaces: Effective counting and equidistribution,” Pacific Journal of Mathematics,
vol. 324, no. 2. Mathematical Sciences Publishers, pp. 265–294, 2023.'
ista: 'Horesh T, Nevo A. 2023. Horospherical coordinates of lattice points in hyperbolic
spaces: Effective counting and equidistribution. Pacific Journal of Mathematics.
324(2), 265–294.'
mla: 'Horesh, Tal, and Amos Nevo. “Horospherical Coordinates of Lattice Points in
Hyperbolic Spaces: Effective Counting and Equidistribution.” Pacific Journal
of Mathematics, vol. 324, no. 2, Mathematical Sciences Publishers, 2023, pp.
265–94, doi:10.2140/pjm.2023.324.265.'
short: T. Horesh, A. Nevo, Pacific Journal of Mathematics 324 (2023) 265–294.
date_created: 2023-08-27T22:01:18Z
date_published: 2023-07-26T00:00:00Z
date_updated: 2023-12-13T12:19:42Z
day: '26'
ddc:
- '510'
department:
- _id: TiBr
doi: 10.2140/pjm.2023.324.265
external_id:
arxiv:
- '1612.08215'
isi:
- '001047690500001'
file:
- access_level: open_access
checksum: a675b53cfb31fa46be1e879b7e77fe8c
content_type: application/pdf
creator: dernst
date_created: 2023-09-05T07:26:17Z
date_updated: 2023-09-05T07:26:17Z
file_id: '14267'
file_name: 2023_PacificJourMaths_Horesh.pdf
file_size: 654895
relation: main_file
success: 1
file_date_updated: 2023-09-05T07:26:17Z
has_accepted_license: '1'
intvolume: ' 324'
isi: 1
issue: '2'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 265-294
publication: Pacific Journal of Mathematics
publication_identifier:
eissn:
- 1945-5844
issn:
- 0030-8730
publication_status: published
publisher: Mathematical Sciences Publishers
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Horospherical coordinates of lattice points in hyperbolic spaces: Effective
counting and equidistribution'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 324
year: '2023'
...
---
_id: '14246'
abstract:
- lang: eng
text: The model of a ring threaded by the Aharonov-Bohm flux underlies our understanding
of a coupling between gauge potentials and matter. The typical formulation of
the model is based upon a single particle picture, and should be extended when
interactions with other particles become relevant. Here, we illustrate such an
extension for a particle in an Aharonov-Bohm ring subject to interactions with
a weakly interacting Bose gas. We show that the ground state of the system can
be described using the Bose-polaron concept—a particle dressed by interactions
with a bosonic environment. We connect the energy spectrum to the effective mass
of the polaron, and demonstrate how to change currents in the system by tuning
boson-particle interactions. Our results suggest the Aharonov-Bohm ring as a platform
for studying coherence and few- to many-body crossover of quasi-particles that
arise from an impurity immersed in a medium.
acknowledgement: "Open Access funding enabled and organized by Projekt DEAL.\r\nWe
would like to thank Jonas Jager for sharing his data with us in the early stages
of this project. We thank Joachim Brand and Ray Yang for sharing with us data from
Yang et al.46. This work has received funding from the DFG Project no. 413495248
[VO 2437/1-1] (F.B., H.-W.H., A.G.V.). We acknowledge support from the Deutsche
Forschungsgemeinschaft (DFG - German Research Foundation) and the Open Access Publishing
Fund of the Technical University of Darmstadt."
article_number: '224'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Fabian
full_name: Brauneis, Fabian
last_name: Brauneis
- first_name: Areg
full_name: Ghazaryan, Areg
id: 4AF46FD6-F248-11E8-B48F-1D18A9856A87
last_name: Ghazaryan
orcid: 0000-0001-9666-3543
- first_name: Hans-Werner
full_name: Hammer, Hans-Werner
last_name: Hammer
- first_name: Artem
full_name: Volosniev, Artem
id: 37D278BC-F248-11E8-B48F-1D18A9856A87
last_name: Volosniev
orcid: 0000-0003-0393-5525
citation:
ama: Brauneis F, Ghazaryan A, Hammer H-W, Volosniev A. Emergence of a Bose polaron
in a small ring threaded by the Aharonov-Bohm flux. Communications Physics.
2023;6. doi:10.1038/s42005-023-01281-2
apa: Brauneis, F., Ghazaryan, A., Hammer, H.-W., & Volosniev, A. (2023). Emergence
of a Bose polaron in a small ring threaded by the Aharonov-Bohm flux. Communications
Physics. Springer Nature. https://doi.org/10.1038/s42005-023-01281-2
chicago: Brauneis, Fabian, Areg Ghazaryan, Hans-Werner Hammer, and Artem Volosniev.
“Emergence of a Bose Polaron in a Small Ring Threaded by the Aharonov-Bohm Flux.”
Communications Physics. Springer Nature, 2023. https://doi.org/10.1038/s42005-023-01281-2.
ieee: F. Brauneis, A. Ghazaryan, H.-W. Hammer, and A. Volosniev, “Emergence of a
Bose polaron in a small ring threaded by the Aharonov-Bohm flux,” Communications
Physics, vol. 6. Springer Nature, 2023.
ista: Brauneis F, Ghazaryan A, Hammer H-W, Volosniev A. 2023. Emergence of a Bose
polaron in a small ring threaded by the Aharonov-Bohm flux. Communications Physics.
6, 224.
mla: Brauneis, Fabian, et al. “Emergence of a Bose Polaron in a Small Ring Threaded
by the Aharonov-Bohm Flux.” Communications Physics, vol. 6, 224, Springer
Nature, 2023, doi:10.1038/s42005-023-01281-2.
short: F. Brauneis, A. Ghazaryan, H.-W. Hammer, A. Volosniev, Communications Physics
6 (2023).
date_created: 2023-08-28T12:36:49Z
date_published: 2023-08-22T00:00:00Z
date_updated: 2023-12-13T12:21:09Z
day: '22'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.1038/s42005-023-01281-2
external_id:
arxiv:
- '2301.10488'
isi:
- '001052577500002'
file:
- access_level: open_access
checksum: 6edfc59b0ee7dc406d0968b05236e83d
content_type: application/pdf
creator: dernst
date_created: 2023-09-05T08:45:49Z
date_updated: 2023-09-05T08:45:49Z
file_id: '14268'
file_name: 2023_CommPhysics_Brauneis.pdf
file_size: 855960
relation: main_file
success: 1
file_date_updated: 2023-09-05T08:45:49Z
has_accepted_license: '1'
intvolume: ' 6'
isi: 1
keyword:
- General Physics and Astronomy
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
publication: Communications Physics
publication_identifier:
issn:
- 2399-3650
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Emergence of a Bose polaron in a small ring threaded by the Aharonov-Bohm flux
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2023'
...
---
_id: '14239'
abstract:
- lang: eng
text: "Given a resolution of rational singularities π:X~→X over a field of characteristic
zero, we use a Hodge-theoretic argument to prove that the image of the functor
\ Rπ∗:Db(X~)→Db(X)\r\n between bounded derived categories of coherent sheaves
generates Db(X)\r\n as a triangulated category. This gives a weak version of
the Bondal–Orlov localization conjecture [BO02], answering a question from [PS21].
The same result is established more generally for proper (not necessarily birational)
morphisms π:X~→X , with X~\r\n smooth, satisfying Rπ∗(OX~)=OX ."
acknowledgement: "We thank Agnieszka Bodzenta-Skibińska, Paolo Cascini, Wahei Hara,
Sándor Kovács, Alexander Kuznetsov, Mircea Musta ă, Nebojsa Pavic, Pavel Sechin,
and Michael Wemyss for discussions and e-mail correspondence. We also thank the
anonymous referee for the helpful comments. M.M. was supported by the Institute
of Science and Technology Austria. This project has received funding from the European
Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie
grant agreement no. 101034413. E.S. was partially supported by the EPSRC grant EP/T019379/1
“Derived categories and algebraic K-theory of singularities”, and by the ERC Synergy
grant “Modern Aspects of Geometry: Categories, Cycles and Cohomology of Hyperkähler
Varieties.”\r\n\r\n"
article_number: e66
article_processing_charge: Yes
article_type: original
author:
- first_name: Mirko
full_name: Mauri, Mirko
id: 2cf70c34-09c1-11ed-bd8d-c34fac206130
last_name: Mauri
- first_name: Evgeny
full_name: Shinder, Evgeny
last_name: Shinder
citation:
ama: Mauri M, Shinder E. Homological Bondal-Orlov localization conjecture for rational
singularities. Forum of Mathematics, Sigma. 2023;11. doi:10.1017/fms.2023.65
apa: Mauri, M., & Shinder, E. (2023). Homological Bondal-Orlov localization
conjecture for rational singularities. Forum of Mathematics, Sigma. Cambridge
University Press. https://doi.org/10.1017/fms.2023.65
chicago: Mauri, Mirko, and Evgeny Shinder. “Homological Bondal-Orlov Localization
Conjecture for Rational Singularities.” Forum of Mathematics, Sigma. Cambridge
University Press, 2023. https://doi.org/10.1017/fms.2023.65.
ieee: M. Mauri and E. Shinder, “Homological Bondal-Orlov localization conjecture
for rational singularities,” Forum of Mathematics, Sigma, vol. 11. Cambridge
University Press, 2023.
ista: Mauri M, Shinder E. 2023. Homological Bondal-Orlov localization conjecture
for rational singularities. Forum of Mathematics, Sigma. 11, e66.
mla: Mauri, Mirko, and Evgeny Shinder. “Homological Bondal-Orlov Localization Conjecture
for Rational Singularities.” Forum of Mathematics, Sigma, vol. 11, e66,
Cambridge University Press, 2023, doi:10.1017/fms.2023.65.
short: M. Mauri, E. Shinder, Forum of Mathematics, Sigma 11 (2023).
date_created: 2023-08-27T22:01:16Z
date_published: 2023-08-03T00:00:00Z
date_updated: 2023-12-13T12:18:18Z
day: '03'
ddc:
- '510'
department:
- _id: TaHa
doi: 10.1017/fms.2023.65
ec_funded: 1
external_id:
arxiv:
- '2212.06786'
isi:
- '001041926700001'
file:
- access_level: open_access
checksum: c36241750cc5cb06890aec0ecdfee626
content_type: application/pdf
creator: dernst
date_created: 2023-09-05T06:43:11Z
date_updated: 2023-09-05T06:43:11Z
file_id: '14266'
file_name: 2023_ForumMathematics_Mauri.pdf
file_size: 280865
relation: main_file
success: 1
file_date_updated: 2023-09-05T06:43:11Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Forum of Mathematics, Sigma
publication_identifier:
eissn:
- 2050-5094
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Homological Bondal-Orlov localization conjecture for rational singularities
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 11
year: '2023'
...
---
_id: '14192'
abstract:
- lang: eng
text: For the Fröhlich model of the large polaron, we prove that the ground state
energy as a function of the total momentum has a unique global minimum at momentum
zero. This implies the non-existence of a ground state of the translation invariant
Fröhlich Hamiltonian and thus excludes the possibility of a localization transition
at finite coupling.
acknowledgement: D.M. and K.M. thank Robert Seiringer for helpful discussions. Open
access funding provided by Institute of Science and Technology (IST Austria). Financial
support from the Agence Nationale de la Recherche (ANR) through the projects ANR-17-CE40-0016,
ANR-17-CE40-0007-01, ANR-17-EURE-0002 (J.L.) and from the European Union’s Horizon
2020 research and innovation programme under the Maria Skłodowska-Curie grant agreement
No. 665386 (K.M.) is gratefully acknowledged.
article_number: '17'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Jonas
full_name: Lampart, Jonas
last_name: Lampart
- first_name: David Johannes
full_name: Mitrouskas, David Johannes
id: cbddacee-2b11-11eb-a02e-a2e14d04e52d
last_name: Mitrouskas
- first_name: Krzysztof
full_name: Mysliwy, Krzysztof
id: 316457FC-F248-11E8-B48F-1D18A9856A87
last_name: Mysliwy
citation:
ama: Lampart J, Mitrouskas DJ, Mysliwy K. On the global minimum of the energy–momentum
relation for the polaron. Mathematical Physics, Analysis and Geometry.
2023;26(3). doi:10.1007/s11040-023-09460-x
apa: Lampart, J., Mitrouskas, D. J., & Mysliwy, K. (2023). On the global minimum
of the energy–momentum relation for the polaron. Mathematical Physics, Analysis
and Geometry. Springer Nature. https://doi.org/10.1007/s11040-023-09460-x
chicago: Lampart, Jonas, David Johannes Mitrouskas, and Krzysztof Mysliwy. “On the
Global Minimum of the Energy–Momentum Relation for the Polaron.” Mathematical
Physics, Analysis and Geometry. Springer Nature, 2023. https://doi.org/10.1007/s11040-023-09460-x.
ieee: J. Lampart, D. J. Mitrouskas, and K. Mysliwy, “On the global minimum of the
energy–momentum relation for the polaron,” Mathematical Physics, Analysis and
Geometry, vol. 26, no. 3. Springer Nature, 2023.
ista: Lampart J, Mitrouskas DJ, Mysliwy K. 2023. On the global minimum of the energy–momentum
relation for the polaron. Mathematical Physics, Analysis and Geometry. 26(3),
17.
mla: Lampart, Jonas, et al. “On the Global Minimum of the Energy–Momentum Relation
for the Polaron.” Mathematical Physics, Analysis and Geometry, vol. 26,
no. 3, 17, Springer Nature, 2023, doi:10.1007/s11040-023-09460-x.
short: J. Lampart, D.J. Mitrouskas, K. Mysliwy, Mathematical Physics, Analysis and
Geometry 26 (2023).
date_created: 2023-08-22T14:09:47Z
date_published: 2023-07-26T00:00:00Z
date_updated: 2023-12-13T12:16:19Z
day: '26'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1007/s11040-023-09460-x
external_id:
arxiv:
- '2206.14708'
isi:
- '001032992600001'
file:
- access_level: open_access
checksum: f0941cc66cb3ed06a12ca4b7e356cfd6
content_type: application/pdf
creator: dernst
date_created: 2023-08-23T10:59:15Z
date_updated: 2023-08-23T10:59:15Z
file_id: '14225'
file_name: 2023_MathPhysics_Lampart.pdf
file_size: 317026
relation: main_file
success: 1
file_date_updated: 2023-08-23T10:59:15Z
has_accepted_license: '1'
intvolume: ' 26'
isi: 1
issue: '3'
keyword:
- Geometry and Topology
- Mathematical Physics
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
publication: Mathematical Physics, Analysis and Geometry
publication_identifier:
eissn:
- 1572-9656
issn:
- 1385-0172
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the global minimum of the energy–momentum relation for the polaron
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 26
year: '2023'
...
---
_id: '14238'
abstract:
- lang: eng
text: We demonstrate that a sodium dimer, Na2(13Σ+u), residing on the surface of
a helium nanodroplet, can be set into rotation by a nonresonant 1.0 ps infrared
laser pulse. The time-dependent degree of alignment measured, exhibits a periodic,
gradually decreasing structure that deviates qualitatively from that expected
for gas-phase dimers. Comparison to alignment dynamics calculated from the time-dependent
rotational Schrödinger equation shows that the deviation is due to the alignment
dependent interaction between the dimer and the droplet surface. This interaction
confines the dimer to the tangential plane of the droplet surface at the point
where it resides and is the reason that the observed alignment dynamics is also
well described by a 2D quantum rotor model.
acknowledgement: H. S. acknowledges support from The Villum Foundation through a Villum
Investigator Grant No. 25886. M. L. acknowledges support by the European Research
Council (ERC) Starting Grant No. 801770 (ANGULON). F. J. and R. E. Z. acknowledge
support from the Centre for Scientific Computing, Aarhus and the JKU scientific
computing administration, Linz, respectively.
article_number: '053201'
article_processing_charge: No
article_type: original
author:
- first_name: Lorenz
full_name: Kranabetter, Lorenz
last_name: Kranabetter
- first_name: Henrik H.
full_name: Kristensen, Henrik H.
last_name: Kristensen
- first_name: Areg
full_name: Ghazaryan, Areg
id: 4AF46FD6-F248-11E8-B48F-1D18A9856A87
last_name: Ghazaryan
orcid: 0000-0001-9666-3543
- first_name: Constant A.
full_name: Schouder, Constant A.
last_name: Schouder
- first_name: Adam S.
full_name: Chatterley, Adam S.
last_name: Chatterley
- first_name: Paul
full_name: Janssen, Paul
last_name: Janssen
- first_name: Frank
full_name: Jensen, Frank
last_name: Jensen
- first_name: Robert E.
full_name: Zillich, Robert E.
last_name: Zillich
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
- first_name: Henrik
full_name: Stapelfeldt, Henrik
last_name: Stapelfeldt
citation:
ama: Kranabetter L, Kristensen HH, Ghazaryan A, et al. Nonadiabatic laser-induced
alignment dynamics of molecules on a surface. Physical Review Letters.
2023;131(5). doi:10.1103/PhysRevLett.131.053201
apa: Kranabetter, L., Kristensen, H. H., Ghazaryan, A., Schouder, C. A., Chatterley,
A. S., Janssen, P., … Stapelfeldt, H. (2023). Nonadiabatic laser-induced alignment
dynamics of molecules on a surface. Physical Review Letters. American Physical
Society. https://doi.org/10.1103/PhysRevLett.131.053201
chicago: Kranabetter, Lorenz, Henrik H. Kristensen, Areg Ghazaryan, Constant A.
Schouder, Adam S. Chatterley, Paul Janssen, Frank Jensen, Robert E. Zillich, Mikhail
Lemeshko, and Henrik Stapelfeldt. “Nonadiabatic Laser-Induced Alignment Dynamics
of Molecules on a Surface.” Physical Review Letters. American Physical
Society, 2023. https://doi.org/10.1103/PhysRevLett.131.053201.
ieee: L. Kranabetter et al., “Nonadiabatic laser-induced alignment dynamics
of molecules on a surface,” Physical Review Letters, vol. 131, no. 5. American
Physical Society, 2023.
ista: Kranabetter L, Kristensen HH, Ghazaryan A, Schouder CA, Chatterley AS, Janssen
P, Jensen F, Zillich RE, Lemeshko M, Stapelfeldt H. 2023. Nonadiabatic laser-induced
alignment dynamics of molecules on a surface. Physical Review Letters. 131(5),
053201.
mla: Kranabetter, Lorenz, et al. “Nonadiabatic Laser-Induced Alignment Dynamics
of Molecules on a Surface.” Physical Review Letters, vol. 131, no. 5, 053201,
American Physical Society, 2023, doi:10.1103/PhysRevLett.131.053201.
short: L. Kranabetter, H.H. Kristensen, A. Ghazaryan, C.A. Schouder, A.S. Chatterley,
P. Janssen, F. Jensen, R.E. Zillich, M. Lemeshko, H. Stapelfeldt, Physical Review
Letters 131 (2023).
date_created: 2023-08-27T22:01:16Z
date_published: 2023-08-04T00:00:00Z
date_updated: 2023-12-13T12:18:54Z
day: '04'
department:
- _id: MiLe
doi: 10.1103/PhysRevLett.131.053201
ec_funded: 1
external_id:
arxiv:
- '2308.15247'
isi:
- '001101784100001'
pmid:
- '37595218'
intvolume: ' 131'
isi: 1
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2308.15247
month: '08'
oa: 1
oa_version: Preprint
pmid: 1
project:
- _id: 2688CF98-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '801770'
name: 'Angulon: physics and applications of a new quasiparticle'
publication: Physical Review Letters
publication_identifier:
eissn:
- 1079-7114
issn:
- 0031-9007
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Nonadiabatic laser-induced alignment dynamics of molecules on a surface
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 131
year: '2023'
...
---
_id: '14255'
abstract:
- lang: eng
text: Toscana virus is a major cause of arboviral disease in humans in the Mediterranean
basin during summer. However, early virus-host cell interactions and entry mechanisms
remain poorly characterized. Investigating iPSC-derived human neurons and cell
lines, we found that virus binding to the cell surface was specific, and 50% of
bound virions were endocytosed within 10 min. Virions entered Rab5a+ early endosomes
and, subsequently, Rab7a+ and LAMP-1+ late endosomal compartments. Penetration
required intact late endosomes and occurred within 30 min following internalization.
Virus entry relied on vacuolar acidification, with an optimal pH for viral membrane
fusion at pH 5.5. The pH threshold increased to 5.8 with longer pre-exposure of
virions to the slightly acidic pH in early endosomes. Strikingly, the particles
remained infectious after entering late endosomes with a pH below the fusion threshold.
Overall, our study establishes Toscana virus as a late-penetrating virus and reveals
an atypical use of vacuolar acidity by this virus to enter host cells.
acknowledged_ssus:
- _id: EM-Fac
acknowledgement: "We acknowledge Elodie Chatre and the Imaging Platform Platim, SFR
Biosciences, Lyon, as well as Vibor Laketa and the Infectious Diseases Imaging Platform
(IDIP) at the Center for Integrative Infectious Disease Research (CIID) Heidelberg.
The sand fly cell lines were supplied by the Tick Cell Biobank at the University
of Liverpool. F.K.M.S. acknowledges support from the Scientific Service Units (SSUs)
of ISTA through resources provided by the Electron Microscopy Facility (EMF).\r\nThis
work was supported by CellNetworks Research Group funds and Deutsche Forschungsgemeinschaft
(DFG) funding (LO-2338/3-1) and the Agence Nationale de la Recherche (ANR) funding
(grant numbers ANR-21-CE11-0012 and ANR-22-CE15-0034), all awarded to P.-Y.L. This
work was also supported by the LABEX ECOFECT (ANR-11-LABX-0048) of Université de
Lyon (UDL), within the program “Investissements d’Avenir” (ANR-11-IDEX-0007) operated
by the ANR and by the RESPOND program of the UDL (awarded to P.-Y.L) . C.A. was
supported by the Chica and Heinz Schaller Research Group funds, NARSAD 2019 award,
a Fritz Thyssen Research Grant, and the SFB1158-S02 grant. L.B-S. is supported by
a United Kingdom Biotechnology and Biological Sciences Research Council grant (BB/P024270/1)
and a Wellcome Trust grant (223743/Z/21/Z). F.K.M.S acknowledges support from the
Austrian Science Fund (FWF, P31445). J.K. received a salary from the DFG (LO-2338/3-1)
and then from the ANR (ANR-11-LABX-0048). The salary of Z.M.U. was partially covered
by the DFG (LO-2338/3-1). S.K. received a salary from the DFG (SFB1129). We are
grateful to the Chinese Scholarship Council (CSC; 201904910701), DAAD/ANID (57451854/62180003),
the Rufus A. Kellogg fellowship program (Amherst College, Massachusetts, USA) for
awarding fellowships to Q.X., J.C., and H.A.A., respectively."
article_number: e1011562
article_processing_charge: Yes
article_type: original
author:
- first_name: Jana
full_name: Koch, Jana
last_name: Koch
- first_name: Qilin
full_name: Xin, Qilin
last_name: Xin
- first_name: Martin
full_name: Obr, Martin
id: 4741CA5A-F248-11E8-B48F-1D18A9856A87
last_name: Obr
orcid: 0000-0003-1756-6564
- first_name: Alicia
full_name: Schäfer, Alicia
last_name: Schäfer
- first_name: Nina
full_name: Rolfs, Nina
last_name: Rolfs
- first_name: Holda A.
full_name: Anagho, Holda A.
last_name: Anagho
- first_name: Aiste
full_name: Kudulyte, Aiste
last_name: Kudulyte
- first_name: Lea
full_name: Woltereck, Lea
last_name: Woltereck
- first_name: Susann
full_name: Kummer, Susann
last_name: Kummer
- first_name: Joaquin
full_name: Campos, Joaquin
last_name: Campos
- first_name: Zina M.
full_name: Uckeley, Zina M.
last_name: Uckeley
- first_name: Lesley
full_name: Bell-Sakyi, Lesley
last_name: Bell-Sakyi
- first_name: Hans Georg
full_name: Kräusslich, Hans Georg
last_name: Kräusslich
- first_name: Florian Km
full_name: Schur, Florian Km
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
- first_name: Claudio
full_name: Acuna, Claudio
last_name: Acuna
- first_name: Pierre Yves
full_name: Lozach, Pierre Yves
last_name: Lozach
citation:
ama: Koch J, Xin Q, Obr M, et al. The phenuivirus Toscana virus makes an atypical
use of vacuolar acidity to enter host cells. PLoS Pathogens. 2023;19(8).
doi:10.1371/journal.ppat.1011562
apa: Koch, J., Xin, Q., Obr, M., Schäfer, A., Rolfs, N., Anagho, H. A., … Lozach,
P. Y. (2023). The phenuivirus Toscana virus makes an atypical use of vacuolar
acidity to enter host cells. PLoS Pathogens. Public Library of Science.
https://doi.org/10.1371/journal.ppat.1011562
chicago: Koch, Jana, Qilin Xin, Martin Obr, Alicia Schäfer, Nina Rolfs, Holda A.
Anagho, Aiste Kudulyte, et al. “The Phenuivirus Toscana Virus Makes an Atypical
Use of Vacuolar Acidity to Enter Host Cells.” PLoS Pathogens. Public Library
of Science, 2023. https://doi.org/10.1371/journal.ppat.1011562.
ieee: J. Koch et al., “The phenuivirus Toscana virus makes an atypical use
of vacuolar acidity to enter host cells,” PLoS Pathogens, vol. 19, no.
8. Public Library of Science, 2023.
ista: Koch J, Xin Q, Obr M, Schäfer A, Rolfs N, Anagho HA, Kudulyte A, Woltereck
L, Kummer S, Campos J, Uckeley ZM, Bell-Sakyi L, Kräusslich HG, Schur FK, Acuna
C, Lozach PY. 2023. The phenuivirus Toscana virus makes an atypical use of vacuolar
acidity to enter host cells. PLoS Pathogens. 19(8), e1011562.
mla: Koch, Jana, et al. “The Phenuivirus Toscana Virus Makes an Atypical Use of
Vacuolar Acidity to Enter Host Cells.” PLoS Pathogens, vol. 19, no. 8,
e1011562, Public Library of Science, 2023, doi:10.1371/journal.ppat.1011562.
short: J. Koch, Q. Xin, M. Obr, A. Schäfer, N. Rolfs, H.A. Anagho, A. Kudulyte,
L. Woltereck, S. Kummer, J. Campos, Z.M. Uckeley, L. Bell-Sakyi, H.G. Kräusslich,
F.K. Schur, C. Acuna, P.Y. Lozach, PLoS Pathogens 19 (2023).
date_created: 2023-09-03T22:01:14Z
date_published: 2023-08-14T00:00:00Z
date_updated: 2023-12-13T12:22:22Z
day: '14'
ddc:
- '570'
department:
- _id: FlSc
doi: 10.1371/journal.ppat.1011562
external_id:
isi:
- '001050846300004'
pmid:
- '37578957'
file:
- access_level: open_access
checksum: 47ca3bb54b27f28b05644be0ad064bc6
content_type: application/pdf
creator: dernst
date_created: 2023-09-06T06:41:52Z
date_updated: 2023-09-06T06:41:52Z
file_id: '14269'
file_name: 2023_PloSPathogens_Koch.pdf
file_size: 4458336
relation: main_file
success: 1
file_date_updated: 2023-09-06T06:41:52Z
has_accepted_license: '1'
intvolume: ' 19'
isi: 1
issue: '8'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 26736D6A-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P31445
name: Structural conservation and diversity in retroviral capsid
publication: PLoS Pathogens
publication_identifier:
eissn:
- 1553-7374
issn:
- 1553-7366
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: The phenuivirus Toscana virus makes an atypical use of vacuolar acidity to
enter host cells
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 19
year: '2023'
...
---
_id: '14339'
abstract:
- lang: eng
text: Lateral roots are typically maintained at non-vertical angles with respect
to gravity. These gravitropic setpoint angles are intriguing because their maintenance
requires that roots are able to effect growth response both with and against the
gravity vector, a phenomenon previously attributed to gravitropism acting against
an antigravitropic offset mechanism. Here we show how the components mediating
gravitropism in the vertical primary root—PINs and phosphatases acting upon them—are
reconfigured in their regulation such that lateral root growth at a range of angles
can be maintained. We show that the ability of Arabidopsis lateral roots to bend
both downward and upward requires the generation of auxin asymmetries and is driven
by angle-dependent variation in downward gravitropic auxin flux acting against
angle-independent upward, antigravitropic flux. Further, we demonstrate a symmetry
in auxin distribution in lateral roots at gravitropic setpoint angle that can
be traced back to a net, balanced polarization of PIN3 and PIN7 auxin transporters
in the columella. These auxin fluxes are shifted by altering PIN protein phosphoregulation
in the columella, either by introducing PIN3 phosphovariant versions or via manipulation
of levels of the phosphatase subunit PP2A/RCN1. Finally, we show that auxin, in
addition to driving lateral root directional growth, acts within the lateral root
columella to induce more vertical growth by increasing RCN1 levels, causing a
downward shift in PIN3 localization, thereby diminishing the magnitude of the
upward, antigravitropic auxin flux.
acknowledgement: We thank D. Weijers, C. Schwechheimer and R. Offringa for generous
sharing of published and unpublished materials and P. Masson for advice on the use
of the ARL2 promoter. We are grateful to M. Del Bianco and O. Leyser for critical
reading of the manuscript. This work was supported by the BBSRC (grants BB/N010124/1
and BB/R000859/1 to S.K.), the Gatsby Charitable Foundation and the Leverhulme Trust
(RPG-2018-137 to S.K.).
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: S
full_name: Roychoudhry, S
last_name: Roychoudhry
- first_name: K
full_name: Sageman-Furnas, K
last_name: Sageman-Furnas
- first_name: C
full_name: Wolverton, C
last_name: Wolverton
- first_name: Peter
full_name: Grones, Peter
id: 399876EC-F248-11E8-B48F-1D18A9856A87
last_name: Grones
- first_name: Shutang
full_name: Tan, Shutang
id: 2DE75584-F248-11E8-B48F-1D18A9856A87
last_name: Tan
orcid: 0000-0002-0471-8285
- first_name: Gergely
full_name: Molnar, Gergely
id: 34F1AF46-F248-11E8-B48F-1D18A9856A87
last_name: Molnar
- first_name: M
full_name: De Angelis, M
last_name: De Angelis
- first_name: HL
full_name: Goodman, HL
last_name: Goodman
- first_name: N
full_name: Capstaff, N
last_name: Capstaff
- first_name: Lloyd
full_name: JPB, Lloyd
last_name: JPB
- first_name: J
full_name: Mullen, J
last_name: Mullen
- first_name: R
full_name: Hangarter, R
last_name: Hangarter
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: S
full_name: Kepinski, S
last_name: Kepinski
citation:
ama: Roychoudhry S, Sageman-Furnas K, Wolverton C, et al. Antigravitropic PIN polarization
maintains non-vertical growth in lateral roots. Nature Plants. 2023;9:1500-1513.
doi:10.1038/s41477-023-01478-x
apa: Roychoudhry, S., Sageman-Furnas, K., Wolverton, C., Grones, P., Tan, S., Molnar,
G., … Kepinski, S. (2023). Antigravitropic PIN polarization maintains non-vertical
growth in lateral roots. Nature Plants. Springer Nature. https://doi.org/10.1038/s41477-023-01478-x
chicago: Roychoudhry, S, K Sageman-Furnas, C Wolverton, Peter Grones, Shutang Tan,
Gergely Molnar, M De Angelis, et al. “Antigravitropic PIN Polarization Maintains
Non-Vertical Growth in Lateral Roots.” Nature Plants. Springer Nature,
2023. https://doi.org/10.1038/s41477-023-01478-x.
ieee: S. Roychoudhry et al., “Antigravitropic PIN polarization maintains
non-vertical growth in lateral roots,” Nature Plants, vol. 9. Springer
Nature, pp. 1500–1513, 2023.
ista: Roychoudhry S, Sageman-Furnas K, Wolverton C, Grones P, Tan S, Molnar G, De
Angelis M, Goodman H, Capstaff N, JPB L, Mullen J, Hangarter R, Friml J, Kepinski
S. 2023. Antigravitropic PIN polarization maintains non-vertical growth in lateral
roots. Nature Plants. 9, 1500–1513.
mla: Roychoudhry, S., et al. “Antigravitropic PIN Polarization Maintains Non-Vertical
Growth in Lateral Roots.” Nature Plants, vol. 9, Springer Nature, 2023,
pp. 1500–13, doi:10.1038/s41477-023-01478-x.
short: S. Roychoudhry, K. Sageman-Furnas, C. Wolverton, P. Grones, S. Tan, G. Molnar,
M. De Angelis, H. Goodman, N. Capstaff, L. JPB, J. Mullen, R. Hangarter, J. Friml,
S. Kepinski, Nature Plants 9 (2023) 1500–1513.
date_created: 2023-09-15T09:56:01Z
date_published: 2023-09-01T00:00:00Z
date_updated: 2023-12-13T12:23:49Z
day: '01'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1038/s41477-023-01478-x
external_id:
isi:
- '001069238800014'
pmid:
- '37666965'
file:
- access_level: open_access
checksum: 3d6d5d5abb937c14a5f6f0afba3b8624
content_type: application/pdf
creator: dernst
date_created: 2023-09-20T10:51:31Z
date_updated: 2023-09-20T10:51:31Z
file_id: '14351'
file_name: 2023_NaturePlants_Roychoudhry.pdf
file_size: 9647103
relation: main_file
success: 1
file_date_updated: 2023-09-20T10:51:31Z
has_accepted_license: '1'
intvolume: ' 9'
isi: 1
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 1500-1513
pmid: 1
publication: Nature Plants
publication_identifier:
issn:
- 2055-0278
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Antigravitropic PIN polarization maintains non-vertical growth in lateral roots
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2023'
...
---
_id: '14363'
abstract:
- lang: eng
text: Mitochondrial networks remodel their connectivity, content, and subcellular
localization to support optimized energy production in conditions of increased
environmental or cellular stress. Microglia rely on mitochondria to respond to
these stressors, however our knowledge about mitochondrial networks and their
adaptations in microglia in vivo is limited. Here, we generate a mouse model that
selectively labels mitochondria in microglia. We identify that mitochondrial networks
are more fragmented with increased content and perinuclear localization in vitro
vs. in vivo. Mitochondrial networks adapt similarly in microglia closest to the
injury site after optic nerve crush. Preventing microglial UCP2 increase after
injury by selective knockout induces cellular stress. This results in mitochondrial
hyperfusion in male microglia, a phenotype absent in females due to circulating
estrogens. Our results establish the foundation for mitochondrial network analysis
of microglia in vivo, emphasizing the importance of mitochondrial-based sex effects
of microglia in other pathologies.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
- _id: PreCl
acknowledgement: We thank the Scientific Service Units (SSU) of ISTA through resources
provided by the Imaging and Optics Facility (IOF), the Lab Support Facility (LSF),
and the Pre-Clinical Facility (PCF) team, specifically Sonja Haslinger and Michael
Schunn for excellent mouse colony management and support. This research was supported
by the FWF Sonderforschungsbereich F83 (to E.E.P). We thank Bálint Nagy, Ryan John
A. Cubero, Marco Benevento and all members of the Siegert group for constant feedback
on the project and article.
article_number: '107780'
article_processing_charge: Yes
article_type: original
author:
- first_name: Margaret E
full_name: Maes, Margaret E
id: 3838F452-F248-11E8-B48F-1D18A9856A87
last_name: Maes
orcid: 0000-0001-9642-1085
- first_name: Gloria
full_name: Colombo, Gloria
id: 3483CF6C-F248-11E8-B48F-1D18A9856A87
last_name: Colombo
orcid: 0000-0001-9434-8902
- first_name: Florianne E
full_name: Schoot Uiterkamp, Florianne E
id: 3526230C-F248-11E8-B48F-1D18A9856A87
last_name: Schoot Uiterkamp
- first_name: Felix
full_name: Sternberg, Felix
last_name: Sternberg
- first_name: Alessandro
full_name: Venturino, Alessandro
id: 41CB84B2-F248-11E8-B48F-1D18A9856A87
last_name: Venturino
orcid: 0000-0003-2356-9403
- first_name: Elena E.
full_name: Pohl, Elena E.
last_name: Pohl
- first_name: Sandra
full_name: Siegert, Sandra
id: 36ACD32E-F248-11E8-B48F-1D18A9856A87
last_name: Siegert
orcid: 0000-0001-8635-0877
citation:
ama: Maes ME, Colombo G, Schoot Uiterkamp FE, et al. Mitochondrial network adaptations
of microglia reveal sex-specific stress response after injury and UCP2 knockout.
iScience. 2023;26(10). doi:10.1016/j.isci.2023.107780
apa: Maes, M. E., Colombo, G., Schoot Uiterkamp, F. E., Sternberg, F., Venturino,
A., Pohl, E. E., & Siegert, S. (2023). Mitochondrial network adaptations of
microglia reveal sex-specific stress response after injury and UCP2 knockout.
IScience. Elsevier. https://doi.org/10.1016/j.isci.2023.107780
chicago: Maes, Margaret E, Gloria Colombo, Florianne E Schoot Uiterkamp, Felix Sternberg,
Alessandro Venturino, Elena E. Pohl, and Sandra Siegert. “Mitochondrial Network
Adaptations of Microglia Reveal Sex-Specific Stress Response after Injury and
UCP2 Knockout.” IScience. Elsevier, 2023. https://doi.org/10.1016/j.isci.2023.107780.
ieee: M. E. Maes et al., “Mitochondrial network adaptations of microglia
reveal sex-specific stress response after injury and UCP2 knockout,” iScience,
vol. 26, no. 10. Elsevier, 2023.
ista: Maes ME, Colombo G, Schoot Uiterkamp FE, Sternberg F, Venturino A, Pohl EE,
Siegert S. 2023. Mitochondrial network adaptations of microglia reveal sex-specific
stress response after injury and UCP2 knockout. iScience. 26(10), 107780.
mla: Maes, Margaret E., et al. “Mitochondrial Network Adaptations of Microglia Reveal
Sex-Specific Stress Response after Injury and UCP2 Knockout.” IScience,
vol. 26, no. 10, 107780, Elsevier, 2023, doi:10.1016/j.isci.2023.107780.
short: M.E. Maes, G. Colombo, F.E. Schoot Uiterkamp, F. Sternberg, A. Venturino,
E.E. Pohl, S. Siegert, IScience 26 (2023).
date_created: 2023-09-24T22:01:11Z
date_published: 2023-10-20T00:00:00Z
date_updated: 2023-12-13T12:27:30Z
day: '20'
ddc:
- '570'
department:
- _id: SaSi
doi: 10.1016/j.isci.2023.107780
external_id:
isi:
- '001080403500001'
pmid:
- '37731609'
file:
- access_level: open_access
checksum: be1a560efdd96d20712311f4fc54aac2
content_type: application/pdf
creator: dernst
date_created: 2023-11-07T08:53:21Z
date_updated: 2023-11-07T08:53:21Z
file_id: '14497'
file_name: 2023_iScience_Maes.pdf
file_size: 8197935
relation: main_file
success: 1
file_date_updated: 2023-11-07T08:53:21Z
has_accepted_license: '1'
intvolume: ' 26'
isi: 1
issue: '10'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
publication: iScience
publication_identifier:
eissn:
- 2589-0042
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Mitochondrial network adaptations of microglia reveal sex-specific stress response
after injury and UCP2 knockout
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 26
year: '2023'
...
---
_id: '14343'
abstract:
- lang: eng
text: The total energy of an eigenstate in a composite quantum system tends to be
distributed equally among its constituents. We identify the quantum fluctuation
around this equipartition principle in the simplest disordered quantum system
consisting of linear combinations of Wigner matrices. As our main ingredient,
we prove the Eigenstate Thermalisation Hypothesis and Gaussian fluctuation for
general quadratic forms of the bulk eigenvectors of Wigner matrices with an arbitrary
deformation.
acknowledgement: "G.C. and L.E. gratefully acknowledge many discussions with Dominik
Schröder at the preliminary stage of this project, especially his essential contribution
to identify the correct generalisation of traceless observables to the deformed
Wigner ensembles.\r\nL.E. and J.H. acknowledges support by ERC Advanced Grant ‘RMTBeyond’
No. 101020331."
article_number: e74
article_processing_charge: Yes
article_type: original
author:
- first_name: Giorgio
full_name: Cipolloni, Giorgio
id: 42198EFA-F248-11E8-B48F-1D18A9856A87
last_name: Cipolloni
orcid: 0000-0002-4901-7992
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Sven Joscha
full_name: Henheik, Sven Joscha
id: 31d731d7-d235-11ea-ad11-b50331c8d7fb
last_name: Henheik
orcid: 0000-0003-1106-327X
- first_name: Oleksii
full_name: Kolupaiev, Oleksii
id: 149b70d4-896a-11ed-bdf8-8c63fd44ca61
last_name: Kolupaiev
citation:
ama: Cipolloni G, Erdös L, Henheik SJ, Kolupaiev O. Gaussian fluctuations in the
equipartition principle for Wigner matrices. Forum of Mathematics, Sigma.
2023;11. doi:10.1017/fms.2023.70
apa: Cipolloni, G., Erdös, L., Henheik, S. J., & Kolupaiev, O. (2023). Gaussian
fluctuations in the equipartition principle for Wigner matrices. Forum of Mathematics,
Sigma. Cambridge University Press. https://doi.org/10.1017/fms.2023.70
chicago: Cipolloni, Giorgio, László Erdös, Sven Joscha Henheik, and Oleksii Kolupaiev.
“Gaussian Fluctuations in the Equipartition Principle for Wigner Matrices.” Forum
of Mathematics, Sigma. Cambridge University Press, 2023. https://doi.org/10.1017/fms.2023.70.
ieee: G. Cipolloni, L. Erdös, S. J. Henheik, and O. Kolupaiev, “Gaussian fluctuations
in the equipartition principle for Wigner matrices,” Forum of Mathematics,
Sigma, vol. 11. Cambridge University Press, 2023.
ista: Cipolloni G, Erdös L, Henheik SJ, Kolupaiev O. 2023. Gaussian fluctuations
in the equipartition principle for Wigner matrices. Forum of Mathematics, Sigma.
11, e74.
mla: Cipolloni, Giorgio, et al. “Gaussian Fluctuations in the Equipartition Principle
for Wigner Matrices.” Forum of Mathematics, Sigma, vol. 11, e74, Cambridge
University Press, 2023, doi:10.1017/fms.2023.70.
short: G. Cipolloni, L. Erdös, S.J. Henheik, O. Kolupaiev, Forum of Mathematics,
Sigma 11 (2023).
date_created: 2023-09-17T22:01:09Z
date_published: 2023-08-23T00:00:00Z
date_updated: 2023-12-13T12:24:23Z
day: '23'
ddc:
- '510'
department:
- _id: LaEr
- _id: GradSch
doi: 10.1017/fms.2023.70
ec_funded: 1
external_id:
arxiv:
- '2301.05181'
isi:
- '001051980200001'
file:
- access_level: open_access
checksum: eb747420e6a88a7796fa934151957676
content_type: application/pdf
creator: dernst
date_created: 2023-09-20T11:09:35Z
date_updated: 2023-09-20T11:09:35Z
file_id: '14352'
file_name: 2023_ForumMathematics_Cipolloni.pdf
file_size: 852652
relation: main_file
success: 1
file_date_updated: 2023-09-20T11:09:35Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 62796744-2b32-11ec-9570-940b20777f1d
call_identifier: H2020
grant_number: '101020331'
name: Random matrices beyond Wigner-Dyson-Mehta
publication: Forum of Mathematics, Sigma
publication_identifier:
eissn:
- 2050-5094
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Gaussian fluctuations in the equipartition principle for Wigner matrices
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 11
year: '2023'
...
---
_id: '14364'
abstract:
- lang: eng
text: We introduce extension-based proofs, a class of impossibility proofs that
includes valency arguments. They are modelled as an interaction between a prover
and a protocol. Using proofs based on combinatorial topology, it has been shown
that it is impossible to deterministically solve -set agreement among processes
or approximate agreement on a cycle of length 4 among processes in a wait-free
manner in asynchronous models where processes communicate using objects that can
be constructed from shared registers. However, it was unknown whether proofs based
on simpler techniques were possible. We show that these impossibility results
cannot be obtained by extension-based proofs in the iterated snapshot model and,
hence, extension-based proofs are limited in power.
acknowledgement: "We would like to thank Valerie King, Toniann Pitassi, and Michael
Saks for helpful discussions and Shi Hao Liu for his useful feedback.\r\nThis research
was supported by the Natural Science and Engineering Research Council of Canada
under grants RGPIN-2015-05080 and RGPIN-2020-04178, a postgraduate scholarship,
and a postdoctoral fellowship; a University of Toronto postdoctoral fellowship;
the National Science Foundation under grants CCF-1217921, CCF-1301926, CCF-1637385,
CCF-1650596, and IIS-1447786; the U.S. Department of Energy under grant ER26116/DE-SC0008923;
the European Research Council (ERC) under the European Union’s Horizon 2020 research
and innovation programme grant agreement 805223 ScaleML; and the Oracle and Intel
corporations. Some of the work on this paper was done while Faith Ellen was visiting
IST Austria."
article_processing_charge: No
article_type: original
author:
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
- first_name: James
full_name: Aspnes, James
last_name: Aspnes
- first_name: Faith
full_name: Ellen, Faith
last_name: Ellen
- first_name: Rati
full_name: Gelashvili, Rati
last_name: Gelashvili
- first_name: Leqi
full_name: Zhu, Leqi
id: a2117c59-cee4-11ed-b9d0-874ecf0f8ac5
last_name: Zhu
citation:
ama: Alistarh D-A, Aspnes J, Ellen F, Gelashvili R, Zhu L. Why extension-based proofs
fail. SIAM Journal on Computing. 2023;52(4):913-944. doi:10.1137/20M1375851
apa: Alistarh, D.-A., Aspnes, J., Ellen, F., Gelashvili, R., & Zhu, L. (2023).
Why extension-based proofs fail. SIAM Journal on Computing. Society for
Industrial and Applied Mathematics. https://doi.org/10.1137/20M1375851
chicago: Alistarh, Dan-Adrian, James Aspnes, Faith Ellen, Rati Gelashvili, and Leqi
Zhu. “Why Extension-Based Proofs Fail.” SIAM Journal on Computing. Society
for Industrial and Applied Mathematics, 2023. https://doi.org/10.1137/20M1375851.
ieee: D.-A. Alistarh, J. Aspnes, F. Ellen, R. Gelashvili, and L. Zhu, “Why extension-based
proofs fail,” SIAM Journal on Computing, vol. 52, no. 4. Society for Industrial
and Applied Mathematics, pp. 913–944, 2023.
ista: Alistarh D-A, Aspnes J, Ellen F, Gelashvili R, Zhu L. 2023. Why extension-based
proofs fail. SIAM Journal on Computing. 52(4), 913–944.
mla: Alistarh, Dan-Adrian, et al. “Why Extension-Based Proofs Fail.” SIAM Journal
on Computing, vol. 52, no. 4, Society for Industrial and Applied Mathematics,
2023, pp. 913–44, doi:10.1137/20M1375851.
short: D.-A. Alistarh, J. Aspnes, F. Ellen, R. Gelashvili, L. Zhu, SIAM Journal
on Computing 52 (2023) 913–944.
date_created: 2023-09-24T22:01:11Z
date_published: 2023-07-25T00:00:00Z
date_updated: 2023-12-13T12:28:29Z
day: '25'
department:
- _id: DaAl
doi: 10.1137/20M1375851
ec_funded: 1
external_id:
arxiv:
- '1811.01421'
isi:
- '001082972300004'
intvolume: ' 52'
isi: 1
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1811.01421
month: '07'
oa: 1
oa_version: Preprint
page: 913-944
project:
- _id: 268A44D6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '805223'
name: Elastic Coordination for Scalable Machine Learning
publication: SIAM Journal on Computing
publication_identifier:
eissn:
- 1095-7111
issn:
- 0097-5397
publication_status: published
publisher: Society for Industrial and Applied Mathematics
quality_controlled: '1'
related_material:
record:
- id: '6676'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Why extension-based proofs fail
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 52
year: '2023'
...
---
_id: '14345'
abstract:
- lang: eng
text: For a locally finite set in R2, the order-k Brillouin tessellations form an
infinite sequence of convex face-to-face tilings of the plane. If the set is coarsely
dense and generic, then the corresponding infinite sequences of minimum and maximum
angles are both monotonic in k. As an example, a stationary Poisson point process
in R2 is locally finite, coarsely dense, and generic with probability one. For
such a set, the distributions of angles in the Voronoi tessellations, Delaunay
mosaics, and Brillouin tessellations are independent of the order and can be derived
from the formula for angles in order-1 Delaunay mosaics given by Miles (Math.
Biosci. 6, 85–127 (1970)).
acknowledgement: Work by all authors but A. Garber is supported by the European Research
Council (ERC), Grant No. 788183, by the Wittgenstein Prize, Austrian Science Fund
(FWF), Grant No. Z 342-N31, and by the DFG Collaborative Research Center TRR 109,
Austrian Science Fund (FWF), Grant No. I 02979-N35. Work by A. Garber is partially
supported by the Alexander von Humboldt Foundation.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Alexey
full_name: Garber, Alexey
last_name: Garber
- first_name: Mohadese
full_name: Ghafari, Mohadese
last_name: Ghafari
- first_name: Teresa
full_name: Heiss, Teresa
id: 4879BB4E-F248-11E8-B48F-1D18A9856A87
last_name: Heiss
orcid: 0000-0002-1780-2689
- first_name: Morteza
full_name: Saghafian, Morteza
id: f86f7148-b140-11ec-9577-95435b8df824
last_name: Saghafian
citation:
ama: Edelsbrunner H, Garber A, Ghafari M, Heiss T, Saghafian M. On angles in higher
order Brillouin tessellations and related tilings in the plane. Discrete and
Computational Geometry. 2023. doi:10.1007/s00454-023-00566-1
apa: Edelsbrunner, H., Garber, A., Ghafari, M., Heiss, T., & Saghafian, M. (2023).
On angles in higher order Brillouin tessellations and related tilings in the plane.
Discrete and Computational Geometry. Springer Nature. https://doi.org/10.1007/s00454-023-00566-1
chicago: Edelsbrunner, Herbert, Alexey Garber, Mohadese Ghafari, Teresa Heiss, and
Morteza Saghafian. “On Angles in Higher Order Brillouin Tessellations and Related
Tilings in the Plane.” Discrete and Computational Geometry. Springer Nature,
2023. https://doi.org/10.1007/s00454-023-00566-1.
ieee: H. Edelsbrunner, A. Garber, M. Ghafari, T. Heiss, and M. Saghafian, “On angles
in higher order Brillouin tessellations and related tilings in the plane,” Discrete
and Computational Geometry. Springer Nature, 2023.
ista: Edelsbrunner H, Garber A, Ghafari M, Heiss T, Saghafian M. 2023. On angles
in higher order Brillouin tessellations and related tilings in the plane. Discrete
and Computational Geometry.
mla: Edelsbrunner, Herbert, et al. “On Angles in Higher Order Brillouin Tessellations
and Related Tilings in the Plane.” Discrete and Computational Geometry,
Springer Nature, 2023, doi:10.1007/s00454-023-00566-1.
short: H. Edelsbrunner, A. Garber, M. Ghafari, T. Heiss, M. Saghafian, Discrete
and Computational Geometry (2023).
date_created: 2023-09-17T22:01:10Z
date_published: 2023-09-07T00:00:00Z
date_updated: 2023-12-13T12:25:06Z
day: '07'
department:
- _id: HeEd
doi: 10.1007/s00454-023-00566-1
ec_funded: 1
external_id:
arxiv:
- '2204.01076'
isi:
- '001060727600004'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1007/s00454-023-00566-1
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: 266A2E9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '788183'
name: Alpha Shape Theory Extended
- _id: 268116B8-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00342
name: The Wittgenstein Prize
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I02979-N35
name: Persistence and stability of geometric complexes
publication: Discrete and Computational Geometry
publication_identifier:
eissn:
- 1432-0444
issn:
- 0179-5376
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: On angles in higher order Brillouin tessellations and related tilings in the
plane
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14378'
abstract:
- lang: eng
text: 'Branching morphogenesis is a ubiquitous process that gives rise to high exchange
surfaces in the vasculature and epithelial organs. Lymphatic capillaries form
branched networks, which play a key role in the circulation of tissue fluid and
immune cells. Although mouse models and correlative patient data indicate that
the lymphatic capillary density directly correlates with functional output, i.e.,
tissue fluid drainage and trafficking efficiency of dendritic cells, the mechanisms
ensuring efficient tissue coverage remain poorly understood. Here, we use the
mouse ear pinna lymphatic vessel network as a model system and combine lineage-tracing,
genetic perturbations, whole-organ reconstructions and theoretical modeling to
show that the dermal lymphatic capillaries tile space in an optimal, space-filling
manner. This coverage is achieved by two complementary mechanisms: initial tissue
invasion provides a non-optimal global scaffold via self-organized branching morphogenesis,
while VEGF-C dependent side-branching from existing capillaries rapidly optimizes
local coverage by directionally targeting low-density regions. With these two
ingredients, we show that a minimal biophysical model can reproduce quantitatively
whole-network reconstructions, across development and perturbations. Our results
show that lymphatic capillary networks can exploit local self-organizing mechanisms
to achieve tissue-scale optimization.'
acknowledgement: "We thank Dr. Kari Alitalo (University of Helsinki and Wihuri Research
Institute) for critical reading of the manuscript, providing Vegfc+/− and Clp24ΔEC
mouse strains and for hosting K.V.’s Academy of Finland postdoctoral researcher
period (2015–2018). We thank Dr. Sara Wickström (University of Helsinki and Wihuri
Research Institute) for providing Sox9:Egfp mouse\r\nstrain and the discussions.
We thank Maija Atuegwu and Tapio Tainola for technical assistance. This work received
funding from the Academy of Finland (K.V., 315710), Sigrid Juselius Foundation (K.V.),
University of Helsinki (K.V.), Wihuri Research Institute (K.V.), the ERC under the
European Union’s Horizon 2020 research and innovation program (grant agreement\r\nNo.
851288 to E.H.) and under the Marie Skłodowska-Curie grant agreement No. 754411
(to M.C.U.). Part of the work was carried out with the support of HiLIFE Laboratory
Animal Centre Core Facility, University of Helsinki, Finland. Imaging was performed
at the Biomedicum Imaging Unit, Helsinki University, Helsinki, Finland, with the
support of Biocenter Finland. The AAVpreparations were produced at the Helsinki
Virus (HelVi) Core."
article_number: '5878'
article_processing_charge: Yes
article_type: original
author:
- first_name: Mehmet C
full_name: Ucar, Mehmet C
id: 50B2A802-6007-11E9-A42B-EB23E6697425
last_name: Ucar
orcid: 0000-0003-0506-4217
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Emmi
full_name: Tiilikainen, Emmi
last_name: Tiilikainen
- first_name: Inam
full_name: Liaqat, Inam
last_name: Liaqat
- first_name: Emma
full_name: Jakobsson, Emma
last_name: Jakobsson
- first_name: Harri
full_name: Nurmi, Harri
last_name: Nurmi
- first_name: Kari
full_name: Vaahtomeri, Kari
id: 368EE576-F248-11E8-B48F-1D18A9856A87
last_name: Vaahtomeri
orcid: 0000-0001-7829-3518
citation:
ama: Ucar MC, Hannezo EB, Tiilikainen E, et al. Self-organized and directed branching
results in optimal coverage in developing dermal lymphatic networks. Nature
Communications. 2023;14. doi:10.1038/s41467-023-41456-7
apa: Ucar, M. C., Hannezo, E. B., Tiilikainen, E., Liaqat, I., Jakobsson, E., Nurmi,
H., & Vaahtomeri, K. (2023). Self-organized and directed branching results
in optimal coverage in developing dermal lymphatic networks. Nature Communications.
Springer Nature. https://doi.org/10.1038/s41467-023-41456-7
chicago: Ucar, Mehmet C, Edouard B Hannezo, Emmi Tiilikainen, Inam Liaqat, Emma
Jakobsson, Harri Nurmi, and Kari Vaahtomeri. “Self-Organized and Directed Branching
Results in Optimal Coverage in Developing Dermal Lymphatic Networks.” Nature
Communications. Springer Nature, 2023. https://doi.org/10.1038/s41467-023-41456-7.
ieee: M. C. Ucar et al., “Self-organized and directed branching results in
optimal coverage in developing dermal lymphatic networks,” Nature Communications,
vol. 14. Springer Nature, 2023.
ista: Ucar MC, Hannezo EB, Tiilikainen E, Liaqat I, Jakobsson E, Nurmi H, Vaahtomeri
K. 2023. Self-organized and directed branching results in optimal coverage in
developing dermal lymphatic networks. Nature Communications. 14, 5878.
mla: Ucar, Mehmet C., et al. “Self-Organized and Directed Branching Results in Optimal
Coverage in Developing Dermal Lymphatic Networks.” Nature Communications,
vol. 14, 5878, Springer Nature, 2023, doi:10.1038/s41467-023-41456-7.
short: M.C. Ucar, E.B. Hannezo, E. Tiilikainen, I. Liaqat, E. Jakobsson, H. Nurmi,
K. Vaahtomeri, Nature Communications 14 (2023).
date_created: 2023-10-01T22:01:13Z
date_published: 2023-09-21T00:00:00Z
date_updated: 2023-12-13T12:31:05Z
day: '21'
ddc:
- '570'
department:
- _id: EdHa
doi: 10.1038/s41467-023-41456-7
ec_funded: 1
external_id:
isi:
- '001075884500007'
pmid:
- '37735168'
file:
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checksum: 4fe5423403f2531753bcd9e0fea48e05
content_type: application/pdf
creator: dernst
date_created: 2023-10-03T07:46:36Z
date_updated: 2023-10-03T07:46:36Z
file_id: '14384'
file_name: 2023_NatureComm_Ucar.pdf
file_size: 8143264
relation: main_file
success: 1
file_date_updated: 2023-10-03T07:46:36Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 05943252-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '851288'
name: Design Principles of Branching Morphogenesis
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Self-organized and directed branching results in optimal coverage in developing
dermal lymphatic networks
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2023'
...
---
_id: '14361'
abstract:
- lang: eng
text: Whether one considers swarming insects, flocking birds, or bacterial colonies,
collective motion arises from the coordination of individuals and entails the
adjustment of their respective velocities. In particular, in close confinements,
such as those encountered by dense cell populations during development or regeneration,
collective migration can only arise coordinately. Yet, how individuals unify their
velocities is often not understood. Focusing on a finite number of cells in circular
confinements, we identify waves of polymerizing actin that function as a pacemaker
governing the speed of individual cells. We show that the onset of collective
motion coincides with the synchronization of the wave nucleation frequencies across
the population. Employing a simpler and more readily accessible mechanical model
system of active spheres, we identify the synchronization of the individuals’
internal oscillators as one of the essential requirements to reach the corresponding
collective state. The mechanical ‘toy’ experiment illustrates that the global
synchronous state is achieved by nearest neighbor coupling. We suggest by analogy
that local coupling and the synchronization of actin waves are essential for the
emergent, self-organized motion of cell collectives.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
- _id: M-Shop
acknowledgement: We thank K. O’Keeffe, E. Hannezo, P. Devreotes, C. Dessalles, and
E. Martens for discussion and/or critical reading of the manuscript; the Bioimaging
Facility of ISTA for excellent support, as well as the Life Science Facility and
the Miba Machine Shop of ISTA. This work was supported by the European Research
Council (ERC StG 281556 and CoG 724373) to M.S.
article_number: '5633'
article_processing_charge: Yes
article_type: original
author:
- first_name: Michael
full_name: Riedl, Michael
id: 3BE60946-F248-11E8-B48F-1D18A9856A87
last_name: Riedl
orcid: 0000-0003-4844-6311
- first_name: Isabelle D
full_name: Mayer, Isabelle D
id: 61763940-15b2-11ec-abd3-cfaddfbc66b4
last_name: Mayer
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Riedl M, Mayer ID, Merrin J, Sixt MK, Hof B. Synchronization in collectively
moving inanimate and living active matter. Nature Communications. 2023;14.
doi:10.1038/s41467-023-41432-1
apa: Riedl, M., Mayer, I. D., Merrin, J., Sixt, M. K., & Hof, B. (2023). Synchronization
in collectively moving inanimate and living active matter. Nature Communications.
Springer Nature. https://doi.org/10.1038/s41467-023-41432-1
chicago: Riedl, Michael, Isabelle D Mayer, Jack Merrin, Michael K Sixt, and Björn
Hof. “Synchronization in Collectively Moving Inanimate and Living Active Matter.”
Nature Communications. Springer Nature, 2023. https://doi.org/10.1038/s41467-023-41432-1.
ieee: M. Riedl, I. D. Mayer, J. Merrin, M. K. Sixt, and B. Hof, “Synchronization
in collectively moving inanimate and living active matter,” Nature Communications,
vol. 14. Springer Nature, 2023.
ista: Riedl M, Mayer ID, Merrin J, Sixt MK, Hof B. 2023. Synchronization in collectively
moving inanimate and living active matter. Nature Communications. 14, 5633.
mla: Riedl, Michael, et al. “Synchronization in Collectively Moving Inanimate and
Living Active Matter.” Nature Communications, vol. 14, 5633, Springer Nature,
2023, doi:10.1038/s41467-023-41432-1.
short: M. Riedl, I.D. Mayer, J. Merrin, M.K. Sixt, B. Hof, Nature Communications
14 (2023).
date_created: 2023-09-24T22:01:10Z
date_published: 2023-09-13T00:00:00Z
date_updated: 2023-12-13T12:29:41Z
day: '13'
ddc:
- '530'
- '570'
department:
- _id: MiSi
- _id: NanoFab
- _id: BjHo
doi: 10.1038/s41467-023-41432-1
ec_funded: 1
external_id:
isi:
- '001087583700030'
pmid:
- '37704595'
file:
- access_level: open_access
checksum: 82d2d4ad736cc8493db8ce45cd313f7b
content_type: application/pdf
creator: dernst
date_created: 2023-09-25T08:32:37Z
date_updated: 2023-09-25T08:32:37Z
file_id: '14366'
file_name: 2023_NatureComm_Riedl.pdf
file_size: 2317272
relation: main_file
success: 1
file_date_updated: 2023-09-25T08:32:37Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25A603A2-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '281556'
name: Cytoskeletal force generation and force transduction of migrating leukocytes
- _id: 25FE9508-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '724373'
name: Cellular navigation along spatial gradients
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Synchronization in collectively moving inanimate and living active matter
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2023'
...
---
_id: '14421'
abstract:
- lang: eng
text: Only recently has it been possible to construct a self-adjoint Hamiltonian
that involves the creation of Dirac particles at a point source in 3d space. Its
definition makes use of an interior-boundary condition. Here, we develop for this
Hamiltonian a corresponding theory of the Bohmian configuration. That is, we (non-rigorously)
construct a Markov jump process $(Q_t)_{t\in\mathbb{R}}$ in the configuration
space of a variable number of particles that is $|\psi_t|^2$-distributed at every
time t and follows Bohmian trajectories between the jumps. The jumps correspond
to particle creation or annihilation events and occur either to or from a configuration
with a particle located at the source. The process is the natural analog of Bell's
jump process, and a central piece in its construction is the determination of
the rate of particle creation. The construction requires an analysis of the asymptotic
behavior of the Bohmian trajectories near the source. We find that the particle
reaches the source with radial speed 0, but orbits around the source infinitely
many times in finite time before absorption (or after emission).
acknowledgement: J H gratefully acknowledges partial financial support by the ERC
Advanced Grant 'RMTBeyond' No. 101020331.
article_number: '445201'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Sven Joscha
full_name: Henheik, Sven Joscha
id: 31d731d7-d235-11ea-ad11-b50331c8d7fb
last_name: Henheik
orcid: 0000-0003-1106-327X
- first_name: Roderich
full_name: Tumulka, Roderich
last_name: Tumulka
citation:
ama: 'Henheik SJ, Tumulka R. Creation rate of Dirac particles at a point source.
Journal of Physics A: Mathematical and Theoretical. 2023;56(44). doi:10.1088/1751-8121/acfe62'
apa: 'Henheik, S. J., & Tumulka, R. (2023). Creation rate of Dirac particles
at a point source. Journal of Physics A: Mathematical and Theoretical.
IOP Publishing. https://doi.org/10.1088/1751-8121/acfe62'
chicago: 'Henheik, Sven Joscha, and Roderich Tumulka. “Creation Rate of Dirac Particles
at a Point Source.” Journal of Physics A: Mathematical and Theoretical.
IOP Publishing, 2023. https://doi.org/10.1088/1751-8121/acfe62.'
ieee: 'S. J. Henheik and R. Tumulka, “Creation rate of Dirac particles at a point
source,” Journal of Physics A: Mathematical and Theoretical, vol. 56, no.
44. IOP Publishing, 2023.'
ista: 'Henheik SJ, Tumulka R. 2023. Creation rate of Dirac particles at a point
source. Journal of Physics A: Mathematical and Theoretical. 56(44), 445201.'
mla: 'Henheik, Sven Joscha, and Roderich Tumulka. “Creation Rate of Dirac Particles
at a Point Source.” Journal of Physics A: Mathematical and Theoretical,
vol. 56, no. 44, 445201, IOP Publishing, 2023, doi:10.1088/1751-8121/acfe62.'
short: 'S.J. Henheik, R. Tumulka, Journal of Physics A: Mathematical and Theoretical
56 (2023).'
date_created: 2023-10-12T12:42:53Z
date_published: 2023-10-11T00:00:00Z
date_updated: 2023-12-13T13:01:25Z
day: '11'
ddc:
- '510'
department:
- _id: GradSch
- _id: LaEr
doi: 10.1088/1751-8121/acfe62
ec_funded: 1
external_id:
arxiv:
- '2211.16606'
isi:
- '001080908000001'
file:
- access_level: open_access
checksum: 5b68de147dd4c608b71a6e0e844d2ce9
content_type: application/pdf
creator: dernst
date_created: 2023-10-16T07:07:24Z
date_updated: 2023-10-16T07:07:24Z
file_id: '14429'
file_name: 2023_JourPhysics_Henheik.pdf
file_size: 721399
relation: main_file
success: 1
file_date_updated: 2023-10-16T07:07:24Z
has_accepted_license: '1'
intvolume: ' 56'
isi: 1
issue: '44'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 62796744-2b32-11ec-9570-940b20777f1d
call_identifier: H2020
grant_number: '101020331'
name: Random matrices beyond Wigner-Dyson-Mehta
publication: 'Journal of Physics A: Mathematical and Theoretical'
publication_identifier:
eissn:
- 1751-8121
issn:
- 1751-8113
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Creation rate of Dirac particles at a point source
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 56
year: '2023'
...
---
_id: '14400'
abstract:
- lang: eng
text: "We consider the problem of computing the maximal probability of satisfying
an \r\n-regular specification for stochastic, continuous-state, nonlinear systems
evolving in discrete time. The problem reduces, after automata-theoretic constructions,
to finding the maximal probability of satisfying a parity condition on a (possibly
hybrid) state space. While characterizing the exact satisfaction probability is
open, we show that a lower bound on this probability can be obtained by (I) computing
an under-approximation of the qualitative winning region, i.e., states from which
the parity condition can be enforced almost surely, and (II) computing the maximal
probability of reaching this qualitative winning region.\r\nThe heart of our approach
is a technique to symbolically compute the under-approximation of the qualitative
winning region in step (I) via a finite-state abstraction of the original system
as a \r\n-player parity game. Our abstraction procedure uses only the support
of the probabilistic evolution; it does not use precise numerical transition probabilities.
We prove that the winning set in the abstract -player game induces an under-approximation
of the qualitative winning region in the original synthesis problem, along with
a policy to solve it. By combining these contributions with (a) a symbolic fixpoint
algorithm to solve \r\n-player games and (b) existing techniques for reachability
policy synthesis in stochastic nonlinear systems, we get an abstraction-based
algorithm for finding a lower bound on the maximal satisfaction probability.\r\nWe
have implemented the abstraction-based algorithm in Mascot-SDS, where we combined
the outlined abstraction step with our tool Genie (Majumdar et al., 2023) that
solves \r\n-player parity games (through a reduction to Rabin games) more efficiently
than existing algorithms. We evaluated our implementation on the nonlinear model
of a perturbed bistable switch from the literature. We show empirically that the
lower bound on the winning region computed by our approach is precise, by comparing
against an over-approximation of the qualitative winning region. Moreover, our
implementation outperforms a recently proposed tool for solving this problem by
a large margin."
acknowledgement: "We thank Daniel Hausmann and Nir Piterman for their valuable comments
on an earlier version of the manuscript of our other paper [22] where we present,
among other things, the parity fixpoint for 2 1/2-player games (for a slightly more
general class of games) with a different and indirect proof of correctness. Based
on their comments we observed that, unlike the other fixpoints that we present in
[22], the parity fixpoint does not follow the exact same structure as its counterpart
for 2-player games, which we also use int his paper.\r\nWe also thank Thejaswini
Raghavan for observing that our symbolic parity fixpoint algorithm can be solved
in quasi-polynomial time using recent improved algorithms for solving \r\n-calculus
expressions. This significantly improved the complexity bounds of our algorithm
in this paper.\r\nThe work of R. Majumdar and A.-K. Schmuck are partially supported
by DFG, Germany project 389792660 TRR 248–CPEC. A.-K. Schmuck is additionally funded
through DFG, Germany project (SCHM 3541/1-1). K. Mallik is supported by the ERC
project ERC-2020-AdG 101020093. S. Soudjani is supported by the following projects:
EPSRC EP/V043676/1, EIC 101070802, and ERC 101089047."
article_number: '101430'
article_processing_charge: No
article_type: original
author:
- first_name: Rupak
full_name: Majumdar, Rupak
last_name: Majumdar
- first_name: Kaushik
full_name: Mallik, Kaushik
id: 0834ff3c-6d72-11ec-94e0-b5b0a4fb8598
last_name: Mallik
orcid: 0000-0001-9864-7475
- first_name: Anne Kathrin
full_name: Schmuck, Anne Kathrin
last_name: Schmuck
- first_name: Sadegh
full_name: Soudjani, Sadegh
last_name: Soudjani
citation:
ama: 'Majumdar R, Mallik K, Schmuck AK, Soudjani S. Symbolic control for stochastic
systems via finite parity games. Nonlinear Analysis: Hybrid Systems. 2023;51.
doi:10.1016/j.nahs.2023.101430'
apa: 'Majumdar, R., Mallik, K., Schmuck, A. K., & Soudjani, S. (2023). Symbolic
control for stochastic systems via finite parity games. Nonlinear Analysis:
Hybrid Systems. Elsevier. https://doi.org/10.1016/j.nahs.2023.101430'
chicago: 'Majumdar, Rupak, Kaushik Mallik, Anne Kathrin Schmuck, and Sadegh Soudjani.
“Symbolic Control for Stochastic Systems via Finite Parity Games.” Nonlinear
Analysis: Hybrid Systems. Elsevier, 2023. https://doi.org/10.1016/j.nahs.2023.101430.'
ieee: 'R. Majumdar, K. Mallik, A. K. Schmuck, and S. Soudjani, “Symbolic control
for stochastic systems via finite parity games,” Nonlinear Analysis: Hybrid
Systems, vol. 51. Elsevier, 2023.'
ista: 'Majumdar R, Mallik K, Schmuck AK, Soudjani S. 2023. Symbolic control for
stochastic systems via finite parity games. Nonlinear Analysis: Hybrid Systems.
51, 101430.'
mla: 'Majumdar, Rupak, et al. “Symbolic Control for Stochastic Systems via Finite
Parity Games.” Nonlinear Analysis: Hybrid Systems, vol. 51, 101430, Elsevier,
2023, doi:10.1016/j.nahs.2023.101430.'
short: 'R. Majumdar, K. Mallik, A.K. Schmuck, S. Soudjani, Nonlinear Analysis: Hybrid
Systems 51 (2023).'
date_created: 2023-10-08T22:01:15Z
date_published: 2023-09-27T00:00:00Z
date_updated: 2023-12-13T12:58:56Z
day: '27'
department:
- _id: ToHe
doi: 10.1016/j.nahs.2023.101430
ec_funded: 1
external_id:
arxiv:
- '2101.00834'
isi:
- '001093188100001'
intvolume: ' 51'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.nahs.2023.101430
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: 'Nonlinear Analysis: Hybrid Systems'
publication_identifier:
issn:
- 1751-570X
publication_status: epub_ahead
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Symbolic control for stochastic systems via finite parity games
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 51
year: '2023'
...
---
_id: '14425'
abstract:
- lang: eng
text: 'Water adsorption and dissociation processes on pristine low-index TiO2 interfaces
are important but poorly understood outside the well-studied anatase (101) and
rutile (110). To understand these, we construct three sets of machine learning
potentials that are simultaneously applicable to various TiO2 surfaces, based
on three density-functional-theory approximations. Here we show the water dissociation
free energies on seven pristine TiO2 surfaces, and predict that anatase (100),
anatase (110), rutile (001), and rutile (011) favor water dissociation, anatase
(101) and rutile (100) have mostly molecular adsorption, while the simulations
of rutile (110) sensitively depend on the slab thickness and molecular adsorption
is preferred with thick slabs. Moreover, using an automated algorithm, we reveal
that these surfaces follow different types of atomistic mechanisms for proton
transfer and water dissociation: one-step, two-step, or both. These mechanisms
can be rationalized based on the arrangements of water molecules on the different
surfaces. Our finding thus demonstrates that the different pristine TiO2 surfaces
react with water in distinct ways, and cannot be represented using just the low-energy
anatase (101) and rutile (110) surfaces.'
acknowledgement: F.S., J.H., and B.C. thank the Swiss National Supercomputing Centre
(CSCS) for the generous allocation of CPU hours via production project s1108 at
the Piz Daint supercomputer. B.C. acknowledges resources provided by the Cambridge
Tier-2 system operated by the University of Cambridge Research Computing Service
funded by EPSRC Tier-2 capital grant EP/P020259/1. J.C. acknowledges the Beijing
Natural Science Foundation for support under grant No. JQ22001. F.S., and J.H. thank
the Swiss Platform for Advanced Scientific Computing (PASC) via the 2021-2024 “Ab
Initio Molecular Dynamics at the Exa-Scale” project. This project has received funding
from the European Union’s Horizon 2020 research and innovation programme under the
Marie Skłodowska-Curie grant agreement No 101034413.
article_number: '6131'
article_processing_charge: Yes
article_type: original
author:
- first_name: Zezhu
full_name: Zeng, Zezhu
id: 54a2c730-803f-11ed-ab7e-95b29d2680e7
last_name: Zeng
- first_name: Felix
full_name: Wodaczek, Felix
id: 8b4b6a9f-32b0-11ee-9fa8-bbe85e26258e
last_name: Wodaczek
orcid: 0009-0000-1457-795X
- first_name: Keyang
full_name: Liu, Keyang
last_name: Liu
- first_name: Frederick
full_name: Stein, Frederick
last_name: Stein
- first_name: Jürg
full_name: Hutter, Jürg
last_name: Hutter
- first_name: Ji
full_name: Chen, Ji
last_name: Chen
- first_name: Bingqing
full_name: Cheng, Bingqing
id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
last_name: Cheng
orcid: 0000-0002-3584-9632
citation:
ama: Zeng Z, Wodaczek F, Liu K, et al. Mechanistic insight on water dissociation
on pristine low-index TiO2 surfaces from machine learning molecular dynamics simulations.
Nature Communications. 2023;14. doi:10.1038/s41467-023-41865-8
apa: Zeng, Z., Wodaczek, F., Liu, K., Stein, F., Hutter, J., Chen, J., & Cheng,
B. (2023). Mechanistic insight on water dissociation on pristine low-index TiO2
surfaces from machine learning molecular dynamics simulations. Nature Communications.
Springer Nature. https://doi.org/10.1038/s41467-023-41865-8
chicago: Zeng, Zezhu, Felix Wodaczek, Keyang Liu, Frederick Stein, Jürg Hutter,
Ji Chen, and Bingqing Cheng. “Mechanistic Insight on Water Dissociation on Pristine
Low-Index TiO2 Surfaces from Machine Learning Molecular Dynamics Simulations.”
Nature Communications. Springer Nature, 2023. https://doi.org/10.1038/s41467-023-41865-8.
ieee: Z. Zeng et al., “Mechanistic insight on water dissociation on pristine
low-index TiO2 surfaces from machine learning molecular dynamics simulations,”
Nature Communications, vol. 14. Springer Nature, 2023.
ista: Zeng Z, Wodaczek F, Liu K, Stein F, Hutter J, Chen J, Cheng B. 2023. Mechanistic
insight on water dissociation on pristine low-index TiO2 surfaces from machine
learning molecular dynamics simulations. Nature Communications. 14, 6131.
mla: Zeng, Zezhu, et al. “Mechanistic Insight on Water Dissociation on Pristine
Low-Index TiO2 Surfaces from Machine Learning Molecular Dynamics Simulations.”
Nature Communications, vol. 14, 6131, Springer Nature, 2023, doi:10.1038/s41467-023-41865-8.
short: Z. Zeng, F. Wodaczek, K. Liu, F. Stein, J. Hutter, J. Chen, B. Cheng, Nature
Communications 14 (2023).
date_created: 2023-10-15T22:01:10Z
date_published: 2023-10-02T00:00:00Z
date_updated: 2023-12-13T13:02:07Z
day: '02'
ddc:
- '540'
- '000'
department:
- _id: BiCh
- _id: GradSch
doi: 10.1038/s41467-023-41865-8
ec_funded: 1
external_id:
arxiv:
- '2303.07433'
isi:
- '001084354900008'
pmid:
- '37783698'
file:
- access_level: open_access
checksum: 7d1dffd36b672ec679f08f70ce79da87
content_type: application/pdf
creator: dernst
date_created: 2023-10-16T07:34:49Z
date_updated: 2023-10-16T07:34:49Z
file_id: '14432'
file_name: 2023_NatureComm_Zeng.pdf
file_size: 3194116
relation: main_file
success: 1
file_date_updated: 2023-10-16T07:34:49Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/BingqingCheng/TiO2-water
scopus_import: '1'
status: public
title: Mechanistic insight on water dissociation on pristine low-index TiO2 surfaces
from machine learning molecular dynamics simulations
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2023'
...
---
_id: '14453'
abstract:
- lang: eng
text: Squall lines are substantially influenced by the interaction of low-level
shear with cold pools associated with convective downdrafts. Beyond an optimal
shear amplitude, squall lines tend to orient themselves at an angle with respect
to the low-level shear. While the mechanisms behind squall line orientation seem
to be increasingly well understood, uncertainties remain on the implications of
this orientation. Roca and Fiolleau (2020, https://doi.org/10.1038/s43247-020-00015-4)
show that long lived mesoscale convective systems, including squall lines, are
disproportionately involved in rainfall extremes in the tropics. This article
investigates the influence of the interaction between low-level shear and squall
line outflow on squall line generated precipitation extrema in the tropics. Using
a cloud resolving model, simulated squall lines in radiative convective equilibrium
amid a shear-dominated regime (super optimal), a balanced regime (optimal), and
an outflow dominated regime (suboptimal). Our results show that precipitation
extremes in squall lines are 40% more intense in the case of optimal shear and
remain 30% superior in the superoptimal regime relative to a disorganized case.
With a theoretical scaling of precipitation extremes (C. Muller & Takayabu, 2020,
https://doi.org/10.1088/1748-9326/ab7130), we show that the condensation rates
control the amplification of precipitation extremes in tropical squall lines,
mainly due to its change in vertical mass flux (dynamic component). The reduction
of dilution by entrainment explains half of this change, consistent with Mulholland
et al. (2021, https://doi.org/10.1175/jas-d-20-0299.1). The other half is explained
by increased cloud-base velocity intensity in optimal and superoptimal squall
lines.
acknowledgement: The authors gratefully acknowledge funding from the European Research
Council under the European Union's Horizon 2020 research and innovation program
(Project CLUSTER, Grant Agreement No. 805041). This work is also supported by a
PhD fellowship funded by the Ecole Normale Supérieure de Paris-Saclay. Authors are
also grateful to Benjamin Filider, who was of great help and support in the development
of ideas. Eventually, we would like to thank Martin Singh, John M. Peters and an
anonymous reviewer for their valuable comments and suggestions, which greatly improved
the quality of the manuscript.
article_number: e2022MS003477
article_processing_charge: Yes
article_type: original
author:
- first_name: Sophie
full_name: Abramian, Sophie
last_name: Abramian
- first_name: Caroline J
full_name: Muller, Caroline J
id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b
last_name: Muller
orcid: 0000-0001-5836-5350
- first_name: Camille
full_name: Risi, Camille
last_name: Risi
citation:
ama: Abramian S, Muller CJ, Risi C. Extreme precipitation in tropical squall lines.
Journal of Advances in Modeling Earth Systems. 2023;15(10). doi:10.1029/2022MS003477
apa: Abramian, S., Muller, C. J., & Risi, C. (2023). Extreme precipitation in
tropical squall lines. Journal of Advances in Modeling Earth Systems. Wiley.
https://doi.org/10.1029/2022MS003477
chicago: Abramian, Sophie, Caroline J Muller, and Camille Risi. “Extreme Precipitation
in Tropical Squall Lines.” Journal of Advances in Modeling Earth Systems.
Wiley, 2023. https://doi.org/10.1029/2022MS003477.
ieee: S. Abramian, C. J. Muller, and C. Risi, “Extreme precipitation in tropical
squall lines,” Journal of Advances in Modeling Earth Systems, vol. 15,
no. 10. Wiley, 2023.
ista: Abramian S, Muller CJ, Risi C. 2023. Extreme precipitation in tropical squall
lines. Journal of Advances in Modeling Earth Systems. 15(10), e2022MS003477.
mla: Abramian, Sophie, et al. “Extreme Precipitation in Tropical Squall Lines.”
Journal of Advances in Modeling Earth Systems, vol. 15, no. 10, e2022MS003477,
Wiley, 2023, doi:10.1029/2022MS003477.
short: S. Abramian, C.J. Muller, C. Risi, Journal of Advances in Modeling Earth
Systems 15 (2023).
date_created: 2023-10-29T23:01:15Z
date_published: 2023-10-01T00:00:00Z
date_updated: 2023-12-13T13:06:40Z
day: '01'
ddc:
- '550'
department:
- _id: CaMu
doi: 10.1029/2022MS003477
ec_funded: 1
external_id:
isi:
- '001084933600001'
file:
- access_level: open_access
checksum: 43e6a1a35b663843c7d3f8d0caaca1a5
content_type: application/pdf
creator: dernst
date_created: 2023-10-30T13:31:42Z
date_updated: 2023-10-30T13:31:42Z
file_id: '14470'
file_name: 2023_JAMES_Abramian.pdf
file_size: 1975210
relation: main_file
success: 1
file_date_updated: 2023-10-30T13:31:42Z
has_accepted_license: '1'
intvolume: ' 15'
isi: 1
issue: '10'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 629205d8-2b32-11ec-9570-e1356ff73576
call_identifier: H2020
grant_number: '805041'
name: organization of CLoUdS, and implications of Tropical cyclones and for the
Energetics of the tropics, in current and waRming climate
publication: Journal of Advances in Modeling Earth Systems
publication_identifier:
eissn:
- 1942-2466
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Extreme precipitation in tropical squall lines
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15
year: '2023'
...
---
_id: '14434'
abstract:
- lang: eng
text: High entropy alloys (HEAs) are highly suitable candidate catalysts for oxygen
evolution and reduction reactions (OER/ORR) as they offer numerous parameters
for optimizing the electronic structure and catalytic sites. Herein, FeCoNiMoW
HEA nanoparticles are synthesized using a solution‐based low‐temperature approach.
Such FeCoNiMoW nanoparticles show high entropy properties, subtle lattice distortions,
and modulated electronic structure, leading to superior OER performance with an
overpotential of 233 mV at 10 mA cm−2 and 276 mV at 100 mA cm−2.
Density functional theory calculations reveal the electronic structures of the
FeCoNiMoW active sites with an optimized d‐band center position that enables suitable
adsorption of OOH* intermediates and reduces the Gibbs free energy barrier in
the OER process. Aqueous zinc–air batteries (ZABs) based on this HEA demonstrate
a high open circuit potential of 1.59 V, a peak power density of 116.9 mW cm−2,
a specific capacity of 857 mAh gZn−1,
and excellent stability for over 660 h of continuous charge–discharge cycles.
Flexible and solid ZABs are also assembled and tested, displaying excellent charge–discharge
performance at different bending angles. This work shows the significance of 4d/5d
metal‐modulated electronic structure and optimized adsorption ability to improve
the performance of OER/ORR, ZABs, and beyond.
acknowledged_ssus:
- _id: EM-Fac
acknowledgement: The authors acknowledge funding from Generalitat de Catalunya 2021
SGR 01581; the project COMBENERGY, PID2019-105490RB-C32, from the Spanish Ministerio
de Ciencia e Innovación; the National Natural Science Foundation of China (22102002);
the Anhui Provincial Natural Science Foundation (2108085QE192); Zhejiang Province
key research and development project (2023C01191); the Foundation of State Key Laboratory
of High-efficiency Utilization of Coal and Green Chemical Engineering (GrantNo.2022-K31);
and The Key Research and Development Program of Hebei Province (20314305D). IREC
is funded by the CERCA Programme from the Generalitat de Catalunya. L.L.Y. thanks
the China Scholarship Council (CSC) for the scholarship support (202008130132).
This research was supported by the Scientific Service Units (SSU) of ISTA (Institute
of Science and Technology Austria) through resources provided by the Electron Microscopy
Facility (EMF). S.L., S.H., and M.I. acknowledge funding by ISTA and the Werner
Siemens.
article_number: '2303719'
article_processing_charge: No
article_type: original
author:
- first_name: Ren
full_name: He, Ren
last_name: He
- first_name: Linlin
full_name: Yang, Linlin
last_name: Yang
- first_name: Yu
full_name: Zhang, Yu
last_name: Zhang
- first_name: Daochuan
full_name: Jiang, Daochuan
last_name: Jiang
- first_name: Seungho
full_name: Lee, Seungho
id: BB243B88-D767-11E9-B658-BC13E6697425
last_name: Lee
orcid: 0000-0002-6962-8598
- first_name: Sharona
full_name: Horta, Sharona
id: 03a7e858-01b1-11ec-8b71-99ae6c4a05bc
last_name: Horta
- first_name: Zhifu
full_name: Liang, Zhifu
last_name: Liang
- first_name: Xuan
full_name: Lu, Xuan
last_name: Lu
- first_name: Ahmad
full_name: Ostovari Moghaddam, Ahmad
last_name: Ostovari Moghaddam
- first_name: Junshan
full_name: Li, Junshan
last_name: Li
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
- first_name: Ying
full_name: Xu, Ying
last_name: Xu
- first_name: Yingtang
full_name: Zhou, Yingtang
last_name: Zhou
- first_name: Andreu
full_name: Cabot, Andreu
last_name: Cabot
citation:
ama: He R, Yang L, Zhang Y, et al. A 3d‐4d‐5d high entropy alloy as a bifunctional
oxygen catalyst for robust aqueous zinc–air batteries. Advanced Materials.
2023. doi:10.1002/adma.202303719
apa: He, R., Yang, L., Zhang, Y., Jiang, D., Lee, S., Horta, S., … Cabot, A. (2023).
A 3d‐4d‐5d high entropy alloy as a bifunctional oxygen catalyst for robust aqueous
zinc–air batteries. Advanced Materials. Wiley. https://doi.org/10.1002/adma.202303719
chicago: He, Ren, Linlin Yang, Yu Zhang, Daochuan Jiang, Seungho Lee, Sharona Horta,
Zhifu Liang, et al. “A 3d‐4d‐5d High Entropy Alloy as a Bifunctional Oxygen Catalyst
for Robust Aqueous Zinc–Air Batteries.” Advanced Materials. Wiley, 2023.
https://doi.org/10.1002/adma.202303719.
ieee: R. He et al., “A 3d‐4d‐5d high entropy alloy as a bifunctional oxygen
catalyst for robust aqueous zinc–air batteries,” Advanced Materials. Wiley,
2023.
ista: He R, Yang L, Zhang Y, Jiang D, Lee S, Horta S, Liang Z, Lu X, Ostovari Moghaddam
A, Li J, Ibáñez M, Xu Y, Zhou Y, Cabot A. 2023. A 3d‐4d‐5d high entropy alloy
as a bifunctional oxygen catalyst for robust aqueous zinc–air batteries. Advanced
Materials., 2303719.
mla: He, Ren, et al. “A 3d‐4d‐5d High Entropy Alloy as a Bifunctional Oxygen Catalyst
for Robust Aqueous Zinc–Air Batteries.” Advanced Materials, 2303719, Wiley,
2023, doi:10.1002/adma.202303719.
short: R. He, L. Yang, Y. Zhang, D. Jiang, S. Lee, S. Horta, Z. Liang, X. Lu, A.
Ostovari Moghaddam, J. Li, M. Ibáñez, Y. Xu, Y. Zhou, A. Cabot, Advanced Materials
(2023).
date_created: 2023-10-17T10:52:23Z
date_published: 2023-07-24T00:00:00Z
date_updated: 2023-12-13T13:03:23Z
day: '24'
department:
- _id: MaIb
doi: 10.1002/adma.202303719
external_id:
isi:
- '001083876900001'
pmid:
- '37487245'
isi: 1
keyword:
- Mechanical Engineering
- Mechanics of Materials
- General Materials Science
language:
- iso: eng
month: '07'
oa_version: None
pmid: 1
project:
- _id: 9B8F7476-BA93-11EA-9121-9846C619BF3A
name: 'HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of
Semiconductors for Waste Heat Recovery'
publication: Advanced Materials
publication_identifier:
issn:
- 0935-9648
- 1521-4095
publication_status: epub_ahead
publisher: Wiley
quality_controlled: '1'
status: public
title: A 3d‐4d‐5d high entropy alloy as a bifunctional oxygen catalyst for robust
aqueous zinc–air batteries
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14435'
abstract:
- lang: eng
text: Low‐cost, safe, and environmental‐friendly rechargeable aqueous zinc‐ion batteries
(ZIBs) are promising as next‐generation energy storage devices for wearable electronics
among other applications. However, sluggish ionic transport kinetics and the unstable
electrode structure during ionic insertion/extraction hampers their deployment.
Herein, we propose a new cathode material based on a layered metal chalcogenide
(LMC), bismuth telluride (Bi2Te3), coated
with polypyrrole (PPy). Taking advantage of the PPy coating, the Bi2Te3@PPy
composite presents strong ionic absorption affinity, high oxidation resistance,
and high structural stability. The ZIBs based on Bi2Te3@PPy
cathodes exhibit high capacities and ultra‐long lifespans of over 5000 cycles.
They also present outstanding stability even under bending. In addition, we analyze
here the reaction mechanism using in situ X‐ray diffraction, X‐ray photoelectron
spectroscopy, and computational tools and demonstrate that, in the aqueous system,
Zn2+ is not inserted into the cathode as previously assumed.
In contrast, proton charge storage dominates the process. Overall, this work not
only shows the great potential of LMCs as ZIBs cathode materials and the advantages
of PPy coating, but also clarifies the charge/discharge mechanism in rechargeable
ZIBs based on LMCs.
article_number: '2305128'
article_processing_charge: No
article_type: original
author:
- first_name: Guifang
full_name: Zeng, Guifang
last_name: Zeng
- first_name: Qing
full_name: Sun, Qing
last_name: Sun
- first_name: Sharona
full_name: Horta, Sharona
id: 03a7e858-01b1-11ec-8b71-99ae6c4a05bc
last_name: Horta
- first_name: Shang
full_name: Wang, Shang
last_name: Wang
- first_name: Xuan
full_name: Lu, Xuan
last_name: Lu
- first_name: Chaoyue
full_name: Zhang, Chaoyue
last_name: Zhang
- first_name: Jing
full_name: Li, Jing
last_name: Li
- first_name: Junshan
full_name: Li, Junshan
last_name: Li
- first_name: Lijie
full_name: Ci, Lijie
last_name: Ci
- first_name: Yanhong
full_name: Tian, Yanhong
last_name: Tian
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
- first_name: Andreu
full_name: Cabot, Andreu
last_name: Cabot
citation:
ama: 'Zeng G, Sun Q, Horta S, et al. A layered Bi2Te3@PPy cathode for aqueous zinc
ion batteries: Mechanism and application in printed flexible batteries. Advanced
Materials. doi:10.1002/adma.202305128'
apa: 'Zeng, G., Sun, Q., Horta, S., Wang, S., Lu, X., Zhang, C., … Cabot, A. (n.d.).
A layered Bi2Te3@PPy cathode for aqueous zinc ion batteries: Mechanism and application
in printed flexible batteries. Advanced Materials. Wiley. https://doi.org/10.1002/adma.202305128'
chicago: 'Zeng, Guifang, Qing Sun, Sharona Horta, Shang Wang, Xuan Lu, Chaoyue Zhang,
Jing Li, et al. “A Layered Bi2Te3@PPy Cathode for Aqueous Zinc Ion Batteries:
Mechanism and Application in Printed Flexible Batteries.” Advanced Materials.
Wiley, n.d. https://doi.org/10.1002/adma.202305128.'
ieee: 'G. Zeng et al., “A layered Bi2Te3@PPy cathode for aqueous zinc ion
batteries: Mechanism and application in printed flexible batteries,” Advanced
Materials. Wiley.'
ista: 'Zeng G, Sun Q, Horta S, Wang S, Lu X, Zhang C, Li J, Li J, Ci L, Tian Y,
Ibáñez M, Cabot A. A layered Bi2Te3@PPy cathode for aqueous zinc ion batteries:
Mechanism and application in printed flexible batteries. Advanced Materials.,
2305128.'
mla: 'Zeng, Guifang, et al. “A Layered Bi2Te3@PPy Cathode for Aqueous Zinc Ion Batteries:
Mechanism and Application in Printed Flexible Batteries.” Advanced Materials,
2305128, Wiley, doi:10.1002/adma.202305128.'
short: G. Zeng, Q. Sun, S. Horta, S. Wang, X. Lu, C. Zhang, J. Li, J. Li, L. Ci,
Y. Tian, M. Ibáñez, A. Cabot, Advanced Materials (n.d.).
date_created: 2023-10-17T10:53:56Z
date_published: 2023-08-09T00:00:00Z
date_updated: 2023-12-13T13:03:53Z
day: '09'
department:
- _id: MaIb
doi: 10.1002/adma.202305128
external_id:
isi:
- '001085681000001'
pmid:
- '37555532'
isi: 1
keyword:
- Mechanical Engineering
- Mechanics of Materials
- General Materials Science
language:
- iso: eng
month: '08'
oa_version: None
pmid: 1
publication: Advanced Materials
publication_identifier:
eissn:
- 1521-4095
issn:
- 0935-9648
publication_status: accepted
publisher: Wiley
quality_controlled: '1'
status: public
title: 'A layered Bi2Te3@PPy cathode for aqueous zinc ion batteries: Mechanism and
application in printed flexible batteries'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14463'
abstract:
- lang: eng
text: Inversions are thought to play a key role in adaptation and speciation, suppressing
recombination between diverging populations. Genes influencing adaptive traits
cluster in inversions, and changes in inversion frequencies are associated with
environmental differences. However, in many organisms, it is unclear if inversions
are geographically and taxonomically widespread. The intertidal snail, Littorina
saxatilis, is one such example. Strong associations between putative polymorphic
inversions and phenotypic differences have been demonstrated between two ecotypes
of L. saxatilis in Sweden and inferred elsewhere, but no direct evidence for inversion
polymorphism currently exists across the species range. Using whole genome data
from 107 snails, most inversion polymorphisms were found to be widespread across
the species range. The frequencies of some inversion arrangements were significantly
different among ecotypes, suggesting a parallel adaptive role. Many inversions
were also polymorphic in the sister species, L. arcana, hinting at an ancient
origin.
acknowledgement: We would like to thank members of the Littorina team for their advice
and feedback during this project. In particular, we thank Alan Le Moan, who inspired
us to look at heterozygosity differences to identify inversions, and Katherine Hearn
for helping with the PCA scripts. We thank Edinburgh Genomics for library preparation
and sequencing. Sample collections, sequencing and data preparation were supported
by the European Research Council (ERC-2015-AdG-693030- BARRIERS) and the Natural
Environment Research Council (NE/P001610/1). The analysis was supported by the Swedish
Research Council (vetenskaprådet; 2018-03695_VR) and the Portuguese Foundation for
Science and Technology (Fundación para a Ciência e Tecnologia) through a research
project (PTDC/BIA-EVL/1614/2021) and CEEC contract (2020.00275.CEECIND).
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: James
full_name: Reeve, James
last_name: Reeve
- first_name: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
- first_name: Eva L.
full_name: Koch, Eva L.
last_name: Koch
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
citation:
ama: Reeve J, Butlin RK, Koch EL, Stankowski S, Faria R. Chromosomal inversion polymorphisms
are widespread across the species ranges of rough periwinkles (Littorina saxatilis
and L. arcana). Molecular Ecology. 2023. doi:10.1111/mec.17160
apa: Reeve, J., Butlin, R. K., Koch, E. L., Stankowski, S., & Faria, R. (2023).
Chromosomal inversion polymorphisms are widespread across the species ranges of
rough periwinkles (Littorina saxatilis and L. arcana). Molecular Ecology.
Wiley. https://doi.org/10.1111/mec.17160
chicago: Reeve, James, Roger K. Butlin, Eva L. Koch, Sean Stankowski, and Rui Faria.
“Chromosomal Inversion Polymorphisms Are Widespread across the Species Ranges
of Rough Periwinkles (Littorina Saxatilis and L. Arcana).” Molecular Ecology.
Wiley, 2023. https://doi.org/10.1111/mec.17160.
ieee: J. Reeve, R. K. Butlin, E. L. Koch, S. Stankowski, and R. Faria, “Chromosomal
inversion polymorphisms are widespread across the species ranges of rough periwinkles
(Littorina saxatilis and L. arcana),” Molecular Ecology. Wiley, 2023.
ista: Reeve J, Butlin RK, Koch EL, Stankowski S, Faria R. 2023. Chromosomal inversion
polymorphisms are widespread across the species ranges of rough periwinkles (Littorina
saxatilis and L. arcana). Molecular Ecology.
mla: Reeve, James, et al. “Chromosomal Inversion Polymorphisms Are Widespread across
the Species Ranges of Rough Periwinkles (Littorina Saxatilis and L. Arcana).”
Molecular Ecology, Wiley, 2023, doi:10.1111/mec.17160.
short: J. Reeve, R.K. Butlin, E.L. Koch, S. Stankowski, R. Faria, Molecular Ecology
(2023).
date_created: 2023-10-29T23:01:17Z
date_published: 2023-10-16T00:00:00Z
date_updated: 2023-12-13T13:05:27Z
day: '16'
department:
- _id: NiBa
doi: 10.1111/mec.17160
external_id:
isi:
- '001085119000001'
pmid:
- '37843465'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1111/mec.17160
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
publication: Molecular Ecology
publication_identifier:
eissn:
- 1365-294X
issn:
- 0962-1083
publication_status: epub_ahead
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Chromosomal inversion polymorphisms are widespread across the species ranges
of rough periwinkles (Littorina saxatilis and L. arcana)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14455'
acknowledgement: The author(s) declare that financial support was received for the
research, authorship, and/or publication of this article. This work has been partially
supported by Italian Ministry of Health Grant RC2023 (and the 5 × 1,000 voluntary
contributions). The authors thank the children and their families with whom they
work daily.
article_number: '1287879'
article_processing_charge: Yes
article_type: letter_note
author:
- first_name: Antonio
full_name: Narzisi, Antonio
last_name: Narzisi
- first_name: Alycia
full_name: Halladay, Alycia
last_name: Halladay
- first_name: Gabriele
full_name: Masi, Gabriele
last_name: Masi
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
- first_name: Catherine
full_name: Lord, Catherine
last_name: Lord
citation:
ama: 'Narzisi A, Halladay A, Masi G, Novarino G, Lord C. Tempering expectations:
Considerations on the current state of stem cells therapy for autism treatment.
Frontiers in Psychiatry. 2023;14. doi:10.3389/fpsyt.2023.1287879'
apa: 'Narzisi, A., Halladay, A., Masi, G., Novarino, G., & Lord, C. (2023).
Tempering expectations: Considerations on the current state of stem cells therapy
for autism treatment. Frontiers in Psychiatry. Frontiers. https://doi.org/10.3389/fpsyt.2023.1287879'
chicago: 'Narzisi, Antonio, Alycia Halladay, Gabriele Masi, Gaia Novarino, and Catherine
Lord. “Tempering Expectations: Considerations on the Current State of Stem Cells
Therapy for Autism Treatment.” Frontiers in Psychiatry. Frontiers, 2023.
https://doi.org/10.3389/fpsyt.2023.1287879.'
ieee: 'A. Narzisi, A. Halladay, G. Masi, G. Novarino, and C. Lord, “Tempering expectations:
Considerations on the current state of stem cells therapy for autism treatment,”
Frontiers in Psychiatry, vol. 14. Frontiers, 2023.'
ista: 'Narzisi A, Halladay A, Masi G, Novarino G, Lord C. 2023. Tempering expectations:
Considerations on the current state of stem cells therapy for autism treatment.
Frontiers in Psychiatry. 14, 1287879.'
mla: 'Narzisi, Antonio, et al. “Tempering Expectations: Considerations on the Current
State of Stem Cells Therapy for Autism Treatment.” Frontiers in Psychiatry,
vol. 14, 1287879, Frontiers, 2023, doi:10.3389/fpsyt.2023.1287879.'
short: A. Narzisi, A. Halladay, G. Masi, G. Novarino, C. Lord, Frontiers in Psychiatry
14 (2023).
date_created: 2023-10-29T23:01:16Z
date_published: 2023-10-03T00:00:00Z
date_updated: 2023-12-13T13:06:07Z
day: '03'
ddc:
- '570'
department:
- _id: GaNo
doi: 10.3389/fpsyt.2023.1287879
external_id:
isi:
- '001084841700001'
pmid:
- '37854442'
file:
- access_level: open_access
checksum: 0a76373e9a4c0fc199f80380de257e86
content_type: application/pdf
creator: dernst
date_created: 2023-10-30T12:48:40Z
date_updated: 2023-10-30T12:48:40Z
file_id: '14468'
file_name: 2023_FrontiersPsychiatry_Narzisi.pdf
file_size: 147878
relation: main_file
success: 1
file_date_updated: 2023-10-30T12:48:40Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
publication: Frontiers in Psychiatry
publication_identifier:
eissn:
- 1664-0640
publication_status: published
publisher: Frontiers
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Tempering expectations: Considerations on the current state of stem cells
therapy for autism treatment'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2023'
...
---
_id: '14427'
abstract:
- lang: eng
text: In the paper, we establish Squash Rigidity Theorem—the dynamical spectral
rigidity for piecewise analytic Bunimovich squash-type stadia whose convex arcs
are homothetic. We also establish Stadium Rigidity Theorem—the dynamical spectral
rigidity for piecewise analytic Bunimovich stadia whose flat boundaries are a
priori fixed. In addition, for smooth Bunimovich squash-type stadia we compute
the Lyapunov exponents along the maximal period two orbit, as well as the value
of the Peierls’ Barrier function from the maximal marked length spectrum associated
to the rotation number 2n/4n+1.
acknowledgement: 'VK acknowledges a partial support by the NSF grant DMS-1402164 and
ERC Grant #885707. Discussions with Martin Leguil and Jacopo De Simoi were very
useful. JC visited the University of Maryland and thanks for the hospitality. Also,
JC was partially supported by the National Key Research and Development Program
of China (No.2022YFA1005802), the NSFC Grant 12001392 and NSF of Jiangsu BK20200850.
H.-K. Zhang is partially supported by the National Science Foundation (DMS-2220211),
as well as Simons Foundation Collaboration Grants for Mathematicians (706383).'
article_processing_charge: No
article_type: original
author:
- first_name: Jianyu
full_name: Chen, Jianyu
last_name: Chen
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
- first_name: Hong Kun
full_name: Zhang, Hong Kun
last_name: Zhang
citation:
ama: Chen J, Kaloshin V, Zhang HK. Length spectrum rigidity for piecewise analytic
Bunimovich billiards. Communications in Mathematical Physics. 2023. doi:10.1007/s00220-023-04837-z
apa: Chen, J., Kaloshin, V., & Zhang, H. K. (2023). Length spectrum rigidity
for piecewise analytic Bunimovich billiards. Communications in Mathematical
Physics. Springer Nature. https://doi.org/10.1007/s00220-023-04837-z
chicago: Chen, Jianyu, Vadim Kaloshin, and Hong Kun Zhang. “Length Spectrum Rigidity
for Piecewise Analytic Bunimovich Billiards.” Communications in Mathematical
Physics. Springer Nature, 2023. https://doi.org/10.1007/s00220-023-04837-z.
ieee: J. Chen, V. Kaloshin, and H. K. Zhang, “Length spectrum rigidity for piecewise
analytic Bunimovich billiards,” Communications in Mathematical Physics.
Springer Nature, 2023.
ista: Chen J, Kaloshin V, Zhang HK. 2023. Length spectrum rigidity for piecewise
analytic Bunimovich billiards. Communications in Mathematical Physics.
mla: Chen, Jianyu, et al. “Length Spectrum Rigidity for Piecewise Analytic Bunimovich
Billiards.” Communications in Mathematical Physics, Springer Nature, 2023,
doi:10.1007/s00220-023-04837-z.
short: J. Chen, V. Kaloshin, H.K. Zhang, Communications in Mathematical Physics
(2023).
date_created: 2023-10-15T22:01:11Z
date_published: 2023-09-29T00:00:00Z
date_updated: 2023-12-13T13:02:44Z
day: '29'
department:
- _id: VaKa
doi: 10.1007/s00220-023-04837-z
ec_funded: 1
external_id:
arxiv:
- '1902.07330'
isi:
- '001073177200001'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1902.07330
month: '09'
oa: 1
oa_version: Preprint
project:
- _id: 9B8B92DE-BA93-11EA-9121-9846C619BF3A
call_identifier: H2020
grant_number: '885707'
name: Spectral rigidity and integrability for billiards and geodesic flows
publication: Communications in Mathematical Physics
publication_identifier:
eissn:
- 1432-0916
issn:
- 0010-3616
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Length spectrum rigidity for piecewise analytic Bunimovich billiards
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14464'
abstract:
- lang: eng
text: 'Given a triangle Δ, we study the problem of determining the smallest enclosing
and largest embedded isosceles triangles of Δ with respect to area and perimeter.
This problem was initially posed by Nandakumar [17, 22] and was first studied
by Kiss, Pach, and Somlai [13], who showed that if Δ′ is the smallest area isosceles
triangle containing Δ, then Δ′ and Δ share a side and an angle. In the present
paper, we prove that for any triangle Δ, every maximum area isosceles triangle
embedded in Δ and every maximum perimeter isosceles triangle embedded in Δ shares
a side and an angle with Δ. Somewhat surprisingly, the case of minimum perimeter
enclosing triangles is different: there are infinite families of triangles Δ whose
minimum perimeter isosceles containers do not share a side and an angle with Δ.'
article_processing_charge: No
article_type: original
author:
- first_name: Áron
full_name: Ambrus, Áron
last_name: Ambrus
- first_name: Mónika
full_name: Csikós, Mónika
last_name: Csikós
- first_name: Gergely
full_name: Kiss, Gergely
last_name: Kiss
- first_name: János
full_name: Pach, János
id: E62E3130-B088-11EA-B919-BF823C25FEA4
last_name: Pach
- first_name: Gábor
full_name: Somlai, Gábor
last_name: Somlai
citation:
ama: Ambrus Á, Csikós M, Kiss G, Pach J, Somlai G. Optimal embedded and enclosing
isosceles triangles. International Journal of Foundations of Computer Science.
2023;34(7):737-760. doi:10.1142/S012905412342008X
apa: Ambrus, Á., Csikós, M., Kiss, G., Pach, J., & Somlai, G. (2023). Optimal
embedded and enclosing isosceles triangles. International Journal of Foundations
of Computer Science. World Scientific Publishing. https://doi.org/10.1142/S012905412342008X
chicago: Ambrus, Áron, Mónika Csikós, Gergely Kiss, János Pach, and Gábor Somlai.
“Optimal Embedded and Enclosing Isosceles Triangles.” International Journal
of Foundations of Computer Science. World Scientific Publishing, 2023. https://doi.org/10.1142/S012905412342008X.
ieee: Á. Ambrus, M. Csikós, G. Kiss, J. Pach, and G. Somlai, “Optimal embedded and
enclosing isosceles triangles,” International Journal of Foundations of Computer
Science, vol. 34, no. 7. World Scientific Publishing, pp. 737–760, 2023.
ista: Ambrus Á, Csikós M, Kiss G, Pach J, Somlai G. 2023. Optimal embedded and enclosing
isosceles triangles. International Journal of Foundations of Computer Science.
34(7), 737–760.
mla: Ambrus, Áron, et al. “Optimal Embedded and Enclosing Isosceles Triangles.”
International Journal of Foundations of Computer Science, vol. 34, no.
7, World Scientific Publishing, 2023, pp. 737–60, doi:10.1142/S012905412342008X.
short: Á. Ambrus, M. Csikós, G. Kiss, J. Pach, G. Somlai, International Journal
of Foundations of Computer Science 34 (2023) 737–760.
date_created: 2023-10-29T23:01:18Z
date_published: 2023-10-05T00:00:00Z
date_updated: 2023-12-13T13:04:55Z
day: '05'
department:
- _id: HeEd
doi: 10.1142/S012905412342008X
external_id:
arxiv:
- '2205.11637'
isi:
- '001080874400001'
intvolume: ' 34'
isi: 1
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2205.11637
month: '10'
oa: 1
oa_version: Preprint
page: 737-760
publication: International Journal of Foundations of Computer Science
publication_identifier:
eissn:
- 1793-6373
issn:
- 0129-0541
publication_status: published
publisher: World Scientific Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Optimal embedded and enclosing isosceles triangles
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 34
year: '2023'
...
---
_id: '14449'
abstract:
- lang: eng
text: The rapid development of machine learning (ML) techniques has opened up the
data-dense field of microbiome research for novel therapeutic, diagnostic, and
prognostic applications targeting a wide range of disorders, which could substantially
improve healthcare practices in the era of precision medicine. However, several
challenges must be addressed to exploit the benefits of ML in this field fully.
In particular, there is a need to establish “gold standard” protocols for conducting
ML analysis experiments and improve interactions between microbiome researchers
and ML experts. The Machine Learning Techniques in Human Microbiome Studies (ML4Microbiome)
COST Action CA18131 is a European network established in 2019 to promote collaboration
between discovery-oriented microbiome researchers and data-driven ML experts to
optimize and standardize ML approaches for microbiome analysis. This perspective
paper presents the key achievements of ML4Microbiome, which include identifying
predictive and discriminatory ‘omics’ features, improving repeatability and comparability,
developing automation procedures, and defining priority areas for the novel development
of ML methods targeting the microbiome. The insights gained from ML4Microbiome
will help to maximize the potential of ML in microbiome research and pave the
way for new and improved healthcare practices.
acknowledgement: "This study is based upon work from COST Action ML4Microbiome “Statistical
and machine learning techniques in human microbiome studies” (CA18131), supported
by COST (European Cooperation in Science and Technology), www.cost.eu. MB acknowledges
support through the Metagenopolis grant ANR-11-DPBS-0001. IM-I acknowledges support
by the “Miguel Servet Type II” program (CPII21/00013) of the ISCIII-Madrid (Spain),
co-financed by the FEDER.\r\nThe authors are grateful to all COST Action CA18131
“Statistical and machine learning techniques in human microbiome studies” members
for their contribution to the COST Action objectives, and to COST (European Cooperation
in Science and Technology) for the economic support, www.cost.eu. WG2 and WG3 thank
Emmanuelle Le Chatelier and Pauline Barbet (Université Paris-Saclay, INRAE, MetaGenoPolis,
78350, Jouy-en-Josas, France) for preparing the shotgun CRC benchmark dataset."
article_number: '1257002'
article_processing_charge: Yes
article_type: original
author:
- first_name: Domenica
full_name: D’Elia, Domenica
last_name: D’Elia
- first_name: Jaak
full_name: Truu, Jaak
last_name: Truu
- first_name: Leo
full_name: Lahti, Leo
last_name: Lahti
- first_name: Magali
full_name: Berland, Magali
last_name: Berland
- first_name: Georgios
full_name: Papoutsoglou, Georgios
last_name: Papoutsoglou
- first_name: Michelangelo
full_name: Ceci, Michelangelo
last_name: Ceci
- first_name: Aldert
full_name: Zomer, Aldert
last_name: Zomer
- first_name: Marta B.
full_name: Lopes, Marta B.
last_name: Lopes
- first_name: Eliana
full_name: Ibrahimi, Eliana
last_name: Ibrahimi
- first_name: Aleksandra
full_name: Gruca, Aleksandra
last_name: Gruca
- first_name: Alina
full_name: Nechyporenko, Alina
last_name: Nechyporenko
- first_name: Marcus
full_name: Frohme, Marcus
last_name: Frohme
- first_name: Thomas
full_name: Klammsteiner, Thomas
last_name: Klammsteiner
- first_name: Enrique Carrillo De Santa
full_name: Pau, Enrique Carrillo De Santa
last_name: Pau
- first_name: Laura Judith
full_name: Marcos-Zambrano, Laura Judith
last_name: Marcos-Zambrano
- first_name: Karel
full_name: Hron, Karel
last_name: Hron
- first_name: Gianvito
full_name: Pio, Gianvito
last_name: Pio
- first_name: Andrea
full_name: Simeon, Andrea
last_name: Simeon
- first_name: Ramona
full_name: Suharoschi, Ramona
last_name: Suharoschi
- first_name: Isabel
full_name: Moreno-Indias, Isabel
last_name: Moreno-Indias
- first_name: Andriy
full_name: Temko, Andriy
last_name: Temko
- first_name: Miroslava
full_name: Nedyalkova, Miroslava
last_name: Nedyalkova
- first_name: Elena Simona
full_name: Apostol, Elena Simona
last_name: Apostol
- first_name: Ciprian Octavian
full_name: Truică, Ciprian Octavian
last_name: Truică
- first_name: Rajesh
full_name: Shigdel, Rajesh
last_name: Shigdel
- first_name: Jasminka Hasić
full_name: Telalović, Jasminka Hasić
last_name: Telalović
- first_name: Erik
full_name: Bongcam-Rudloff, Erik
last_name: Bongcam-Rudloff
- first_name: Piotr
full_name: Przymus, Piotr
last_name: Przymus
- first_name: Naida Babić
full_name: Jordamović, Naida Babić
last_name: Jordamović
- first_name: Laurent
full_name: Falquet, Laurent
last_name: Falquet
- first_name: Sonia
full_name: Tarazona, Sonia
last_name: Tarazona
- first_name: Alexia
full_name: Sampri, Alexia
last_name: Sampri
- first_name: Gaetano
full_name: Isola, Gaetano
last_name: Isola
- first_name: David
full_name: Pérez-Serrano, David
last_name: Pérez-Serrano
- first_name: Vladimir
full_name: Trajkovik, Vladimir
last_name: Trajkovik
- first_name: Lubos
full_name: Klucar, Lubos
last_name: Klucar
- first_name: Tatjana
full_name: Loncar-Turukalo, Tatjana
last_name: Loncar-Turukalo
- first_name: Aki S.
full_name: Havulinna, Aki S.
last_name: Havulinna
- first_name: Christian
full_name: Jansen, Christian
id: 837b2259-bcc9-11ed-a196-ae55927bc6e2
last_name: Jansen
- first_name: Randi J.
full_name: Bertelsen, Randi J.
last_name: Bertelsen
- first_name: Marcus Joakim
full_name: Claesson, Marcus Joakim
last_name: Claesson
citation:
ama: 'D’Elia D, Truu J, Lahti L, et al. Advancing microbiome research with machine
learning: Key findings from the ML4Microbiome COST action. Frontiers in Microbiology.
2023;14. doi:10.3389/fmicb.2023.1257002'
apa: 'D’Elia, D., Truu, J., Lahti, L., Berland, M., Papoutsoglou, G., Ceci, M.,
… Claesson, M. J. (2023). Advancing microbiome research with machine learning:
Key findings from the ML4Microbiome COST action. Frontiers in Microbiology.
Frontiers. https://doi.org/10.3389/fmicb.2023.1257002'
chicago: 'D’Elia, Domenica, Jaak Truu, Leo Lahti, Magali Berland, Georgios Papoutsoglou,
Michelangelo Ceci, Aldert Zomer, et al. “Advancing Microbiome Research with Machine
Learning: Key Findings from the ML4Microbiome COST Action.” Frontiers in Microbiology.
Frontiers, 2023. https://doi.org/10.3389/fmicb.2023.1257002.'
ieee: 'D. D’Elia et al., “Advancing microbiome research with machine learning:
Key findings from the ML4Microbiome COST action,” Frontiers in Microbiology,
vol. 14. Frontiers, 2023.'
ista: 'D’Elia D, Truu J, Lahti L, Berland M, Papoutsoglou G, Ceci M, Zomer A, Lopes
MB, Ibrahimi E, Gruca A, Nechyporenko A, Frohme M, Klammsteiner T, Pau ECDS, Marcos-Zambrano
LJ, Hron K, Pio G, Simeon A, Suharoschi R, Moreno-Indias I, Temko A, Nedyalkova
M, Apostol ES, Truică CO, Shigdel R, Telalović JH, Bongcam-Rudloff E, Przymus
P, Jordamović NB, Falquet L, Tarazona S, Sampri A, Isola G, Pérez-Serrano D, Trajkovik
V, Klucar L, Loncar-Turukalo T, Havulinna AS, Jansen C, Bertelsen RJ, Claesson
MJ. 2023. Advancing microbiome research with machine learning: Key findings from
the ML4Microbiome COST action. Frontiers in Microbiology. 14, 1257002.'
mla: 'D’Elia, Domenica, et al. “Advancing Microbiome Research with Machine Learning:
Key Findings from the ML4Microbiome COST Action.” Frontiers in Microbiology,
vol. 14, 1257002, Frontiers, 2023, doi:10.3389/fmicb.2023.1257002.'
short: D. D’Elia, J. Truu, L. Lahti, M. Berland, G. Papoutsoglou, M. Ceci, A. Zomer,
M.B. Lopes, E. Ibrahimi, A. Gruca, A. Nechyporenko, M. Frohme, T. Klammsteiner,
E.C.D.S. Pau, L.J. Marcos-Zambrano, K. Hron, G. Pio, A. Simeon, R. Suharoschi,
I. Moreno-Indias, A. Temko, M. Nedyalkova, E.S. Apostol, C.O. Truică, R. Shigdel,
J.H. Telalović, E. Bongcam-Rudloff, P. Przymus, N.B. Jordamović, L. Falquet, S.
Tarazona, A. Sampri, G. Isola, D. Pérez-Serrano, V. Trajkovik, L. Klucar, T. Loncar-Turukalo,
A.S. Havulinna, C. Jansen, R.J. Bertelsen, M.J. Claesson, Frontiers in Microbiology
14 (2023).
date_created: 2023-10-22T22:01:16Z
date_published: 2023-09-25T00:00:00Z
date_updated: 2023-12-13T13:07:21Z
day: '25'
ddc:
- '000'
department:
- _id: ScienComp
doi: 10.3389/fmicb.2023.1257002
external_id:
isi:
- '001080536000001'
pmid:
- '37808321'
file:
- access_level: open_access
checksum: 6c0acdd8fa111a699826957b8dff19d5
content_type: application/pdf
creator: dernst
date_created: 2023-10-30T13:38:48Z
date_updated: 2023-10-30T13:38:48Z
file_id: '14471'
file_name: 2023_FrontiersMicrobiology_DElia.pdf
file_size: 505078
relation: main_file
success: 1
file_date_updated: 2023-10-30T13:38:48Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
publication: Frontiers in Microbiology
publication_identifier:
eissn:
- 1664-302X
publication_status: published
publisher: Frontiers
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Advancing microbiome research with machine learning: Key findings from the
ML4Microbiome COST action'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2023'
...
---
_id: '13125'
abstract:
- lang: eng
text: 'The quantum approximate optimization algorithm (QAOA) is a variational quantum
algorithm, where a quantum computer implements a variational ansatz consisting
of p layers of alternating unitary operators and a classical computer is used
to optimize the variational parameters. For a random initialization, the optimization
typically leads to local minima with poor performance, motivating the search for
initialization strategies of QAOA variational parameters. Although numerous heuristic
initializations exist, an analytical understanding and performance guarantees
for large p remain evasive.We introduce a greedy initialization of QAOA which
guarantees improving performance with an increasing number of layers. Our main
result is an analytic construction of 2p + 1 transition states—saddle points with
a unique negative curvature direction—for QAOA with p + 1 layers that use the
local minimum of QAOA with p layers. Transition states connect to new local minima,
which are guaranteed to lower the energy compared to the minimum found for p layers.
We use the GREEDY procedure to navigate the exponentially increasing with p number
of local minima resulting from the recursive application of our analytic construction.
The performance of the GREEDY procedure matches available initialization strategies
while providing a guarantee for the minimal energy to decrease with an increasing
number of layers p. '
acknowledgement: 'We thank V. Verteletskyi for a joint collaboration on numerical
studies of the QAOA during his internship at ISTA that inspired analytic results
on TS reported in this work. We acknowledge A. A. Mele and M. Brooks for discussions
and D. Egger, P. Love, and D. Wierichs for valuable feedback on the manuscript.
S.H.S., R.A.M., and M.S. acknowledge support by the European Research Council (ERC)
under the European Union’s Horizon 2020 research and innovation program (Grant Agreement
No. 850899). R.K. is supported by the SFB BeyondC (Grant No. F7107-N38) and the
project QuantumReady (FFG 896217). '
article_number: '062404'
article_processing_charge: No
article_type: original
author:
- first_name: Stefan
full_name: Sack, Stefan
id: dd622248-f6e0-11ea-865d-ce382a1c81a5
last_name: Sack
orcid: 0000-0001-5400-8508
- first_name: Raimel A
full_name: Medina Ramos, Raimel A
id: CE680B90-D85A-11E9-B684-C920E6697425
last_name: Medina Ramos
orcid: 0000-0002-5383-2869
- first_name: Richard
full_name: Kueng, Richard
last_name: Kueng
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
citation:
ama: Sack S, Medina Ramos RA, Kueng R, Serbyn M. Recursive greedy initialization
of the quantum approximate optimization algorithm with guaranteed improvement.
Physical Review A. 2023;107(6). doi:10.1103/physreva.107.062404
apa: Sack, S., Medina Ramos, R. A., Kueng, R., & Serbyn, M. (2023). Recursive
greedy initialization of the quantum approximate optimization algorithm with guaranteed
improvement. Physical Review A. American Physical Society. https://doi.org/10.1103/physreva.107.062404
chicago: Sack, Stefan, Raimel A Medina Ramos, Richard Kueng, and Maksym Serbyn.
“Recursive Greedy Initialization of the Quantum Approximate Optimization Algorithm
with Guaranteed Improvement.” Physical Review A. American Physical Society,
2023. https://doi.org/10.1103/physreva.107.062404.
ieee: S. Sack, R. A. Medina Ramos, R. Kueng, and M. Serbyn, “Recursive greedy initialization
of the quantum approximate optimization algorithm with guaranteed improvement,”
Physical Review A, vol. 107, no. 6. American Physical Society, 2023.
ista: Sack S, Medina Ramos RA, Kueng R, Serbyn M. 2023. Recursive greedy initialization
of the quantum approximate optimization algorithm with guaranteed improvement.
Physical Review A. 107(6), 062404.
mla: Sack, Stefan, et al. “Recursive Greedy Initialization of the Quantum Approximate
Optimization Algorithm with Guaranteed Improvement.” Physical Review A,
vol. 107, no. 6, 062404, American Physical Society, 2023, doi:10.1103/physreva.107.062404.
short: S. Sack, R.A. Medina Ramos, R. Kueng, M. Serbyn, Physical Review A 107 (2023).
date_created: 2023-06-07T06:57:32Z
date_published: 2023-06-02T00:00:00Z
date_updated: 2023-12-13T14:47:25Z
day: '02'
ddc:
- '530'
department:
- _id: MaSe
doi: 10.1103/physreva.107.062404
ec_funded: 1
external_id:
arxiv:
- '2209.01159'
isi:
- '001016927100012'
file:
- access_level: open_access
checksum: 0d71423888eeccaa60d8f41197f26306
content_type: application/pdf
creator: dernst
date_created: 2023-06-13T07:28:36Z
date_updated: 2023-06-13T07:28:36Z
file_id: '13131'
file_name: 2023_PhysRevA_Sack.pdf
file_size: 2524611
relation: main_file
success: 1
file_date_updated: 2023-06-13T07:28:36Z
has_accepted_license: '1'
intvolume: ' 107'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
project:
- _id: 23841C26-32DE-11EA-91FC-C7463DDC885E
call_identifier: H2020
grant_number: '850899'
name: 'Non-Ergodic Quantum Matter: Universality, Dynamics and Control'
publication: Physical Review A
publication_identifier:
eissn:
- 2469-9934
issn:
- 2469-9926
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
related_material:
record:
- id: '14622'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Recursive greedy initialization of the quantum approximate optimization algorithm
with guaranteed improvement
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 107
year: '2023'
...
---
_id: '14445'
abstract:
- lang: eng
text: "We prove the following quantitative Borsuk–Ulam-type result (an equivariant
analogue of Gromov’s Topological Overlap Theorem): Let X be a free ℤ/2-complex
of dimension d with coboundary expansion at least ηk in dimension 0 ≤ k < d. Then
for every equivariant map F: X →ℤ/2 ℝd, the fraction of d-simplices σ of X with
0 ∈ F (σ) is at least 2−d Π d−1k=0ηk.\r\n\r\nAs an application, we show that for
every sufficiently thick d-dimensional spherical building Y and every map f: Y
→ ℝ2d, we have f(σ) ∩ f(τ) ≠ ∅ for a constant fraction μd > 0 of pairs {σ, τ}
of d-simplices of Y. In particular, such complexes are non-embeddable into ℝ2d,
which proves a conjecture of Tancer and Vorwerk for sufficiently thick spherical
buildings.\r\n\r\nWe complement these results by upper bounds on the coboundary
expansion of two families of simplicial complexes; this indicates some limitations
to the bounds one can obtain by straighforward applications of the quantitative
Borsuk–Ulam theorem. Specifically, we prove\r\n\r\n• an upper bound of (d + 1)/2d
on the normalized (d − 1)-th coboundary expansion constant of complete (d + 1)-partite
d-dimensional complexes (under a mild divisibility assumption on the sizes of
the parts); and\r\n\r\n• an upper bound of (d + 1)/2d + ε on the normalized (d
− 1)-th coboundary expansion of the d-dimensional spherical building associated
with GLd+2(Fq) for any ε > 0 and sufficiently large q. This disproves, in a rather
strong sense, a conjecture of Lubotzky, Meshulam and Mozes."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
- first_name: Pascal
full_name: Wild, Pascal
id: 4C20D868-F248-11E8-B48F-1D18A9856A87
last_name: Wild
citation:
ama: Wagner U, Wild P. Coboundary expansion, equivariant overlap, and crossing numbers
of simplicial complexes. Israel Journal of Mathematics. 2023;256(2):675-717.
doi:10.1007/s11856-023-2521-9
apa: Wagner, U., & Wild, P. (2023). Coboundary expansion, equivariant overlap,
and crossing numbers of simplicial complexes. Israel Journal of Mathematics.
Springer Nature. https://doi.org/10.1007/s11856-023-2521-9
chicago: Wagner, Uli, and Pascal Wild. “Coboundary Expansion, Equivariant Overlap,
and Crossing Numbers of Simplicial Complexes.” Israel Journal of Mathematics.
Springer Nature, 2023. https://doi.org/10.1007/s11856-023-2521-9.
ieee: U. Wagner and P. Wild, “Coboundary expansion, equivariant overlap, and crossing
numbers of simplicial complexes,” Israel Journal of Mathematics, vol. 256,
no. 2. Springer Nature, pp. 675–717, 2023.
ista: Wagner U, Wild P. 2023. Coboundary expansion, equivariant overlap, and crossing
numbers of simplicial complexes. Israel Journal of Mathematics. 256(2), 675–717.
mla: Wagner, Uli, and Pascal Wild. “Coboundary Expansion, Equivariant Overlap, and
Crossing Numbers of Simplicial Complexes.” Israel Journal of Mathematics,
vol. 256, no. 2, Springer Nature, 2023, pp. 675–717, doi:10.1007/s11856-023-2521-9.
short: U. Wagner, P. Wild, Israel Journal of Mathematics 256 (2023) 675–717.
date_created: 2023-10-22T22:01:14Z
date_published: 2023-09-01T00:00:00Z
date_updated: 2023-12-13T13:09:07Z
day: '01'
ddc:
- '510'
department:
- _id: UlWa
doi: 10.1007/s11856-023-2521-9
external_id:
isi:
- '001081646400010'
file:
- access_level: open_access
checksum: fbb05619fe4b650f341cc730425dd9c3
content_type: application/pdf
creator: dernst
date_created: 2023-10-31T11:20:31Z
date_updated: 2023-10-31T11:20:31Z
file_id: '14475'
file_name: 2023_IsraelJourMath_Wagner.pdf
file_size: 623787
relation: main_file
success: 1
file_date_updated: 2023-10-31T11:20:31Z
has_accepted_license: '1'
intvolume: ' 256'
isi: 1
issue: '2'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 675-717
publication: Israel Journal of Mathematics
publication_identifier:
eissn:
- 1565-8511
issn:
- 0021-2172
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Coboundary expansion, equivariant overlap, and crossing numbers of simplicial
complexes
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 256
year: '2023'
...
---
_id: '14447'
abstract:
- lang: eng
text: "Auxin belongs among major phytohormones and governs multiple aspects of plant
growth and development. The establishment of auxin concentration gradients, determines,
among other processes, plant organ positioning and growth responses to environmental
stimuli.\r\nHerein we report the synthesis of new NBD- or DNS-labelled IAA derivatives
and the elucidation of their biological activity, fluorescence properties and
subcellular accumulation patterns in planta. These novel compounds did not show
auxin-like activity, but instead antagonized physiological auxin effects. The
DNS-labelled derivatives FL5 and FL6 showed strong anti-auxin activity in roots
and hypocotyls, which also occurred at the level of gene transcription as confirmed
by quantitative PCR analysis. The auxin antagonism of our derivatives was further
demonstrated in vitro using an SPR-based binding assay. The NBD-labelled compound
FL4 with the best fluorescence properties proved to be unsuitable to study auxin
accumulation patterns in planta. On the other hand, the strongest anti-auxin activity
possessing compounds FL5 and FL6 could be useful to study binding mechanisms to
auxin receptors and for manipulations of auxin-regulated processes."
acknowledgement: The authors would like to thank Karolína Kubiasová and Iñigo Saiz-Fernández
for valuable scientific discussions. Open access publishing supported by the National
Technical Library in Prague. This work was supported by the Palacký University Olomouc
Young Researcher Grant Competition (JG_2020_002), by the Internal Grant Agency of
Palacký University Olomouc (IGA_PrF_2023_016, IGA_PrF_2023_031), by the Ministry
of Education, Youth and Sports of the Czech Republic through the European Regional
Development Fund-Project Plants as a tool for sustainable global development (CZ.02.1.01/0.0/0.0/16_019/0000827)
and the project Support of mobility at Palacký University Olomouc II. (CZ.02.2.69/0.0/0.0/18_053/0016919).
The Biacore T200 SPR instrument was provided by the WISB Research Technology Facility
within the School of Life Sciences, University of Warwick.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Kristýna
full_name: Bieleszová, Kristýna
last_name: Bieleszová
- first_name: Pavel
full_name: Hladík, Pavel
last_name: Hladík
- first_name: Martin
full_name: Kubala, Martin
last_name: Kubala
- first_name: Richard
full_name: Napier, Richard
last_name: Napier
- first_name: Federica
full_name: Brunoni, Federica
last_name: Brunoni
- first_name: Zuzana
full_name: Gelová, Zuzana
id: 0AE74790-0E0B-11E9-ABC7-1ACFE5697425
last_name: Gelová
orcid: 0000-0003-4783-1752
- first_name: Lukas
full_name: Fiedler, Lukas
id: 7c417475-8972-11ed-ae7b-8b674ca26986
last_name: Fiedler
- first_name: Ivan
full_name: Kulich, Ivan
id: 57a1567c-8314-11eb-9063-c9ddc3451a54
last_name: Kulich
- first_name: Miroslav
full_name: Strnad, Miroslav
last_name: Strnad
- first_name: Karel
full_name: Doležal, Karel
last_name: Doležal
- first_name: Ondřej
full_name: Novák, Ondřej
last_name: Novák
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Asta
full_name: Žukauskaitė, Asta
last_name: Žukauskaitė
citation:
ama: 'Bieleszová K, Hladík P, Kubala M, et al. New fluorescent auxin derivatives:
anti-auxin activity and accumulation patterns in Arabidopsis thaliana. Plant
Growth Regulation. 2023. doi:10.1007/s10725-023-01083-0'
apa: 'Bieleszová, K., Hladík, P., Kubala, M., Napier, R., Brunoni, F., Gelová, Z.,
… Žukauskaitė, A. (2023). New fluorescent auxin derivatives: anti-auxin activity
and accumulation patterns in Arabidopsis thaliana. Plant Growth Regulation.
Springer Nature. https://doi.org/10.1007/s10725-023-01083-0'
chicago: 'Bieleszová, Kristýna, Pavel Hladík, Martin Kubala, Richard Napier, Federica
Brunoni, Zuzana Gelová, Lukas Fiedler, et al. “New Fluorescent Auxin Derivatives:
Anti-Auxin Activity and Accumulation Patterns in Arabidopsis Thaliana.” Plant
Growth Regulation. Springer Nature, 2023. https://doi.org/10.1007/s10725-023-01083-0.'
ieee: 'K. Bieleszová et al., “New fluorescent auxin derivatives: anti-auxin
activity and accumulation patterns in Arabidopsis thaliana,” Plant Growth Regulation.
Springer Nature, 2023.'
ista: 'Bieleszová K, Hladík P, Kubala M, Napier R, Brunoni F, Gelová Z, Fiedler
L, Kulich I, Strnad M, Doležal K, Novák O, Friml J, Žukauskaitė A. 2023. New fluorescent
auxin derivatives: anti-auxin activity and accumulation patterns in Arabidopsis
thaliana. Plant Growth Regulation.'
mla: 'Bieleszová, Kristýna, et al. “New Fluorescent Auxin Derivatives: Anti-Auxin
Activity and Accumulation Patterns in Arabidopsis Thaliana.” Plant Growth Regulation,
Springer Nature, 2023, doi:10.1007/s10725-023-01083-0.'
short: K. Bieleszová, P. Hladík, M. Kubala, R. Napier, F. Brunoni, Z. Gelová, L.
Fiedler, I. Kulich, M. Strnad, K. Doležal, O. Novák, J. Friml, A. Žukauskaitė,
Plant Growth Regulation (2023).
date_created: 2023-10-22T22:01:15Z
date_published: 2023-10-13T00:00:00Z
date_updated: 2023-12-13T13:08:25Z
day: '13'
department:
- _id: JiFr
doi: 10.1007/s10725-023-01083-0
external_id:
isi:
- '001084334300001'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1007/s10725-023-01083-0
month: '10'
oa: 1
oa_version: Published Version
publication: Plant Growth Regulation
publication_identifier:
eissn:
- 1573-5087
issn:
- 0167-6903
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'New fluorescent auxin derivatives: anti-auxin activity and accumulation patterns
in Arabidopsis thaliana'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14622'
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Stefan
full_name: Sack, Stefan
id: dd622248-f6e0-11ea-865d-ce382a1c81a5
last_name: Sack
orcid: 0000-0001-5400-8508
citation:
ama: 'Sack S. Improving variational quantum algorithms: Innovative initialization
techniques and extensions to qudit systems. 2023. doi:10.15479/at:ista:14622'
apa: 'Sack, S. (2023). Improving variational quantum algorithms: Innovative initialization
techniques and extensions to qudit systems. Institute of Science and Technology
Austria. https://doi.org/10.15479/at:ista:14622'
chicago: 'Sack, Stefan. “Improving Variational Quantum Algorithms: Innovative Initialization
Techniques and Extensions to Qudit Systems.” Institute of Science and Technology
Austria, 2023. https://doi.org/10.15479/at:ista:14622.'
ieee: 'S. Sack, “Improving variational quantum algorithms: Innovative initialization
techniques and extensions to qudit systems,” Institute of Science and Technology
Austria, 2023.'
ista: 'Sack S. 2023. Improving variational quantum algorithms: Innovative initialization
techniques and extensions to qudit systems. Institute of Science and Technology
Austria.'
mla: 'Sack, Stefan. Improving Variational Quantum Algorithms: Innovative Initialization
Techniques and Extensions to Qudit Systems. Institute of Science and Technology
Austria, 2023, doi:10.15479/at:ista:14622.'
short: 'S. Sack, Improving Variational Quantum Algorithms: Innovative Initialization
Techniques and Extensions to Qudit Systems, Institute of Science and Technology
Austria, 2023.'
date_created: 2023-11-28T10:58:13Z
date_published: 2023-11-30T00:00:00Z
date_updated: 2023-12-13T14:47:25Z
day: '30'
ddc:
- '530'
degree_awarded: PhD
department:
- _id: GradSch
- _id: MaSe
doi: 10.15479/at:ista:14622
ec_funded: 1
file:
- access_level: closed
checksum: 068fd3570506ec42b2faa390de784bc4
content_type: application/pdf
creator: ssack
date_created: 2023-11-30T15:53:10Z
date_updated: 2023-12-01T11:10:46Z
embargo: 2024-11-30
embargo_to: open_access
file_id: '14635'
file_name: PhD_Thesis.pdf
file_size: 11947523
relation: main_file
- access_level: closed
checksum: 0fa3bc0d108aed0ac59d2c6beef2220a
content_type: application/zip
creator: ssack
date_created: 2023-11-30T15:54:11Z
date_updated: 2023-12-01T11:10:46Z
file_id: '14636'
file_name: PhD Thesis (1).zip
file_size: 18422964
relation: source_file
file_date_updated: 2023-12-01T11:10:46Z
has_accepted_license: '1'
language:
- iso: eng
month: '11'
oa_version: Published Version
page: '142'
project:
- _id: bd660c93-d553-11ed-ba76-fb0fb6f49c0d
name: Quantum_Quantum Circuits and Software_Variational quantum algorithms on NISQ
devices
- _id: 23841C26-32DE-11EA-91FC-C7463DDC885E
call_identifier: H2020
grant_number: '850899'
name: 'Non-Ergodic Quantum Matter: Universality, Dynamics and Control'
publication_identifier:
issn:
- 2663 - 337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '11471'
relation: part_of_dissertation
status: public
- id: '13125'
relation: part_of_dissertation
status: public
- id: '9760'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
title: 'Improving variational quantum algorithms: Innovative initialization techniques
and extensions to qudit systems'
tmp:
image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2023'
...
---
_id: '14683'
abstract:
- lang: eng
text: "Mosaic analysis with double markers (MADM) technology enables the generation
of genetic mosaic tissue in mice and high-resolution phenotyping at the individual
cell level. Here, we present a protocol for isolating MADM-labeled cells with
high yield for downstream molecular analyses using fluorescence-activated cell
sorting (FACS). We describe steps for generating MADM-labeled mice, perfusion,
single-cell suspension, and debris removal. We then detail procedures for cell
sorting by FACS and downstream analysis. This protocol is suitable for embryonic
to adult mice.\r\nFor complete details on the use and execution of this protocol,
please refer to Contreras et al. (2021).1"
acknowledged_ssus:
- _id: Bio
- _id: PreCl
acknowledgement: This research was supported by the Scientific Service Units (SSU)
at IST Austria through resources provided by the Imaging & Optics Facility (IOF)
and Preclinical Facilities (PCF). N.A. received support from FWF Firnberg-Programme
(T 1031). G.C. received support from the European Union’s Horizon 2020 research
and innovation programme under the Marie Skłodowska-Curie grant agreement no. 754411
as an ISTplus postdoctoral fellow. This work was also supported by IST Austria institutional
funds, FWF SFB F78 to S.H., and the European Research Council (ERC) under the European
Union’s Horizon 2020 research and innovation programme (grant agreement no. 725780
LinPro) to S.H.
article_number: '102771'
article_processing_charge: No
article_type: review
author:
- first_name: Nicole
full_name: Amberg, Nicole
id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87
last_name: Amberg
orcid: 0000-0002-3183-8207
- first_name: Giselle T
full_name: Cheung, Giselle T
id: 471195F6-F248-11E8-B48F-1D18A9856A87
last_name: Cheung
orcid: 0000-0001-8457-2572
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
citation:
ama: Amberg N, Cheung GT, Hippenmeyer S. Protocol for sorting cells from mouse brains
labeled with mosaic analysis with double markers by flow cytometry. STAR Protocols.
2023;5(1). doi:10.1016/j.xpro.2023.102771
apa: Amberg, N., Cheung, G. T., & Hippenmeyer, S. (2023). Protocol for sorting
cells from mouse brains labeled with mosaic analysis with double markers by flow
cytometry. STAR Protocols. Elsevier. https://doi.org/10.1016/j.xpro.2023.102771
chicago: Amberg, Nicole, Giselle T Cheung, and Simon Hippenmeyer. “Protocol for
Sorting Cells from Mouse Brains Labeled with Mosaic Analysis with Double Markers
by Flow Cytometry.” STAR Protocols. Elsevier, 2023. https://doi.org/10.1016/j.xpro.2023.102771.
ieee: N. Amberg, G. T. Cheung, and S. Hippenmeyer, “Protocol for sorting cells from
mouse brains labeled with mosaic analysis with double markers by flow cytometry,”
STAR Protocols, vol. 5, no. 1. Elsevier, 2023.
ista: Amberg N, Cheung GT, Hippenmeyer S. 2023. Protocol for sorting cells from
mouse brains labeled with mosaic analysis with double markers by flow cytometry.
STAR Protocols. 5(1), 102771.
mla: Amberg, Nicole, et al. “Protocol for Sorting Cells from Mouse Brains Labeled
with Mosaic Analysis with Double Markers by Flow Cytometry.” STAR Protocols,
vol. 5, no. 1, 102771, Elsevier, 2023, doi:10.1016/j.xpro.2023.102771.
short: N. Amberg, G.T. Cheung, S. Hippenmeyer, STAR Protocols 5 (2023).
date_created: 2023-12-13T11:48:05Z
date_published: 2023-12-08T00:00:00Z
date_updated: 2023-12-18T08:06:14Z
day: '08'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.1016/j.xpro.2023.102771
ec_funded: 1
external_id:
pmid:
- '38070137'
intvolume: ' 5'
issue: '1'
keyword:
- General Immunology and Microbiology
- General Biochemistry
- Genetics and Molecular Biology
- General Neuroscience
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.xpro.2023.102771
month: '12'
oa: 1
oa_version: Submitted Version
pmid: 1
project:
- _id: 268F8446-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: T0101031
name: Role of Eed in neural stem cell lineage progression
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
- _id: 059F6AB4-7A3F-11EA-A408-12923DDC885E
grant_number: F07805
name: Molecular Mechanisms of Neural Stem Cell Lineage Progression
- _id: 260018B0-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '725780'
name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
publication: STAR Protocols
publication_identifier:
issn:
- 2666-1667
publication_status: epub_ahead
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Protocol for sorting cells from mouse brains labeled with mosaic analysis with
double markers by flow cytometry
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2023'
...
---
_id: '12486'
abstract:
- lang: eng
text: This paper is concerned with the problem of regularization by noise of systems
of reaction–diffusion equations with mass control. It is known that strong solutions
to such systems of PDEs may blow-up in finite time. Moreover, for many systems
of practical interest, establishing whether the blow-up occurs or not is an open
question. Here we prove that a suitable multiplicative noise of transport type
has a regularizing effect. More precisely, for both a sufficiently noise intensity
and a high spectrum, the blow-up of strong solutions is delayed up to an arbitrary
large time. Global existence is shown for the case of exponentially decreasing
mass. The proofs combine and extend recent developments in regularization by noise
and in the Lp(Lq)-approach to stochastic PDEs, highlighting new connections between
the two areas.
acknowledgement: "The author has received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation programme
(Grant Agreement No. 948819).\r\nThe author thanks Lorenzo Dello Schiavo, Lucio
Galeati and Mark Veraar for helpful comments. The author acknowledges Caterina Balzotti
for her support in creating the picture. The author\r\nthanks the anonymous referee
for helpful comments. "
article_processing_charge: No
article_type: original
author:
- first_name: Antonio
full_name: Agresti, Antonio
id: 673cd0cc-9b9a-11eb-b144-88f30e1fbb72
last_name: Agresti
orcid: 0000-0002-9573-2962
citation:
ama: 'Agresti A. Delayed blow-up and enhanced diffusion by transport noise for systems
of reaction-diffusion equations. Stochastics and Partial Differential Equations:
Analysis and Computations. 2023. doi:10.1007/s40072-023-00319-4'
apa: 'Agresti, A. (2023). Delayed blow-up and enhanced diffusion by transport noise
for systems of reaction-diffusion equations. Stochastics and Partial Differential
Equations: Analysis and Computations. Springer Nature. https://doi.org/10.1007/s40072-023-00319-4'
chicago: 'Agresti, Antonio. “Delayed Blow-up and Enhanced Diffusion by Transport
Noise for Systems of Reaction-Diffusion Equations.” Stochastics and Partial
Differential Equations: Analysis and Computations. Springer Nature, 2023.
https://doi.org/10.1007/s40072-023-00319-4.'
ieee: 'A. Agresti, “Delayed blow-up and enhanced diffusion by transport noise for
systems of reaction-diffusion equations,” Stochastics and Partial Differential
Equations: Analysis and Computations. Springer Nature, 2023.'
ista: 'Agresti A. 2023. Delayed blow-up and enhanced diffusion by transport noise
for systems of reaction-diffusion equations. Stochastics and Partial Differential
Equations: Analysis and Computations.'
mla: 'Agresti, Antonio. “Delayed Blow-up and Enhanced Diffusion by Transport Noise
for Systems of Reaction-Diffusion Equations.” Stochastics and Partial Differential
Equations: Analysis and Computations, Springer Nature, 2023, doi:10.1007/s40072-023-00319-4.'
short: 'A. Agresti, Stochastics and Partial Differential Equations: Analysis and
Computations (2023).'
date_created: 2023-02-02T10:45:47Z
date_published: 2023-11-28T00:00:00Z
date_updated: 2023-12-18T07:53:45Z
day: '28'
ddc:
- '510'
department:
- _id: JuFi
doi: 10.1007/s40072-023-00319-4
ec_funded: 1
external_id:
arxiv:
- '2207.08293'
has_accepted_license: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1007/s40072-023-00319-4
month: '11'
oa: 1
oa_version: Submitted Version
project:
- _id: 0aa76401-070f-11eb-9043-b5bb049fa26d
call_identifier: H2020
grant_number: '948819'
name: Bridging Scales in Random Materials
publication: 'Stochastics and Partial Differential Equations: Analysis and Computations'
publication_identifier:
eissn:
- 2194-041X
issn:
- 2194-0401
publication_status: epub_ahead
publisher: Springer Nature
scopus_import: '1'
status: public
title: Delayed blow-up and enhanced diffusion by transport noise for systems of reaction-diffusion
equations
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14665'
abstract:
- lang: eng
text: We derive lower bounds on the maximal rates for multiple packings in high-dimensional
Euclidean spaces. For any N > 0 and L ∈ Z ≥2 , a multiple packing is a set C of
points in R n such that any point in R n lies in the intersection of at most L
- 1 balls of radius √ nN around points in C . This is a natural generalization
of the sphere packing problem. We study the multiple packing problem for both
bounded point sets whose points have norm at most √ nP for some constant P > 0,
and unbounded point sets whose points are allowed to be anywhere in R n . Given
a well-known connection with coding theory, multiple packings can be viewed as
the Euclidean analog of list-decodable codes, which are well-studied over finite
fields. We derive the best known lower bounds on the optimal multiple packing
density. This is accomplished by establishing an inequality which relates the
list-decoding error exponent for additive white Gaussian noise channels, a quantity
of average-case nature, to the list-decoding radius, a quantity of worst-case
nature. We also derive novel bounds on the list-decoding error exponent for infinite
constellations and closed-form expressions for the list-decoding error exponents
for the power-constrained AWGN channel, which may be of independent interest beyond
multiple packing.
article_processing_charge: No
article_type: original
author:
- first_name: Yihan
full_name: Zhang, Yihan
id: 2ce5da42-b2ea-11eb-bba5-9f264e9d002c
last_name: Zhang
orcid: 0000-0002-6465-6258
- first_name: Shashank
full_name: Vatedka, Shashank
last_name: Vatedka
citation:
ama: 'Zhang Y, Vatedka S. Multiple packing: Lower bounds via error exponents. IEEE
Transactions on Information Theory. 2023. doi:10.1109/TIT.2023.3334032'
apa: 'Zhang, Y., & Vatedka, S. (2023). Multiple packing: Lower bounds via error
exponents. IEEE Transactions on Information Theory. IEEE. https://doi.org/10.1109/TIT.2023.3334032'
chicago: 'Zhang, Yihan, and Shashank Vatedka. “Multiple Packing: Lower Bounds via
Error Exponents.” IEEE Transactions on Information Theory. IEEE, 2023.
https://doi.org/10.1109/TIT.2023.3334032.'
ieee: 'Y. Zhang and S. Vatedka, “Multiple packing: Lower bounds via error exponents,”
IEEE Transactions on Information Theory. IEEE, 2023.'
ista: 'Zhang Y, Vatedka S. 2023. Multiple packing: Lower bounds via error exponents.
IEEE Transactions on Information Theory.'
mla: 'Zhang, Yihan, and Shashank Vatedka. “Multiple Packing: Lower Bounds via Error
Exponents.” IEEE Transactions on Information Theory, IEEE, 2023, doi:10.1109/TIT.2023.3334032.'
short: Y. Zhang, S. Vatedka, IEEE Transactions on Information Theory (2023).
date_created: 2023-12-10T23:01:00Z
date_published: 2023-11-16T00:00:00Z
date_updated: 2023-12-18T07:46:45Z
day: '16'
department:
- _id: MaMo
doi: 10.1109/TIT.2023.3334032
external_id:
arxiv:
- '2211.04408'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2211.04408
month: '11'
oa: 1
oa_version: Preprint
publication: IEEE Transactions on Information Theory
publication_identifier:
eissn:
- 1557-9654
issn:
- 0018-9448
publication_status: epub_ahead
publisher: IEEE
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Multiple packing: Lower bounds via error exponents'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14693'
abstract:
- lang: eng
text: "Lucas sequences are constant-recursive integer sequences with a long history
of applications in cryptography, both in the design of cryptographic schemes and
cryptanalysis. In this work, we study the sequential hardness of computing Lucas
sequences over an RSA modulus.\r\nFirst, we show that modular Lucas sequences
are at least as sequentially hard as the classical delay function given by iterated
modular squaring proposed by Rivest, Shamir, and Wagner (MIT Tech. Rep. 1996)
in the context of time-lock puzzles. Moreover, there is no obvious reduction in
the other direction, which suggests that the assumption of sequential hardness
of modular Lucas sequences is strictly weaker than that of iterated modular squaring.
In other words, the sequential hardness of modular Lucas sequences might hold
even in the case of an algorithmic improvement violating the sequential hardness
of iterated modular squaring.\r\nSecond, we demonstrate the feasibility of constructing
practically-efficient verifiable delay functions based on the sequential hardness
of modular Lucas sequences. Our construction builds on the work of Pietrzak (ITCS
2019) by leveraging the intrinsic connection between the problem of computing
modular Lucas sequences and exponentiation in an appropriate extension field."
acknowledgement: "Home Theory of Cryptography Conference paper\r\n(Verifiable) Delay
Functions from Lucas Sequences\r\nDownload book PDF\r\nDownload book EPUB\r\nSimilar
content being viewed by others\r\n\r\nSlider with three content items shown per
slide. Use the Previous and Next buttons to navigate the slides or the slide controller
buttons at the end to navigate through each slide.\r\nPrevious slide\r\nGeneric-Group
Delay Functions Require Hidden-Order Groups\r\nChapter© 2020\r\n\r\nShifted powers
in Lucas–Lehmer sequences\r\nArticle30 January 2019\r\n\r\nA New Class of Trapdoor
Verifiable Delay Functions\r\nChapter© 2023\r\n\r\nWeak Pseudoprimality Associated
with the Generalized Lucas Sequences\r\nChapter© 2022\r\n\r\nOn the Security of
Time-Lock Puzzles and Timed Commitments\r\nChapter© 2020\r\n\r\nGeneration of full
cycles by a composition of NLFSRs\r\nArticle08 March 2014\r\n\r\nCryptographically
Strong de Bruijn Sequences with Large Periods\r\nChapter© 2013\r\n\r\nOpen Problems
on With-Carry Sequence Generators\r\nChapter© 2014\r\n\r\nGenerically Speeding-Up
Repeated Squaring Is Equivalent to Factoring: Sharp Thresholds for All Generic-Ring
Delay Functions\r\nChapter© 2020\r\n\r\nNext slide\r\nGo to slide 1\r\nGo to slide
2\r\nGo to slide 3\r\n(Verifiable) Delay Functions from Lucas Sequences\r\nCharlotte
Hoffmann, Pavel Hubáček, Chethan Kamath & Tomáš Krňák \r\nConference paper\r\nFirst
Online: 27 November 2023\r\n83 Accesses\r\n\r\nPart of the Lecture Notes in Computer
Science book series (LNCS,volume 14372)\r\n\r\nAbstract\r\nLucas sequences are constant-recursive
integer sequences with a long history of applications in cryptography, both in the
design of cryptographic schemes and cryptanalysis. In this work, we study the sequential
hardness of computing Lucas sequences over an RSA modulus.\r\n\r\nFirst, we show
that modular Lucas sequences are at least as sequentially hard as the classical
delay function given by iterated modular squaring proposed by Rivest, Shamir, and
Wagner (MIT Tech. Rep. 1996) in the context of time-lock puzzles. Moreover, there
is no obvious reduction in the other direction, which suggests that the assumption
of sequential hardness of modular Lucas sequences is strictly weaker than that of
iterated modular squaring. In other words, the sequential hardness of modular Lucas
sequences might hold even in the case of an algorithmic improvement violating the
sequential hardness of iterated modular squaring.\r\n\r\nSecond, we demonstrate
the feasibility of constructing practically-efficient verifiable delay functions
based on the sequential hardness of modular Lucas sequences. Our construction builds
on the work of Pietrzak (ITCS 2019) by leveraging the intrinsic connection between
the problem of computing modular Lucas sequences and exponentiation in an appropriate
extension field.\r\n\r\nKeywords\r\nDelay functions\r\nVerifiable delay functions\r\nLucas
sequences\r\nDownload conference paper PDF\r\n\r\n1 Introduction\r\nA verifiable
delay function (VDF) \r\n is a function that satisfies two properties. First, it
is a delay function, which means it must take a prescribed (wall) time T to compute
f, irrespective of the amount of parallelism available. Second, it should be possible
for anyone to quickly verify – say, given a short proof \r\n – the value of the
function (even without resorting to parallelism), where by quickly we mean that
the verification time should be independent of or significantly smaller than T (e.g.,
logarithmic in T). If we drop either of the two requirements, then the primitive
turns out trivial to construct. For instance, for an appropriately chosen hash function
h, the delay function \r\n defined by T-times iterated hashing of the input is a
natural heuristic for an inherently sequential task which, however, seems hard to
verify more efficiently than by recomputing. On the other hand, the identity function
\r\n is trivial to verify but also easily computable. Designing a simple function
satisfying the two properties simultaneously proved to be a nontrivial task.\r\n\r\nThe
notion of VDFs was introduced in [31] and later formalised in [9]. In principle,
since the task of constructing a VDF reduces to the task of incrementally-verifiable
computation [9, 53], constructions of VDFs could leverage succinct non-interactive
arguments of knowledge (SNARKs): take any sequentially-hard function f (for instance,
iterated hashing) as the delay function and then use the SNARK on top of it as the
mechanism for verifying the computation of the delay function. However, as discussed
in [9], the resulting construction is not quite practical since we would rely on
a general-purpose machinery of SNARKs with significant overhead.\r\n\r\nEfficient
VDFs via Algebraic Delay Functions. VDFs have recently found interesting applications
in design of blockchains [17], randomness beacons [43, 51], proofs of data replication
[9], or short-lived zero-knowledge proofs and signatures [3]. Since efficiency is
an important factor there, this has resulted in a flurry of constructions of VDFs
that are tailored with application and practicality in mind. They rely on more algebraic,
structured delay functions that often involve iterating an atomic operation so that
one can resort to custom proof systems to achieve verifiability. These constructions
involve a range of algebraic settings like the RSA or class groups [5, 8, 25, 42,
55], permutation polynomials over finite fields [9], isogenies of elliptic curves
[21, 52] and, very recently, lattices [15, 28]. The constructions in [42, 55] are
arguably the most practical and the mechanism that underlies their delay function
is the same: carry out iterated squaring in groups of unknown order, like RSA groups
[47] or class groups [12]. What distinguishes these two proposals is the way verification
is carried out, i.e., how the underlying “proof of exponentiation” works: while
Pietrzak [42] resorts to an LFKN-style recursive proof system [35], Wesolowski [55]
uses a clever linear decomposition of the exponent.\r\n\r\nIterated Modular Squaring
and Sequentiality. The delay function that underlies the VDFs in [5, 25, 42, 55]
is the same, and its security relies on the conjectured sequential hardness of iterated
squaring in a group of unknown order (suggested in the context of time-lock puzzles
by Rivest, Shamir, and Wagner [48]). Given that the practically efficient VDFs all
rely on the above single delay function, an immediate open problem is to identify
additional sources of sequential hardness that are structured enough to support
practically efficient verifiability.\r\n\r\n1.1 Our Approach to (Verifiable) Delay
Functions\r\nIn this work, we study an alternative source of sequential hardness
in the algebraic setting and use it to construct efficient verifiable delay functions.
The sequentiality of our delay function relies on an atomic operation that is related
to the computation of so-called Lucas sequences [29, 34, 57], explained next.\r\n\r\nLucas
Sequences. A Lucas sequence is a constant-recursive integer sequence that satisfies
the recurrence relation\r\n\r\nfor integers P and Q.Footnote1 Specifically, the
Lucas sequences of integers \r\n and \r\n of the first and second type (respectively)
are defined recursively as\r\n\r\nwith \r\n, and\r\n\r\nwith \r\n.\r\n\r\nThese
sequences can be alternatively defined by the characteristic polynomial \r\n. Specifically,
given the discriminant \r\n of the characteristic polynomial, one can alternatively
compute the above sequences by performing operations in the extension field\r\n\r\nusing
the identities\r\n\r\nwhere \r\n and its conjugate \r\n are roots of the characteristic
polynomial. Since conjugation and exponentiation commute in the extension field
(i.e., \r\n), computing the i-th terms of the two Lucas sequences over integers
reduces to computing \r\n in the extension field, and vice versa.\r\n\r\nThe intrinsic
connection between computing the terms in the Lucas sequences and that of exponentiation
in the extension has been leveraged to provide alternative instantiations of public-key
encryption schemes like RSA and ElGamal in terms of Lucas sequences [7, 30]. However,
as we explain later, the corresponding underlying computational hardness assumptions
are not necessarily equivalent.\r\n\r\nOverview of Our Delay Function. The delay
function in [5, 25, 42, 55] is defined as the iterated squaring base x in a (safe)
RSA groupFootnote2 modulo N:\r\n\r\nOur delay function is its analogue in the setting
of Lucas sequences:\r\n\r\nAs mentioned above, computing \r\n can be carried out
equivalently in the extension field \r\n using the known relationship to roots of
the characteristic polynomial of the Lucas sequence. Thus, the delay function can
be alternatively defined as\r\n\r\nNote that the atomic operation of our delay function
is “doubling” the index of an element of the Lucas sequence modulo N (i.e., \r\n)
or, equivalently, squaring in the extension field \r\n (as opposed to squaring in
\r\n). Using the representation of \r\n as \r\n, squaring in \r\n can be expressed
as a combination of squaring, multiplication and addition modulo N, since\r\n\r\n(1)\r\nSince
\r\n is a group of unknown order (provided the factorization of N is kept secret),
iterated squaring remains hard here. In fact, we show in Sect. 3.2 that iterated
squaring in \r\n is at least as hard as iterated squaring for RSA moduli N. Moreover,
we conjecture in Conjecture 1 that it is, in fact, strictly harder (also see discussion
below on advantages of our approach).\r\n\r\nVerifying Modular Lucas Sequence. To
obtain a VDF, we need to show how to efficiently verify our delay function. To this
end, we show how to adapt the interactive proof of exponentiation from [42] to our
setting, which then – via the Fiat-Shamir Transform [22] – yields the non-interactive
verification algorithm.Footnote3 Thus, our main result is stated informally below.\r\n\r\nTheorem
1\r\n(Informally stated, see Theorem 2). Assuming sequential hardness of modular
Lucas sequence, there exists statistically-sound VDF in the random-oracle model.\r\n\r\nHowever,
the modification of Pietrzak’s protocol is not trivial and we have to overcome several
hurdles that we face in this task, which we elaborate on in Sect. 1.2. We conclude
this section with discussions about our results.\r\n\r\nAdvantage of Our Approach.
Our main advantage is the reliance on a potentially weaker (sequential) hardness
assumption while maintaining efficiency: we show in Sect. 3.2 that modular Lucas
sequences are at least as sequentially-hard as the classical delay function given
by iterated modular squaring [48]. Despite the linear recursive structure of Lucas
sequences, there is no obvious reduction in the other direction, which suggests
that the assumption of sequential hardness of modular Lucas sequences is strictly
weaker than that of iterated modular squaring (Conjecture 1). In other words, the
sequential hardness of modular Lucas sequences might hold even in the case of an
algorithmic improvement violating the sequential hardness of iterated modular squaring.
Even though both assumptions need the group order to be hidden, we believe that
there is need for a nuanced analysis of sequential hardness assumptions in hidden
order groups, especially because all current delay functions that provide sufficient
structure for applications are based on iterated modular squaring. If the iterated
modular squaring assumption is broken, our delay function is currently the only
practical alternative in the RSA group.\r\n\r\nDelay Functions in Idealised Models.
Recent works studied the relationship of group-theoretic (verifiable) delay functions
to the hardness of factoring in idealised models such as the algebraic group model
and the generic ring model [27, 50]. In the generic ring model, Rotem and Segev
[50] showed the equivalence of straight-line delay functions in the RSA setting
and factoring. Our construction gives rise to a straight-line delay function and,
by their result, its sequentiality is equivalent to factoring for generic algorithms.
However, their result holds only in the generic ring model and leaves the relationship
between the two assumptions unresolved in the standard model.\r\n\r\nCompare this
with the status of the RSA assumption and factoring. On one hand, we know that in
the generic ring model, RSA and factoring are equivalent [2]. Yet, it is possible
to rule out certain classes of reductions from factoring to RSA in the standard
model [11]. Most importantly, despite the equivalence in the generic ring model,
there is currently no reduction from factoring to RSA in the standard model and
it remains one of the major open problems in number theory related to cryptography
since the introduction of the RSA assumption.\r\n\r\nIn summary, speeding up iterated
squaring by a non-generic algorithm could be possible (necessarily exploiting the
representations of ring elements modulo N), while such an algorithm may not lead
to a speed-up in the computation of modular Lucas sequences despite the result of
Rotem and Segev [50].\r\n\r\n1.2 Technical Overview\r\nPietrzak’s VDF. Let \r\n
be an RSA modulus where p and q are safe primes and let x be a random element from
\r\n. At its core, Pietrzak’s VDF relies on the interactive protocol for the statement\r\n\r\n“(N,
x, y, T) satisfies \r\n”.\r\n\r\nThe protocol is recursive and, in a round-by-round
fashion, reduces the claim to a smaller statement by halving the time parameter.
To be precise, in each round, the (honest) prover sends the “midpoint” \r\n of the
current statement to the verifier and they together reduce the statement to\r\n\r\n“\r\n
satisfies \r\n”,\r\n\r\nwhere \r\n and \r\n for a random challenge r. This is continued
till \r\n is obtained at which point the verifier simply checks whether \r\n using
a single modular squaring.\r\n\r\nSince the challenges r are public, the protocol
can be compiled into a non-interactive one using the Fiat-Shamir transform [22]
and this yields a means to verify the delay function\r\n\r\nIt is worth pointing
out that the choice of safe primes is crucial for proving soundness: in case the
group has easy-to-find elements of small order then it becomes easy to break soundness
(see, e.g., [10]).\r\n\r\nAdapting Pietrzak’s Protocol to Lucas Sequences. For a
modulus \r\n and integers \r\n, recall that our delay function is defined as\r\n\r\nor
equivalently\r\n\r\nfor the discriminant \r\n of the characteristic polynomial \r\n.
Towards building a verification algorithm for this delay function, the natural first
step is to design an interactive protocol for the statement\r\n\r\n“(N, P, Q, y,
T) satisfies \r\n.”\r\n\r\nIt turns out that the interactive protocol from [42]
can be adapted for this purpose. However, we encounter two technicalities in this
process.\r\n\r\nDealing with elements of small order. The main problem that we face
while designing our protocol is avoiding elements of small order. In the case of
[42], this was accomplished by moving to the setting of signed quadratic residues
[26] in which the sub-groups are all of large order. It is not clear whether a corresponding
object exists for our algebraic setting. However, in an earlier draft of Pietrzak’s
protocol [41], this problem was dealt with in a different manner: the prover sends
a square root of \r\n, from which the original \r\n can be recovered easily (by
squaring it) with a guarantee that the result lies in a group of quadratic residues
\r\n. Notice that the prover knows the square root of \r\n, because it is just a
previous term in the sequence he computed.\r\n\r\nIn our setting, we cannot simply
ask for the square root of the midpoint as the subgroup of \r\n we effectively work
in has a different structure. Nevertheless, we can use a similar approach: for an
appropriately chosen small a, we provide an a-th root of \r\n (instead of \r\n itself)
to the prover in the beginning of the protocol. The prover then computes the whole
sequence for \r\n. In the end, he has the a-th root of every term of the original
sequence and he can recover any element of the original sequence by raising to the
a-th power.\r\n\r\nSampling strong modulus. The second technicality is related to
the first one. In order to ensure that we can use the above trick, we require a
modulus where the small subgroups are reasonably small not only in the group \r\n
but also in the extension \r\n. Thus the traditional sampling algorithms that are
used to sample strong primes (e.g., [46]) are not sufficient for our purposes. However,
sampling strong primes that suit our criteria can still be carried out efficiently
as we show in the full version.\r\n\r\nComparing Our Technique with [8, 25]. The
VDFs in [8, 25] are also inspired by [42] and, hence, faced the same problem of
low-order elements. In [8], this is dealt with by amplifying the soundness at the
cost of parallel repetition and hence larger proofs and extra computation. In [25],
the number of repetitions of [8] is reduced significantly by introducing the following
technique: The exponent of the initial instance is reduced by some parameter \r\n
and at the end of an interactive phase, the verifier performs final exponentiation
with \r\n, thereby weeding out potential false low-order elements in the claim.
This technique differs from the approach taken in our work in the following ways:
The technique from [25] works in arbitrary groups but it requires the parameter
\r\n to be large and of a specific form. In particular, the VDF becomes more efficient
when \r\n is larger than \r\n. In our protocol, we work in RSA groups whose modulus
is the product of primes that satisfy certain conditions depending on a. This enables
us to choose a parameter a that is smaller than a statistical security parameter
and thereby makes the final exponentiation performed by the verifier much more efficient.
Further, a can be any natural number, while \r\n must be set as powers of all small
prime numbers up a certain bound in [25].\r\n\r\n1.3 More Related Work\r\nTimed
Primitives. The notion of VDFs was introduced in [31] and later formalised in [9].
VDFs are closely related to the notions of time-lock puzzles [48] and proofs of
sequential work [36]. Roughly speaking, a time-lock puzzle is a delay function that
additionally allows efficient sampling of the output via a trapdoor. A proof of
sequential work, on the other hand, is a delay “multi-function”, in the sense that
the output is not necessarily unique. Constructions of time-lock puzzles are rare
[6, 38, 48], and there are known limitations: e.g., that it cannot exist in the
random-oracle model [36]. However, we know how to construct proofs of sequential
work in the random-oracle model [1, 16, 19, 36].\r\n\r\nSince VDFs have found several
applications, e.g., in the design of resource-efficient blockchains [17], randomness
beacons [43, 51] and proof of data replication [9], there have been several constructions.
Among them, the most notable are the iterated-squaring based construction from [8,
25, 42, 55], the permutation-polynomial based construction from [9], the isogenies-based
construction from [13, 21, 52] and the construction from lattice problems [15, 28].
The constructions in [42, 55] are quite practical (see the survey [10]) and the
VDF deployed in the cryptocurrency Chia is basically their construction adapted
to the algebraic setting of class groups [17]. This is arguably the closest work
to ours. On the other hand, the constructions from [21, 52], which work in the algebraic
setting of isogenies of elliptic curves where no analogue of square and multiply
is known, simply rely on “exponentiation”. Although, these constructions provide
a certain form of quantum resistance, they are presently far from efficient. Freitag
et al. [23] constructed VDFs from any sequentially hard function and polynomial
hardness of learning with errors, the first from standard assumptions. The works
of Cini, Lai, and Malavolta [15, 28] constructed the first VDF from lattice-based
assumptions and conjectured it to be post-quantum secure.\r\n\r\nSeveral variants
of VDFs have also been proposed. A VDF is said to be unique if the proof that is
used for verification is unique [42]. Recently, Choudhuri et al. [5] constructed
unique VDFs from the sequential hardness of iterated squaring in any RSA group and
polynomial hardness of LWE. A VDF is tight [18] if the gap between simply computing
the function and computing it with a proof is small. Yet another extension is a
continuous VDF [20]. The feasibility of time-lock puzzles and proofs of sequential
works were recently extended to VDFs. It was shown [50] that the latter requirement,
i.e., working in a group of unknown order, is inherent in a black-box sense. It
was shown in [18, 37] that there are barriers to constructing tight VDFs in the
random-oracle model.\r\n\r\nVDFs also have surprising connection to complexity theory
[14, 20, 33].\r\n\r\nWork Related to Lucas Sequences. Lucas sequences have long
been studied in the context of number theory: see for example [45] or [44] for a
survey of its applications to number theory. Its earliest application to cryptography
can be traced to the \r\n factoring algorithm [56]. Constructive applications were
found later thanks to the parallels with exponentiation. Several encryption and
signature schemes were proposed, most notably the LUC family of encryption and signatures
[30, 39]. It was later shown that some of these schemes can be broken or that the
advantages it claimed were not present [7]. Other applications can be found in [32].\r\n\r\n2
Preliminaries\r\n2.1 Interactive Proof Systems\r\nInteractive Protocols. An interactive
protocol consists of a pair \r\n of interactive Turing machines that are run on
a common input \r\n. The first machine \r\n is the prover and is computationally
unbounded. The second machine \r\n is the verifier and is probabilistic polynomial-time.\r\n\r\nIn
an \r\n-round (i.e., \r\n-message) interactive protocol, in each round \r\n, first
\r\n sends a message \r\n to \r\n and then \r\n sends a message \r\n to \r\n, where
\r\n is a finite alphabet. At the end of the interaction, \r\n runs a (deterministic)
Turing machine on input \r\n. The interactive protocol is public-coin if \r\n is
a uniformly distributed random string in \r\n.\r\n\r\nInteractive Proof Systems.
The notion of an interactive proof for a language L is due to Goldwasser, Micali
and Rackoff [24].\r\n\r\nDefinition 1\r\nFor a function \r\n, an interactive protocol
\r\n is an \r\n-statistically-sound interactive proof system for L if:\r\n\r\nCompleteness:
For every \r\n, if \r\n interacts with \r\n on common input \r\n, then \r\n accepts
with probability 1.\r\n\r\nSoundness: For every \r\n and every (computationally-unbounded)
cheating prover strategy \r\n, the verifier \r\n accepts when interacting with \r\n
with probability less than \r\n, where \r\n is called the soundness error.\r\n\r\n2.2
Verifiable Delay Functions\r\nWe adapt the definition of verifiable delay functions
from [9] but we decouple the verifiability and sequentiality properties for clarity
of exposition of our results. First, we present the definition of a delay function.\r\n\r\nDefinition
2\r\nA delay function \r\n consists of a triple of algorithms with the following
syntax:\r\n\r\n:\r\n\r\nOn input a security parameter \r\n, the algorithm \r\n outputs
public parameters \r\n.\r\n\r\n:\r\n\r\nOn input public parameters \r\n and a time
parameter \r\n, the algorithm \r\n outputs a challenge x.\r\n\r\n:\r\n\r\nOn input
a challenge pair (x, T), the (deterministic) algorithm \r\n outputs the value y
of the delay function in time T.\r\n\r\nThe security property required of a delay
function is sequential hardness as defined below.\r\n\r\nDefinition 3\r\n(Sequentiality).
We say that a delay function \r\n satisfies the sequentiality property, if there
exists an \r\n such that for all \r\n and for every adversary \r\n, where \r\n uses
\r\n processors and runs in time \r\n, there exists a negligible function \r\n such
that\r\n\r\nfigure a\r\nA few remarks about our definition of sequentiality are
in order:\r\n\r\n1.\r\nWe require computing \r\n to be hard in less than T sequential
steps even using any polynomially-bounded amount of parallelism and precomputation.
Note that it is necessary to bound the amount of parallelism, as an adversary could
otherwise break the underlying hardness assumption (e.g. hardness of factorization).
Analogously, T should be polynomial in \r\n as, otherwise, breaking the underlying
hardness assumptions becomes easier than computing \r\n itself for large values
of T.\r\n\r\n2.\r\nAnother issue is what bound on the number of sequential steps
of the adversary should one impose. For example, the delay function based on T repeated
modular squarings can be computed in sequential time \r\n using polynomial parallelism
[4]. Thus, one cannot simply bound the sequential time of the adversary by o(T).
Similarly to [38], we adapt the \r\n bound for \r\n which, in particular, is asymptotically
smaller than \r\n.\r\n\r\n3.\r\nWithout loss of generality, we assume that the size
of \r\n is at least linear in n and the adversary A does not have to get the unary
representation of the security parameter \r\n as its input.\r\n\r\nThe definition
of verifiable delay function extends a delay function with the possibility to compute
publicly-verifiable proofs of correctness of the output value.\r\n\r\nDefinition
4\r\nA delay function \r\n is a verifiable delay function if it is equipped with
two additional algorithms \r\n and \r\n with the following syntax:\r\n\r\n:\r\n\r\nOn
input public parameters and a challenge pair (x, T), the \r\n algorithm outputs
\r\n, where \r\n is a proof that the output y is the output of \r\n.\r\n\r\n:\r\n\r\nOn
input public parameters, a challenge pair (x, T), and an output/proof pair \r\n,
the (deterministic) algorithm \r\n outputs either \r\n or \r\n.\r\n\r\nIn addition
to sequentiality (inherited from the underlying delay function), the \r\n and \r\n
algorithms must together satisfy correctness and (statistical) soundness as defined
below.\r\n\r\nDefinition 5\r\n(Correctness). A verifiable delay function \r\n is
correct if for all \r\n\r\nfigure b\r\nDefinition 6\r\n(Statistical soundness).
A verifiable delay function \r\n is statistically sound if for every (computationally
unbounded) malicious prover \r\n there exists a negligible function \r\n such that
for all \r\n\r\nfigure c\r\n3 Delay Functions from Lucas Sequences\r\nIn this section,
we propose a delay function based on Lucas sequences and prove its sequentiality
assuming that iterated squaring in a group of unknown order is sequential (Sect.
3.1). Further, we conjecture (Sect. 3.2) that our delay function candidate is even
more robust than its predecessor proposed by Rivest, Shamir, and Wagner [48]. Finally,
we turn our delay function candidate into a verifiable delay function (Sect. 4).\r\n\r\n3.1
The Atomic Operation\r\nOur delay function is based on subsequences of Lucas sequences,
whose indexes are powers of two. Below, we use \r\n to denote the set of non-negative
integers.\r\n\r\nDefinition 7\r\nFor integers \r\n, the Lucas sequences \r\n and
\r\n are defined for all \r\n as\r\n\r\nwith \r\n and \r\n, and\r\n\r\nwith \r\n
and \r\n.\r\n\r\nWe define subsequences \r\n, respectively \r\n, of \r\n, respectively
\r\n for all \r\n as\r\n\r\n(2)\r\nAlthough the value of \r\n depends on parameters
(P, Q), we omit (P, Q) from the notation because these parameters will be always
obvious from the context.\r\n\r\nThe underlying atomic operation for our delay function
is\r\n\r\nThere are several ways to compute \r\n in T sequential steps, and we describe
two of them below.\r\n\r\nAn Approach Based on Squaring in a Suitable Extension
Ring. To compute the value \r\n, we can use the extension ring \r\n, where \r\n
is the discriminant of the characteristic polynomial \r\n of the Lucas sequence.
The characteristic polynomial f(z) has a root \r\n, and it is known that, for all
\r\n, it holds that\r\n\r\nThus, by iterated squaring of \r\n, we can compute terms
of our target subsequences. To get a better understanding of squaring in the extension
ring, consider the representation of the root \r\n for some \r\n. Then,\r\n\r\nThen,
the atomic operation of our delay function can be interpreted as \r\n, defined for
all \r\n as\r\n\r\n(3)\r\nAn Approach Based on Known Identities. Many useful identities
for members of modular Lucas sequences are known, such as\r\n\r\n(4)\r\nSetting
\r\n we get\r\n\r\n(5)\r\nThe above identities are not hard to derive (see, e.g.,
Lemma 12.5 in [40]). Indexes are doubled on each of application of the identities
in Eq. (5), and, thus, for \r\n, we define an auxiliary sequence \r\n by \r\n. Using
the identities in Eq. (5), we get recursive equations\r\n\r\n(6)\r\nThen, the atomic
operation of our delay function can be interpreted as \r\n, defined for all \r\n
as\r\n\r\n(7)\r\nAfter a closer inspection, the reader may have an intuition that
an auxiliary sequence \r\n, which introduces a third state variable, is redundant.
This intuition is indeed right. In fact, there is another easily derivable identity\r\n\r\n(8)\r\nwhich
can be found, e.g., as Lemma 12.2 in [40]. On the other hand, Eq. (8) is quite interesting
because it allows us to compute large powers of an element \r\n using two Lucas
sequences. We use this fact in the security reduction in Sect. 3.2. Our construction
of a delay function, denoted \r\n, is given in Fig. 1.\r\n\r\nFig. 1.\r\nfigure
1\r\nOur delay function candidate \r\n based on a modular Lucas sequence.\r\n\r\nFull
size image\r\nOn the Discriminant D. Notice that whenever D is a quadratic residue
modulo N, the value \r\n is an element of \r\n and hence \r\n. By definition, LCS.Gen
generates a parameter D that is a quadratic residue with probability 1/4, so it
might seem that in one fourth of the cases there is another approach to compute
\r\n: find the element \r\n and then perform n sequential squarings in the group
\r\n. However, it is well known that finding square roots of uniform elements in
\r\n is equivalent to factoring the modulus N, so this approach is not feasible.
We can therefore omit any restrictions on the discriminant D in the definition of
our delay function LCS.\r\n\r\n3.2 Reduction from RSW Delay Function\r\nIn order
to prove the sequentiality property (Definition 3) of our candidate \r\n, we rely
on the standard conjecture of the sequentiality of the \r\n time-lock puzzles, implicitly
stated in [48] as the underlying hardness assumption.\r\n\r\nDefinition 8\r\n(\r\n
delay function). The \r\n delay function is defined as follows:\r\n\r\n: Samples
two n-bit primes p and q and outputs \r\n.\r\n\r\n: Outputs an x sampled from the
uniform distribution on \r\n.\r\n\r\n: Outputs \r\n.\r\n\r\nTheorem 2\r\nIf the
\r\n delay function has the sequentiality property, then the \r\n delay function
has the sequentiality property.\r\n\r\nProof\r\nSuppose there exists an adversary
\r\n who contradicts the sequentiality of \r\n, where \r\n is a precomputation algorithm
and \r\n is an online algorithm. We construct an adversary \r\n who contradicts
the sequentiality of \r\n as follows:\r\n\r\nThe algorithm \r\n is defined identically
to the algorithm \r\n.\r\n\r\nOn input \r\n, \r\n picks a P from the uniform distribution
on \r\n, sets\r\n\r\nand it runs \r\n to compute \r\n. The algorithm \r\n computes
\r\n using the identity in Eq. (8).\r\n\r\nNote that the input distribution for
the algorithm \r\n produced by \r\n differs from the one produced by \r\n, because
the \r\n generator samples Q from the uniform distribution on \r\n (instead of \r\n).
However, this is not a problem since the size of \r\n is negligible compared to
the size of \r\n, so the statistical distance between the distribution of D produced
by \r\n and the distribution of D sampled by \r\n is negligible in the security
parameter. Thus, except for a negligible multiplicative loss, the adversary \r\n
attains the same success probability of breaking the sequentiality of \r\n as the
probability of \r\n breaking the sequentiality of \r\n – a contradiction to the
assumption of the theorem. \r\n\r\nWe believe that the converse implication to
Theorem 2 is not true, i.e., that breaking the sequentiality of \r\n does not necessarily
imply breaking the sequentiality of \r\n. Below, we state it as a conjecture.\r\n\r\nConjecture
1\r\nSequentiality of \r\n cannot be reduced to sequentiality of \r\n.\r\n\r\nOne
reason why the above conjecture might be true is that, while the \r\n delay function
is based solely only on multiplication in the group \r\n, our \r\n delay function
uses the full arithmetic (addition and multiplication) of the commutative ring \r\n.\r\n\r\nOne
way to support the conjecture would be to construct an algorithm that speeds up
iterated squaring but is not immediately applicable to Lucas sequences. By [49]
we know that this cannot be achieved by a generic algorithm. A non-generic algorithm
that solves iterated squaring in time \r\n is presented in [4]. The main tool of
their construction is the Explicit Chinese Remainder Theorem modulo N. However,
a similiar theorem exists also for univariate polynomial rings, which suggests that
a similar speed-up can be obtained for our delay function by adapting the techniques
in [4] to our setting.\r\n\r\n4 VDF from Lucas Sequences\r\nIn Sect. 3.1 we saw
different ways of computing the atomic operation of the delay function. Computing
\r\n in the extension field seems to be the more natural and time and space effective
approach. Furthermore, writing the atomic operation \r\n as \r\n is very clear,
and, thus, we follow this approach throughout the rest of the paper.\r\n\r\n4.1
Structure of \r\nTo construct a VDF based on Lucas sequences, we use an algebraic
extension\r\n\r\n(9)\r\nwhere N is an RSA modulus and \r\n. In this section, we
describe the structure of the algebraic extension given in Expression (9). Based
on our understanding of the structure of the above algebraic extension, we can conclude
that using modulus N composed of safe primes (i.e., for all prime factors p of N,
\r\n has a large prime divisor) is necessary but not sufficient condition for security
of our construction. We specify some sufficient conditions on factors of N in the
subsequent Sect. 4.2.\r\n\r\nFirst, we introduce some simplifying notation for quotient
rings.\r\n\r\nDefinition 9\r\nFor \r\n and \r\n, we denote by \r\n the quotient
ring \r\n, where (m, f(x)) denotes the ideal of the ring \r\n generated by m and
f(x).\r\n\r\nObservation 1, below, allows us to restrict our analysis only to the
structure of \r\n for prime \r\n.\r\n\r\nObservation 1\r\nLet \r\n be distinct primes,
\r\n and \r\n. Then\r\n\r\nProof\r\nUsing the Chinese reminder theorem, we get\r\n\r\nas
claimed. \r\n\r\nThe following lemma characterizes the structure of \r\n with
respect to the discriminant of f. We use \r\n to denote the standard Legendre symbol.\r\n\r\nLemma
1\r\nLet \r\n and \r\n be a polynomial of degree 2 with the discriminant D. Then\r\n\r\nProof\r\nWe
consider each case separately:\r\n\r\nIf \r\n, then f(x) is irreducible over \r\n
and \r\n is a field with \r\n elements. Since \r\n is a finite field, \r\n is cyclic
and contains \r\n elements.\r\n\r\nIf \r\n, then \r\n and f has some double root
\r\n and it can be written as \r\n for some \r\n. Since the ring \r\n is isomorphic
to the ring \r\n (consider the isomorphism \r\n), we can restrict ourselves to describing
the structure of \r\n.\r\n\r\nWe will prove that the function \r\n,\r\n\r\nis an
isomorphism. First, the polynomial \r\n is invertible if and only if \r\n (inverse
is \r\n). For the choice \r\n, we have\r\n\r\nThus \r\n is onto. Second, \r\n is,
in fact, a bijection, because\r\n\r\n(10)\r\nFinally, \r\n is a homomorphism, because\r\n\r\nIf
\r\n, then f(x) has two roots \r\n. We have an isomorphism\r\n\r\nand \r\n. \r\n\r\n4.2
Strong Groups and Strong Primes\r\nTo achieve the verifiability property of our
construction, we need \r\n to contain a strong subgroup (defined next) of order
asymptotically linear in p. We remark that our definition of strong primes is stronger
than the one by Rivest and Silverman [46].\r\n\r\nDefinition 10\r\n(Strong groups).
For \r\n, we say that a non-trivial group \r\n is \r\n-strong, if the order of each
non-trivial subgroup of \r\n is greater than \r\n.\r\n\r\nObservation 2\r\nIf \r\n
and \r\n are \r\n-strong groups, then \r\n is a \r\n-strong group.\r\n\r\nIt can
be seen from Lemma 1 that \r\n always contains groups of small order (e.g. \r\n).
To avoid these, we descend into the subgroup of a-th powers of elements of \r\n.
Below, we introduce the corresponding notation.\r\n\r\nDefinition 11\r\nFor an Abelian
group \r\n and \r\n, we define the subgroup \r\n of \r\n in the multiplicative notation
and \r\n in the additive notation.\r\n\r\nFurther, we show in Lemma 2 below that
\r\n-strong primality (defined next) is a sufficient condition for \r\n to be a
\r\n-strong group.\r\n\r\nDefinition 12\r\n(Strong primes). Let \r\n and \r\n. We
say that p is a \r\n-strong prime, if \r\n and there exists \r\n, \r\n, such that
\r\n and every prime factor of W is greater than \r\n.\r\n\r\nSince a is a public
parameter in our setup, super-polynomial a could reveal partial information about
the factorization of N. However, we could allow a to be polynomial in \r\n while
maintaining hardness of factoring N.Footnote4 For the sake of simplicity of Definition
12, we rather use stronger condition \r\n. The following simple observation will
be useful for proving Lemma 2.\r\n\r\nObservation 3\r\nFor \r\n.\r\n\r\nLemma 2\r\nLet
p be a \r\n-strong prime and \r\n be a quadratic polynomial. Then, \r\n is a \r\n-strong
group.\r\n\r\nProof\r\nFrom definition of the strong primes, there exists \r\n,
whose factors are bigger than \r\n and \r\n. We denote \r\n a factor of W. Applying
Observation 3 to Lemma 1, we get\r\n\r\nIn particular, we used above the fact that
Observation 2 implies that \r\n as explained next. Since \r\n, all divisors of \r\n
are divisors of aW. By definition of a and W in Definition 12, we also have that
\r\n, which implies that any factor of \r\n divides either a or W, but not both.
When we divide \r\n by all the common divisors with a, only the common divisors
with W are left, which implies \r\n. The proof of the lemma is now completed by
Observation 2.\r\n\r\nCorollary 1\r\nLet p be a \r\n-strong prime, q be a \r\n-strong
prime, \r\n, \r\n, \r\n and \r\n. Then \r\n is \r\n-strong.\r\n\r\n4.3 Our Interactive
Protocol\r\nOur interactive protocol is formally described in Fig. 3. To understand
this protocol, we first recall the outline of Pietrzak’s interactive protocol from
Sect. 1.2 and then highlight the hurdles. Let \r\n be an RSA modulus where p and
q are strong primes and let x be a random element from \r\n. The interactive protocol
in [42] allows a prover to convince the verifier of the statement\r\n\r\n“(N, x,
y, T) satisfies \r\n”.\r\n\r\nThe protocol is recursive and in a round-by-round
fashion reduces the claim to a smaller statement by halving the time parameter.
To be precise, in each round the (honest) prover sends the “midpoint” \r\n of the
current statement to the verifier and they together reduce the statement to\r\n\r\n“\r\n
satisfies \r\n”,\r\n\r\nwhere \r\n and \r\n for a random challenge r. This is continued
until \r\n is obtained at which point the verifier simply checks whether \r\n.\r\n\r\nThe
main problem, we face while designing our protocol is ensuring that the verifier
can check whether \r\n sent by prover lies in an appropriate subgroup of \r\n. In
the first draft of Pietrzak’s protocol [41], prover sends a square root of \r\n,
from which the original \r\n can be recovered easily (by simply squaring it) with
a guarantee, that the result lies in a group of quadratic residues \r\n. Notice
that the prover knows the square root of \r\n, because it is just a previous term
in the sequence he computed.\r\n\r\nUsing Pietrzak’s protocol directly for our delay
function would require computing a-th roots in RSA group for some arbitrary a. Since
this is a computationally hard problem, we cannot use the same trick. In fact, the
VDF construction of Wesolowski [54] is based on similar hardness assumption.\r\n\r\nWhile
Pietrzak shifted from \r\n to the group of signed quadratic residues \r\n in his
following paper [42] to get unique proofs, we resort to his old idea of ‘squaring
a square root’ and generalise it.\r\n\r\nThe high level idea is simple. First, on
input \r\n, prover computes the sequence \r\n. Next, during the protocol, verifier
maps all elements sent by the prover by homomorphism\r\n\r\n(11)\r\ninto the target
strong group \r\n. This process is illustrated in Fig. 2. Notice that the equality
\r\n for the original sequence implies the equality \r\n for the mapped sequence
\r\n.\r\n\r\nFig. 2.\r\nfigure 2\r\nIllustration of our computation of the iterated
squaring using the a-th root of \r\n. Horizontal arrows are \r\n and diagonal arrows
are \r\n.\r\n\r\nFull size image\r\nRestriction to Elements of \r\n. Mapping Eq.
(11) introduces a new technical difficulty. Since \r\n is not injective, we narrow
the domain inputs, for which the output of our VDF is verifiable, from \r\n to \r\n.
Furthermore, the only way to verify that a certain x is an element of \r\n is to
get an a-th root of x and raise it to the ath power. So we have to represent elements
of \r\n by elements of \r\n anyway. To resolve these two issues, we introduce a
non-unique representation of elements of \r\n.\r\n\r\nDefinition 13\r\nFor \r\n
and \r\n, we denote \r\n (an element of \r\n) by [x]. Since this representation
of \r\n is not unique, we define an equality relation by\r\n\r\nWe will denote by
tilde () the elements that were already powered to the a by a verifier (i.e. ).
Thus tilded variables verifiably belong to the target group \r\n.\r\n\r\nIn the
following text, the goal of the brackets notation in Definition 13 is to distinguish
places where the equality means the equality of elements of \r\n from those places,
where the equality holds up to \r\n. A reader can also see the notation in Definition
13 as a concrete representation of elements of a factor group \r\n.\r\n\r\nOur security
reduction 2 required the delay function to operate everywhere on \r\n. This is not
a problem if the \r\n algorithm is modified to output the set \r\n.\r\n\r\nFig.
3.\r\nfigure 3\r\nOur Interactive Protocol for \r\n.\r\n\r\nFull size image\r\n4.4
Security\r\nRecall here that \r\n is \r\n-strong group, so there exist\r\n\r\n and
\r\n such that\r\n\r\n(12)\r\nDefinition 14\r\nFor \r\n and \r\n, we define \r\n
as i-th coordinate of \r\n, where \r\n is the isomorphism given by Eq. (12).\r\n\r\nLemma
3\r\nLet \r\n and \r\n. If \r\n, then\r\n\r\n\t(13)\r\nProof\r\nFix \r\n, \r\n and
y. Let some \r\n satisfy\r\n\r\n(14)\r\nUsing notation from Definition 14, we rewrite
Eq. (14) as a set of equations\r\n\r\nFor every \r\n, by reordering the terms, the
j-th equation becomes\r\n\r\n(15)\r\nIf \r\n, then \r\n. Further for every \r\n.
It follows that \r\n. Putting these two equations together gives us \r\n, which
contradicts our assumption \r\n.\r\n\r\nIt follows that there exists \r\n such that\r\n\r\n(16)\r\nThereafter
there exists \r\n such that \r\n divides \r\n and\r\n\r\n(17)\r\nFurthermore, from
Eq. (15), \r\n divides \r\n. Finally, dividing eq. Eq. (15) by \r\n, we get that
r is determined uniquely (\r\n),\r\n\r\nUsing the fact that \r\n, this uniqueness
of r upper bounds number of \r\n, such that Eq. (14) holds, to one. It follows that
the probability that Eq. (14) holds for r chosen randomly from the uniform distribution
over \r\n is less than \r\n. \r\n\r\nCorollary 2\r\nThe halving protocol will
turn an invalid input tuple (i.e. \r\n) into a valid output tuple (i.e. \r\n) with
probability less than \r\n.\r\n\r\nTheorem 3\r\nFor any computationally unbounded
prover who submits anything other than \r\n such that \r\n in phase 2 of the protocol,
the soundness error is upper-bounded by \r\n\r\nProof\r\nIn each round of the protocol,
T decreases to \r\n. It follows that the number of rounds of the halving protocol
before reaching \r\n is upper bounded by \r\n.\r\n\r\nIf the verifier accepts the
solution tuple \r\n in the last round, then the equality \r\n must hold. It follows
that the initial inequality must have turned into equality in some round of the
halving protocol. By Lemma 3, the probability of this event is bounded by \r\n.
Finally, using the union bound for all rounds, we obtain the upper bound (\r\n.
\ \r\n\r\n4.5 Our VDF\r\nAnalogously to the VDF of Pietrzak [42], we compile our
public-coin interactive proof given in Fig. 3 into a VDF using the Fiat-Shamir heuristic.
The complete construction is given in Fig. 4. For ease of exposition, we assume
that the time parameter T is always a power of two.\r\n\r\nFig. 4.\r\nfigure 4\r\n
based on Lucas sequences\r\n\r\nFull size image\r\nAs discussed in Sect. 4.3, it
is crucial for the security of the protocol that the prover computes a sequence
of powers of the a-th root of the challenge and the resulting value (as well as
the intermediate values) received from the prover is lifted to the appropriate group
by raising it to the a-th power. We use the tilde notation in Fig. 4 in order to
denote elements on the sequence relative to the a-th root.\r\n\r\nNote that, by
the construction, the output of our VDF is the \r\n-th power of the root of the
characteristic polynomial for Lucas sequence with parameters P and Q. Therefore,
the value of the delay function implicitly corresponds to the \r\n-th term of the
Lucas sequence.\r\n\r\nTheorem 4\r\nLet \r\n be the statistical security parameter.
The \r\n VDF defined in Fig. 4 is correct and statistically-sound with a negligible
soundness error if \r\n is modelled as a random oracle, against any adversary that
makes \r\n oracle queries.\r\n\r\nProof\r\nThe correctness follows directly by construction.\r\n\r\nTo
prove its statistical soundness, we proceed in a similar way to [42]. We cannot
apply Fiat-Shamir transformation directly, because our protocol does not have constant
number of rounds, thus we use Fiat-Shamir heuristic to each round separately.\r\n\r\nFirst,
we use a random oracle as the \r\n function. Second, if a malicious prover computed
a proof accepted by verifier for some tuple \r\n such that\r\n\r\n(19)\r\nthen he
must have succeeded in turning inequality from Eq. (19) into equality in some round.
By Lemma 3, probability of such a flipping is bounded by \r\n. Every such an attempt
requires one query to random oracle. Using a union bound, it follows that the probability
that a malicious prover who made q queries to random oracle succeeds in flipping
initial inequality into equality in some round is upper-bounded by \r\n.\r\n\r\nSince
q is \r\n, \r\n is a negligible function and thus the soundness error is negligible.
\ \r\n\r\nNotes\r\n1.\r\nNote that integer sequences like Fibonacci numbers and
Mersenne numbers are special cases of Lucas sequences.\r\n\r\n2.\r\nThe choice of
modulus N is said to be safe if \r\n for safe primes \r\n and \r\n, where \r\n and
\r\n are also prime.\r\n\r\n3.\r\nFurther, using the ideas from [14, 20], it is
possible to construct so-called continuous VDFs from Lucas sequences.\r\n\r\n4.\r\nSince
we set a to be at most polynomial in \r\n, its is possible to go over all possible
candidate values for a in time polynomial in \r\n. Thus, any algorithm that could
factor N using the knowledge of a can be efficiently simulated even without the
knowledge of a.\r\n\r\nReferences\r\nAbusalah, H., Kamath, C., Klein, K., Pietrzak,
K., Walter, M.: Reversible proofs of sequential work. In: Ishai, Y., Rijmen, V.
(eds.) EUROCRYPT 2019. LNCS, vol. 11477, pp. 277–291. Springer, Cham (2019). https://doi.org/10.1007/978-3-030-17656-3_10\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nAggarwal, D., Maurer, U.: Breaking RSA generically
is equivalent to factoring. IEEE Trans. Inf. Theory 62(11), 6251–6259 (2016). https://doi.org/10.1109/TIT.2016.2594197\r\n\r\nCrossRef\r\n
\r\nMathSciNet\r\n \r\nMATH\r\n \r\nGoogle Scholar\r\n \r\n\r\nArun, A., Bonneau,
J., Clark, J.: Short-lived zero-knowledge proofs and signatures. In: Agrawal, S.,
Lin, D. (eds.) Advances in Cryptology – ASIACRYPT 2022. Lecture Notes in Computer
Science, vol. 13793, pp. 487–516. Springer, Cham (2022). https://doi.org/10.1007/978-3-031-22969-5_17\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nBernstein, D., Sorenson, J.: Modular exponentiation
via the explicit Chinese remainder theorem. Math. Comput. 76, 443–454 (2007). https://doi.org/10.1090/S0025-5718-06-01849-7\r\n\r\nCrossRef\r\n
\r\nMathSciNet\r\n \r\nMATH\r\n \r\nGoogle Scholar\r\n \r\n\r\nBitansky, N., et
al.: PPAD is as hard as LWE and iterated squaring. IACR Cryptol. ePrint Arch., p.
1072 (2022)\r\n\r\nGoogle Scholar\r\n \r\n\r\nBitansky, N., Goldwasser, S., Jain,
A., Paneth, O., Vaikuntanathan, V., Waters, B.: Time-lock puzzles from randomized
encodings. In: ITCS, pp. 345–356. ACM (2016)\r\n\r\nGoogle Scholar\r\n \r\n\r\nBleichenbacher,
D., Bosma, W., Lenstra, A.K.: Some remarks on Lucas-based cryptosystems. In: Coppersmith,
D. (ed.) CRYPTO 1995. LNCS, vol. 963, pp. 386–396. Springer, Heidelberg (1995).
https://doi.org/10.1007/3-540-44750-4_31\r\n\r\nCrossRef\r\n \r\nGoogle Scholar\r\n
\r\n\r\nBlock, A.R., Holmgren, J., Rosen, A., Rothblum, R.D., Soni, P.: Time- and
space-efficient arguments from groups of unknown order. In: Malkin, T., Peikert,
C. (eds.) CRYPTO 2021. LNCS, vol. 12828, pp. 123–152. Springer, Cham (2021). https://doi.org/10.1007/978-3-030-84259-8_5\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nBoneh, D., Bonneau, J., Bünz, B., Fisch, B.: Verifiable
delay functions. In: Shacham, H., Boldyreva, A. (eds.) CRYPTO 2018. LNCS, vol. 10991,
pp. 757–788. Springer, Cham (2018). https://doi.org/10.1007/978-3-319-96884-1_25\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nBoneh, D., Bünz, B., Fisch, B.: A survey of two verifiable
delay functions. IACR Cryptol. ePrint Arch. 2018, 712 (2018)\r\n\r\nMATH\r\n \r\nGoogle
Scholar\r\n \r\n\r\nBoneh, D., Venkatesan, R.: Breaking RSA may not be equivalent
to factoring. In: Nyberg, K. (ed.) Advances in Cryptology - EUROCRYPT ’98. Lecture
Notes in Computer Science, vol. 1403, pp. 59–71. Springer, Cham (1998). https://doi.org/10.1007/BFb0054117\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nBuchmann, J., Williams, H.C.: A key-exchange system
based on imaginary quadratic fields. J. Cryptol. 1(2), 107–118 (1988). https://doi.org/10.1007/BF02351719\r\n\r\nCrossRef\r\n
\r\nMathSciNet\r\n \r\nMATH\r\n \r\nGoogle Scholar\r\n \r\n\r\nChavez-Saab, J.,
Rodríguez-Henríquez, F., Tibouchi, M.: Verifiable Isogeny walks: towards an isogeny-based
postquantum VDF. In: AlTawy, R., Hülsing, A. (eds.) SAC 2021. LNCS, vol. 13203,
pp. 441–460. Springer, Cham (2022). https://doi.org/10.1007/978-3-030-99277-4_21\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nChoudhuri, A.R., Hubáček, P., Kamath, C., Pietrzak,
K., Rosen, A., Rothblum, G.N.: PPAD-hardness via iterated squaring modulo a composite.
IACR Cryptol. ePrint Arch. 2019, 667 (2019)\r\n\r\nGoogle Scholar\r\n \r\n\r\nCini,
V., Lai, R.W.F., Malavolta, G.: Lattice-based succinct arguments from vanishing
polynomials. In: Handschuh, H., Lysyanskaya, A. (eds.) Advances in Cryptology -
CRYPTO 2023. Lecture Notes in Computer Science, pp. 72–105. Springer Nature Switzerland,
Cham (2023). https://doi.org/10.1007/978-3-031-38545-2_3\r\n\r\nCrossRef\r\n \r\nGoogle
Scholar\r\n \r\n\r\nCohen, B., Pietrzak, K.: Simple proofs of sequential work. In:
Nielsen, J.B., Rijmen, V. (eds.) EUROCRYPT 2018. LNCS, vol. 10821, pp. 451–467.
Springer, Cham (2018). https://doi.org/10.1007/978-3-319-78375-8_15\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nCohen, B., Pietrzak, K.: The Chia network blockchain.
Technical report, Chia Network (2019). https://www.chia.net/assets/ChiaGreenPaper.pdf.
Accessed 29 July 2022\r\n\r\nDöttling, N., Garg, S., Malavolta, G., Vasudevan, P.N.:
Tight verifiable delay functions. In: Galdi, C., Kolesnikov, V. (eds.) SCN 2020.
LNCS, vol. 12238, pp. 65–84. Springer, Cham (2020). https://doi.org/10.1007/978-3-030-57990-6_4\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nDöttling, N., Lai, R.W.F., Malavolta, G.: Incremental
proofs of sequential work. In: Ishai, Y., Rijmen, V. (eds.) EUROCRYPT 2019. LNCS,
vol. 11477, pp. 292–323. Springer, Cham (2019). https://doi.org/10.1007/978-3-030-17656-3_11\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nEphraim, N., Freitag, C., Komargodski, I., Pass,
R.: Continuous verifiable delay functions. In: Canteaut, A., Ishai, Y. (eds.) EUROCRYPT
2020. LNCS, vol. 12107, pp. 125–154. Springer, Cham (2020). https://doi.org/10.1007/978-3-030-45727-3_5\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nDe Feo, L., Masson, S., Petit, C., Sanso, A.: Verifiable
delay functions from supersingular isogenies and pairings. In: Galbraith, S.D.,
Moriai, S. (eds.) ASIACRYPT 2019. LNCS, vol. 11921, pp. 248–277. Springer, Cham
(2019). https://doi.org/10.1007/978-3-030-34578-5_10\r\n\r\nCrossRef\r\n \r\nGoogle
Scholar\r\n \r\n\r\nFiat, A., Shamir, A.: How to prove yourself: practical solutions
to identification and signature problems. In: Odlyzko, A.M. (ed.) CRYPTO 1986. LNCS,
vol. 263, pp. 186–194. Springer, Heidelberg (1987). https://doi.org/10.1007/3-540-47721-7_12\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nFreitag, C., Pass, R., Sirkin, N.: Parallelizable
delegation from LWE. IACR Cryptol. ePrint Arch., p. 1025 (2022)\r\n\r\nGoogle Scholar\r\n
\r\n\r\nGoldwasser, S., Micali, S., Rackoff, C.: The knowledge complexity of interactive
proof systems. SIAM J. Comput. 18(1), 186–208 (1989)\r\n\r\nCrossRef\r\n \r\nMathSciNet\r\n
\r\nMATH\r\n \r\nGoogle Scholar\r\n \r\n\r\nHoffmann, C., Hubáček, P., Kamath, C.,
Klein, K., Pietrzak, K.: Practical statistically sound proofs of exponentiation
in any group. In: Dodis, Y., Shrimpton, T. (eds.) Advances in Cryptology – CRYPTO
2022. Lecture Notes in Computer Science, vol. 13508, pp. 1–30. Springer, Cham (2022).
https://doi.org/10.1007/978-3-031-15979-4_13\r\n\r\nCrossRef\r\n \r\nMATH\r\n \r\nGoogle
Scholar\r\n \r\n\r\nHofheinz, D., Kiltz, E.: The group of signed quadratic residues
and applications. In: Halevi, S. (ed.) CRYPTO 2009. LNCS, vol. 5677, pp. 637–653.
Springer, Heidelberg (2009). https://doi.org/10.1007/978-3-642-03356-8_37\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nKatz, J., Loss, J., Xu, J.: On the security of time-lock
puzzles and timed commitments. In: Pass, R., Pietrzak, K. (eds.) TCC 2020, Part
III. LNCS, vol. 12552, pp. 390–413. Springer, Cham (2020). https://doi.org/10.1007/978-3-030-64381-2_14\r\n\r\nCrossRef\r\n
\r\nMATH\r\n \r\nGoogle Scholar\r\n \r\n\r\nLai, R.W.F., Malavolta, G.: Lattice-based
timed cryptography. In: Handschuh, H., Lysyanskaya, A. (eds.) Advances in Cryptology
- CRYPTO 2023. Lecture Notes in Computer Science, pp. 782–804. Springer Nature Switzerland,
Cham (2023). https://doi.org/10.1007/978-3-031-38554-4_25\r\n\r\nCrossRef\r\n \r\nGoogle
Scholar\r\n \r\n\r\nLehmer, D.H.: An extended theory of Lucas’ functions. Ann. Math.
31(3), 419–448 (1930). https://www.jstor.org/stable/1968235\r\n\r\nLennon, M.J.J.,
Smith, P.J.: LUC: A new public key system. In: Douglas, E.G. (ed.) Ninth IFIP Symposium
on Computer Security, pp. 103–117. Elsevier Science Publishers (1993)\r\n\r\nGoogle
Scholar\r\n \r\n\r\nLenstra, A.K., Wesolowski, B.: Trustworthy public randomness
with sloth, unicorn, and trx. IJACT 3(4), 330–343 (2017)\r\n\r\nCrossRef\r\n \r\nMathSciNet\r\n
\r\nMATH\r\n \r\nGoogle Scholar\r\n \r\n\r\nLipmaa, H.: On Diophantine complexity
and statistical zero-knowledge arguments. In: Laih, C.-S. (ed.) ASIACRYPT 2003.
LNCS, vol. 2894, pp. 398–415. Springer, Heidelberg (2003). https://doi.org/10.1007/978-3-540-40061-5_26\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nLombardi, A., Vaikuntanathan, V.: Fiat-Shamir for
repeated squaring with applications to PPAD-hardness and VDFs. In: Micciancio, D.,
Ristenpart, T. (eds.) CRYPTO 2020. LNCS, vol. 12172, pp. 632–651. Springer, Cham
(2020). https://doi.org/10.1007/978-3-030-56877-1_22\r\n\r\nCrossRef\r\n \r\nGoogle
Scholar\r\n \r\n\r\nLucas, E.: Théorie des fonctions numériques simplement périodiques.
Am. J. Math. 1(4), 289–321 (1878). https://www.jstor.org/stable/2369373\r\n\r\nLund,
C., Fortnow, L., Karloff, H.J., Nisan, N.: Algebraic methods for interactive proof
systems. J. ACM 39(4), 859–868 (1992)\r\n\r\nCrossRef\r\n \r\nMathSciNet\r\n \r\nMATH\r\n
\r\nGoogle Scholar\r\n \r\n\r\nMahmoody, M., Moran, T., Vadhan, S.P.: Publicly verifiable
proofs of sequential work. In: ITCS, pp. 373–388. ACM (2013)\r\n\r\nGoogle Scholar\r\n
\r\n\r\nMahmoody, M., Smith, C., Wu, D.J.: A note on the (Im)possibility of verifiable
delay functions in the random oracle model. IACR Cryptol. ePrint Arch. 2019, 663
(2019)\r\n\r\nGoogle Scholar\r\n \r\n\r\nMalavolta, G., Thyagarajan, S.A.K.: Homomorphic
time-lock puzzles and applications. In: Boldyreva, A., Micciancio, D. (eds.) CRYPTO
2019. LNCS, vol. 11692, pp. 620–649. Springer, Cham (2019). https://doi.org/10.1007/978-3-030-26948-7_22\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nMüller, W.B., Nöbauer, W.: Some remarks on public-key
cryptosystems. Studia Sci. Math. Hungar. 16, 71–76 (1981)\r\n\r\nMathSciNet\r\n
\r\nMATH\r\n \r\nGoogle Scholar\r\n \r\n\r\nBressoud, D.M.: Factorization and primality
testing. Math. Comput. 56(193), 400 (1991)\r\n\r\nCrossRef\r\n \r\nGoogle Scholar\r\n
\r\n\r\nPietrzak, K.: Simple verifiable delay functions. IACR Cryptol. ePrint Arch.
2018, 627 (2018). https://eprint.iacr.org/2018/627/20180720:081000\r\n\r\nPietrzak,
K.: Simple verifiable delay functions. In: ITCS. LIPIcs, vol. 124, pp. 1–15. Schloss
Dagstuhl - Leibniz-Zentrum für Informatik (2019)\r\n\r\nGoogle Scholar\r\n \r\n\r\nRabin,
M.O.: Transaction protection by beacons. J. Comput. Syst. Sci. 27(2), 256–267 (1983)\r\n\r\nCrossRef\r\n
\r\nMathSciNet\r\n \r\nMATH\r\n \r\nGoogle Scholar\r\n \r\n\r\nRibenboim, P.: My
Numbers, My Friends: Popular Lectures on Number Theory. Springer-Verlag, New York
(2000)\r\n\r\nCrossRef\r\n \r\nMATH\r\n \r\nGoogle Scholar\r\n \r\n\r\nRiesel, H.:
Prime Numbers and Computer Methods for Factorization, Progress in Mathematics, vol.
57. Birkhäuser, Basel (1985)\r\n\r\nCrossRef\r\n \r\nMATH\r\n \r\nGoogle Scholar\r\n
\r\n\r\nRivest, R., Silverman, R.: Are ’strong’ primes needed for RSA. Cryptology
ePrint Archive, Report 2001/007 (2001). https://eprint.iacr.org/2001/007\r\n\r\nRivest,
R.L., Shamir, A., Adleman, L.M.: A method for obtaining digital signatures and public-key
cryptosystems (reprint). Commun. ACM 26(1), 96–99 (1983)\r\n\r\nCrossRef\r\n \r\nMATH\r\n
\r\nGoogle Scholar\r\n \r\n\r\nRivest, R.L., Shamir, A., Wagner, D.A.: Time-lock
puzzles and timed-release crypto. Technical report, Massachusetts Institute of Technology
(1996)\r\n\r\nGoogle Scholar\r\n \r\n\r\nRotem, L., Segev, G.: Generically speeding-up
repeated squaring is equivalent to factoring: sharp thresholds for all generic-ring
delay functions. In: Micciancio, D., Ristenpart, T. (eds.) CRYPTO 2020. LNCS, vol.
12172, pp. 481–509. Springer, Cham (2020). https://doi.org/10.1007/978-3-030-56877-1_17\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nRotem, L., Segev, G., Shahaf, I.: Generic-group delay
functions require hidden-order groups. In: Canteaut, A., Ishai, Y. (eds.) EUROCRYPT
2020. LNCS, vol. 12107, pp. 155–180. Springer, Cham (2020). https://doi.org/10.1007/978-3-030-45727-3_6\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nSchindler, P., Judmayer, A., Hittmeir, M., Stifter,
N., Weippl, E.R.: RandRunner: distributed randomness from trapdoor VDFs with strong
uniqueness. In: 28th Annual Network and Distributed System Security Symposium, NDSS
2021, virtually, 21–25 February 2021. The Internet Society (2021)\r\n\r\nGoogle
Scholar\r\n \r\n\r\nShani, B.: A note on isogeny-based hybrid verifiable delay functions.
IACR Cryptol. ePrint Arch. 2019, 205 (2019)\r\n\r\nGoogle Scholar\r\n \r\n\r\nValiant,
P.: Incrementally verifiable computation or proofs of knowledge imply time/space
efficiency. In: Canetti, R. (ed.) TCC 2008. LNCS, vol. 4948, pp. 1–18. Springer,
Heidelberg (2008). https://doi.org/10.1007/978-3-540-78524-8_1\r\n\r\nCrossRef\r\n
\r\nMATH\r\n \r\nGoogle Scholar\r\n \r\n\r\nWesolowski, B.: Efficient verifiable
delay functions. In: Ishai, Y., Rijmen, V. (eds.) EUROCRYPT 2019. LNCS, vol. 11478,
pp. 379–407. Springer, Cham (2019). https://doi.org/10.1007/978-3-030-17659-4_13\r\n\r\nCrossRef\r\n
\r\nGoogle Scholar\r\n \r\n\r\nWesolowski, B.: Efficient verifiable delay functions.
J. Cryptol. 33(4), 2113–2147 (2020). https://doi.org/10.1007/s00145-020-09364-x\r\n\r\nCrossRef\r\n
\r\nMathSciNet\r\n \r\nMATH\r\n \r\nGoogle Scholar\r\n \r\n\r\nWilliams, H.C.: A
\r\n method of factoring. Math. Comput. 39(159), 225–234 (1982)\r\n\r\nMathSciNet\r\n
\r\nMATH\r\n \r\nGoogle Scholar\r\n \r\n\r\nWilliams, H.C.: Édouard lucas and primality
testing. Math. Gaz. 83, 173 (1999)\r\n\r\nCrossRef\r\n \r\nGoogle Scholar\r\n \r\n\r\nDownload
references\r\n\r\nAcknowledgements\r\nWe thank Krzysztof Pietrzak and Alon Rosen
for several fruitful discussions about this work and the anonymous reviewers of
SCN 2022 and TCC 2023 for valuable suggestions.\r\n\r\nPavel Hubáček is supported
by the Czech Academy of Sciences (RVO 67985840), by the Grant Agency of the Czech
Republic under the grant agreement no. 19-27871X, and by the Charles University
project UNCE/SCI/004. Chethan Kamath is supported by Azrieli International Postdoctoral
Fellowship, by the European Research Council (ERC) under the European Union’s Horizon
Europe research and innovation programme (grant agreement No. 101042417, acronym
SPP), and by ISF grant 1789/19."
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Charlotte
full_name: Hoffmann, Charlotte
id: 0f78d746-dc7d-11ea-9b2f-83f92091afe7
last_name: Hoffmann
orcid: 0000-0003-2027-5549
- first_name: Pavel
full_name: Hubáček, Pavel
last_name: Hubáček
- first_name: Chethan
full_name: Kamath, Chethan
last_name: Kamath
- first_name: Tomáš
full_name: Krňák, Tomáš
last_name: Krňák
citation:
ama: 'Hoffmann C, Hubáček P, Kamath C, Krňák T. (Verifiable) delay functions from
Lucas sequences. In: 21st International Conference on Theory of Cryptography.
Vol 14372. Springer Nature; 2023:336-362. doi:10.1007/978-3-031-48624-1_13'
apa: 'Hoffmann, C., Hubáček, P., Kamath, C., & Krňák, T. (2023). (Verifiable)
delay functions from Lucas sequences. In 21st International Conference on Theory
of Cryptography (Vol. 14372, pp. 336–362). Taipei, Taiwan: Springer Nature.
https://doi.org/10.1007/978-3-031-48624-1_13'
chicago: Hoffmann, Charlotte, Pavel Hubáček, Chethan Kamath, and Tomáš Krňák. “(Verifiable)
Delay Functions from Lucas Sequences.” In 21st International Conference on
Theory of Cryptography, 14372:336–62. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-48624-1_13.
ieee: C. Hoffmann, P. Hubáček, C. Kamath, and T. Krňák, “(Verifiable) delay functions
from Lucas sequences,” in 21st International Conference on Theory of Cryptography,
Taipei, Taiwan, 2023, vol. 14372, pp. 336–362.
ista: 'Hoffmann C, Hubáček P, Kamath C, Krňák T. 2023. (Verifiable) delay functions
from Lucas sequences. 21st International Conference on Theory of Cryptography.
TCC: Theory of Cryptography, LNCS, vol. 14372, 336–362.'
mla: Hoffmann, Charlotte, et al. “(Verifiable) Delay Functions from Lucas Sequences.”
21st International Conference on Theory of Cryptography, vol. 14372, Springer
Nature, 2023, pp. 336–62, doi:10.1007/978-3-031-48624-1_13.
short: C. Hoffmann, P. Hubáček, C. Kamath, T. Krňák, in:, 21st International Conference
on Theory of Cryptography, Springer Nature, 2023, pp. 336–362.
conference:
end_date: 2023-12-02
location: Taipei, Taiwan
name: 'TCC: Theory of Cryptography'
start_date: 2023-11-29
date_created: 2023-12-17T23:00:54Z
date_published: 2023-11-27T00:00:00Z
date_updated: 2023-12-18T09:00:00Z
day: '27'
department:
- _id: KrPi
doi: 10.1007/978-3-031-48624-1_13
intvolume: ' 14372'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2023/1404
month: '11'
oa: 1
oa_version: Preprint
page: 336-362
publication: 21st International Conference on Theory of Cryptography
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783031486234'
issn:
- 0302-9743
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: (Verifiable) delay functions from Lucas sequences
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14372
year: '2023'
...
---
_id: '14691'
abstract:
- lang: eng
text: "Continuous Group-Key Agreement (CGKA) allows a group of users to maintain
a shared key. It is the fundamental cryptographic primitive underlying group messaging
schemes and related protocols, most notably TreeKEM, the underlying key agreement
protocol of the Messaging Layer Security (MLS) protocol, a standard for group
messaging by the IETF. CKGA works in an asynchronous setting where parties only
occasionally must come online, and their messages are relayed by an untrusted
server. The most expensive operation provided by CKGA is that which allows for
a user to refresh their key material in order to achieve forward secrecy (old
messages are secure when a user is compromised) and post-compromise security (users
can heal from compromise). One caveat of early CGKA protocols is that these update
operations had to be performed sequentially, with any user wanting to update their
key material having had to receive and process all previous updates. Late versions
of TreeKEM do allow for concurrent updates at the cost of a communication overhead
per update message that is linear in the number of updating parties. This was
shown to be indeed necessary when achieving PCS in just two rounds of communication
by [Bienstock et al. TCC’20].\r\nThe recently proposed protocol CoCoA [Alwen et
al. Eurocrypt’22], however, shows that this overhead can be reduced if PCS requirements
are relaxed, and only a logarithmic number of rounds is required. The natural
question, thus, is whether CoCoA is optimal in this setting.\r\nIn this work we
answer this question, providing a lower bound on the cost (concretely, the amount
of data to be uploaded to the server) for CGKA protocols that heal in an arbitrary
k number of rounds, that shows that CoCoA is very close to optimal. Additionally,
we extend CoCoA to heal in an arbitrary number of rounds, and propose a modification
of it, with a reduced communication cost for certain k.\r\nWe prove our bound
in a combinatorial setting where the state of the protocol progresses in rounds,
and the state of the protocol in each round is captured by a set system, each
set specifying a set of users who share a secret key. We show this combinatorial
model is equivalent to a symbolic model capturing building blocks including PRFs
and public-key encryption, related to the one used by Bienstock et al.\r\nOur
lower bound is of order k•n1+1/(k-1)/log(k), where 2≤k≤log(n) is the number of
updates per user the protocol requires to heal. This generalizes the n2 bound
for k=2 from Bienstock et al.. This bound almost matches the k⋅n1+2/(k-1) or k2⋅n1+1/(k-1)
efficiency we get for the variants of the CoCoA protocol also introduced in this
paper."
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Benedikt
full_name: Auerbach, Benedikt
id: D33D2B18-E445-11E9-ABB7-15F4E5697425
last_name: Auerbach
orcid: 0000-0002-7553-6606
- first_name: Miguel
full_name: Cueto Noval, Miguel
id: ffc563a3-f6e0-11ea-865d-e3cce03d17cc
last_name: Cueto Noval
- first_name: Guillermo
full_name: Pascual Perez, Guillermo
id: 2D7ABD02-F248-11E8-B48F-1D18A9856A87
last_name: Pascual Perez
orcid: 0000-0001-8630-415X
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
citation:
ama: 'Auerbach B, Cueto Noval M, Pascual Perez G, Pietrzak KZ. On the cost of post-compromise
security in concurrent Continuous Group-Key Agreement. In: 21st International
Conference on Theory of Cryptography. Vol 14371. Springer Nature; 2023:271-300.
doi:10.1007/978-3-031-48621-0_10'
apa: 'Auerbach, B., Cueto Noval, M., Pascual Perez, G., & Pietrzak, K. Z. (2023).
On the cost of post-compromise security in concurrent Continuous Group-Key Agreement.
In 21st International Conference on Theory of Cryptography (Vol. 14371,
pp. 271–300). Taipei, Taiwan: Springer Nature. https://doi.org/10.1007/978-3-031-48621-0_10'
chicago: Auerbach, Benedikt, Miguel Cueto Noval, Guillermo Pascual Perez, and Krzysztof
Z Pietrzak. “On the Cost of Post-Compromise Security in Concurrent Continuous
Group-Key Agreement.” In 21st International Conference on Theory of Cryptography,
14371:271–300. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-48621-0_10.
ieee: B. Auerbach, M. Cueto Noval, G. Pascual Perez, and K. Z. Pietrzak, “On the cost
of post-compromise security in concurrent Continuous Group-Key Agreement,” in
21st International Conference on Theory of Cryptography, Taipei, Taiwan,
2023, vol. 14371, pp. 271–300.
ista: 'Auerbach B, Cueto Noval M, Pascual Perez G, Pietrzak KZ. 2023. On the cost
of post-compromise security in concurrent Continuous Group-Key Agreement. 21st
International Conference on Theory of Cryptography. TCC: Theory of Cryptography,
LNCS, vol. 14371, 271–300.'
mla: Auerbach, Benedikt, et al. “On the Cost of Post-Compromise Security in Concurrent
Continuous Group-Key Agreement.” 21st International Conference on Theory of
Cryptography, vol. 14371, Springer Nature, 2023, pp. 271–300, doi:10.1007/978-3-031-48621-0_10.
short: B. Auerbach, M. Cueto Noval, G. Pascual Perez, K.Z. Pietrzak, in:, 21st International
Conference on Theory of Cryptography, Springer Nature, 2023, pp. 271–300.
conference:
end_date: 2023-12-02
location: Taipei, Taiwan
name: 'TCC: Theory of Cryptography'
start_date: 2023-11-29
date_created: 2023-12-17T23:00:53Z
date_published: 2023-11-27T00:00:00Z
date_updated: 2023-12-18T08:36:51Z
day: '27'
department:
- _id: KrPi
doi: 10.1007/978-3-031-48621-0_10
intvolume: ' 14371'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2023/1123
month: '11'
oa: 1
oa_version: Preprint
page: 271-300
publication: 21st International Conference on Theory of Cryptography
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783031486203'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the cost of post-compromise security in concurrent Continuous Group-Key
Agreement
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14371
year: '2023'
...
---
_id: '14692'
abstract:
- lang: eng
text: "The generic-group model (GGM) aims to capture algorithms working over groups
of prime order that only rely on the group operation, but do not exploit any additional
structure given by the concrete implementation of the group. In it, it is possible
to prove information-theoretic lower bounds on the hardness of problems like the
discrete logarithm (DL) or computational Diffie-Hellman (CDH). Thus, since its
introduction, it has served as a valuable tool to assess the concrete security
provided by cryptographic schemes based on such problems. A work on the related
algebraic-group model (AGM) introduced a method, used by many subsequent works,
to adapt GGM lower bounds for one problem to another, by means of conceptually
simple reductions.\r\nIn this work, we propose an alternative approach to extend
GGM bounds from one problem to another. Following an idea by Yun [EC15], we show
that, in the GGM, the security of a large class of problems can be reduced to
that of geometric search-problems. By reducing the security of the resulting geometric-search
problems to variants of the search-by-hypersurface problem, for which information
theoretic lower bounds exist, we give alternative proofs of several results that
used the AGM approach.\r\nThe main advantage of our approach is that our reduction
from geometric search-problems works, as well, for the GGM with preprocessing
(more precisely the bit-fixing GGM introduced by Coretti, Dodis and Guo [Crypto18]).
As a consequence, this opens up the possibility of transferring preprocessing
GGM bounds from one problem to another, also by means of simple reductions. Concretely,
we prove novel preprocessing bounds on the hardness of the d-strong discrete logarithm,
the d-strong Diffie-Hellman inversion, and multi-instance CDH problems, as well
as a large class of Uber assumptions. Additionally, our approach applies to Shoup’s
GGM without additional restrictions on the query behavior of the adversary, while
the recent works of Zhang, Zhou, and Katz [AC22] and Zhandry [Crypto22] highlight
that this is not the case for the AGM approach."
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Benedikt
full_name: Auerbach, Benedikt
id: D33D2B18-E445-11E9-ABB7-15F4E5697425
last_name: Auerbach
orcid: 0000-0002-7553-6606
- first_name: Charlotte
full_name: Hoffmann, Charlotte
id: 0f78d746-dc7d-11ea-9b2f-83f92091afe7
last_name: Hoffmann
orcid: 0000-0003-2027-5549
- first_name: Guillermo
full_name: Pascual Perez, Guillermo
id: 2D7ABD02-F248-11E8-B48F-1D18A9856A87
last_name: Pascual Perez
orcid: 0000-0001-8630-415X
citation:
ama: 'Auerbach B, Hoffmann C, Pascual Perez G. Generic-group lower bounds via reductions
between geometric-search problems: With and without preprocessing. In: 21st
International Conference on Theory of Cryptography. Vol 14371. Springer Nature;
2023:301-330. doi:10.1007/978-3-031-48621-0_11'
apa: 'Auerbach, B., Hoffmann, C., & Pascual Perez, G. (2023). Generic-group
lower bounds via reductions between geometric-search problems: With and without
preprocessing. In 21st International Conference on Theory of Cryptography
(Vol. 14371, pp. 301–330). Springer Nature. https://doi.org/10.1007/978-3-031-48621-0_11'
chicago: 'Auerbach, Benedikt, Charlotte Hoffmann, and Guillermo Pascual Perez. “Generic-Group
Lower Bounds via Reductions between Geometric-Search Problems: With and without
Preprocessing.” In 21st International Conference on Theory of Cryptography,
14371:301–30. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-48621-0_11.'
ieee: 'B. Auerbach, C. Hoffmann, and G. Pascual Perez, “Generic-group lower bounds
via reductions between geometric-search problems: With and without preprocessing,”
in 21st International Conference on Theory of Cryptography, 2023, vol.
14371, pp. 301–330.'
ista: 'Auerbach B, Hoffmann C, Pascual Perez G. 2023. Generic-group lower bounds
via reductions between geometric-search problems: With and without preprocessing.
21st International Conference on Theory of Cryptography. , LNCS, vol. 14371, 301–330.'
mla: 'Auerbach, Benedikt, et al. “Generic-Group Lower Bounds via Reductions between
Geometric-Search Problems: With and without Preprocessing.” 21st International
Conference on Theory of Cryptography, vol. 14371, Springer Nature, 2023, pp.
301–30, doi:10.1007/978-3-031-48621-0_11.'
short: B. Auerbach, C. Hoffmann, G. Pascual Perez, in:, 21st International Conference
on Theory of Cryptography, Springer Nature, 2023, pp. 301–330.
date_created: 2023-12-17T23:00:54Z
date_published: 2023-11-27T00:00:00Z
date_updated: 2023-12-18T09:17:03Z
day: '27'
department:
- _id: KrPi
doi: 10.1007/978-3-031-48621-0_11
intvolume: ' 14371'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2023/808
month: '11'
oa: 1
oa_version: Preprint
page: 301-330
publication: 21st International Conference on Theory of Cryptography
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783031486203'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Generic-group lower bounds via reductions between geometric-search problems:
With and without preprocessing'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14371
year: '2023'
...
---
_id: '14690'
abstract:
- lang: eng
text: Generalized multifractality characterizes system size dependence of pure scaling
local observables at Anderson transitions in all 10 symmetry classes of disordered
systems. Recently, the concept of generalized multifractality has been extended
to boundaries of critical disordered noninteracting systems. Here we study the
generalized boundary multifractality in the presence of electron-electron interaction,
focusing on the spin quantum Hall symmetry class (class C). Employing the two-loop
renormalization group analysis within the Finkel'stein nonlinear sigma model,
we compute the anomalous dimensions of the pure scaling operators located at the
boundary of the system. We find that generalized boundary multifractal exponents
are twice larger than their bulk counterparts. Exact symmetry relations between
generalized boundary multifractal exponents in the case of noninteracting systems
are explicitly broken by the interaction.
acknowledgement: The authors are grateful to J. Karcher and A. Mirlin for collaboration
on the related project. We thank I. Gruzberg and A. Mirlin for useful discussions
and comments. I.S.B. is grateful to M. Parfenov and P. Ostrovsky for collaboration
on the related project. The research was supported by Russian Science Foundation
(Grant No. 22-42-04416).
article_number: '205429'
article_processing_charge: No
article_type: original
author:
- first_name: Serafim
full_name: Babkin, Serafim
id: 41e64307-6672-11ee-b9ad-cc7a0075a479
last_name: Babkin
orcid: 0009-0003-7382-8036
- first_name: I
full_name: Burmistrov, I
last_name: Burmistrov
citation:
ama: Babkin S, Burmistrov I. Boundary multifractality in the spin quantum Hall symmetry
class with interaction. Physical Review B. 2023;108(20). doi:10.1103/PhysRevB.108.205429
apa: Babkin, S., & Burmistrov, I. (2023). Boundary multifractality in the spin
quantum Hall symmetry class with interaction. Physical Review B. American
Physical Society. https://doi.org/10.1103/PhysRevB.108.205429
chicago: Babkin, Serafim, and I Burmistrov. “Boundary Multifractality in the Spin
Quantum Hall Symmetry Class with Interaction.” Physical Review B. American
Physical Society, 2023. https://doi.org/10.1103/PhysRevB.108.205429.
ieee: S. Babkin and I. Burmistrov, “Boundary multifractality in the spin quantum
Hall symmetry class with interaction,” Physical Review B, vol. 108, no.
20. American Physical Society, 2023.
ista: Babkin S, Burmistrov I. 2023. Boundary multifractality in the spin quantum
Hall symmetry class with interaction. Physical Review B. 108(20), 205429.
mla: Babkin, Serafim, and I. Burmistrov. “Boundary Multifractality in the Spin Quantum
Hall Symmetry Class with Interaction.” Physical Review B, vol. 108, no.
20, 205429, American Physical Society, 2023, doi:10.1103/PhysRevB.108.205429.
short: S. Babkin, I. Burmistrov, Physical Review B 108 (2023).
date_created: 2023-12-17T23:00:53Z
date_published: 2023-11-15T00:00:00Z
date_updated: 2023-12-18T08:45:28Z
day: '15'
department:
- _id: MaSe
doi: 10.1103/PhysRevB.108.205429
external_id:
arxiv:
- '2308.16852'
intvolume: ' 108'
issue: '20'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.48550/arXiv.2308.16852'
month: '11'
oa: 1
oa_version: Preprint
publication: Physical Review B
publication_identifier:
eissn:
- 2469-9969
issn:
- 2469-9950
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Boundary multifractality in the spin quantum Hall symmetry class with interaction
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 108
year: '2023'
...
---
_id: '14689'
article_processing_charge: No
article_type: letter_note
author:
- first_name: Elizabeth
full_name: Ing-Simmons, Elizabeth
last_name: Ing-Simmons
- first_name: Nick N
full_name: Machnik, Nick N
id: 3591A0AA-F248-11E8-B48F-1D18A9856A87
last_name: Machnik
orcid: 0000-0001-6617-9742
- first_name: Juan M.
full_name: Vaquerizas, Juan M.
last_name: Vaquerizas
citation:
ama: 'Ing-Simmons E, Machnik NN, Vaquerizas JM. Reply to: Revisiting the use of
structural similarity index in Hi-C. Nature Genetics. 2023;55(12):2053-2055.
doi:10.1038/s41588-023-01595-5'
apa: 'Ing-Simmons, E., Machnik, N. N., & Vaquerizas, J. M. (2023). Reply to:
Revisiting the use of structural similarity index in Hi-C. Nature Genetics.
Springer Nature. https://doi.org/10.1038/s41588-023-01595-5'
chicago: 'Ing-Simmons, Elizabeth, Nick N Machnik, and Juan M. Vaquerizas. “Reply
to: Revisiting the Use of Structural Similarity Index in Hi-C.” Nature Genetics.
Springer Nature, 2023. https://doi.org/10.1038/s41588-023-01595-5.'
ieee: 'E. Ing-Simmons, N. N. Machnik, and J. M. Vaquerizas, “Reply to: Revisiting
the use of structural similarity index in Hi-C,” Nature Genetics, vol.
55, no. 12. Springer Nature, pp. 2053–2055, 2023.'
ista: 'Ing-Simmons E, Machnik NN, Vaquerizas JM. 2023. Reply to: Revisiting the
use of structural similarity index in Hi-C. Nature Genetics. 55(12), 2053–2055.'
mla: 'Ing-Simmons, Elizabeth, et al. “Reply to: Revisiting the Use of Structural
Similarity Index in Hi-C.” Nature Genetics, vol. 55, no. 12, Springer Nature,
2023, pp. 2053–55, doi:10.1038/s41588-023-01595-5.'
short: E. Ing-Simmons, N.N. Machnik, J.M. Vaquerizas, Nature Genetics 55 (2023)
2053–2055.
date_created: 2023-12-17T23:00:53Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2023-12-18T08:51:38Z
day: '01'
department:
- _id: MaRo
doi: 10.1038/s41588-023-01595-5
external_id:
pmid:
- '38052961'
intvolume: ' 55'
issue: '12'
language:
- iso: eng
month: '12'
oa_version: None
page: 2053-2055
pmid: 1
publication: Nature Genetics
publication_identifier:
eissn:
- 1546-1718
issn:
- 1061-4036
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Reply to: Revisiting the use of structural similarity index in Hi-C'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 55
year: '2023'
...
---
_id: '14701'
article_processing_charge: No
article_type: review
author:
- first_name: Lynden A.
full_name: Archer, Lynden A.
last_name: Archer
- first_name: Peter G.
full_name: Bruce, Peter G.
last_name: Bruce
- first_name: Ernesto J.
full_name: Calvo, Ernesto J.
last_name: Calvo
- first_name: Daniel
full_name: Dewar, Daniel
last_name: Dewar
- first_name: James H. J.
full_name: Ellison, James H. J.
last_name: Ellison
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
- first_name: Xiangwen
full_name: Gao, Xiangwen
last_name: Gao
- first_name: Laurence J.
full_name: Hardwick, Laurence J.
last_name: Hardwick
- first_name: Gabriela
full_name: Horwitz, Gabriela
last_name: Horwitz
- first_name: Jürgen
full_name: Janek, Jürgen
last_name: Janek
- first_name: Lee R.
full_name: Johnson, Lee R.
last_name: Johnson
- first_name: Jack W.
full_name: Jordan, Jack W.
last_name: Jordan
- first_name: Shoichi
full_name: Matsuda, Shoichi
last_name: Matsuda
- first_name: Svetlana
full_name: Menkin, Svetlana
last_name: Menkin
- first_name: Soumyadip
full_name: Mondal, Soumyadip
id: d25d21ef-dc8d-11ea-abe3-ec4576307f48
last_name: Mondal
- first_name: Qianyuan
full_name: Qiu, Qianyuan
last_name: Qiu
- first_name: Thukshan
full_name: Samarakoon, Thukshan
last_name: Samarakoon
- first_name: Israel
full_name: Temprano, Israel
last_name: Temprano
- first_name: Kohei
full_name: Uosaki, Kohei
last_name: Uosaki
- first_name: Ganesh
full_name: Vailaya, Ganesh
last_name: Vailaya
- first_name: Eric D.
full_name: Wachsman, Eric D.
last_name: Wachsman
- first_name: Yiying
full_name: Wu, Yiying
last_name: Wu
- first_name: Shen
full_name: Ye, Shen
last_name: Ye
citation:
ama: 'Archer LA, Bruce PG, Calvo EJ, et al. Towards practical metal–oxygen batteries:
General discussion. Faraday Discussions. 2023. doi:10.1039/d3fd90062b'
apa: 'Archer, L. A., Bruce, P. G., Calvo, E. J., Dewar, D., Ellison, J. H. J., Freunberger,
S. A., … Ye, S. (2023). Towards practical metal–oxygen batteries: General discussion.
Faraday Discussions. Royal Society of Chemistry. https://doi.org/10.1039/d3fd90062b'
chicago: 'Archer, Lynden A., Peter G. Bruce, Ernesto J. Calvo, Daniel Dewar, James
H. J. Ellison, Stefan Alexander Freunberger, Xiangwen Gao, et al. “Towards Practical
Metal–Oxygen Batteries: General Discussion.” Faraday Discussions. Royal
Society of Chemistry, 2023. https://doi.org/10.1039/d3fd90062b.'
ieee: 'L. A. Archer et al., “Towards practical metal–oxygen batteries: General
discussion,” Faraday Discussions. Royal Society of Chemistry, 2023.'
ista: 'Archer LA, Bruce PG, Calvo EJ, Dewar D, Ellison JHJ, Freunberger SA, Gao
X, Hardwick LJ, Horwitz G, Janek J, Johnson LR, Jordan JW, Matsuda S, Menkin S,
Mondal S, Qiu Q, Samarakoon T, Temprano I, Uosaki K, Vailaya G, Wachsman ED, Wu
Y, Ye S. 2023. Towards practical metal–oxygen batteries: General discussion. Faraday
Discussions.'
mla: 'Archer, Lynden A., et al. “Towards Practical Metal–Oxygen Batteries: General
Discussion.” Faraday Discussions, Royal Society of Chemistry, 2023, doi:10.1039/d3fd90062b.'
short: L.A. Archer, P.G. Bruce, E.J. Calvo, D. Dewar, J.H.J. Ellison, S.A. Freunberger,
X. Gao, L.J. Hardwick, G. Horwitz, J. Janek, L.R. Johnson, J.W. Jordan, S. Matsuda,
S. Menkin, S. Mondal, Q. Qiu, T. Samarakoon, I. Temprano, K. Uosaki, G. Vailaya,
E.D. Wachsman, Y. Wu, S. Ye, Faraday Discussions (2023).
date_created: 2023-12-20T10:48:09Z
date_published: 2023-12-19T00:00:00Z
date_updated: 2023-12-20T11:54:06Z
day: '19'
department:
- _id: StFr
doi: 10.1039/d3fd90062b
keyword:
- Physical and Theoretical Chemistry
language:
- iso: eng
month: '12'
oa_version: None
publication: Faraday Discussions
publication_identifier:
eissn:
- 1364-5498
issn:
- 1359-6640
publication_status: epub_ahead
publisher: Royal Society of Chemistry
quality_controlled: '1'
status: public
title: 'Towards practical metal–oxygen batteries: General discussion'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14702'
article_processing_charge: No
article_type: review
author:
- first_name: Gary A.
full_name: Attard, Gary A.
last_name: Attard
- first_name: Ernesto J.
full_name: Calvo, Ernesto J.
last_name: Calvo
- first_name: Larry A.
full_name: Curtiss, Larry A.
last_name: Curtiss
- first_name: Daniel
full_name: Dewar, Daniel
last_name: Dewar
- first_name: James H. J.
full_name: Ellison, James H. J.
last_name: Ellison
- first_name: Xiangwen
full_name: Gao, Xiangwen
last_name: Gao
- first_name: Clare P.
full_name: Grey, Clare P.
last_name: Grey
- first_name: Laurence J.
full_name: Hardwick, Laurence J.
last_name: Hardwick
- first_name: Gabriela
full_name: Horwitz, Gabriela
last_name: Horwitz
- first_name: Juergen
full_name: Janek, Juergen
last_name: Janek
- first_name: Lee R.
full_name: Johnson, Lee R.
last_name: Johnson
- first_name: Jack W.
full_name: Jordan, Jack W.
last_name: Jordan
- first_name: Shoichi
full_name: Matsuda, Shoichi
last_name: Matsuda
- first_name: Soumyadip
full_name: Mondal, Soumyadip
id: d25d21ef-dc8d-11ea-abe3-ec4576307f48
last_name: Mondal
- first_name: Alex R.
full_name: Neale, Alex R.
last_name: Neale
- first_name: Nagore
full_name: Ortiz-Vitoriano, Nagore
last_name: Ortiz-Vitoriano
- first_name: Israel
full_name: Temprano, Israel
last_name: Temprano
- first_name: Ganesh
full_name: Vailaya, Ganesh
last_name: Vailaya
- first_name: Eric D.
full_name: Wachsman, Eric D.
last_name: Wachsman
- first_name: Hsien-Hau
full_name: Wang, Hsien-Hau
last_name: Wang
- first_name: Yiying
full_name: Wu, Yiying
last_name: Wu
- first_name: Shen
full_name: Ye, Shen
last_name: Ye
citation:
ama: 'Attard GA, Calvo EJ, Curtiss LA, et al. Materials for stable metal–oxygen
battery cathodes: general discussion. Faraday Discussions. 2023. doi:10.1039/d3fd90059b'
apa: 'Attard, G. A., Calvo, E. J., Curtiss, L. A., Dewar, D., Ellison, J. H. J.,
Gao, X., … Ye, S. (2023). Materials for stable metal–oxygen battery cathodes:
general discussion. Faraday Discussions. Royal Society of Chemistry. https://doi.org/10.1039/d3fd90059b'
chicago: 'Attard, Gary A., Ernesto J. Calvo, Larry A. Curtiss, Daniel Dewar, James
H. J. Ellison, Xiangwen Gao, Clare P. Grey, et al. “Materials for Stable Metal–Oxygen
Battery Cathodes: General Discussion.” Faraday Discussions. Royal Society
of Chemistry, 2023. https://doi.org/10.1039/d3fd90059b.'
ieee: 'G. A. Attard et al., “Materials for stable metal–oxygen battery cathodes:
general discussion,” Faraday Discussions. Royal Society of Chemistry, 2023.'
ista: 'Attard GA, Calvo EJ, Curtiss LA, Dewar D, Ellison JHJ, Gao X, Grey CP, Hardwick
LJ, Horwitz G, Janek J, Johnson LR, Jordan JW, Matsuda S, Mondal S, Neale AR,
Ortiz-Vitoriano N, Temprano I, Vailaya G, Wachsman ED, Wang H-H, Wu Y, Ye S. 2023.
Materials for stable metal–oxygen battery cathodes: general discussion. Faraday
Discussions.'
mla: 'Attard, Gary A., et al. “Materials for Stable Metal–Oxygen Battery Cathodes:
General Discussion.” Faraday Discussions, Royal Society of Chemistry, 2023,
doi:10.1039/d3fd90059b.'
short: G.A. Attard, E.J. Calvo, L.A. Curtiss, D. Dewar, J.H.J. Ellison, X. Gao,
C.P. Grey, L.J. Hardwick, G. Horwitz, J. Janek, L.R. Johnson, J.W. Jordan, S.
Matsuda, S. Mondal, A.R. Neale, N. Ortiz-Vitoriano, I. Temprano, G. Vailaya, E.D.
Wachsman, H.-H. Wang, Y. Wu, S. Ye, Faraday Discussions (2023).
date_created: 2023-12-20T10:49:43Z
date_published: 2023-12-18T00:00:00Z
date_updated: 2023-12-20T11:58:12Z
day: '18'
department:
- _id: StFr
doi: 10.1039/d3fd90059b
keyword:
- Physical and Theoretical Chemistry
language:
- iso: eng
month: '12'
oa_version: None
publication: Faraday Discussions
publication_identifier:
eissn:
- 1364-5498
issn:
- 1359-6640
publication_status: epub_ahead
publisher: Royal Society of Chemistry
quality_controlled: '1'
status: public
title: 'Materials for stable metal–oxygen battery cathodes: general discussion'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14360'
abstract:
- lang: eng
text: To navigate through diverse tissues, migrating cells must balance persistent
self-propelled motion with adaptive behaviors to circumvent obstacles. We identify
a curvature-sensing mechanism underlying obstacle evasion in immune-like cells.
Specifically, we propose that actin polymerization at the advancing edge of migrating
cells is inhibited by the curvature-sensitive BAR domain protein Snx33 in regions
with inward plasma membrane curvature. The genetic perturbation of this machinery
reduces the cells’ capacity to evade obstructions combined with faster and more
persistent cell migration in obstacle-free environments. Our results show how
cells can read out their surface topography and utilize actin and plasma membrane
biophysics to interpret their environment, allowing them to adaptively decide
if they should move ahead or turn away. On the basis of our findings, we propose
that the natural diversity of BAR domain proteins may allow cells to tune their
curvature sensing machinery to match the shape characteristics in their environment.
acknowledgement: "We thank Jan Ellenberg, Leanne Strauss, Anusha Gopalan, and Jia
Hui Li for critical feedback on the manuscript and the Life Science Editors for
editing assistance. The plasmid with hSnx33 was a kind gift from Duanqing Pei. Cell
line with GFP-tagged IRSp53 was a kind gift from Orion Weiner. We thank Brian Graziano
for providing protocols, reagents, and key advice to generate CRISPR knockout HL-60
cells. We thank the EMBL flow cytometry core facility, the EMBL advanced light microscopy
facility, the EMBL proteomics facility, and the EMBL genomics core facility for
support and advice. We thank Anusha Gopalan and Martin Bergert for their support
during mechanical measurements by AFM. We thank Estela Sosa Osorio for technical
assistance for the co-immunoprecipitation. We thank the EMBL genome biology computational
support (and specially Charles Girardot and Jelle Scholtalbers) for critical assistance
during RNAseq analysis. We thank Hans Kristian Hannibal‐Bach for his technical assistance
during the lipidomic analysis of plasma membrane isolates. We thank Steffen Burgold
for their support with LLS7 microscope in the ZEISS Microscopy Customer Center Europe.
We acknowledge the financial support of the European Molecular Biology Laboratory
(EMBL) to A.D.-M., Y.S., A.K., and A.E., the EMBL Interdisciplinary Postdocs (EIPOD)
program under Marie Sklodowska-Curie COFUND actions MSCA-COFUND-FP to M.S.B. and
M. S. (grant agreement number: 847543), the BEST program funding by FCT (SFRH/BEST/150300/2019)
to S.D.A. and the Joachim Herz Stiftung Add-on Fellowship for Interdisciplinary
Science to E.S.\r\nOpen Access funding enabled and organized by Projekt DEAL."
article_number: '5644'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Ewa
full_name: Sitarska, Ewa
last_name: Sitarska
- first_name: Silvia Dias
full_name: Almeida, Silvia Dias
last_name: Almeida
- first_name: Marianne Sandvold
full_name: Beckwith, Marianne Sandvold
last_name: Beckwith
- first_name: Julian A
full_name: Stopp, Julian A
id: 489E3F00-F248-11E8-B48F-1D18A9856A87
last_name: Stopp
- first_name: Jakub
full_name: Czuchnowski, Jakub
last_name: Czuchnowski
- first_name: Marc
full_name: Siggel, Marc
last_name: Siggel
- first_name: Rita
full_name: Roessner, Rita
last_name: Roessner
- first_name: Aline
full_name: Tschanz, Aline
last_name: Tschanz
- first_name: Christer
full_name: Ejsing, Christer
last_name: Ejsing
- first_name: Yannick
full_name: Schwab, Yannick
last_name: Schwab
- first_name: Jan
full_name: Kosinski, Jan
last_name: Kosinski
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Anna
full_name: Kreshuk, Anna
last_name: Kreshuk
- first_name: Anna
full_name: Erzberger, Anna
last_name: Erzberger
- first_name: Alba
full_name: Diz-Muñoz, Alba
last_name: Diz-Muñoz
citation:
ama: Sitarska E, Almeida SD, Beckwith MS, et al. Sensing their plasma membrane curvature
allows migrating cells to circumvent obstacles. Nature Communications.
2023;14. doi:10.1038/s41467-023-41173-1
apa: Sitarska, E., Almeida, S. D., Beckwith, M. S., Stopp, J. A., Czuchnowski, J.,
Siggel, M., … Diz-Muñoz, A. (2023). Sensing their plasma membrane curvature allows
migrating cells to circumvent obstacles. Nature Communications. Springer
Nature. https://doi.org/10.1038/s41467-023-41173-1
chicago: Sitarska, Ewa, Silvia Dias Almeida, Marianne Sandvold Beckwith, Julian
A Stopp, Jakub Czuchnowski, Marc Siggel, Rita Roessner, et al. “Sensing Their
Plasma Membrane Curvature Allows Migrating Cells to Circumvent Obstacles.” Nature
Communications. Springer Nature, 2023. https://doi.org/10.1038/s41467-023-41173-1.
ieee: E. Sitarska et al., “Sensing their plasma membrane curvature allows
migrating cells to circumvent obstacles,” Nature Communications, vol. 14.
Springer Nature, 2023.
ista: Sitarska E, Almeida SD, Beckwith MS, Stopp JA, Czuchnowski J, Siggel M, Roessner
R, Tschanz A, Ejsing C, Schwab Y, Kosinski J, Sixt MK, Kreshuk A, Erzberger A,
Diz-Muñoz A. 2023. Sensing their plasma membrane curvature allows migrating cells
to circumvent obstacles. Nature Communications. 14, 5644.
mla: Sitarska, Ewa, et al. “Sensing Their Plasma Membrane Curvature Allows Migrating
Cells to Circumvent Obstacles.” Nature Communications, vol. 14, 5644, Springer
Nature, 2023, doi:10.1038/s41467-023-41173-1.
short: E. Sitarska, S.D. Almeida, M.S. Beckwith, J.A. Stopp, J. Czuchnowski, M.
Siggel, R. Roessner, A. Tschanz, C. Ejsing, Y. Schwab, J. Kosinski, M.K. Sixt,
A. Kreshuk, A. Erzberger, A. Diz-Muñoz, Nature Communications 14 (2023).
date_created: 2023-09-24T22:01:10Z
date_published: 2023-09-13T00:00:00Z
date_updated: 2023-12-21T14:30:01Z
day: '13'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.1038/s41467-023-41173-1
external_id:
isi:
- '001087583700008'
pmid:
- '37704612'
file:
- access_level: open_access
checksum: ad670e3b3c64fc585675948370f6b149
content_type: application/pdf
creator: dernst
date_created: 2023-09-25T08:22:58Z
date_updated: 2023-09-25T08:22:58Z
file_id: '14365'
file_name: 2023_NatureComm_Sitarska.pdf
file_size: 2725421
relation: main_file
success: 1
file_date_updated: 2023-09-25T08:22:58Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '14697'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Sensing their plasma membrane curvature allows migrating cells to circumvent
obstacles
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2023'
...
---
_id: '14274'
abstract:
- lang: eng
text: Immune responses rely on the rapid and coordinated migration of leukocytes.
Whereas it is well established that single-cell migration is often guided by gradients
of chemokines and other chemoattractants, it remains poorly understood how these
gradients are generated, maintained, and modulated. By combining experimental
data with theory on leukocyte chemotaxis guided by the G protein–coupled receptor
(GPCR) CCR7, we demonstrate that in addition to its role as the sensory receptor
that steers migration, CCR7 also acts as a generator and a modulator of chemotactic
gradients. Upon exposure to the CCR7 ligand CCL19, dendritic cells (DCs) effectively
internalize the receptor and ligand as part of the canonical GPCR desensitization
response. We show that CCR7 internalization also acts as an effective sink for
the chemoattractant, dynamically shaping the spatiotemporal distribution of the
chemokine. This mechanism drives complex collective migration patterns, enabling
DCs to create or sharpen chemotactic gradients. We further show that these self-generated
gradients can sustain the long-range guidance of DCs, adapt collective migration
patterns to the size and geometry of the environment, and provide a guidance cue
for other comigrating cells. Such a dual role of CCR7 as a GPCR that both senses
and consumes its ligand can thus provide a novel mode of cellular self-organization.
acknowledgement: "We thank I. de Vries and the Scientific Service Units (Life Sciences,
Bioimaging, Nanofabrication, Preclinical and Miba Machine Shop) of the Institute
of Science and Technology Austria for excellent support, as well as all the rotation
students assisting in the laboratory work (B. Zens, H. Schön, and D. Babic).\r\nThis
work was supported by grants from the European Research Council under the European
Union’s Horizon 2020 research to M.S. (grant agreement no. 724373) and to E.H. (grant
agreement no. 851288), and a grant by the Austrian Science Fund (DK Nanocell W1250-B20)
to M.S. J.A. was supported by the Jenny and Antti Wihuri Foundation and Research
Council of Finland's Flagship Programme InFLAMES (decision number: 357910). M.C.U.
was supported by the European Union’s Horizon 2020 research and innovation programme
under the Marie Skłodowska-Curie grant agreement no. 754411."
article_number: adc9584
article_processing_charge: No
article_type: original
author:
- first_name: Jonna H
full_name: Alanko, Jonna H
id: 2CC12E8C-F248-11E8-B48F-1D18A9856A87
last_name: Alanko
orcid: 0000-0002-7698-3061
- first_name: Mehmet C
full_name: Ucar, Mehmet C
id: 50B2A802-6007-11E9-A42B-EB23E6697425
last_name: Ucar
orcid: 0000-0003-0506-4217
- first_name: Nikola
full_name: Canigova, Nikola
id: 3795523E-F248-11E8-B48F-1D18A9856A87
last_name: Canigova
orcid: 0000-0002-8518-5926
- first_name: Julian A
full_name: Stopp, Julian A
id: 489E3F00-F248-11E8-B48F-1D18A9856A87
last_name: Stopp
- first_name: Jan
full_name: Schwarz, Jan
id: 346C1EC6-F248-11E8-B48F-1D18A9856A87
last_name: Schwarz
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
citation:
ama: Alanko JH, Ucar MC, Canigova N, et al. CCR7 acts as both a sensor and a sink
for CCL19 to coordinate collective leukocyte migration. Science Immunology.
2023;8(87). doi:10.1126/sciimmunol.adc9584
apa: Alanko, J. H., Ucar, M. C., Canigova, N., Stopp, J. A., Schwarz, J., Merrin,
J., … Sixt, M. K. (2023). CCR7 acts as both a sensor and a sink for CCL19 to coordinate
collective leukocyte migration. Science Immunology. American Association
for the Advancement of Science. https://doi.org/10.1126/sciimmunol.adc9584
chicago: Alanko, Jonna H, Mehmet C Ucar, Nikola Canigova, Julian A Stopp, Jan Schwarz,
Jack Merrin, Edouard B Hannezo, and Michael K Sixt. “CCR7 Acts as Both a Sensor
and a Sink for CCL19 to Coordinate Collective Leukocyte Migration.” Science
Immunology. American Association for the Advancement of Science, 2023. https://doi.org/10.1126/sciimmunol.adc9584.
ieee: J. H. Alanko et al., “CCR7 acts as both a sensor and a sink for CCL19
to coordinate collective leukocyte migration,” Science Immunology, vol.
8, no. 87. American Association for the Advancement of Science, 2023.
ista: Alanko JH, Ucar MC, Canigova N, Stopp JA, Schwarz J, Merrin J, Hannezo EB,
Sixt MK. 2023. CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective
leukocyte migration. Science Immunology. 8(87), adc9584.
mla: Alanko, Jonna H., et al. “CCR7 Acts as Both a Sensor and a Sink for CCL19 to
Coordinate Collective Leukocyte Migration.” Science Immunology, vol. 8,
no. 87, adc9584, American Association for the Advancement of Science, 2023, doi:10.1126/sciimmunol.adc9584.
short: J.H. Alanko, M.C. Ucar, N. Canigova, J.A. Stopp, J. Schwarz, J. Merrin, E.B.
Hannezo, M.K. Sixt, Science Immunology 8 (2023).
date_created: 2023-09-06T08:07:51Z
date_published: 2023-09-01T00:00:00Z
date_updated: 2023-12-21T14:30:01Z
day: '01'
department:
- _id: MiSi
- _id: EdHa
- _id: NanoFab
doi: 10.1126/sciimmunol.adc9584
ec_funded: 1
external_id:
isi:
- '001062110600003'
pmid:
- '37656776'
intvolume: ' 8'
isi: 1
issue: '87'
keyword:
- General Medicine
- Immunology
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1126/sciimmunol.adc9584
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25FE9508-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '724373'
name: Cellular navigation along spatial gradients
- _id: 05943252-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '851288'
name: Design Principles of Branching Morphogenesis
- _id: 265E2996-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: W01250-B20
name: Nano-Analytics of Cellular Systems
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Science Immunology
publication_identifier:
issn:
- 2470-9468
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
related_material:
record:
- id: '14279'
relation: research_data
status: public
- id: '14697'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective leukocyte
migration
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2023'
...
---
_id: '14697'
acknowledged_ssus:
- _id: LifeSc
- _id: Bio
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Julian A
full_name: Stopp, Julian A
id: 489E3F00-F248-11E8-B48F-1D18A9856A87
last_name: Stopp
citation:
ama: 'Stopp JA. Neutrophils on the hunt: Migratory strategies employed by neutrophils
to fulfill their effector function. 2023. doi:10.15479/at:ista:14697'
apa: 'Stopp, J. A. (2023). Neutrophils on the hunt: Migratory strategies employed
by neutrophils to fulfill their effector function. Institute of Science and
Technology Austria. https://doi.org/10.15479/at:ista:14697'
chicago: 'Stopp, Julian A. “Neutrophils on the Hunt: Migratory Strategies Employed
by Neutrophils to Fulfill Their Effector Function.” Institute of Science and Technology
Austria, 2023. https://doi.org/10.15479/at:ista:14697.'
ieee: 'J. A. Stopp, “Neutrophils on the hunt: Migratory strategies employed by neutrophils
to fulfill their effector function,” Institute of Science and Technology Austria,
2023.'
ista: 'Stopp JA. 2023. Neutrophils on the hunt: Migratory strategies employed by
neutrophils to fulfill their effector function. Institute of Science and Technology
Austria.'
mla: 'Stopp, Julian A. Neutrophils on the Hunt: Migratory Strategies Employed
by Neutrophils to Fulfill Their Effector Function. Institute of Science and
Technology Austria, 2023, doi:10.15479/at:ista:14697.'
short: 'J.A. Stopp, Neutrophils on the Hunt: Migratory Strategies Employed by Neutrophils
to Fulfill Their Effector Function, Institute of Science and Technology Austria,
2023.'
date_created: 2023-12-18T19:14:28Z
date_published: 2023-12-20T00:00:00Z
date_updated: 2023-12-21T14:30:02Z
day: '20'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: GradSch
- _id: MiSi
doi: 10.15479/at:ista:14697
ec_funded: 1
file:
- access_level: closed
checksum: 457927165d5d556305d3086f6b83e5c7
content_type: application/pdf
creator: jstopp
date_created: 2023-12-20T09:35:34Z
date_updated: 2023-12-20T09:35:34Z
embargo: 2024-12-20
embargo_to: open_access
file_id: '14699'
file_name: Thesis.pdf
file_size: 51585778
relation: main_file
- access_level: closed
checksum: e8d26449ac461f5e8478a62c9507506f
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: jstopp
date_created: 2023-12-20T09:35:35Z
date_updated: 2023-12-20T10:41:42Z
file_id: '14700'
file_name: Thesis.docx
file_size: 69625950
relation: source_file
file_date_updated: 2023-12-20T10:41:42Z
has_accepted_license: '1'
language:
- iso: eng
month: '12'
oa_version: Published Version
page: '226'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication_identifier:
isbn:
- 978-3-99078-038-1
issn:
- 2663 - 337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '6328'
relation: part_of_dissertation
status: public
- id: '7885'
relation: part_of_dissertation
status: public
- id: '12272'
relation: part_of_dissertation
status: public
- id: '14274'
relation: part_of_dissertation
status: public
- id: '14360'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
title: 'Neutrophils on the hunt: Migratory strategies employed by neutrophils to fulfill
their effector function'
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2023'
...
---
_id: '14651'
abstract:
- lang: eng
text: 'For self-incompatibility (SI) to be stable in a population, theory predicts
that sufficient inbreeding depression (ID) is required: the fitness of offspring
from self-mated individuals must be low enough to prevent the spread of self-compatibility
(SC). Reviews of natural plant populations have supported this theory, with SI
species generally showing high levels of ID. However, there is thought to be an
under-sampling of self-incompatible taxa in the current literature. In this thesis,
I study inbreeding depression in the SI plant species Antirrhinum majus using
both greenhouse crosses and a large collected field dataset. Additionally, the
gametophytic S-locus of A. majus is highly heterozygous and polymorphic, thus
making assembly and discovery of S-alleles very difficult. Here, 206 new alleles
of the male component SLFs are presented, along with a phylogeny showing the high
conservation with alleles from another Antirrhinum species. Lastly, selected sites
within the protein structure of SLFs are investigated, with one site in particular
highlighted as potentially being involved in the SI recognition mechanism.'
acknowledged_ssus:
- _id: ScienComp
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Louise S
full_name: Arathoon, Louise S
id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87
last_name: Arathoon
orcid: 0000-0003-1771-714X
citation:
ama: Arathoon LS. Investigating inbreeding depression and the self-incompatibility
locus of Antirrhinum majus. 2023. doi:10.15479/at:ista:14651
apa: Arathoon, L. S. (2023). Investigating inbreeding depression and the self-incompatibility
locus of Antirrhinum majus. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:14651
chicago: Arathoon, Louise S. “Investigating Inbreeding Depression and the Self-Incompatibility
Locus of Antirrhinum Majus.” Institute of Science and Technology Austria, 2023.
https://doi.org/10.15479/at:ista:14651.
ieee: L. S. Arathoon, “Investigating inbreeding depression and the self-incompatibility
locus of Antirrhinum majus,” Institute of Science and Technology Austria, 2023.
ista: Arathoon LS. 2023. Investigating inbreeding depression and the self-incompatibility
locus of Antirrhinum majus. Institute of Science and Technology Austria.
mla: Arathoon, Louise S. Investigating Inbreeding Depression and the Self-Incompatibility
Locus of Antirrhinum Majus. Institute of Science and Technology Austria, 2023,
doi:10.15479/at:ista:14651.
short: L.S. Arathoon, Investigating Inbreeding Depression and the Self-Incompatibility
Locus of Antirrhinum Majus, Institute of Science and Technology Austria, 2023.
date_created: 2023-12-11T19:30:37Z
date_published: 2023-12-12T00:00:00Z
date_updated: 2023-12-22T11:04:45Z
day: '12'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: GradSch
- _id: NiBa
doi: 10.15479/at:ista:14651
ec_funded: 1
file:
- access_level: open_access
checksum: 520bdb61e95e66070e02824947d2c5fa
content_type: application/pdf
creator: larathoo
date_created: 2023-12-13T15:37:55Z
date_updated: 2023-12-13T15:37:55Z
file_id: '14684'
file_name: Phd_Thesis_LA.pdf
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content_type: application/zip
creator: larathoo
date_created: 2023-12-13T15:42:23Z
date_updated: 2023-12-14T08:58:18Z
file_id: '14685'
file_name: Phd_Thesis_LA.zip
file_size: 31052872
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checksum: 9a778c949932286f4519e1f1fca2820d
content_type: application/zip
creator: larathoo
date_created: 2023-12-11T19:24:59Z
date_updated: 2023-12-14T08:58:18Z
file_id: '14681'
file_name: Supplementary_Materials.zip
file_size: 10713896
relation: supplementary_material
file_date_updated: 2023-12-14T08:58:18Z
has_accepted_license: '1'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: '96'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication_identifier:
issn:
- 2663 - 337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '11411'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
title: Investigating inbreeding depression and the self-incompatibility locus of Antirrhinum
majus
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2023'
...
---
_id: '14703'
abstract:
- lang: eng
text: We present a discretization of the dynamic optimal transport problem for which
we can obtain the convergence rate for the value of the transport cost to its
continuous value when the temporal and spatial stepsize vanish. This convergence
result does not require any regularity assumption on the measures, though experiments
suggest that the rate is not sharp. Via an analysis of the duality gap we also
obtain the convergence rates for the gradient of the optimal potentials and the
velocity field under mild regularity assumptions. To obtain such rates we discretize
the dual formulation of the dynamic optimal transport problem and use the mature
literature related to the error due to discretizing the Hamilton-Jacobi equation.
acknowledgement: "The authors would like to thank Chris Wojtan for his continuous
support and several interesting discussions. Part of this research was performed
during two visits: one of SI to the BIDSA research center at Bocconi University,
and one of HL to the Institute of Science and Technology Austria. Both host institutions
are warmly acknowledged for the hospital-\r\nity. HL is partially supported by the
MUR-Prin 2022-202244A7YL “Gradient Flows and Non-Smooth Geometric Structures with
Applications to Optimization and Machine Learning”, funded by the European Union
- Next Generation EU. SI is supported in part by ERC Consolidator Grant 101045083
“CoDiNA” funded by the European Research Council."
article_number: '2312.12213'
article_processing_charge: No
author:
- first_name: Sadashige
full_name: Ishida, Sadashige
id: 6F7C4B96-A8E9-11E9-A7CA-09ECE5697425
last_name: Ishida
- first_name: Hugo
full_name: Lavenant, Hugo
last_name: Lavenant
citation:
ama: Ishida S, Lavenant H. Quantitative convergence of a discretization of dynamic
optimal transport using the dual formulation. arXiv. doi:10.48550/arXiv.2312.12213
apa: Ishida, S., & Lavenant, H. (n.d.). Quantitative convergence of a discretization
of dynamic optimal transport using the dual formulation. arXiv. https://doi.org/10.48550/arXiv.2312.12213
chicago: Ishida, Sadashige, and Hugo Lavenant. “Quantitative Convergence of a Discretization
of Dynamic Optimal Transport Using the Dual Formulation.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2312.12213.
ieee: S. Ishida and H. Lavenant, “Quantitative convergence of a discretization of
dynamic optimal transport using the dual formulation,” arXiv. .
ista: Ishida S, Lavenant H. Quantitative convergence of a discretization of dynamic
optimal transport using the dual formulation. arXiv, 2312.12213.
mla: Ishida, Sadashige, and Hugo Lavenant. “Quantitative Convergence of a Discretization
of Dynamic Optimal Transport Using the Dual Formulation.” ArXiv, 2312.12213,
doi:10.48550/arXiv.2312.12213.
short: S. Ishida, H. Lavenant, ArXiv (n.d.).
date_created: 2023-12-21T10:14:37Z
date_published: 2023-12-19T00:00:00Z
date_updated: 2023-12-27T13:44:33Z
day: '19'
department:
- _id: GradSch
- _id: ChWo
doi: 10.48550/arXiv.2312.12213
external_id:
arxiv:
- '2312.12213'
keyword:
- Optimal transport
- Hamilton-Jacobi equation
- convex optimization
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2312.12213
month: '12'
oa: 1
oa_version: Preprint
project:
- _id: 34bc2376-11ca-11ed-8bc3-9a3b3961a088
grant_number: '101045083'
name: Computational Discovery of Numerical Algorithms for Animation and Simulation
of Natural Phenomena
publication: arXiv
publication_status: submitted
status: public
title: Quantitative convergence of a discretization of dynamic optimal transport using
the dual formulation
type: preprint
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14716'
abstract:
- lang: eng
text: "Background: Antimicrobial resistance (AMR) poses a significant global health
threat, and an accurate prediction of bacterial resistance patterns is critical
for effective treatment and control strategies. In recent years, machine learning
(ML) approaches have emerged as powerful tools for analyzing large-scale bacterial
AMR data. However, ML methods often ignore evolutionary relationships among bacterial
strains, which can greatly impact performance of the ML methods, especially if
resistance-associated features are attempted to be detected. Genome-wide association
studies (GWAS) methods like linear mixed models accounts for the evolutionary
relationships in bacteria, but they uncover only highly significant variants which
have already been reported in literature.\r\n\r\nResults: In this work, we introduce
a novel phylogeny-related parallelism score (PRPS), which measures whether a certain
feature is correlated with the population structure of a set of samples. We demonstrate
that PRPS can be used, in combination with SVM- and random forest-based models,
to reduce the number of features in the analysis, while simultaneously increasing
models’ performance. We applied our pipeline to publicly available AMR data from
PATRIC database for Mycobacterium tuberculosis against six common antibiotics.\r\n\r\nConclusions:
Using our pipeline, we re-discovered known resistance-associated mutations as
well as new candidate mutations which can be related to resistance and not previously
reported in the literature. We demonstrated that taking into account phylogenetic
relationships not only improves the model performance, but also yields more biologically
relevant predicted most contributing resistance markers."
acknowledgement: Open Access funding enabled and organized by Projekt DEAL. A.Y. and
O.V.K. acknowledge financial support from the Klaus Faber Foundation. A.A.A. was
funded by the Helmholtz AI project AMR-XAI. The work of O.O.B. is funded by Fonds
zur Förderung der Wissenschaftlichen Forschung (FWF), Grant ESP 253-B.
article_number: '404'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Alper
full_name: Yurtseven, Alper
last_name: Yurtseven
- first_name: Sofia
full_name: Buyanova, Sofia
id: 2F54A7BC-3902-11EA-AC87-BC9F3DDC885E
last_name: Buyanova
- first_name: Amay Ajaykumar A.
full_name: Agrawal, Amay Ajaykumar A.
last_name: Agrawal
- first_name: Olga
full_name: Bochkareva, Olga
id: C4558D3C-6102-11E9-A62E-F418E6697425
last_name: Bochkareva
orcid: 0000-0003-1006-6639
- first_name: Olga V V.
full_name: Kalinina, Olga V V.
last_name: Kalinina
citation:
ama: Yurtseven A, Buyanova S, Agrawal AAA, Bochkareva O, Kalinina OVV. Machine learning
and phylogenetic analysis allow for predicting antibiotic resistance in M. tuberculosis.
BMC Microbiology. 2023;23(1). doi:10.1186/s12866-023-03147-7
apa: Yurtseven, A., Buyanova, S., Agrawal, A. A. A., Bochkareva, O., & Kalinina,
O. V. V. (2023). Machine learning and phylogenetic analysis allow for predicting
antibiotic resistance in M. tuberculosis. BMC Microbiology. Springer Nature.
https://doi.org/10.1186/s12866-023-03147-7
chicago: Yurtseven, Alper, Sofia Buyanova, Amay Ajaykumar A. Agrawal, Olga Bochkareva,
and Olga V V. Kalinina. “Machine Learning and Phylogenetic Analysis Allow for
Predicting Antibiotic Resistance in M. Tuberculosis.” BMC Microbiology.
Springer Nature, 2023. https://doi.org/10.1186/s12866-023-03147-7.
ieee: A. Yurtseven, S. Buyanova, A. A. A. Agrawal, O. Bochkareva, and O. V. V. Kalinina,
“Machine learning and phylogenetic analysis allow for predicting antibiotic resistance
in M. tuberculosis,” BMC Microbiology, vol. 23, no. 1. Springer Nature,
2023.
ista: Yurtseven A, Buyanova S, Agrawal AAA, Bochkareva O, Kalinina OVV. 2023. Machine
learning and phylogenetic analysis allow for predicting antibiotic resistance
in M. tuberculosis. BMC Microbiology. 23(1), 404.
mla: Yurtseven, Alper, et al. “Machine Learning and Phylogenetic Analysis Allow
for Predicting Antibiotic Resistance in M. Tuberculosis.” BMC Microbiology,
vol. 23, no. 1, 404, Springer Nature, 2023, doi:10.1186/s12866-023-03147-7.
short: A. Yurtseven, S. Buyanova, A.A.A. Agrawal, O. Bochkareva, O.V.V. Kalinina,
BMC Microbiology 23 (2023).
date_created: 2023-12-31T23:01:02Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2024-01-02T09:20:57Z
day: '01'
ddc:
- '570'
department:
- _id: FyKo
doi: 10.1186/s12866-023-03147-7
external_id:
pmid:
- '38124060'
file:
- access_level: open_access
checksum: 7ff5e95f3496ff663301eb4a13a316d5
content_type: application/pdf
creator: dernst
date_created: 2024-01-02T09:09:32Z
date_updated: 2024-01-02T09:09:32Z
file_id: '14723'
file_name: 2023_BMCMicrobiology_Yurtseven.pdf
file_size: 1979922
relation: main_file
success: 1
file_date_updated: 2024-01-02T09:09:32Z
has_accepted_license: '1'
intvolume: ' 23'
issue: '1'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
publication: BMC Microbiology
publication_identifier:
eissn:
- 1471-2180
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Machine learning and phylogenetic analysis allow for predicting antibiotic
resistance in M. tuberculosis
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 23
year: '2023'
...
---
_id: '14718'
abstract:
- lang: eng
text: 'Binary decision diagrams (BDDs) are one of the fundamental data structures
in formal methods and computer science in general. However, the performance of
BDD-based algorithms greatly depends on memory latency due to the reliance on
large hash tables and thus, by extension, on the speed of random memory access.
This hinders the full utilisation of resources available on modern CPUs, since
the absolute memory latency has not improved significantly for at least a decade.
In this paper, we explore several implementation techniques that improve the performance
of BDD manipulation either through enhanced memory locality or by partially eliminating
random memory access. On a benchmark suite of 600+ BDDs derived from real-world
applications, we demonstrate runtime that is comparable or better than parallelising
the same operations on eight CPU cores. '
acknowledgement: "This work was supported by the European Union’s Horizon 2020 research
and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 101034413
and the\r\n“VAMOS” grant ERC-2020-AdG 101020093."
article_processing_charge: No
author:
- first_name: Samuel
full_name: Pastva, Samuel
id: 07c5ea74-f61c-11ec-a664-aa7c5d957b2b
last_name: Pastva
orcid: 0000-0003-1993-0331
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
citation:
ama: 'Pastva S, Henzinger TA. Binary decision diagrams on modern hardware. In: Proceedings
of the 23rd Conference on Formal Methods in Computer-Aided Design. TU Vienna
Academic Press; 2023:122-131. doi:10.34727/2023/isbn.978-3-85448-060-0_20'
apa: 'Pastva, S., & Henzinger, T. A. (2023). Binary decision diagrams on modern
hardware. In Proceedings of the 23rd Conference on Formal Methods in Computer-Aided
Design (pp. 122–131). Ames, IA, United States: TU Vienna Academic Press. https://doi.org/10.34727/2023/isbn.978-3-85448-060-0_20'
chicago: Pastva, Samuel, and Thomas A Henzinger. “Binary Decision Diagrams on Modern
Hardware.” In Proceedings of the 23rd Conference on Formal Methods in Computer-Aided
Design, 122–31. TU Vienna Academic Press, 2023. https://doi.org/10.34727/2023/isbn.978-3-85448-060-0_20.
ieee: S. Pastva and T. A. Henzinger, “Binary decision diagrams on modern hardware,”
in Proceedings of the 23rd Conference on Formal Methods in Computer-Aided Design,
Ames, IA, United States, 2023, pp. 122–131.
ista: 'Pastva S, Henzinger TA. 2023. Binary decision diagrams on modern hardware.
Proceedings of the 23rd Conference on Formal Methods in Computer-Aided Design.
FMCAD: Conference on Formal Methods in Computer-aided design, 122–131.'
mla: Pastva, Samuel, and Thomas A. Henzinger. “Binary Decision Diagrams on Modern
Hardware.” Proceedings of the 23rd Conference on Formal Methods in Computer-Aided
Design, TU Vienna Academic Press, 2023, pp. 122–31, doi:10.34727/2023/isbn.978-3-85448-060-0_20.
short: S. Pastva, T.A. Henzinger, in:, Proceedings of the 23rd Conference on Formal
Methods in Computer-Aided Design, TU Vienna Academic Press, 2023, pp. 122–131.
conference:
end_date: 2023-10-27
location: Ames, IA, United States
name: 'FMCAD: Conference on Formal Methods in Computer-aided design'
start_date: 2023-10-25
date_created: 2023-12-31T23:01:03Z
date_published: 2023-10-01T00:00:00Z
date_updated: 2024-01-02T08:16:28Z
day: '01'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.34727/2023/isbn.978-3-85448-060-0_20
ec_funded: 1
file:
- access_level: open_access
checksum: 818d6e13dd508f3a04f0941081022e5d
content_type: application/pdf
creator: dernst
date_created: 2024-01-02T08:14:23Z
date_updated: 2024-01-02T08:14:23Z
file_id: '14721'
file_name: 2023_FMCAD_Pastva.pdf
file_size: 524321
relation: main_file
success: 1
file_date_updated: 2024-01-02T08:14:23Z
has_accepted_license: '1'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 122-131
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: Proceedings of the 23rd Conference on Formal Methods in Computer-Aided
Design
publication_identifier:
isbn:
- '9783854480600'
publication_status: published
publisher: TU Vienna Academic Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Binary decision diagrams on modern hardware
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14717'
abstract:
- lang: eng
text: We count primitive lattices of rank d inside Zn as their covolume tends to
infinity, with respect to certain parameters of such lattices. These parameters
include, for example, the subspace that a lattice spans, namely its projection
to the Grassmannian; its homothety class and its equivalence class modulo rescaling
and rotation, often referred to as a shape. We add to a prior work of Schmidt
by allowing sets in the spaces of parameters that are general enough to conclude
the joint equidistribution of these parameters. In addition to the primitive d-lattices
Λ themselves, we also consider their orthogonal complements in Zn, A1, and show
that the equidistribution occurs jointly for Λ and A1. Finally, our asymptotic
formulas for the number of primitive lattices include an explicit bound on the
error term.
acknowledgement: This work was done when both authors were visiting Institute of Science
and Technology (IST) Austria. T.H. was being supported by Engineering and Physical
Sciences Research Council grant EP/P026710/1. Y.K. had a great time there and is
grateful for the hospitality. The appendix to this paper is largely based on a mini
course T.H. had given at IST in February 2020.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Tal
full_name: Horesh, Tal
id: C8B7BF48-8D81-11E9-BCA9-F536E6697425
last_name: Horesh
- first_name: Yakov
full_name: Karasik, Yakov
last_name: Karasik
citation:
ama: Horesh T, Karasik Y. Equidistribution of primitive lattices in ℝn. Quarterly
Journal of Mathematics. 2023;74(4):1253-1294. doi:10.1093/qmath/haad008
apa: Horesh, T., & Karasik, Y. (2023). Equidistribution of primitive lattices
in ℝn. Quarterly Journal of Mathematics. Oxford University Press. https://doi.org/10.1093/qmath/haad008
chicago: Horesh, Tal, and Yakov Karasik. “Equidistribution of Primitive Lattices
in ℝn.” Quarterly Journal of Mathematics. Oxford University Press, 2023.
https://doi.org/10.1093/qmath/haad008.
ieee: T. Horesh and Y. Karasik, “Equidistribution of primitive lattices in ℝn,”
Quarterly Journal of Mathematics, vol. 74, no. 4. Oxford University Press,
pp. 1253–1294, 2023.
ista: Horesh T, Karasik Y. 2023. Equidistribution of primitive lattices in ℝn. Quarterly
Journal of Mathematics. 74(4), 1253–1294.
mla: Horesh, Tal, and Yakov Karasik. “Equidistribution of Primitive Lattices in
ℝn.” Quarterly Journal of Mathematics, vol. 74, no. 4, Oxford University
Press, 2023, pp. 1253–94, doi:10.1093/qmath/haad008.
short: T. Horesh, Y. Karasik, Quarterly Journal of Mathematics 74 (2023) 1253–1294.
date_created: 2023-12-31T23:01:03Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2024-01-02T07:39:55Z
day: '01'
ddc:
- '510'
department:
- _id: TiBr
doi: 10.1093/qmath/haad008
external_id:
arxiv:
- '2012.04508'
file:
- access_level: open_access
checksum: bf29baa9eae8500f3374dbcb80712687
content_type: application/pdf
creator: dernst
date_created: 2024-01-02T07:37:09Z
date_updated: 2024-01-02T07:37:09Z
file_id: '14720'
file_name: 2023_QuarterlyJourMath_Horesh.pdf
file_size: 724748
relation: main_file
success: 1
file_date_updated: 2024-01-02T07:37:09Z
has_accepted_license: '1'
intvolume: ' 74'
issue: '4'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 1253-1294
project:
- _id: 26A8D266-B435-11E9-9278-68D0E5697425
grant_number: EP-P026710-2
name: Between rational and integral points
publication: Quarterly Journal of Mathematics
publication_identifier:
eissn:
- 1464-3847
issn:
- 0033-5606
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Equidistribution of primitive lattices in ℝn
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 74
year: '2023'
...
---
_id: '14719'
abstract:
- lang: eng
text: Lithium–sulfur batteries are regarded as an advantageous option for meeting
the growing demand for high-energy-density storage, but their commercialization
relies on solving the current limitations of both sulfur cathodes and lithium
metal anodes. In this scenario, the implementation of lithium sulfide (Li2S) cathodes
compatible with alternative anode materials such as silicon has the potential
to alleviate the safety concerns associated with lithium metal. In this direction,
here, we report a sulfur cathode based on Li2S nanocrystals grown on a catalytic
host consisting of CoFeP nanoparticles supported on tubular carbon nitride. Nanosized
Li2S is incorporated into the host by a scalable liquid infiltration–evaporation
method. Theoretical calculations and experimental results demonstrate that the
CoFeP–CN composite can boost the polysulfide adsorption/conversion reaction kinetics
and strongly reduce the initial overpotential activation barrier by stretching
the Li–S bonds of Li2S. Besides, the ultrasmall size of the Li2S particles in
the Li2S–CoFeP–CN composite cathode facilitates the initial activation. Overall,
the Li2S–CoFeP–CN electrodes exhibit a low activation barrier of 2.56 V, a high
initial capacity of 991 mA h gLi2S–1, and outstanding cyclability with a small
fading rate of 0.029% per cycle over 800 cycles. Moreover, Si/Li2S full cells
are assembled using the nanostructured Li2S–CoFeP–CN cathode and a prelithiated
anode based on graphite-supported silicon nanowires. These Si/Li2S cells demonstrate
high initial discharge capacities above 900 mA h gLi2S–1 and good cyclability
with a capacity fading rate of 0.28% per cycle over 150 cycles.
acknowledged_ssus:
- _id: EM-Fac
- _id: NanoFab
acknowledgement: The authors acknowledge the support from the 2BoSS project of the
ERA-MIN3 program with the Spanish grant number PCI2022-132985/AEI/10.13039/501100011033
and the French grant number ANR-22-MIN3-0003-01. J.L. acknowledges the support from
the Natural Science Foundation of Sichuan Province 2022NSFSC1229. The authors acknowledge
the funding from Generalitat de Catalunya 2021 SGR 01581 and European Union NextGenerationEU/PRTR.
This research was supported by the Scientific Service Units (SSU) of ISTA Austria
through resources provided by Electron Microscopy Facility (EMF) and the Nanofabrication
Facility (NNF).
article_processing_charge: No
article_type: original
author:
- first_name: Hamid
full_name: Mollania, Hamid
last_name: Mollania
- first_name: Chaoqi
full_name: Zhang, Chaoqi
last_name: Zhang
- first_name: Ruifeng
full_name: Du, Ruifeng
last_name: Du
- first_name: Xueqiang
full_name: Qi, Xueqiang
last_name: Qi
- first_name: Junshan
full_name: Li, Junshan
last_name: Li
- first_name: Sharona
full_name: Horta, Sharona
id: 03a7e858-01b1-11ec-8b71-99ae6c4a05bc
last_name: Horta
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
- first_name: Caroline
full_name: Keller, Caroline
last_name: Keller
- first_name: Pascale
full_name: Chenevier, Pascale
last_name: Chenevier
- first_name: Majid
full_name: Oloomi-Buygi, Majid
last_name: Oloomi-Buygi
- first_name: Andreu
full_name: Cabot, Andreu
last_name: Cabot
citation:
ama: Mollania H, Zhang C, Du R, et al. Nanostructured Li₂S cathodes for silicon-sulfur
batteries. ACS Applied Materials and Interfaces. 2023;15(50):58462–58475.
doi:10.1021/acsami.3c14072
apa: Mollania, H., Zhang, C., Du, R., Qi, X., Li, J., Horta, S., … Cabot, A. (2023).
Nanostructured Li₂S cathodes for silicon-sulfur batteries. ACS Applied Materials
and Interfaces. American Chemical Society. https://doi.org/10.1021/acsami.3c14072
chicago: Mollania, Hamid, Chaoqi Zhang, Ruifeng Du, Xueqiang Qi, Junshan Li, Sharona
Horta, Maria Ibáñez, et al. “Nanostructured Li₂S Cathodes for Silicon-Sulfur Batteries.”
ACS Applied Materials and Interfaces. American Chemical Society, 2023.
https://doi.org/10.1021/acsami.3c14072.
ieee: H. Mollania et al., “Nanostructured Li₂S cathodes for silicon-sulfur
batteries,” ACS Applied Materials and Interfaces, vol. 15, no. 50. American
Chemical Society, pp. 58462–58475, 2023.
ista: Mollania H, Zhang C, Du R, Qi X, Li J, Horta S, Ibáñez M, Keller C, Chenevier
P, Oloomi-Buygi M, Cabot A. 2023. Nanostructured Li₂S cathodes for silicon-sulfur
batteries. ACS Applied Materials and Interfaces. 15(50), 58462–58475.
mla: Mollania, Hamid, et al. “Nanostructured Li₂S Cathodes for Silicon-Sulfur Batteries.”
ACS Applied Materials and Interfaces, vol. 15, no. 50, American Chemical
Society, 2023, pp. 58462–58475, doi:10.1021/acsami.3c14072.
short: H. Mollania, C. Zhang, R. Du, X. Qi, J. Li, S. Horta, M. Ibáñez, C. Keller,
P. Chenevier, M. Oloomi-Buygi, A. Cabot, ACS Applied Materials and Interfaces
15 (2023) 58462–58475.
date_created: 2023-12-31T23:01:03Z
date_published: 2023-12-05T00:00:00Z
date_updated: 2024-01-02T08:35:06Z
day: '05'
department:
- _id: MaIb
doi: 10.1021/acsami.3c14072
intvolume: ' 15'
issue: '50'
language:
- iso: eng
month: '12'
oa_version: None
page: 58462–58475
publication: ACS Applied Materials and Interfaces
publication_identifier:
eissn:
- 1944-8252
issn:
- 1944-8244
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Nanostructured Li₂S cathodes for silicon-sulfur batteries
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15
year: '2023'
...
---
_id: '14715'
abstract:
- lang: eng
text: We consider N trapped bosons in the mean-field limit with coupling constant
λN = 1/(N − 1). The ground state of such systems exhibits Bose–Einstein condensation.
We prove that the probability of finding ℓ particles outside the condensate wave
function decays exponentially in ℓ.
acknowledgement: We thank Lea Boßmann, Phan Thành Nam and Simone Rademacher for helpful
remarks. P.P. acknowledges funding by the Deutsche Forschungsgemeinschaft (DFG,
German Research Foundation) - Grant No. SFB/TRR 352 “Mathematics of Many-Body Quantum
Systems and Their Collective Phenomena.”
article_number: '121901'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: David Johannes
full_name: Mitrouskas, David Johannes
id: cbddacee-2b11-11eb-a02e-a2e14d04e52d
last_name: Mitrouskas
- first_name: Peter
full_name: Pickl, Peter
last_name: Pickl
citation:
ama: Mitrouskas DJ, Pickl P. Exponential decay of the number of excitations in the
weakly interacting Bose gas. Journal of Mathematical Physics. 2023;64(12).
doi:10.1063/5.0172199
apa: Mitrouskas, D. J., & Pickl, P. (2023). Exponential decay of the number
of excitations in the weakly interacting Bose gas. Journal of Mathematical
Physics. AIP Publishing. https://doi.org/10.1063/5.0172199
chicago: Mitrouskas, David Johannes, and Peter Pickl. “Exponential Decay of the
Number of Excitations in the Weakly Interacting Bose Gas.” Journal of Mathematical
Physics. AIP Publishing, 2023. https://doi.org/10.1063/5.0172199.
ieee: D. J. Mitrouskas and P. Pickl, “Exponential decay of the number of excitations
in the weakly interacting Bose gas,” Journal of Mathematical Physics, vol.
64, no. 12. AIP Publishing, 2023.
ista: Mitrouskas DJ, Pickl P. 2023. Exponential decay of the number of excitations
in the weakly interacting Bose gas. Journal of Mathematical Physics. 64(12), 121901.
mla: Mitrouskas, David Johannes, and Peter Pickl. “Exponential Decay of the Number
of Excitations in the Weakly Interacting Bose Gas.” Journal of Mathematical
Physics, vol. 64, no. 12, 121901, AIP Publishing, 2023, doi:10.1063/5.0172199.
short: D.J. Mitrouskas, P. Pickl, Journal of Mathematical Physics 64 (2023).
date_created: 2023-12-31T23:01:02Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2024-01-02T08:51:28Z
day: '01'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1063/5.0172199
external_id:
arxiv:
- '2307.11062'
file:
- access_level: open_access
checksum: 66572f718a36465576cf0d6b3f7e01fc
content_type: application/pdf
creator: dernst
date_created: 2024-01-02T08:45:07Z
date_updated: 2024-01-02T08:45:07Z
file_id: '14722'
file_name: 2023_JourMathPhysics_Mitrouskas.pdf
file_size: 4346922
relation: main_file
success: 1
file_date_updated: 2024-01-02T08:45:07Z
has_accepted_license: '1'
intvolume: ' 64'
issue: '12'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
publication: Journal of Mathematical Physics
publication_identifier:
eissn:
- 1089-7658
issn:
- 0022-2488
publication_status: published
publisher: AIP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Exponential decay of the number of excitations in the weakly interacting Bose
gas
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 64
year: '2023'
...
---
_id: '14240'
abstract:
- lang: eng
text: This paper introduces a novel method for simulating large bodies of water
as a height field. At the start of each time step, we partition the waves into
a bulk flow (which approximately satisfies the assumptions of the shallow water
equations) and surface waves (which approximately satisfy the assumptions of Airy
wave theory). We then solve the two wave regimes separately using appropriate
state-of-the-art techniques, and re-combine the resulting wave velocities at the
end of each step. This strategy leads to the first heightfield wave model capable
of simulating complex interactions between both deep and shallow water effects,
like the waves from a boat wake sloshing up onto a beach, or a dam break producing
wave interference patterns and eddies. We also analyze the numerical dispersion
created by our method and derive an exact correction factor for waves at a constant
water depth, giving us a numerically perfect re-creation of theoretical water
wave dispersion patterns.
acknowledged_ssus:
- _id: ScienComp
acknowledgement: "We thank Georg Sperl for helping with early research for this paper,
Mickael Ly and Yi-Lu Chen for proofreading, and members of the ISTA Visual Computing
Group for general feedback. This project was funded in part by the European Research
Council (ERC Consolidator Grant 101045083 CoDiNA).\r\nThe motorboat and sailboat
were modeled by Sergei and the palmtrees by YadroGames. The environment map was
created by Emil Persson."
article_number: '83'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Stefan
full_name: Jeschke, Stefan
id: 44D6411A-F248-11E8-B48F-1D18A9856A87
last_name: Jeschke
- first_name: Christopher J
full_name: Wojtan, Christopher J
id: 3C61F1D2-F248-11E8-B48F-1D18A9856A87
last_name: Wojtan
orcid: 0000-0001-6646-5546
citation:
ama: Jeschke S, Wojtan C. Generalizing shallow water simulations with dispersive
surface waves. ACM Transactions on Graphics. 2023;42(4). doi:10.1145/3592098
apa: Jeschke, S., & Wojtan, C. (2023). Generalizing shallow water simulations
with dispersive surface waves. ACM Transactions on Graphics. Association
for Computing Machinery. https://doi.org/10.1145/3592098
chicago: Jeschke, Stefan, and Chris Wojtan. “Generalizing Shallow Water Simulations
with Dispersive Surface Waves.” ACM Transactions on Graphics. Association
for Computing Machinery, 2023. https://doi.org/10.1145/3592098.
ieee: S. Jeschke and C. Wojtan, “Generalizing shallow water simulations with dispersive
surface waves,” ACM Transactions on Graphics, vol. 42, no. 4. Association
for Computing Machinery, 2023.
ista: Jeschke S, Wojtan C. 2023. Generalizing shallow water simulations with dispersive
surface waves. ACM Transactions on Graphics. 42(4), 83.
mla: Jeschke, Stefan, and Chris Wojtan. “Generalizing Shallow Water Simulations
with Dispersive Surface Waves.” ACM Transactions on Graphics, vol. 42,
no. 4, 83, Association for Computing Machinery, 2023, doi:10.1145/3592098.
short: S. Jeschke, C. Wojtan, ACM Transactions on Graphics 42 (2023).
date_created: 2023-08-27T22:01:17Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2024-01-02T09:35:55Z
day: '01'
ddc:
- '000'
department:
- _id: ChWo
doi: 10.1145/3592098
external_id:
isi:
- '001044671300049'
file:
- access_level: open_access
checksum: 1d178bb2f8011d9f5aedda6427e18c7a
content_type: video/mp4
creator: sjeschke
date_created: 2023-12-21T12:26:40Z
date_updated: 2023-12-21T12:26:40Z
file_id: '14704'
file_name: PaperVideo_final.mp4
file_size: 511572575
relation: main_file
success: 1
- access_level: open_access
checksum: a49b2e744d5cd1276bb8b2e0ce6dc638
content_type: application/pdf
creator: dernst
date_created: 2024-01-02T09:34:27Z
date_updated: 2024-01-02T09:34:27Z
file_id: '14725'
file_name: 2023_ACMToG_Jeschke.pdf
file_size: 7469177
relation: main_file
success: 1
file_date_updated: 2024-01-02T09:34:27Z
has_accepted_license: '1'
intvolume: ' 42'
isi: 1
issue: '4'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 34bc2376-11ca-11ed-8bc3-9a3b3961a088
grant_number: '101045083'
name: Computational Discovery of Numerical Algorithms for Animation and Simulation
of Natural Phenomena
publication: ACM Transactions on Graphics
publication_identifier:
eissn:
- 1557-7368
issn:
- 0730-0301
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
scopus_import: '1'
status: public
title: Generalizing shallow water simulations with dispersive surface waves
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 42
year: '2023'
...
---
_id: '14710'
abstract:
- lang: eng
text: The self-assembly of complex structures from a set of non-identical building
blocks is a hallmark of soft matter and biological systems, including protein
complexes, colloidal clusters, and DNA-based assemblies. Predicting the dependence
of the equilibrium assembly yield on the concentrations and interaction energies
of building blocks is highly challenging, owing to the difficulty of computing
the entropic contributions to the free energy of the many structures that compete
with the ground state configuration. While these calculations yield well known
results for spherically symmetric building blocks, they do not hold when the building
blocks have internal rotational degrees of freedom. Here we present an approach
for solving this problem that works with arbitrary building blocks, including
proteins with known structure and complex colloidal building blocks. Our algorithm
combines classical statistical mechanics with recently developed computational
tools for automatic differentiation. Automatic differentiation allows efficient
evaluation of equilibrium averages over configurations that would otherwise be
intractable. We demonstrate the validity of our framework by comparison to molecular
dynamics simulations of simple examples, and apply it to calculate the yield curves
for known protein complexes and for the assembly of colloidal shells.
acknowledgement: 'We thank Lucy Colwell for suggesting that we use covariance based
methods to predict contacts and Yang Hsia, Scott Boyken, Zibo Chen, and David Baker
for collaborations on designed protein complexes. We also thank Ned Wingreen for
suggesting the alternative derivation of (11). This research was supported by the
Office of Naval Research through ONR N00014-17-1-3029, the Simons Foundation the
NSF-Simons Center for Mathematical and Statistical Analysis of Biology at Harvard
(award number #1764269), the Peter B. Lewis ’55 Lewis-Sigler Institute/Genomics
Fund through the Lewis-Sigler Institute of Integrative Genomics at Princeton University,
and the National Science Foundation through the Center for the Physics of Biological
Function (PHY-1734030).'
article_number: '8328'
article_processing_charge: Yes
article_type: original
author:
- first_name: Agnese I.
full_name: Curatolo, Agnese I.
last_name: Curatolo
- first_name: Ofer
full_name: Kimchi, Ofer
last_name: Kimchi
- first_name: Carl Peter
full_name: Goodrich, Carl Peter
id: EB352CD2-F68A-11E9-89C5-A432E6697425
last_name: Goodrich
orcid: 0000-0002-1307-5074
- first_name: Ryan K.
full_name: Krueger, Ryan K.
last_name: Krueger
- first_name: Michael P.
full_name: Brenner, Michael P.
last_name: Brenner
citation:
ama: Curatolo AI, Kimchi O, Goodrich CP, Krueger RK, Brenner MP. A computational
toolbox for the assembly yield of complex and heterogeneous structures. Nature
Communications. 2023;14. doi:10.1038/s41467-023-43168-4
apa: Curatolo, A. I., Kimchi, O., Goodrich, C. P., Krueger, R. K., & Brenner,
M. P. (2023). A computational toolbox for the assembly yield of complex and heterogeneous
structures. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-023-43168-4
chicago: Curatolo, Agnese I., Ofer Kimchi, Carl Peter Goodrich, Ryan K. Krueger,
and Michael P. Brenner. “A Computational Toolbox for the Assembly Yield of Complex
and Heterogeneous Structures.” Nature Communications. Springer Nature,
2023. https://doi.org/10.1038/s41467-023-43168-4.
ieee: A. I. Curatolo, O. Kimchi, C. P. Goodrich, R. K. Krueger, and M. P. Brenner,
“A computational toolbox for the assembly yield of complex and heterogeneous structures,”
Nature Communications, vol. 14. Springer Nature, 2023.
ista: Curatolo AI, Kimchi O, Goodrich CP, Krueger RK, Brenner MP. 2023. A computational
toolbox for the assembly yield of complex and heterogeneous structures. Nature
Communications. 14, 8328.
mla: Curatolo, Agnese I., et al. “A Computational Toolbox for the Assembly Yield
of Complex and Heterogeneous Structures.” Nature Communications, vol. 14,
8328, Springer Nature, 2023, doi:10.1038/s41467-023-43168-4.
short: A.I. Curatolo, O. Kimchi, C.P. Goodrich, R.K. Krueger, M.P. Brenner, Nature
Communications 14 (2023).
date_created: 2023-12-24T23:00:53Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2024-01-02T11:36:46Z
day: '01'
ddc:
- '530'
department:
- _id: CaGo
doi: 10.1038/s41467-023-43168-4
file:
- access_level: open_access
checksum: fd9e9d527c2691f03fbc24031a75a3b3
content_type: application/pdf
creator: kschuh
date_created: 2023-12-27T08:40:43Z
date_updated: 2023-12-27T08:40:43Z
file_id: '14714'
file_name: 2023_NatureComm_Curatolo.pdf
file_size: 1342319
relation: main_file
success: 1
file_date_updated: 2023-12-27T08:40:43Z
has_accepted_license: '1'
intvolume: ' 14'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
eissn:
- '20411723'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: A computational toolbox for the assembly yield of complex and heterogeneous
structures
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2023'
...
---
_id: '14709'
abstract:
- lang: eng
text: Amid the delays due to the global pandemic, in early October 2022, the auxin
community gathered in the idyllic peninsula of Cavtat, Croatia. More than 170
scientists from across the world converged to discuss the latest advancements
in fundamental and applied research in the field. The topics, from signalling
and transport to plant architecture and response to the environment, show how
auxin research must bridge from the molecular realm to macroscopic developmental
responses. This is mirrored in this collection of reviews, contributed by participants
of the Auxin 2022 meeting.
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Marta
full_name: Del Bianco, Marta
last_name: Del Bianco
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Lucia
full_name: Strader, Lucia
last_name: Strader
- first_name: Stefan
full_name: Kepinski, Stefan
last_name: Kepinski
citation:
ama: 'Del Bianco M, Friml J, Strader L, Kepinski S. Auxin research: Creating tools
for a greener future. Journal of Experimental Botany. 2023;74(22):6889-6892.
doi:10.1093/jxb/erad420'
apa: 'Del Bianco, M., Friml, J., Strader, L., & Kepinski, S. (2023). Auxin research:
Creating tools for a greener future. Journal of Experimental Botany. Oxford
University Press. https://doi.org/10.1093/jxb/erad420'
chicago: 'Del Bianco, Marta, Jiří Friml, Lucia Strader, and Stefan Kepinski. “Auxin
Research: Creating Tools for a Greener Future.” Journal of Experimental Botany.
Oxford University Press, 2023. https://doi.org/10.1093/jxb/erad420.'
ieee: 'M. Del Bianco, J. Friml, L. Strader, and S. Kepinski, “Auxin research: Creating
tools for a greener future,” Journal of Experimental Botany, vol. 74, no.
22. Oxford University Press, pp. 6889–6892, 2023.'
ista: 'Del Bianco M, Friml J, Strader L, Kepinski S. 2023. Auxin research: Creating
tools for a greener future. Journal of Experimental Botany. 74(22), 6889–6892.'
mla: 'Del Bianco, Marta, et al. “Auxin Research: Creating Tools for a Greener Future.”
Journal of Experimental Botany, vol. 74, no. 22, Oxford University Press,
2023, pp. 6889–92, doi:10.1093/jxb/erad420.'
short: M. Del Bianco, J. Friml, L. Strader, S. Kepinski, Journal of Experimental
Botany 74 (2023) 6889–6892.
date_created: 2023-12-24T23:00:53Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2024-01-02T09:29:24Z
day: '01'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1093/jxb/erad420
external_id:
pmid:
- '38038239'
file:
- access_level: open_access
checksum: f66fb960fd791dea53fd0e087f2fbbe8
content_type: application/pdf
creator: dernst
date_created: 2024-01-02T09:23:57Z
date_updated: 2024-01-02T09:23:57Z
file_id: '14724'
file_name: 2023_JourExperimentalBotany_DelBianco.pdf
file_size: 425194
relation: main_file
success: 1
file_date_updated: 2024-01-02T09:23:57Z
has_accepted_license: '1'
intvolume: ' 74'
issue: '22'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 6889-6892
pmid: 1
publication: Journal of Experimental Botany
publication_identifier:
eissn:
- 1460-2431
issn:
- 0022-0957
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Auxin research: Creating tools for a greener future'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 74
year: '2023'
...
---
_id: '14726'
abstract:
- lang: eng
text: Autocrine signaling pathways regulated by RAPID ALKALINIZATION FACTORs (RALFs)
control cell wall integrity during pollen tube germination and growth in Arabidopsis
(Arabidopsis thaliana). To investigate the role of pollen-specific RALFs in another
plant species, we combined gene expression data with phylogenetic and biochemical
studies to identify candidate orthologs in maize (Zea mays). We show that Clade
IB ZmRALF2/3 mutations, but not Clade III ZmRALF1/5 mutations, cause cell wall
instability in the sub-apical region of the growing pollen tube. ZmRALF2/3 are
mainly located in the cell wall and are partially able to complement the pollen
germination defect of their Arabidopsis orthologs AtRALF4/19. Mutations in ZmRALF2/3
compromise pectin distribution patterns leading to altered cell wall organization
and thickness culminating in pollen tube burst. Clade IB, but not Clade III ZmRALFs,
strongly interact as ligands with the pollen-specific Catharanthus roseus RLK1-like
(CrRLK1L) receptor kinases Zea mays FERONIA-like (ZmFERL) 4/7/9, LORELEI-like
glycosylphosphatidylinositol-anchor (LLG) proteins Zea mays LLG 1 and 2 (ZmLLG1/2)
and Zea mays pollen extension-like (PEX) cell wall proteins ZmPEX2/4. Notably,
ZmFERL4 outcompetes ZmLLG2 and ZmPEX2 outcompetes ZmFERL4 for ZmRALF2 binding.
Based on these data, we suggest that Clade IB RALFs act in a dual role as cell
wall components and extracellular sensors to regulate cell wall integrity and
thickness during pollen tube growth in maize and probably other plants.
article_number: koad324
article_processing_charge: No
article_type: original
author:
- first_name: Liang-Zi
full_name: Zhou, Liang-Zi
last_name: Zhou
- first_name: Lele
full_name: Wang, Lele
last_name: Wang
- first_name: Xia
full_name: Chen, Xia
last_name: Chen
- first_name: Zengxiang
full_name: Ge, Zengxiang
id: f43371a3-09ff-11eb-8013-bd0c6a2f6de8
last_name: Ge
orcid: 0000-0001-9381-3577
- first_name: Julia
full_name: Mergner, Julia
last_name: Mergner
- first_name: Xingli
full_name: Li, Xingli
last_name: Li
- first_name: Bernhard
full_name: Küster, Bernhard
last_name: Küster
- first_name: Gernot
full_name: Längst, Gernot
last_name: Längst
- first_name: Li-Jia
full_name: Qu, Li-Jia
last_name: Qu
- first_name: Thomas
full_name: Dresselhaus, Thomas
last_name: Dresselhaus
citation:
ama: Zhou L-Z, Wang L, Chen X, et al. The RALF signaling pathway regulates cell
wall integrity during pollen tube growth in maize. The Plant Cell. 2023.
doi:10.1093/plcell/koad324
apa: Zhou, L.-Z., Wang, L., Chen, X., Ge, Z., Mergner, J., Li, X., … Dresselhaus,
T. (2023). The RALF signaling pathway regulates cell wall integrity during pollen
tube growth in maize. The Plant Cell. Oxford University Press. https://doi.org/10.1093/plcell/koad324
chicago: Zhou, Liang-Zi, Lele Wang, Xia Chen, Zengxiang Ge, Julia Mergner, Xingli
Li, Bernhard Küster, Gernot Längst, Li-Jia Qu, and Thomas Dresselhaus. “The RALF
Signaling Pathway Regulates Cell Wall Integrity during Pollen Tube Growth in Maize.”
The Plant Cell. Oxford University Press, 2023. https://doi.org/10.1093/plcell/koad324.
ieee: L.-Z. Zhou et al., “The RALF signaling pathway regulates cell wall
integrity during pollen tube growth in maize,” The Plant Cell. Oxford University
Press, 2023.
ista: Zhou L-Z, Wang L, Chen X, Ge Z, Mergner J, Li X, Küster B, Längst G, Qu L-J,
Dresselhaus T. 2023. The RALF signaling pathway regulates cell wall integrity
during pollen tube growth in maize. The Plant Cell., koad324.
mla: Zhou, Liang-Zi, et al. “The RALF Signaling Pathway Regulates Cell Wall Integrity
during Pollen Tube Growth in Maize.” The Plant Cell, koad324, Oxford University
Press, 2023, doi:10.1093/plcell/koad324.
short: L.-Z. Zhou, L. Wang, X. Chen, Z. Ge, J. Mergner, X. Li, B. Küster, G. Längst,
L.-J. Qu, T. Dresselhaus, The Plant Cell (2023).
date_created: 2024-01-02T11:19:37Z
date_published: 2023-12-23T00:00:00Z
date_updated: 2024-01-03T12:43:41Z
day: '23'
ddc:
- '580'
doi: 10.1093/plcell/koad324
extern: '1'
has_accepted_license: '1'
keyword:
- Cell Biology
- Plant Science
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1093/plcell/koad324
month: '12'
oa: 1
oa_version: Published Version
publication: The Plant Cell
publication_identifier:
eissn:
- 1532-298X
issn:
- 1040-4651
publication_status: epub_ahead
publisher: Oxford University Press
quality_controlled: '1'
status: public
title: The RALF signaling pathway regulates cell wall integrity during pollen tube
growth in maize
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '12833'
abstract:
- lang: eng
text: 'The input to the token swapping problem is a graph with vertices v1, v2,
. . . , vn, and n tokens with labels 1,2, . . . , n, one on each vertex. The goal
is to get token i to vertex vi for all i= 1, . . . , n using a minimum number
of swaps, where a swap exchanges the tokens on the endpoints of an edge.Token
swapping on a tree, also known as “sorting with a transposition tree,” is not
known to be in P nor NP-complete. We present some partial results: 1. An optimum
swap sequence may need to perform a swap on a leaf vertex that has the correct
token (a “happy leaf”), disproving a conjecture of Vaughan. 2. Any algorithm that
fixes happy leaves—as all known approximation algorithms for the problem do—has
approximation factor at least 4/3. Furthermore, the two best-known 2-approximation
algorithms have approximation factor exactly 2. 3. A generalized problem—weighted
coloured token swapping—is NP-complete on trees, but solvable in polynomial time
on paths and stars. In this version, tokens and vertices have colours, and colours
have weights. The goal is to get every token to a vertex of the same colour, and
the cost of a swap is the sum of the weights of the two tokens involved.'
acknowledgement: "This work was begun at the University of Waterloo and was partially
supported by the Natural Sciences and Engineering Council of Canada (NSERC).\r\n"
article_number: '9'
article_processing_charge: No
article_type: original
author:
- first_name: Ahmad
full_name: Biniaz, Ahmad
last_name: Biniaz
- first_name: Kshitij
full_name: Jain, Kshitij
last_name: Jain
- first_name: Anna
full_name: Lubiw, Anna
last_name: Lubiw
- first_name: Zuzana
full_name: Masárová, Zuzana
id: 45CFE238-F248-11E8-B48F-1D18A9856A87
last_name: Masárová
orcid: 0000-0002-6660-1322
- first_name: Tillmann
full_name: Miltzow, Tillmann
last_name: Miltzow
- first_name: Debajyoti
full_name: Mondal, Debajyoti
last_name: Mondal
- first_name: Anurag Murty
full_name: Naredla, Anurag Murty
last_name: Naredla
- first_name: Josef
full_name: Tkadlec, Josef
id: 3F24CCC8-F248-11E8-B48F-1D18A9856A87
last_name: Tkadlec
orcid: 0000-0002-1097-9684
- first_name: Alexi
full_name: Turcotte, Alexi
last_name: Turcotte
citation:
ama: Biniaz A, Jain K, Lubiw A, et al. Token swapping on trees. Discrete Mathematics
and Theoretical Computer Science. 2023;24(2). doi:10.46298/DMTCS.8383
apa: Biniaz, A., Jain, K., Lubiw, A., Masárová, Z., Miltzow, T., Mondal, D., … Turcotte,
A. (2023). Token swapping on trees. Discrete Mathematics and Theoretical Computer
Science. EPI Sciences. https://doi.org/10.46298/DMTCS.8383
chicago: Biniaz, Ahmad, Kshitij Jain, Anna Lubiw, Zuzana Masárová, Tillmann Miltzow,
Debajyoti Mondal, Anurag Murty Naredla, Josef Tkadlec, and Alexi Turcotte. “Token
Swapping on Trees.” Discrete Mathematics and Theoretical Computer Science.
EPI Sciences, 2023. https://doi.org/10.46298/DMTCS.8383.
ieee: A. Biniaz et al., “Token swapping on trees,” Discrete Mathematics
and Theoretical Computer Science, vol. 24, no. 2. EPI Sciences, 2023.
ista: Biniaz A, Jain K, Lubiw A, Masárová Z, Miltzow T, Mondal D, Naredla AM, Tkadlec
J, Turcotte A. 2023. Token swapping on trees. Discrete Mathematics and Theoretical
Computer Science. 24(2), 9.
mla: Biniaz, Ahmad, et al. “Token Swapping on Trees.” Discrete Mathematics and
Theoretical Computer Science, vol. 24, no. 2, 9, EPI Sciences, 2023, doi:10.46298/DMTCS.8383.
short: A. Biniaz, K. Jain, A. Lubiw, Z. Masárová, T. Miltzow, D. Mondal, A.M. Naredla,
J. Tkadlec, A. Turcotte, Discrete Mathematics and Theoretical Computer Science
24 (2023).
date_created: 2023-04-16T22:01:08Z
date_published: 2023-01-18T00:00:00Z
date_updated: 2024-01-04T12:42:09Z
day: '18'
ddc:
- '000'
department:
- _id: KrCh
- _id: HeEd
- _id: UlWa
doi: 10.46298/DMTCS.8383
external_id:
arxiv:
- '1903.06981'
file:
- access_level: open_access
checksum: 439102ea4f6e2aeefd7107dfb9ccf532
content_type: application/pdf
creator: dernst
date_created: 2023-04-17T08:10:28Z
date_updated: 2023-04-17T08:10:28Z
file_id: '12844'
file_name: 2022_DMTCS_Biniaz.pdf
file_size: 2072197
relation: main_file
success: 1
file_date_updated: 2023-04-17T08:10:28Z
has_accepted_license: '1'
intvolume: ' 24'
issue: '2'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: Discrete Mathematics and Theoretical Computer Science
publication_identifier:
eissn:
- 1365-8050
issn:
- 1462-7264
publication_status: published
publisher: EPI Sciences
quality_controlled: '1'
related_material:
record:
- id: '7950'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Token swapping on trees
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2023'
...
---
_id: '14735'
abstract:
- lang: eng
text: "Scaling blockchain protocols to perform on par with the expected needs of
Web3.0 has been proven to be a challenging task with almost a decade of research.
In the forefront of the current solution is the idea of separating the execution
of the updates encoded in a block from the ordering of blocks. In order to achieve
this, a new class of protocols called rollups has emerged. Rollups have as input
a total ordering of valid and invalid transactions and as output a new valid state-transition.\r\nIf
we study rollups from a distributed computing perspective, we uncover that rollups
take as input the output of a Byzantine Atomic Broadcast (BAB) protocol and convert
it to a State Machine Replication (SMR) protocol. BAB and SMR, however, are considered
equivalent as far as distributed computing is concerned and a solution to one
can easily be retrofitted to solve the other simply by adding/removing an execution
step before the validation of the input.\r\nThis “easy” step of retrofitting an
atomic broadcast solution to implement an SMR has, however, been overlooked in
practice. In this paper, we formalize the problem and show that after BAB is solved,
traditional impossibility results for consensus no longer apply towards an SMR.
Leveraging this we propose a distributed execution protocol that allows reduced
execution and storage cost per executor (O(log2n/n)) without relaxing the network
assumptions of the underlying BAB protocol and providing censorship-resistance.
Finally, we propose efficient non-interactive light client constructions that
leverage our efficient execution protocols and do not require any synchrony assumptions
or expensive ZK-proofs."
acknowledgement: 'Eleftherios Kokoris-Kogias is partially supported by Austrian Science
Fund (FWF) grant No: F8512-N.'
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Christos
full_name: Stefo, Christos
id: a20e8902-32b0-11ee-9fa8-b23fa638b793
last_name: Stefo
- first_name: Zhuolun
full_name: Xiang, Zhuolun
last_name: Xiang
- first_name: Eleftherios
full_name: Kokoris Kogias, Eleftherios
id: f5983044-d7ef-11ea-ac6d-fd1430a26d30
last_name: Kokoris Kogias
citation:
ama: 'Stefo C, Xiang Z, Kokoris Kogias E. Executing and proving over dirty ledgers.
In: 27th International Conference on Financial Cryptography and Data Security.
Vol 13950. Springer Nature; 2023:3-20. doi:10.1007/978-3-031-47754-6_1'
apa: 'Stefo, C., Xiang, Z., & Kokoris Kogias, E. (2023). Executing and proving
over dirty ledgers. In 27th International Conference on Financial Cryptography
and Data Security (Vol. 13950, pp. 3–20). Bol, Brac, Croatia: Springer Nature.
https://doi.org/10.1007/978-3-031-47754-6_1'
chicago: Stefo, Christos, Zhuolun Xiang, and Eleftherios Kokoris Kogias. “Executing
and Proving over Dirty Ledgers.” In 27th International Conference on Financial
Cryptography and Data Security, 13950:3–20. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-47754-6_1.
ieee: C. Stefo, Z. Xiang, and E. Kokoris Kogias, “Executing and proving over dirty
ledgers,” in 27th International Conference on Financial Cryptography and Data
Security, Bol, Brac, Croatia, 2023, vol. 13950, pp. 3–20.
ista: 'Stefo C, Xiang Z, Kokoris Kogias E. 2023. Executing and proving over dirty
ledgers. 27th International Conference on Financial Cryptography and Data Security.
FC: Financial Cryptography and Data Security, LNCS, vol. 13950, 3–20.'
mla: Stefo, Christos, et al. “Executing and Proving over Dirty Ledgers.” 27th
International Conference on Financial Cryptography and Data Security, vol.
13950, Springer Nature, 2023, pp. 3–20, doi:10.1007/978-3-031-47754-6_1.
short: C. Stefo, Z. Xiang, E. Kokoris Kogias, in:, 27th International Conference
on Financial Cryptography and Data Security, Springer Nature, 2023, pp. 3–20.
conference:
end_date: 2023-05-05
location: Bol, Brac, Croatia
name: 'FC: Financial Cryptography and Data Security'
start_date: 2023-05-01
date_created: 2024-01-08T09:17:38Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2024-01-08T09:28:14Z
day: '01'
department:
- _id: ElKo
- _id: GradSch
doi: 10.1007/978-3-031-47754-6_1
intvolume: ' 13950'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2022/1554
month: '12'
oa: 1
oa_version: Preprint
page: 3-20
project:
- _id: 34a4ce89-11ca-11ed-8bc3-8cc37fb6e11f
grant_number: F8512
name: Secure Network and Hardware for Efficient Blockchains
publication: 27th International Conference on Financial Cryptography and Data Security
publication_identifier:
eisbn:
- '9783031477546'
eissn:
- 0302-9743
isbn:
- '9783031477539'
issn:
- 1611-3349
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Executing and proving over dirty ledgers
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13950
year: '2023'
...
---
_id: '14733'
abstract:
- lang: eng
text: Redox flow batteries (RFBs) rely on the development of cheap, highly soluble,
and high-energy-density electrolytes. Several candidate quinones have already
been investigated in the literature as two-electron anolytes or catholytes, benefiting
from fast kinetics, high tunability, and low cost. Here, an investigation of nitrogen-rich
fused heteroaromatic quinones was carried out to explore avenues for electrolyte
development. These quinones were synthesized and screened by using electrochemical
techniques. The most promising candidate, 4,8-dioxo-4,8-dihydrobenzo[1,2-d:4,5-d′]bis([1,2,3]triazole)-1,5-diide
(−0.68 V(SHE)), was tested in both an asymmetric and symmetric full-cell setup
resulting in capacity fade rates of 0.35% per cycle and 0.0124% per cycle, respectively.
In situ ultraviolet-visible spectroscopy (UV–Vis), nuclear magnetic resonance
(NMR), and electron paramagnetic resonance (EPR) spectroscopies were used to investigate
the electrochemical stability of the charged species during operation. UV–Vis
spectroscopy, supported by density functional theory (DFT) modeling, reaffirmed
that the two-step charging mechanism observed during battery operation consisted
of two, single-electron transfers. The radical concentration during battery operation
and the degree of delocalization of the unpaired electron were quantified with
NMR and EPR spectroscopy.
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Rajesh B
full_name: Jethwa, Rajesh B
id: 4cc538d5-803f-11ed-ab7e-8139573aad8f
last_name: Jethwa
orcid: 0000-0002-0404-4356
- first_name: Dominic
full_name: Hey, Dominic
last_name: Hey
- first_name: Rachel N.
full_name: Kerber, Rachel N.
last_name: Kerber
- first_name: Andrew D.
full_name: Bond, Andrew D.
last_name: Bond
- first_name: Dominic S.
full_name: Wright, Dominic S.
last_name: Wright
- first_name: Clare P.
full_name: Grey, Clare P.
last_name: Grey
citation:
ama: Jethwa RB, Hey D, Kerber RN, Bond AD, Wright DS, Grey CP. Exploring the landscape
of heterocyclic quinones for redox flow batteries. ACS Applied Energy Materials.
2023. doi:10.1021/acsaem.3c02223
apa: Jethwa, R. B., Hey, D., Kerber, R. N., Bond, A. D., Wright, D. S., & Grey,
C. P. (2023). Exploring the landscape of heterocyclic quinones for redox flow
batteries. ACS Applied Energy Materials. American Chemical Society. https://doi.org/10.1021/acsaem.3c02223
chicago: Jethwa, Rajesh B, Dominic Hey, Rachel N. Kerber, Andrew D. Bond, Dominic
S. Wright, and Clare P. Grey. “Exploring the Landscape of Heterocyclic Quinones
for Redox Flow Batteries.” ACS Applied Energy Materials. American Chemical
Society, 2023. https://doi.org/10.1021/acsaem.3c02223.
ieee: R. B. Jethwa, D. Hey, R. N. Kerber, A. D. Bond, D. S. Wright, and C. P. Grey,
“Exploring the landscape of heterocyclic quinones for redox flow batteries,” ACS
Applied Energy Materials. American Chemical Society, 2023.
ista: Jethwa RB, Hey D, Kerber RN, Bond AD, Wright DS, Grey CP. 2023. Exploring
the landscape of heterocyclic quinones for redox flow batteries. ACS Applied Energy
Materials.
mla: Jethwa, Rajesh B., et al. “Exploring the Landscape of Heterocyclic Quinones
for Redox Flow Batteries.” ACS Applied Energy Materials, American Chemical
Society, 2023, doi:10.1021/acsaem.3c02223.
short: R.B. Jethwa, D. Hey, R.N. Kerber, A.D. Bond, D.S. Wright, C.P. Grey, ACS
Applied Energy Materials (2023).
date_created: 2024-01-05T09:20:48Z
date_published: 2023-12-28T00:00:00Z
date_updated: 2024-01-08T09:03:01Z
day: '28'
ddc:
- '540'
department:
- _id: StFr
doi: 10.1021/acsaem.3c02223
ec_funded: 1
has_accepted_license: '1'
keyword:
- Electrical and Electronic Engineering
- Materials Chemistry
- Electrochemistry
- Energy Engineering and Power Technology
- Chemical Engineering (miscellaneous)
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1021/acsaem.3c02223
month: '12'
oa: 1
oa_version: Published Version
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: ACS Applied Energy Materials
publication_identifier:
eissn:
- 2574-0962
publication_status: epub_ahead
publisher: American Chemical Society
quality_controlled: '1'
status: public
title: Exploring the landscape of heterocyclic quinones for redox flow batteries
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14734'
abstract:
- lang: eng
text: Developing cost-effective and high-performance thermoelectric (TE) materials
to assemble efficient TE devices presents a multitude of challenges and opportunities.
Cu3SbSe4 is a promising p-type TE material based on relatively earth abundant
elements. However, the challenge lies in its poor electrical conductivity. Herein,
an efficient and scalable solution-based approach is developed to synthesize high-quality
Cu3SbSe4 nanocrystals doped with Pb at the Sb site. After ligand displacement
and annealing treatments, the dried powders are consolidated into dense pellets,
and their TE properties are investigated. Pb doping effectively increases the
charge carrier concentration, resulting in a significant increase in electrical
conductivity, while the Seebeck coefficients remain consistently high. The calculated
band structure shows that Pb doping induces band convergence, thereby increasing
the effective mass. Furthermore, the large ionic radius of Pb2+ results in the
generation of additional point and plane defects and interphases, dramatically
enhancing phonon scattering, which significantly decreases the lattice thermal
conductivity at high temperatures. Overall, a maximum figure of merit (zTmax)
≈ 0.85 at 653 K is obtained in Cu3Sb0.97Pb0.03Se4. This represents a 1.6-fold
increase compared to the undoped sample and exceeds most doped Cu3SbSe4-based
materials produced by solid-state, demonstrating advantages of versatility and
cost-effectiveness using a solution-based technology.
acknowledgement: Y.L. acknowledges funding from the National Natural Science Foundation
of China (NSFC) (Grants No. 22209034), the Innovation and Entrepreneurship Project
of Overseas Returnees in Anhui Province (Grant No. 2022LCX002). K.H.L. acknowledges
financial support from the National Natural Science Foundation of China (NSFC) (Grant
No. 22208293). M.I. acknowledges financial support from ISTA and the Werner Siemens
Foundation.
article_processing_charge: No
article_type: original
author:
- first_name: Shanhong
full_name: Wan, Shanhong
last_name: Wan
- first_name: Shanshan
full_name: Xiao, Shanshan
last_name: Xiao
- first_name: Mingquan
full_name: Li, Mingquan
last_name: Li
- first_name: Xin
full_name: Wang, Xin
last_name: Wang
- first_name: Khak Ho
full_name: Lim, Khak Ho
last_name: Lim
- first_name: Min
full_name: Hong, Min
last_name: Hong
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
- first_name: Andreu
full_name: Cabot, Andreu
last_name: Cabot
- first_name: Yu
full_name: Liu, Yu
id: 2A70014E-F248-11E8-B48F-1D18A9856A87
last_name: Liu
orcid: 0000-0001-7313-6740
citation:
ama: Wan S, Xiao S, Li M, et al. Band engineering through Pb-doping of nanocrystal
building blocks to enhance thermoelectric performance in Cu3SbSe4. Small Methods.
2023. doi:10.1002/smtd.202301377
apa: Wan, S., Xiao, S., Li, M., Wang, X., Lim, K. H., Hong, M., … Liu, Y. (2023).
Band engineering through Pb-doping of nanocrystal building blocks to enhance thermoelectric
performance in Cu3SbSe4. Small Methods. Wiley. https://doi.org/10.1002/smtd.202301377
chicago: Wan, Shanhong, Shanshan Xiao, Mingquan Li, Xin Wang, Khak Ho Lim, Min Hong,
Maria Ibáñez, Andreu Cabot, and Yu Liu. “Band Engineering through Pb-Doping of
Nanocrystal Building Blocks to Enhance Thermoelectric Performance in Cu3SbSe4.”
Small Methods. Wiley, 2023. https://doi.org/10.1002/smtd.202301377.
ieee: S. Wan et al., “Band engineering through Pb-doping of nanocrystal building
blocks to enhance thermoelectric performance in Cu3SbSe4,” Small Methods.
Wiley, 2023.
ista: Wan S, Xiao S, Li M, Wang X, Lim KH, Hong M, Ibáñez M, Cabot A, Liu Y. 2023.
Band engineering through Pb-doping of nanocrystal building blocks to enhance thermoelectric
performance in Cu3SbSe4. Small Methods.
mla: Wan, Shanhong, et al. “Band Engineering through Pb-Doping of Nanocrystal Building
Blocks to Enhance Thermoelectric Performance in Cu3SbSe4.” Small Methods,
Wiley, 2023, doi:10.1002/smtd.202301377.
short: S. Wan, S. Xiao, M. Li, X. Wang, K.H. Lim, M. Hong, M. Ibáñez, A. Cabot,
Y. Liu, Small Methods (2023).
date_created: 2024-01-07T23:00:51Z
date_published: 2023-12-28T00:00:00Z
date_updated: 2024-01-08T09:17:04Z
day: '28'
department:
- _id: MaIb
doi: 10.1002/smtd.202301377
external_id:
pmid:
- '38152986'
language:
- iso: eng
month: '12'
oa_version: None
pmid: 1
project:
- _id: 9B8F7476-BA93-11EA-9121-9846C619BF3A
name: 'HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of
Semiconductors for Waste Heat Recovery'
publication: Small Methods
publication_identifier:
eissn:
- 2366-9608
publication_status: epub_ahead
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Band engineering through Pb-doping of nanocrystal building blocks to enhance
thermoelectric performance in Cu3SbSe4
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14737'
abstract:
- lang: eng
text: 'John’s fundamental theorem characterizing the largest volume ellipsoid contained
in a convex body $K$ in $\mathbb{R}^{d}$ has seen several generalizations and
extensions. One direction, initiated by V. Milman is to replace ellipsoids by
positions (affine images) of another body $L$. Another, more recent direction
is to consider logarithmically concave functions on $\mathbb{R}^{d}$ instead of
convex bodies: we designate some special, radially symmetric log-concave function
$g$ as the analogue of the Euclidean ball, and want to find its largest integral
position under the constraint that it is pointwise below some given log-concave
function $f$. We follow both directions simultaneously: we consider the functional
question, and allow essentially any meaningful function to play the role of $g$
above. Our general theorems jointly extend known results in both directions. The
dual problem in the setting of convex bodies asks for the smallest volume ellipsoid,
called Löwner’s ellipsoid, containing $K$. We consider the analogous problem for
functions: we characterize the solutions of the optimization problem of finding
a smallest integral position of some log-concave function $g$ under the constraint
that it is pointwise above $f$. It turns out that in the functional setting, the
relationship between the John and the Löwner problems is more intricate than it
is in the setting of convex bodies.'
acknowledgement: "We thank Alexander Litvak for the many discussions on Theorem 1.1.
Igor Tsiutsiurupa participated in the early stage of this project. To our deep regret,
Igor chose another road for his life and stopped working with us.\r\nThis work was
supported by the János Bolyai Scholarship of the Hungarian Academy of Sciences [to
M.N.]; the National Research, Development, and Innovation Fund (NRDI) [K119670 and
K131529 to M.N.]; and the ÚNKP-22-5 New National Excellence Program of the Ministry
for Innovation and Technology from the source of the NRDI [to M.N.]."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Grigory
full_name: Ivanov, Grigory
id: 87744F66-5C6F-11EA-AFE0-D16B3DDC885E
last_name: Ivanov
- first_name: Márton
full_name: Naszódi, Márton
last_name: Naszódi
citation:
ama: Ivanov G, Naszódi M. Functional John and Löwner conditions for pairs of log-concave
functions. International Mathematics Research Notices. 2023;2023(23):20613-20669.
doi:10.1093/imrn/rnad210
apa: Ivanov, G., & Naszódi, M. (2023). Functional John and Löwner conditions
for pairs of log-concave functions. International Mathematics Research Notices.
Oxford University Press. https://doi.org/10.1093/imrn/rnad210
chicago: Ivanov, Grigory, and Márton Naszódi. “Functional John and Löwner Conditions
for Pairs of Log-Concave Functions.” International Mathematics Research Notices.
Oxford University Press, 2023. https://doi.org/10.1093/imrn/rnad210.
ieee: G. Ivanov and M. Naszódi, “Functional John and Löwner conditions for pairs
of log-concave functions,” International Mathematics Research Notices,
vol. 2023, no. 23. Oxford University Press, pp. 20613–20669, 2023.
ista: Ivanov G, Naszódi M. 2023. Functional John and Löwner conditions for pairs
of log-concave functions. International Mathematics Research Notices. 2023(23),
20613–20669.
mla: Ivanov, Grigory, and Márton Naszódi. “Functional John and Löwner Conditions
for Pairs of Log-Concave Functions.” International Mathematics Research Notices,
vol. 2023, no. 23, Oxford University Press, 2023, pp. 20613–69, doi:10.1093/imrn/rnad210.
short: G. Ivanov, M. Naszódi, International Mathematics Research Notices 2023 (2023)
20613–20669.
date_created: 2024-01-08T09:48:56Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2024-01-08T09:57:25Z
day: '01'
ddc:
- '510'
department:
- _id: UlWa
doi: 10.1093/imrn/rnad210
external_id:
arxiv:
- '2212.11781'
file:
- access_level: open_access
checksum: 353666cea80633beb0f1ffd342dff6d4
content_type: application/pdf
creator: dernst
date_created: 2024-01-08T09:53:09Z
date_updated: 2024-01-08T09:53:09Z
file_id: '14738'
file_name: 2023_IMRN_Ivanov.pdf
file_size: 815777
relation: main_file
success: 1
file_date_updated: 2024-01-08T09:53:09Z
has_accepted_license: '1'
intvolume: ' 2023'
issue: '23'
keyword:
- General Mathematics
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 20613-20669
publication: International Mathematics Research Notices
publication_identifier:
eissn:
- 1687-0247
issn:
- 1073-7928
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
status: public
title: Functional John and Löwner conditions for pairs of log-concave functions
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2023
year: '2023'
...
---
_id: '14736'
abstract:
- lang: eng
text: Payment channel networks (PCNs) are a promising technology to improve the
scalability of cryptocurrencies. PCNs, however, face the challenge that the frequent
usage of certain routes may deplete channels in one direction, and hence prevent
further transactions. In order to reap the full potential of PCNs, recharging
and rebalancing mechanisms are required to provision channels, as well as an admission
control logic to decide which transactions to reject in case capacity is insufficient.
This paper presents a formal model of this optimisation problem. In particular,
we consider an online algorithms perspective, where transactions arrive over time
in an unpredictable manner. Our main contributions are competitive online algorithms
which come with provable guarantees over time. We empirically evaluate our algorithms
on randomly generated transactions to compare the average performance of our algorithms
to our theoretical bounds. We also show how this model and approach differs from
related problems in classic communication networks.
acknowledgement: Supported by the German Federal Ministry of Education and Research
(BMBF), grant 16KISK020K (6G-RIC), 2021–2025, and ERC CoG 863818 (ForM-SMArt).
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Mahsa
full_name: Bastankhah, Mahsa
last_name: Bastankhah
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Mohammad Ali
full_name: Maddah-Ali, Mohammad Ali
last_name: Maddah-Ali
- first_name: Stefan
full_name: Schmid, Stefan
last_name: Schmid
- first_name: Jakub
full_name: Svoboda, Jakub
id: 130759D2-D7DD-11E9-87D2-DE0DE6697425
last_name: Svoboda
orcid: 0000-0002-1419-3267
- first_name: Michelle X
full_name: Yeo, Michelle X
id: 2D82B818-F248-11E8-B48F-1D18A9856A87
last_name: Yeo
citation:
ama: 'Bastankhah M, Chatterjee K, Maddah-Ali MA, Schmid S, Svoboda J, Yeo MX. R2:
Boosting liquidity in payment channel networks with online admission control.
In: 27th International Conference on Financial Cryptography and Data Security.
Vol 13950. Springer Nature; 2023:309-325. doi:10.1007/978-3-031-47754-6_18'
apa: 'Bastankhah, M., Chatterjee, K., Maddah-Ali, M. A., Schmid, S., Svoboda, J.,
& Yeo, M. X. (2023). R2: Boosting liquidity in payment channel networks with online
admission control. In 27th International Conference on Financial Cryptography
and Data Security (Vol. 13950, pp. 309–325). Bol, Brac, Croatia: Springer
Nature. https://doi.org/10.1007/978-3-031-47754-6_18'
chicago: 'Bastankhah, Mahsa, Krishnendu Chatterjee, Mohammad Ali Maddah-Ali, Stefan
Schmid, Jakub Svoboda, and Michelle X Yeo. “R2: Boosting Liquidity in Payment
Channel Networks with Online Admission Control.” In 27th International Conference
on Financial Cryptography and Data Security, 13950:309–25. Springer Nature,
2023. https://doi.org/10.1007/978-3-031-47754-6_18.'
ieee: 'M. Bastankhah, K. Chatterjee, M. A. Maddah-Ali, S. Schmid, J. Svoboda, and
M. X. Yeo, “R2: Boosting liquidity in payment channel networks with online admission
control,” in 27th International Conference on Financial Cryptography and Data
Security, Bol, Brac, Croatia, 2023, vol. 13950, pp. 309–325.'
ista: 'Bastankhah M, Chatterjee K, Maddah-Ali MA, Schmid S, Svoboda J, Yeo MX. 2023.
R2: Boosting liquidity in payment channel networks with online admission control.
27th International Conference on Financial Cryptography and Data Security. FC:
Financial Cryptography and Data Security, LNCS, vol. 13950, 309–325.'
mla: 'Bastankhah, Mahsa, et al. “R2: Boosting Liquidity in Payment Channel Networks
with Online Admission Control.” 27th International Conference on Financial
Cryptography and Data Security, vol. 13950, Springer Nature, 2023, pp. 309–25,
doi:10.1007/978-3-031-47754-6_18.'
short: M. Bastankhah, K. Chatterjee, M.A. Maddah-Ali, S. Schmid, J. Svoboda, M.X.
Yeo, in:, 27th International Conference on Financial Cryptography and Data Security,
Springer Nature, 2023, pp. 309–325.
conference:
end_date: 2023-05-05
location: Bol, Brac, Croatia
name: 'FC: Financial Cryptography and Data Security'
start_date: 2023-05-01
date_created: 2024-01-08T09:30:22Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2024-01-08T09:36:36Z
day: '01'
department:
- _id: KrCh
- _id: KrPi
doi: 10.1007/978-3-031-47754-6_18
ec_funded: 1
intvolume: ' 13950'
language:
- iso: eng
month: '12'
oa_version: None
page: 309-325
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '863818'
name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
publication: 27th International Conference on Financial Cryptography and Data Security
publication_identifier:
eisbn:
- '9783031477546'
eissn:
- 1611-3349
isbn:
- '9783031477539'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: 'R2: Boosting liquidity in payment channel networks with online admission control'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13950
year: '2023'
...
---
_id: '14739'
abstract:
- lang: eng
text: Attempts to incorporate topological information in supervised learning tasks
have resulted in the creation of several techniques for vectorizing persistent
homology barcodes. In this paper, we study thirteen such methods. Besides describing
an organizational framework for these methods, we comprehensively benchmark them
against three well-known classification tasks. Surprisingly, we discover that
the best-performing method is a simple vectorization, which consists only of a
few elementary summary statistics. Finally, we provide a convenient web application
which has been designed to facilitate exploration and experimentation with various
vectorization methods.
acknowledgement: "The work of Maria-Jose Jimenez, Eduardo Paluzo-Hidalgo and Manuel
Soriano-Trigueros was supported in part by the Spanish grant Ministerio de Ciencia
e Innovacion under Grants TED2021-129438B-I00 and PID2019-107339GB-I00, and in part
by REXASI-PRO H-EU project, call HORIZON-CL4-2021-HUMAN-01-01 under Grant 101070028.
The work of\r\nMaria-Jose Jimenez was supported by a grant of Convocatoria de la
Universidad de Sevilla para la recualificacion del sistema universitario español,
2021-23, funded by the European Union, NextGenerationEU. The work of Vidit Nanda
was supported in part by EPSRC under Grant EP/R018472/1 and in part by US AFOSR
under Grant FA9550-22-1-0462. \r\nWe are grateful to the team of GUDHI and TEASPOON
developers, for their work and their support. We are also grateful to Streamlit
for providing extra resources to deploy the web app\r\nonline on Streamlit community
cloud. We thank the anonymous referees for their helpful suggestions."
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Dashti
full_name: Ali, Dashti
last_name: Ali
- first_name: Aras
full_name: Asaad, Aras
last_name: Asaad
- first_name: Maria-Jose
full_name: Jimenez, Maria-Jose
last_name: Jimenez
- first_name: Vidit
full_name: Nanda, Vidit
last_name: Nanda
- first_name: Eduardo
full_name: Paluzo-Hidalgo, Eduardo
last_name: Paluzo-Hidalgo
- first_name: Manuel
full_name: Soriano Trigueros, Manuel
id: 15ebd7cf-15bf-11ee-aebd-bb4bb5121ea8
last_name: Soriano Trigueros
orcid: 0000-0003-2449-1433
citation:
ama: Ali D, Asaad A, Jimenez M-J, Nanda V, Paluzo-Hidalgo E, Soriano Trigueros M.
A survey of vectorization methods in topological data analysis. IEEE Transactions
on Pattern Analysis and Machine Intelligence. 2023;45(12):14069-14080. doi:10.1109/tpami.2023.3308391
apa: Ali, D., Asaad, A., Jimenez, M.-J., Nanda, V., Paluzo-Hidalgo, E., & Soriano
Trigueros, M. (2023). A survey of vectorization methods in topological data analysis.
IEEE Transactions on Pattern Analysis and Machine Intelligence. IEEE. https://doi.org/10.1109/tpami.2023.3308391
chicago: Ali, Dashti, Aras Asaad, Maria-Jose Jimenez, Vidit Nanda, Eduardo Paluzo-Hidalgo,
and Manuel Soriano Trigueros. “A Survey of Vectorization Methods in Topological
Data Analysis.” IEEE Transactions on Pattern Analysis and Machine Intelligence.
IEEE, 2023. https://doi.org/10.1109/tpami.2023.3308391.
ieee: D. Ali, A. Asaad, M.-J. Jimenez, V. Nanda, E. Paluzo-Hidalgo, and M. Soriano
Trigueros, “A survey of vectorization methods in topological data analysis,” IEEE
Transactions on Pattern Analysis and Machine Intelligence, vol. 45, no. 12.
IEEE, pp. 14069–14080, 2023.
ista: Ali D, Asaad A, Jimenez M-J, Nanda V, Paluzo-Hidalgo E, Soriano Trigueros
M. 2023. A survey of vectorization methods in topological data analysis. IEEE
Transactions on Pattern Analysis and Machine Intelligence. 45(12), 14069–14080.
mla: Ali, Dashti, et al. “A Survey of Vectorization Methods in Topological Data
Analysis.” IEEE Transactions on Pattern Analysis and Machine Intelligence,
vol. 45, no. 12, IEEE, 2023, pp. 14069–80, doi:10.1109/tpami.2023.3308391.
short: D. Ali, A. Asaad, M.-J. Jimenez, V. Nanda, E. Paluzo-Hidalgo, M. Soriano
Trigueros, IEEE Transactions on Pattern Analysis and Machine Intelligence 45 (2023)
14069–14080.
date_created: 2024-01-08T09:59:46Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2024-01-08T10:11:46Z
day: '01'
ddc:
- '000'
department:
- _id: HeEd
doi: 10.1109/tpami.2023.3308391
file:
- access_level: open_access
checksum: 465c28ef0b151b4b1fb47977ed5581ab
content_type: application/pdf
creator: dernst
date_created: 2024-01-08T10:09:14Z
date_updated: 2024-01-08T10:09:14Z
file_id: '14740'
file_name: 2023_IEEEToP_Ali.pdf
file_size: 2370988
relation: main_file
success: 1
file_date_updated: 2024-01-08T10:09:14Z
has_accepted_license: '1'
intvolume: ' 45'
issue: '12'
keyword:
- Applied Mathematics
- Artificial Intelligence
- Computational Theory and Mathematics
- Computer Vision and Pattern Recognition
- Software
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 14069-14080
publication: IEEE Transactions on Pattern Analysis and Machine Intelligence
publication_identifier:
eissn:
- 1939-3539
issn:
- 0162-8828
publication_status: published
publisher: IEEE
quality_controlled: '1'
status: public
title: A survey of vectorization methods in topological data analysis
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 45
year: '2023'
...
---
_id: '14742'
abstract:
- lang: eng
text: "Chromosomal rearrangements (CRs) have been known since almost the beginning
of genetics.\r\nWhile an important role for CRs in speciation has been suggested,
evidence primarily stems\r\nfrom theoretical and empirical studies focusing on
the microevolutionary level (i.e., on taxon\r\npairs where speciation is often
incomplete). Although the role of CRs in eukaryotic speciation at\r\na macroevolutionary
level has been supported by associations between species diversity and\r\nrates
of evolution of CRs across phylogenies, these findings are limited to a restricted
range of\r\nCRs and taxa. Now that more broadly applicable and precise CR detection
approaches have\r\nbecome available, we address the challenges in filling some
of the conceptual and empirical\r\ngaps between micro- and macroevolutionary studies
on the role of CRs in speciation. We\r\nsynthesize what is known about the macroevolutionary
impact of CRs and suggest new research avenues to overcome the pitfalls of previous
studies to gain a more comprehensive understanding of the evolutionary significance
of CRs in speciation across the tree of life."
acknowledgement: "K.L. was funded by a Swiss National Science Foundation Eccellenza
project: The evolution of strong reproductive barriers towards the completion of
speciation (PCEFP3_202869). R.F.\r\nwas funded by an FCT CEEC (Fundação para a Ciênca
e a Tecnologia, Concurso Estímulo ao\r\nEmprego Científico) contract (2020.00275.
CEECIND) and by an FCT research project\r\n(PTDC/BIA-EVL/1614/2021). M.R. was funded
by the Swedish Research Council Vetenskapsrådet (grant number 2021-05243). A.M.W.
was partly funded by the Norwegian Research Council RCN. We thank Luis Silva for
his help preparing Figure 1. We are grateful to Maren Wellenreuther, Daniel Bolnick,
and two anonymous reviewers for their constructive feedback on an earlier version
of this paper."
article_number: a041447
article_processing_charge: No
article_type: original
author:
- first_name: Kay
full_name: Lucek, Kay
last_name: Lucek
- first_name: Mabel D.
full_name: Giménez, Mabel D.
last_name: Giménez
- first_name: Mathieu
full_name: Joron, Mathieu
last_name: Joron
- first_name: Marina
full_name: Rafajlović, Marina
last_name: Rafajlović
- first_name: Jeremy B.
full_name: Searle, Jeremy B.
last_name: Searle
- first_name: Nora
full_name: Walden, Nora
last_name: Walden
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
citation:
ama: 'Lucek K, Giménez MD, Joron M, et al. The impact of chromosomal rearrangements
in speciation: From micro- to macroevolution. Cold Spring Harbor Perspectives
in Biology. 2023;15(11). doi:10.1101/cshperspect.a041447'
apa: 'Lucek, K., Giménez, M. D., Joron, M., Rafajlović, M., Searle, J. B., Walden,
N., … Faria, R. (2023). The impact of chromosomal rearrangements in speciation:
From micro- to macroevolution. Cold Spring Harbor Perspectives in Biology.
Cold Spring Harbor Laboratory. https://doi.org/10.1101/cshperspect.a041447'
chicago: 'Lucek, Kay, Mabel D. Giménez, Mathieu Joron, Marina Rafajlović, Jeremy
B. Searle, Nora Walden, Anja M Westram, and Rui Faria. “The Impact of Chromosomal
Rearrangements in Speciation: From Micro- to Macroevolution.” Cold Spring Harbor
Perspectives in Biology. Cold Spring Harbor Laboratory, 2023. https://doi.org/10.1101/cshperspect.a041447.'
ieee: 'K. Lucek et al., “The impact of chromosomal rearrangements in speciation:
From micro- to macroevolution,” Cold Spring Harbor Perspectives in Biology,
vol. 15, no. 11. Cold Spring Harbor Laboratory, 2023.'
ista: 'Lucek K, Giménez MD, Joron M, Rafajlović M, Searle JB, Walden N, Westram
AM, Faria R. 2023. The impact of chromosomal rearrangements in speciation: From
micro- to macroevolution. Cold Spring Harbor Perspectives in Biology. 15(11),
a041447.'
mla: 'Lucek, Kay, et al. “The Impact of Chromosomal Rearrangements in Speciation:
From Micro- to Macroevolution.” Cold Spring Harbor Perspectives in Biology,
vol. 15, no. 11, a041447, Cold Spring Harbor Laboratory, 2023, doi:10.1101/cshperspect.a041447.'
short: K. Lucek, M.D. Giménez, M. Joron, M. Rafajlović, J.B. Searle, N. Walden,
A.M. Westram, R. Faria, Cold Spring Harbor Perspectives in Biology 15 (2023).
date_created: 2024-01-08T12:43:48Z
date_published: 2023-11-01T00:00:00Z
date_updated: 2024-01-08T12:52:29Z
day: '01'
department:
- _id: NiBa
- _id: BeVi
doi: 10.1101/cshperspect.a041447
external_id:
pmid:
- '37604585'
intvolume: ' 15'
issue: '11'
keyword:
- General Biochemistry
- Genetics and Molecular Biology
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/cshperspect.a041447
month: '11'
oa: 1
oa_version: Published Version
pmid: 1
publication: Cold Spring Harbor Perspectives in Biology
publication_identifier:
issn:
- 1943-0264
publication_status: published
publisher: Cold Spring Harbor Laboratory
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'The impact of chromosomal rearrangements in speciation: From micro- to macroevolution'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15
year: '2023'
...
---
_id: '14744'
abstract:
- lang: eng
text: "Sharding distributed ledgers is a promising on-chain solution for scaling
blockchains but lacks formal grounds, nurturing skepticism on whether such complex
systems can scale blockchains securely. We fill this gap by introducing the first
formal framework as well as a roadmap to robust sharding. In particular, we first
define the properties sharded distributed ledgers should fulfill. We build upon
and extend the Bitcoin backbone protocol by defining consistency and scalability.
Consistency encompasses the need for atomic execution of cross-shard transactions
to preserve safety, whereas scalability encapsulates the speedup a sharded system
can gain in comparison to a non-sharded system.\r\nUsing our model, we explore
the limitations of sharding. We show that a sharded ledger with n participants
cannot scale under a fully adaptive adversary, but it can scale up to m shards
where n=c'm log m, under an epoch-adaptive adversary; the constant c' encompasses
the trade-off between security and scalability. This is possible only if the sharded
ledgers create succinct proofs of the valid state updates at every epoch. We leverage
our results to identify the sufficient components for robust sharding, which we
incorporate in a protocol abstraction termed Divide & Scale. To demonstrate the
power of our framework, we analyze the most prominent sharded blockchains (Elastico,
Monoxide, OmniLedger, RapidChain) and pinpoint where they fail to meet the desired
properties."
acknowledgement: The work was partially supported by the Austrian Science Fund (FWF)
through the project CoRaF (grant agreement 2020388).
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Zeta
full_name: Avarikioti, Zeta
last_name: Avarikioti
- first_name: Antoine
full_name: Desjardins, Antoine
id: 06d0c166-aec1-11ee-a7c0-b96e840a602b
last_name: Desjardins
- first_name: Eleftherios
full_name: Kokoris Kogias, Eleftherios
id: f5983044-d7ef-11ea-ac6d-fd1430a26d30
last_name: Kokoris Kogias
- first_name: Roger
full_name: Wattenhofer, Roger
last_name: Wattenhofer
citation:
ama: 'Avarikioti Z, Desjardins A, Kokoris Kogias E, Wattenhofer R. Divide &
Scale: Formalization and roadmap to robust sharding. In: 30th International
Colloquium on Structural Information and Communication Complexity. Vol 13892.
Springer Nature; 2023:199-245. doi:10.1007/978-3-031-32733-9_10'
apa: 'Avarikioti, Z., Desjardins, A., Kokoris Kogias, E., & Wattenhofer, R.
(2023). Divide & Scale: Formalization and roadmap to robust sharding. In 30th
International Colloquium on Structural Information and Communication Complexity
(Vol. 13892, pp. 199–245). Alcalá de Henares, Spain: Springer Nature. https://doi.org/10.1007/978-3-031-32733-9_10'
chicago: 'Avarikioti, Zeta, Antoine Desjardins, Eleftherios Kokoris Kogias, and
Roger Wattenhofer. “Divide & Scale: Formalization and Roadmap to Robust Sharding.”
In 30th International Colloquium on Structural Information and Communication
Complexity, 13892:199–245. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-32733-9_10.'
ieee: 'Z. Avarikioti, A. Desjardins, E. Kokoris Kogias, and R. Wattenhofer, “Divide
& Scale: Formalization and roadmap to robust sharding,” in 30th International
Colloquium on Structural Information and Communication Complexity, Alcalá
de Henares, Spain, 2023, vol. 13892, pp. 199–245.'
ista: 'Avarikioti Z, Desjardins A, Kokoris Kogias E, Wattenhofer R. 2023. Divide
& Scale: Formalization and roadmap to robust sharding. 30th International
Colloquium on Structural Information and Communication Complexity. SIROCCO: Structural
Information and Communication Complexity, LNCS, vol. 13892, 199–245.'
mla: 'Avarikioti, Zeta, et al. “Divide & Scale: Formalization and Roadmap to Robust
Sharding.” 30th International Colloquium on Structural Information and Communication
Complexity, vol. 13892, Springer Nature, 2023, pp. 199–245, doi:10.1007/978-3-031-32733-9_10.'
short: Z. Avarikioti, A. Desjardins, E. Kokoris Kogias, R. Wattenhofer, in:, 30th
International Colloquium on Structural Information and Communication Complexity,
Springer Nature, 2023, pp. 199–245.
conference:
end_date: 2023-06-09
location: Alcalá de Henares, Spain
name: 'SIROCCO: Structural Information and Communication Complexity'
start_date: 2023-06-06
date_created: 2024-01-08T12:56:46Z
date_published: 2023-06-01T00:00:00Z
date_updated: 2024-01-09T07:40:57Z
day: '01'
department:
- _id: ElKo
doi: 10.1007/978-3-031-32733-9_10
intvolume: ' 13892'
language:
- iso: eng
month: '06'
oa_version: None
page: 199-245
publication: 30th International Colloquium on Structural Information and Communication
Complexity
publication_identifier:
eisbn:
- '9783031327339'
eissn:
- 1611-3349
isbn:
- '9783031327322'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Divide & Scale: Formalization and roadmap to robust sharding'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13892
year: '2023'
...
---
_id: '14749'
abstract:
- lang: eng
text: We unveil a powerful method for the stabilization of laser injection locking
based on sensing variations in the output beam ellipticity of an optically seeded
laser. The effect arises due to an interference between the seeding beam and the
injected laser output. We demonstrate the method for a commercial semiconductor
laser without the need for any internal changes to the readily operational injection
locked laser system that was used. The method can also be used to increase the
mode-hop free tuning range of lasers, and has the potential to fill a void in
the low-noise laser industry.
article_processing_charge: No
article_type: original
author:
- first_name: Umang
full_name: Mishra, Umang
id: 4328fa4c-f128-11eb-9611-c107b0fe4d51
last_name: Mishra
- first_name: Vyacheslav
full_name: Li, Vyacheslav
id: 3A4FAA92-F248-11E8-B48F-1D18A9856A87
last_name: Li
- first_name: Sebastian
full_name: Wald, Sebastian
id: 133F200A-B015-11E9-AD41-0EDAE5697425
last_name: Wald
- first_name: Sofya
full_name: Agafonova, Sofya
id: 09501ff6-dca7-11ea-a8ae-b3e0b9166e80
last_name: Agafonova
orcid: 0000-0003-0582-2946
- first_name: Fritz R
full_name: Diorico, Fritz R
id: 2E054C4C-F248-11E8-B48F-1D18A9856A87
last_name: Diorico
- first_name: Onur
full_name: Hosten, Onur
id: 4C02D85E-F248-11E8-B48F-1D18A9856A87
last_name: Hosten
orcid: 0000-0002-2031-204X
citation:
ama: Mishra U, Li V, Wald S, Agafonova S, Diorico FR, Hosten O. Monitoring and active
stabilization of laser injection locking using beam ellipticity. Optics Letters.
2023;48(15):3973-3976. doi:10.1364/ol.495553
apa: Mishra, U., Li, V., Wald, S., Agafonova, S., Diorico, F. R., & Hosten,
O. (2023). Monitoring and active stabilization of laser injection locking using
beam ellipticity. Optics Letters. Optica Publishing Group. https://doi.org/10.1364/ol.495553
chicago: Mishra, Umang, Vyacheslav Li, Sebastian Wald, Sofya Agafonova, Fritz R
Diorico, and Onur Hosten. “Monitoring and Active Stabilization of Laser Injection
Locking Using Beam Ellipticity.” Optics Letters. Optica Publishing Group,
2023. https://doi.org/10.1364/ol.495553.
ieee: U. Mishra, V. Li, S. Wald, S. Agafonova, F. R. Diorico, and O. Hosten, “Monitoring
and active stabilization of laser injection locking using beam ellipticity,” Optics
Letters, vol. 48, no. 15. Optica Publishing Group, pp. 3973–3976, 2023.
ista: Mishra U, Li V, Wald S, Agafonova S, Diorico FR, Hosten O. 2023. Monitoring
and active stabilization of laser injection locking using beam ellipticity. Optics
Letters. 48(15), 3973–3976.
mla: Mishra, Umang, et al. “Monitoring and Active Stabilization of Laser Injection
Locking Using Beam Ellipticity.” Optics Letters, vol. 48, no. 15, Optica
Publishing Group, 2023, pp. 3973–76, doi:10.1364/ol.495553.
short: U. Mishra, V. Li, S. Wald, S. Agafonova, F.R. Diorico, O. Hosten, Optics
Letters 48 (2023) 3973–3976.
date_created: 2024-01-08T13:01:46Z
date_published: 2023-07-21T00:00:00Z
date_updated: 2024-01-09T08:09:32Z
day: '21'
department:
- _id: OnHo
doi: 10.1364/ol.495553
external_id:
arxiv:
- '2212.01266'
intvolume: ' 48'
issue: '15'
keyword:
- Atomic and Molecular Physics
- and Optics
language:
- iso: eng
month: '07'
oa_version: Preprint
page: 3973-3976
publication: Optics Letters
publication_identifier:
eissn:
- 1539-4794
issn:
- 0146-9592
publication_status: published
publisher: Optica Publishing Group
quality_controlled: '1'
scopus_import: '1'
status: public
title: Monitoring and active stabilization of laser injection locking using beam ellipticity
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 48
year: '2023'
...
---
_id: '14752'
abstract:
- lang: eng
text: 'Radiative cooling of the lowest atmospheric levels is of strong importance
for modulating atmospheric circulations and organizing convection, but detailed
observations and a robust theoretical understanding are lacking. Here we use unprecedented
observational constraints from subsidence regimes in the tropical Atlantic to
develop a theory for the shape and magnitude of low‐level longwave radiative cooling
in clear‐sky, showing peaks larger than 5–10 K/day at the top of the boundary
layer. A suite of novel scaling approximations is first developed from simplified
spectral theory, in close agreement with the measurements. The radiative cooling
peak height is set by the maximum lapse rate in water vapor path, and its magnitude
is mainly controlled by the ratio of column relative humidity above and below
the peak. We emphasize how elevated intrusions of moist air can reduce low‐level
cooling, by sporadically shading the spectral range which effectively cools to
space. The efficiency of this spectral shading depends both on water content and
altitude of moist intrusions; its height dependence cannot be explained by the
temperature difference between the emitting and absorbing layers, but by the decrease
of water vapor extinction with altitude. This analytical work can help to narrow
the search for low‐level cloud patterns sensitive to radiative‐convective feedbacks:
the most organized patterns with largest cloud fractions occur in atmospheres
below 10% relative humidity and feel the strongest low‐level cooling. This motivates
further assessment of favorable conditions for radiative‐convective feedbacks
and a robust quantification of corresponding shallow cloud dynamics in current
and warmer climates.'
acknowledgement: The authors would like to thank two anonymous reviews and gratefully
acknowledge diverse funding agencies and resources used for this work. B.F. and
C.M. thank funding from the European Research Council (ERC) under the European Union's
Horizon 2020 research and innovation program (Project CLUSTER, grant agreement no.
805041), and the EUREC4A campaign organizers for giving the opportunity to take
part to the campaign and use the data early on. R. P. was supported by the US National
Science Foundation (award AGS 19–16908), by the National Oceanic and Atmospheric
Administration (award NA200AR4310375), and the Vetlesen Foundation.
article_number: e2023AV000880
article_processing_charge: Yes
article_type: original
author:
- first_name: B.
full_name: Fildier, B.
last_name: Fildier
- first_name: Caroline J
full_name: Muller, Caroline J
id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b
last_name: Muller
orcid: 0000-0001-5836-5350
- first_name: R.
full_name: Pincus, R.
last_name: Pincus
- first_name: S.
full_name: Fueglistaler, S.
last_name: Fueglistaler
citation:
ama: Fildier B, Muller CJ, Pincus R, Fueglistaler S. How moisture shapes low‐level
radiative cooling in subsidence regimes. AGU Advances. 2023;4(3). doi:10.1029/2023av000880
apa: Fildier, B., Muller, C. J., Pincus, R., & Fueglistaler, S. (2023). How
moisture shapes low‐level radiative cooling in subsidence regimes. AGU Advances.
American Geophysical Union. https://doi.org/10.1029/2023av000880
chicago: Fildier, B., Caroline J Muller, R. Pincus, and S. Fueglistaler. “How Moisture
Shapes Low‐level Radiative Cooling in Subsidence Regimes.” AGU Advances.
American Geophysical Union, 2023. https://doi.org/10.1029/2023av000880.
ieee: B. Fildier, C. J. Muller, R. Pincus, and S. Fueglistaler, “How moisture shapes
low‐level radiative cooling in subsidence regimes,” AGU Advances, vol.
4, no. 3. American Geophysical Union, 2023.
ista: Fildier B, Muller CJ, Pincus R, Fueglistaler S. 2023. How moisture shapes
low‐level radiative cooling in subsidence regimes. AGU Advances. 4(3), e2023AV000880.
mla: Fildier, B., et al. “How Moisture Shapes Low‐level Radiative Cooling in Subsidence
Regimes.” AGU Advances, vol. 4, no. 3, e2023AV000880, American Geophysical
Union, 2023, doi:10.1029/2023av000880.
short: B. Fildier, C.J. Muller, R. Pincus, S. Fueglistaler, AGU Advances 4 (2023).
date_created: 2024-01-08T13:07:49Z
date_published: 2023-06-01T00:00:00Z
date_updated: 2024-01-09T08:54:03Z
day: '01'
ddc:
- '550'
department:
- _id: CaMu
doi: 10.1029/2023av000880
ec_funded: 1
file:
- access_level: open_access
checksum: af773220a9fa194c61a8dc2fae092c16
content_type: application/pdf
creator: dernst
date_created: 2024-01-09T08:51:25Z
date_updated: 2024-01-09T08:51:25Z
file_id: '14761'
file_name: 2023_AGUAdvances_Fildier.pdf
file_size: 24149551
relation: main_file
success: 1
file_date_updated: 2024-01-09T08:51:25Z
has_accepted_license: '1'
intvolume: ' 4'
issue: '3'
keyword:
- General Earth and Planetary Sciences
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
project:
- _id: 629205d8-2b32-11ec-9570-e1356ff73576
call_identifier: H2020
grant_number: '805041'
name: organization of CLoUdS, and implications of Tropical cyclones and for the
Energetics of the tropics, in current and waRming climate
publication: AGU Advances
publication_identifier:
eissn:
- 2576-604X
publication_status: published
publisher: American Geophysical Union
quality_controlled: '1'
scopus_import: '1'
status: public
title: How moisture shapes low‐level radiative cooling in subsidence regimes
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 4
year: '2023'
...
---
_id: '14754'
abstract:
- lang: eng
text: The large-scale laminar/turbulent spiral patterns that appear in the linearly
unstable regime of counter-rotating Taylor–Couette flow are investigated from
a statistical perspective by means of direct numerical simulation. Unlike the
vast majority of previous numerical studies, we analyse the flow in periodic parallelogram-annular
domains, following a coordinate change that aligns one of the parallelogram sides
with the spiral pattern. The domain size, shape and spatial resolution have been
varied and the results compared with those in a sufficiently large computational
orthogonal domain with natural axial and azimuthal periodicity. We find that a
minimal parallelogram of the right tilt significantly reduces the computational
cost without notably compromising the statistical properties of the supercritical
turbulent spiral. Its mean structure, obtained from extremely long time integrations
in a co-rotating reference frame using the method of slices, bears remarkable
similarity with the turbulent stripes observed in plane Couette flow, the centrifugal
instability playing only a secondary role.
acknowledgement: K.D.’s research was supported by Australian Research Council Discovery
Early Career Researcher Award (DE170100171). B.W., R.A., F.M. and A.M. research
was supported by the Spanish Ministerio de Economía y Competitividad (grant nos.
FIS2016-77849-R and FIS2017-85794-P) and Ministerio de Ciencia e Innovación (grant
no. PID2020-114043GB-I00) and the Generalitat de Catalunya (grant no. 2017-SGR-785).
B.W.’s research was also supported by the Chinese Scholarship Council (grant CSC
no. 201806440152). F.M. is a Serra-Húnter Fellow.
article_number: '0112'
article_processing_charge: No
article_type: original
author:
- first_name: B.
full_name: Wang, B.
last_name: Wang
- first_name: F.
full_name: Mellibovsky, F.
last_name: Mellibovsky
- first_name: Roger
full_name: Ayats López, Roger
id: ab77522d-073b-11ed-8aff-e71b39258362
last_name: Ayats López
orcid: 0000-0001-6572-0621
- first_name: K.
full_name: Deguchi, K.
last_name: Deguchi
- first_name: A.
full_name: Meseguer, A.
last_name: Meseguer
citation:
ama: Wang B, Mellibovsky F, Ayats López R, Deguchi K, Meseguer A. Mean structure
of the supercritical turbulent spiral in Taylor–Couette flow. Philosophical
Transactions of the Royal Society A. 2023;381(2246). doi:10.1098/rsta.2022.0112
apa: Wang, B., Mellibovsky, F., Ayats López, R., Deguchi, K., & Meseguer, A.
(2023). Mean structure of the supercritical turbulent spiral in Taylor–Couette
flow. Philosophical Transactions of the Royal Society A. The Royal Society.
https://doi.org/10.1098/rsta.2022.0112
chicago: Wang, B., F. Mellibovsky, Roger Ayats López, K. Deguchi, and A. Meseguer.
“Mean Structure of the Supercritical Turbulent Spiral in Taylor–Couette Flow.”
Philosophical Transactions of the Royal Society A. The Royal Society, 2023.
https://doi.org/10.1098/rsta.2022.0112.
ieee: B. Wang, F. Mellibovsky, R. Ayats López, K. Deguchi, and A. Meseguer, “Mean
structure of the supercritical turbulent spiral in Taylor–Couette flow,” Philosophical
Transactions of the Royal Society A, vol. 381, no. 2246. The Royal Society,
2023.
ista: Wang B, Mellibovsky F, Ayats López R, Deguchi K, Meseguer A. 2023. Mean structure
of the supercritical turbulent spiral in Taylor–Couette flow. Philosophical Transactions
of the Royal Society A. 381(2246), 0112.
mla: Wang, B., et al. “Mean Structure of the Supercritical Turbulent Spiral in Taylor–Couette
Flow.” Philosophical Transactions of the Royal Society A, vol. 381, no.
2246, 0112, The Royal Society, 2023, doi:10.1098/rsta.2022.0112.
short: B. Wang, F. Mellibovsky, R. Ayats López, K. Deguchi, A. Meseguer, Philosophical
Transactions of the Royal Society A 381 (2023).
date_created: 2024-01-08T13:11:45Z
date_published: 2023-05-01T00:00:00Z
date_updated: 2024-01-09T09:15:29Z
day: '01'
ddc:
- '530'
department:
- _id: BjHo
doi: 10.1098/rsta.2022.0112
external_id:
pmid:
- '36907214'
file:
- access_level: open_access
checksum: 1978d126c0ce2f47c22ac20107cc0106
content_type: application/pdf
creator: dernst
date_created: 2024-01-09T09:13:53Z
date_updated: 2024-01-09T09:13:53Z
file_id: '14763'
file_name: 2023_PhilTransactionsA_Wang_accepted.pdf
file_size: 6421086
relation: main_file
success: 1
file_date_updated: 2024-01-09T09:13:53Z
has_accepted_license: '1'
intvolume: ' 381'
issue: '2246'
keyword:
- General Physics and Astronomy
- General Engineering
- General Mathematics
language:
- iso: eng
month: '05'
oa: 1
oa_version: Submitted Version
pmid: 1
publication: Philosophical Transactions of the Royal Society A
publication_identifier:
eissn:
- 1471-2962
issn:
- 1364-503X
publication_status: published
publisher: The Royal Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Mean structure of the supercritical turbulent spiral in Taylor–Couette flow
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 381
year: '2023'
...
---
_id: '14753'
abstract:
- lang: eng
text: "Several fixed-target experiments reported J/ψ and ϒ polarizations, as functions
of Feynman x (xF) and transverse momentum (PT), in three different frames, using
different combinations of beam particles, target nuclei, and collision energies.
Despite the diverse and heterogeneous picture formed by these measurements, a
detailed look allows us to discern qualitative physical patterns that inspire
a simple empirical model. This data-driven scenario offers a good quantitative
description of the J/ψ and ϒ(1S) polarizations measured in proton- and pion-nucleus
collisions, in the xF 0.5 domain: more than 80 data points (not statistically
independent) are well reproduced with only one free parameter. This study sets
the context for future low-PT\r\n quarkonium polarization measurements in proton-
and pion-nucleus collisions, such as those to be made by the AMBER experiment,
and shows that such measurements provide significant constraints on the poorly-known
parton distribution functions of the pion."
acknowledgement: "P.F. and C.L. acknowledge support from Fundação para a Ciência e
a Tecnologia, Portugal, under contract CERN/FIS-PAR/0010/2019.\r\nOpen Access funded
by SCOAP3."
article_number: '137871'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Pietro
full_name: Faccioli, Pietro
last_name: Faccioli
- first_name: Ilse
full_name: Krätschmer, Ilse
id: 30d4014e-7753-11eb-b44b-db6d61112e73
last_name: Krätschmer
orcid: 0000-0002-5636-9259
- first_name: Carlos
full_name: Lourenço, Carlos
last_name: Lourenço
citation:
ama: 'Faccioli P, Krätschmer I, Lourenço C. Low-pT quarkonium polarization measurements:
Challenges and opportunities. Physics Letters B. 2023;840. doi:10.1016/j.physletb.2023.137871'
apa: 'Faccioli, P., Krätschmer, I., & Lourenço, C. (2023). Low-pT quarkonium
polarization measurements: Challenges and opportunities. Physics Letters B.
Elsevier. https://doi.org/10.1016/j.physletb.2023.137871'
chicago: 'Faccioli, Pietro, Ilse Krätschmer, and Carlos Lourenço. “Low-PT Quarkonium
Polarization Measurements: Challenges and Opportunities.” Physics Letters B.
Elsevier, 2023. https://doi.org/10.1016/j.physletb.2023.137871.'
ieee: 'P. Faccioli, I. Krätschmer, and C. Lourenço, “Low-pT quarkonium polarization
measurements: Challenges and opportunities,” Physics Letters B, vol. 840.
Elsevier, 2023.'
ista: 'Faccioli P, Krätschmer I, Lourenço C. 2023. Low-pT quarkonium polarization
measurements: Challenges and opportunities. Physics Letters B. 840, 137871.'
mla: 'Faccioli, Pietro, et al. “Low-PT Quarkonium Polarization Measurements: Challenges
and Opportunities.” Physics Letters B, vol. 840, 137871, Elsevier, 2023,
doi:10.1016/j.physletb.2023.137871.'
short: P. Faccioli, I. Krätschmer, C. Lourenço, Physics Letters B 840 (2023).
date_created: 2024-01-08T13:09:17Z
date_published: 2023-05-10T00:00:00Z
date_updated: 2024-01-09T09:02:22Z
day: '10'
ddc:
- '530'
department:
- _id: MaRo
doi: 10.1016/j.physletb.2023.137871
file:
- access_level: open_access
checksum: 02dec160dbc81d95985e755869d8afbf
content_type: application/pdf
creator: dernst
date_created: 2024-01-09T08:59:24Z
date_updated: 2024-01-09T08:59:24Z
file_id: '14762'
file_name: 2023_PhysicsLettersB_Faccioli.pdf
file_size: 855494
relation: main_file
success: 1
file_date_updated: 2024-01-09T08:59:24Z
has_accepted_license: '1'
intvolume: ' 840'
keyword:
- Nuclear and High Energy Physics
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
publication: Physics Letters B
publication_identifier:
eissn:
- 1873-2445
issn:
- 0370-2693
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Low-pT quarkonium polarization measurements: Challenges and opportunities'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 840
year: '2023'
...
---
_id: '14750'
abstract:
- lang: eng
text: "Consider the random matrix model A1/2UBU∗A1/2, where A and B are two N ×
N deterministic matrices and U is either an N × N Haar unitary or orthogonal random
matrix. It is well known that on the macroscopic scale (Invent. Math. 104 (1991)
201–220), the limiting empirical spectral distribution (ESD) of the above model
is given by the free multiplicative convolution\r\nof the limiting ESDs of A and
B, denoted as μα \x02 μβ, where μα and μβ are the limiting ESDs of A and B, respectively.
In this paper, we study the asymptotic microscopic behavior of the edge eigenvalues
and eigenvectors statistics. We prove that both the density of μA \x02μB, where
μA and μB are the ESDs of A and B, respectively and the associated subordination
functions\r\nhave a regular behavior near the edges. Moreover, we establish the
local laws near the edges on the optimal scale. In particular, we prove that the
entries of the resolvent are close to some functionals depending only on the eigenvalues
of A, B and the subordination functions with optimal convergence rates. Our proofs
and calculations are based on the techniques developed for the additive model
A+UBU∗ in (J. Funct. Anal. 271 (2016) 672–719; Comm. Math.\r\nPhys. 349 (2017)
947–990; Adv. Math. 319 (2017) 251–291; J. Funct. Anal. 279 (2020) 108639), and
our results can be regarded as the counterparts of (J. Funct. Anal. 279 (2020)
108639) for the multiplicative model. "
acknowledgement: "The first author is partially supported by NSF Grant DMS-2113489
and grateful for the AMS-SIMONS travel grant (2020–2023). The second author is supported
by the ERC Advanced Grant “RMTBeyond” No. 101020331.\r\nThe authors would like to
thank the Editor, Associate Editor and an anonymous referee for their many critical
suggestions which have significantly improved the paper. We also want to thank Zhigang
Bao and Ji Oon Lee for many helpful discussions and comments."
article_processing_charge: No
article_type: original
author:
- first_name: Xiucai
full_name: Ding, Xiucai
last_name: Ding
- first_name: Hong Chang
full_name: Ji, Hong Chang
id: dd216c0a-c1f9-11eb-beaf-e9ea9d2de76d
last_name: Ji
citation:
ama: Ding X, Ji HC. Local laws for multiplication of random matrices. The Annals
of Applied Probability. 2023;33(4):2981-3009. doi:10.1214/22-aap1882
apa: Ding, X., & Ji, H. C. (2023). Local laws for multiplication of random matrices.
The Annals of Applied Probability. Institute of Mathematical Statistics.
https://doi.org/10.1214/22-aap1882
chicago: Ding, Xiucai, and Hong Chang Ji. “Local Laws for Multiplication of Random
Matrices.” The Annals of Applied Probability. Institute of Mathematical
Statistics, 2023. https://doi.org/10.1214/22-aap1882.
ieee: X. Ding and H. C. Ji, “Local laws for multiplication of random matrices,”
The Annals of Applied Probability, vol. 33, no. 4. Institute of Mathematical
Statistics, pp. 2981–3009, 2023.
ista: Ding X, Ji HC. 2023. Local laws for multiplication of random matrices. The
Annals of Applied Probability. 33(4), 2981–3009.
mla: Ding, Xiucai, and Hong Chang Ji. “Local Laws for Multiplication of Random Matrices.”
The Annals of Applied Probability, vol. 33, no. 4, Institute of Mathematical
Statistics, 2023, pp. 2981–3009, doi:10.1214/22-aap1882.
short: X. Ding, H.C. Ji, The Annals of Applied Probability 33 (2023) 2981–3009.
date_created: 2024-01-08T13:03:18Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2024-01-09T08:16:41Z
day: '01'
department:
- _id: LaEr
doi: 10.1214/22-aap1882
ec_funded: 1
external_id:
arxiv:
- '2010.16083'
intvolume: ' 33'
issue: '4'
keyword:
- Statistics
- Probability and Uncertainty
- Statistics and Probability
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2010.16083
month: '08'
oa: 1
oa_version: Preprint
page: 2981-3009
project:
- _id: 62796744-2b32-11ec-9570-940b20777f1d
call_identifier: H2020
grant_number: '101020331'
name: Random matrices beyond Wigner-Dyson-Mehta
publication: The Annals of Applied Probability
publication_identifier:
issn:
- 1050-5164
publication_status: published
publisher: Institute of Mathematical Statistics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Local laws for multiplication of random matrices
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 33
year: '2023'
...
---
_id: '14756'
abstract:
- lang: eng
text: "We prove the r-spin cobordism hypothesis in the setting of (weak) 2-categories
for every positive integer r: the 2-groupoid of 2-dimensional fully extended r-spin
TQFTs with given target is equivalent to the homotopy fixed points of an induced
Spin 2r -action. In particular, such TQFTs are classified by fully dualisable
objects together with a trivialisation of the rth power of their Serre automorphisms.
For r=1, we recover the oriented case (on which our proof builds), while ordinary
spin structures correspond to r=2.\r\nTo construct examples, we explicitly describe
Spin 2r-homotopy fixed points in the equivariant completion of any symmetric
monoidal 2-category. We also show that every object in a 2-category of Landau–Ginzburg
models gives rise to fully extended spin TQFTs and that half of these do not factor
through the oriented bordism 2-category."
acknowledgement: "N.C. is supported by the DFG Heisenberg Programme.\r\nWe are grateful
to Tobias Dyckerhoff, Lukas Müller, Ingo Runkel, and Christopher Schommer-Pries
for helpful discussions."
article_processing_charge: Yes
article_type: original
author:
- first_name: Nils
full_name: Carqueville, Nils
last_name: Carqueville
- first_name: Lorant
full_name: Szegedy, Lorant
id: 7943226E-220E-11EA-94C7-D59F3DDC885E
last_name: Szegedy
orcid: 0000-0003-2834-5054
citation:
ama: Carqueville N, Szegedy L. Fully extended r-spin TQFTs. Quantum Topology.
2023;14(3):467-532. doi:10.4171/qt/193
apa: Carqueville, N., & Szegedy, L. (2023). Fully extended r-spin TQFTs. Quantum
Topology. European Mathematical Society. https://doi.org/10.4171/qt/193
chicago: Carqueville, Nils, and Lorant Szegedy. “Fully Extended R-Spin TQFTs.” Quantum
Topology. European Mathematical Society, 2023. https://doi.org/10.4171/qt/193.
ieee: N. Carqueville and L. Szegedy, “Fully extended r-spin TQFTs,” Quantum Topology,
vol. 14, no. 3. European Mathematical Society, pp. 467–532, 2023.
ista: Carqueville N, Szegedy L. 2023. Fully extended r-spin TQFTs. Quantum Topology.
14(3), 467–532.
mla: Carqueville, Nils, and Lorant Szegedy. “Fully Extended R-Spin TQFTs.” Quantum
Topology, vol. 14, no. 3, European Mathematical Society, 2023, pp. 467–532,
doi:10.4171/qt/193.
short: N. Carqueville, L. Szegedy, Quantum Topology 14 (2023) 467–532.
date_created: 2024-01-08T13:14:48Z
date_published: 2023-10-16T00:00:00Z
date_updated: 2024-01-09T09:27:46Z
day: '16'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.4171/qt/193
file:
- access_level: open_access
checksum: b0590aff6e7ec89cc149ba94d459d3a3
content_type: application/pdf
creator: dernst
date_created: 2024-01-09T09:25:34Z
date_updated: 2024-01-09T09:25:34Z
file_id: '14764'
file_name: 2023_QuantumTopol_Carqueville.pdf
file_size: 707344
relation: main_file
success: 1
file_date_updated: 2024-01-09T09:25:34Z
has_accepted_license: '1'
intvolume: ' 14'
issue: '3'
keyword:
- Geometry and Topology
- Mathematical Physics
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 467-532
publication: Quantum Topology
publication_identifier:
issn:
- 1663-487X
publication_status: published
publisher: European Mathematical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Fully extended r-spin TQFTs
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2023'
...
---
_id: '14751'
abstract:
- lang: eng
text: 'We consider zero-error communication over a two-transmitter deterministic
adversarial multiple access channel (MAC) governed by an adversary who has access
to the transmissions of both senders (hence called omniscient ) and aims to maliciously
corrupt the communication. None of the encoders, jammer and decoder is allowed
to randomize using private or public randomness. This enforces a combinatorial
nature of the problem. Our model covers a large family of channels studied in
the literature, including all deterministic discrete memoryless noisy or noiseless
MACs. In this work, given an arbitrary two-transmitter deterministic omniscient
adversarial MAC, we characterize when the capacity region: 1) has nonempty interior
(in particular, is two-dimensional); 2) consists of two line segments (in particular,
has empty interior); 3) consists of one line segment (in particular, is one-dimensional);
4) or only contains (0,0) (in particular, is zero-dimensional). This extends a
recent result by Wang et al. (201 9) from the point-to-point setting to the multiple
access setting. Indeed, our converse arguments build upon their generalized Plotkin
bound and involve delicate case analysis. One of the technical challenges is to
take care of both “joint confusability” and “marginal confusability”. In particular,
the treatment of marginal confusability does not follow from the point-to-point
results by Wang et al. Our achievability results follow from random coding with
expurgation.'
acknowledgement: "The author would like to thank Amitalok J. Budkuley and Sidharth
Jaggi for many helpful discussions at the early stage of this work. He would also
like to thank Nir Ailon, Qi Cao, and Chandra Nair for discussions on a related problem
regarding zero-error binary adder MACs.\r\nThe work of Yihan Zhang was supported
by the European Union’s Horizon 2020 Research and Innovation Programme under Grant
682203-ERC-[Inf-Speed-Tradeoff]"
article_processing_charge: No
article_type: original
author:
- first_name: Yihan
full_name: Zhang, Yihan
id: 2ce5da42-b2ea-11eb-bba5-9f264e9d002c
last_name: Zhang
orcid: 0000-0002-6465-6258
citation:
ama: Zhang Y. Zero-error communication over adversarial MACs. IEEE Transactions
on Information Theory. 2023;69(7):4093-4127. doi:10.1109/tit.2023.3257239
apa: Zhang, Y. (2023). Zero-error communication over adversarial MACs. IEEE Transactions
on Information Theory. Institute of Electrical and Electronics Engineers.
https://doi.org/10.1109/tit.2023.3257239
chicago: Zhang, Yihan. “Zero-Error Communication over Adversarial MACs.” IEEE
Transactions on Information Theory. Institute of Electrical and Electronics
Engineers, 2023. https://doi.org/10.1109/tit.2023.3257239.
ieee: Y. Zhang, “Zero-error communication over adversarial MACs,” IEEE Transactions
on Information Theory, vol. 69, no. 7. Institute of Electrical and Electronics
Engineers, pp. 4093–4127, 2023.
ista: Zhang Y. 2023. Zero-error communication over adversarial MACs. IEEE Transactions
on Information Theory. 69(7), 4093–4127.
mla: Zhang, Yihan. “Zero-Error Communication over Adversarial MACs.” IEEE Transactions
on Information Theory, vol. 69, no. 7, Institute of Electrical and Electronics
Engineers, 2023, pp. 4093–127, doi:10.1109/tit.2023.3257239.
short: Y. Zhang, IEEE Transactions on Information Theory 69 (2023) 4093–4127.
date_created: 2024-01-08T13:04:54Z
date_published: 2023-07-01T00:00:00Z
date_updated: 2024-01-09T08:45:24Z
day: '01'
department:
- _id: MaMo
doi: 10.1109/tit.2023.3257239
external_id:
arxiv:
- '2101.12426'
intvolume: ' 69'
issue: '7'
keyword:
- Computer Science Applications
- Information Systems
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2101.12426
month: '07'
oa: 1
oa_version: Preprint
page: 4093-4127
publication: IEEE Transactions on Information Theory
publication_identifier:
eissn:
- 1557-9654
issn:
- 0018-9448
publication_status: published
publisher: Institute of Electrical and Electronics Engineers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Zero-error communication over adversarial MACs
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 69
year: '2023'
...
---
_id: '14755'
abstract:
- lang: eng
text: We consider the sharp interface limit for the scalar-valued and vector-valued
Allen–Cahn equation with homogeneous Neumann boundary condition in a bounded smooth
domain Ω of arbitrary dimension N ⩾ 2 in the situation when a two-phase diffuse
interface has developed and intersects the boundary ∂ Ω. The limit problem is
mean curvature flow with 90°-contact angle and we show convergence in strong norms
for well-prepared initial data as long as a smooth solution to the limit problem
exists. To this end we assume that the limit problem has a smooth solution on
[ 0 , T ] for some time T > 0. Based on the latter we construct suitable curvilinear
coordinates and set up an asymptotic expansion for the scalar-valued and the vector-valued
Allen–Cahn equation. In order to estimate the difference of the exact and approximate
solutions with a Gronwall-type argument, a spectral estimate for the linearized
Allen–Cahn operator in both cases is required. The latter will be shown in a separate
paper, cf. (Moser (2021)).
acknowledgement: "The author gratefully acknowledges support through DFG, GRK 1692
“Curvature,\r\nCycles and Cohomology” during parts of the work."
article_processing_charge: No
article_type: original
author:
- first_name: Maximilian
full_name: Moser, Maximilian
id: a60047a9-da77-11eb-85b4-c4dc385ebb8c
last_name: Moser
citation:
ama: 'Moser M. Convergence of the scalar- and vector-valued Allen–Cahn equation
to mean curvature flow with 90°-contact angle in higher dimensions, part I: Convergence
result. Asymptotic Analysis. 2023;131(3-4):297-383. doi:10.3233/asy-221775'
apa: 'Moser, M. (2023). Convergence of the scalar- and vector-valued Allen–Cahn
equation to mean curvature flow with 90°-contact angle in higher dimensions, part
I: Convergence result. Asymptotic Analysis. IOS Press. https://doi.org/10.3233/asy-221775'
chicago: 'Moser, Maximilian. “Convergence of the Scalar- and Vector-Valued Allen–Cahn
Equation to Mean Curvature Flow with 90°-Contact Angle in Higher Dimensions, Part
I: Convergence Result.” Asymptotic Analysis. IOS Press, 2023. https://doi.org/10.3233/asy-221775.'
ieee: 'M. Moser, “Convergence of the scalar- and vector-valued Allen–Cahn equation
to mean curvature flow with 90°-contact angle in higher dimensions, part I: Convergence
result,” Asymptotic Analysis, vol. 131, no. 3–4. IOS Press, pp. 297–383,
2023.'
ista: 'Moser M. 2023. Convergence of the scalar- and vector-valued Allen–Cahn equation
to mean curvature flow with 90°-contact angle in higher dimensions, part I: Convergence
result. Asymptotic Analysis. 131(3–4), 297–383.'
mla: 'Moser, Maximilian. “Convergence of the Scalar- and Vector-Valued Allen–Cahn
Equation to Mean Curvature Flow with 90°-Contact Angle in Higher Dimensions, Part
I: Convergence Result.” Asymptotic Analysis, vol. 131, no. 3–4, IOS Press,
2023, pp. 297–383, doi:10.3233/asy-221775.'
short: M. Moser, Asymptotic Analysis 131 (2023) 297–383.
date_created: 2024-01-08T13:13:28Z
date_published: 2023-02-02T00:00:00Z
date_updated: 2024-01-09T09:22:16Z
day: '02'
department:
- _id: JuFi
doi: 10.3233/asy-221775
external_id:
arxiv:
- '2105.07100'
intvolume: ' 131'
issue: 3-4
keyword:
- General Mathematics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2105.07100
month: '02'
oa: 1
oa_version: Preprint
page: 297-383
publication: Asymptotic Analysis
publication_identifier:
eissn:
- 1875-8576
issn:
- 0921-7134
publication_status: published
publisher: IOS Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Convergence of the scalar- and vector-valued Allen–Cahn equation to mean curvature
flow with 90°-contact angle in higher dimensions, part I: Convergence result'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 131
year: '2023'
...
---
_id: '14757'
abstract:
- lang: eng
text: The cerebral cortex is comprised of a vast cell-type diversity sequentially
generated by cortical progenitor cells. Faithful progenitor lineage progression
requires the tight orchestration of distinct molecular and cellular mechanisms
regulating proper progenitor proliferation behavior and differentiation. Correct
execution of developmental programs involves a complex interplay of cell intrinsic
and tissue-wide mechanisms. Many studies over the past decades have been able
to determine a plethora of genes critically involved in cortical development.
However, only a few made use of genetic paradigms with sparse and global gene
deletion to probe cell-autonomous vs. tissue-wide contribution. In this chapter,
we will elaborate on the importance of dissecting the cell-autonomous and tissue-wide
mechanisms to gain a precise understanding of gene function during radial glial
progenitor lineage progression.
article_processing_charge: No
author:
- first_name: Ana
full_name: Villalba Requena, Ana
id: 68cb85a0-39f7-11eb-9559-9aaab4f6a247
last_name: Villalba Requena
orcid: 0000-0002-5615-5277
- first_name: Nicole
full_name: Amberg, Nicole
id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87
last_name: Amberg
orcid: 0000-0002-3183-8207
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
citation:
ama: 'Villalba Requena A, Amberg N, Hippenmeyer S. Interplay of Cell‐autonomous
Gene Function and Tissue‐wide Mechanisms Regulating Radial Glial Progenitor Lineage
Progression. In: Huttner W, ed. Neocortical Neurogenesis in Development and
Evolution. Wiley; 2023:169-191. doi:10.1002/9781119860914.ch10'
apa: Villalba Requena, A., Amberg, N., & Hippenmeyer, S. (2023). Interplay of
Cell‐autonomous Gene Function and Tissue‐wide Mechanisms Regulating Radial Glial
Progenitor Lineage Progression. In W. Huttner (Ed.), Neocortical Neurogenesis
in Development and Evolution (pp. 169–191). Wiley. https://doi.org/10.1002/9781119860914.ch10
chicago: Villalba Requena, Ana, Nicole Amberg, and Simon Hippenmeyer. “Interplay
of Cell‐autonomous Gene Function and Tissue‐wide Mechanisms Regulating Radial
Glial Progenitor Lineage Progression.” In Neocortical Neurogenesis in Development
and Evolution, edited by Wieland Huttner, 169–91. Wiley, 2023. https://doi.org/10.1002/9781119860914.ch10.
ieee: A. Villalba Requena, N. Amberg, and S. Hippenmeyer, “Interplay of Cell‐autonomous
Gene Function and Tissue‐wide Mechanisms Regulating Radial Glial Progenitor Lineage
Progression,” in Neocortical Neurogenesis in Development and Evolution,
W. Huttner, Ed. Wiley, 2023, pp. 169–191.
ista: 'Villalba Requena A, Amberg N, Hippenmeyer S. 2023.Interplay of Cell‐autonomous
Gene Function and Tissue‐wide Mechanisms Regulating Radial Glial Progenitor Lineage
Progression. In: Neocortical Neurogenesis in Development and Evolution. , 169–191.'
mla: Villalba Requena, Ana, et al. “Interplay of Cell‐autonomous Gene Function and
Tissue‐wide Mechanisms Regulating Radial Glial Progenitor Lineage Progression.”
Neocortical Neurogenesis in Development and Evolution, edited by Wieland
Huttner, Wiley, 2023, pp. 169–91, doi:10.1002/9781119860914.ch10.
short: A. Villalba Requena, N. Amberg, S. Hippenmeyer, in:, W. Huttner (Ed.), Neocortical
Neurogenesis in Development and Evolution, Wiley, 2023, pp. 169–191.
date_created: 2024-01-08T13:16:36Z
date_published: 2023-08-08T00:00:00Z
date_updated: 2024-01-09T09:46:57Z
day: '08'
department:
- _id: SiHi
doi: 10.1002/9781119860914.ch10
editor:
- first_name: Wieland
full_name: Huttner, Wieland
last_name: Huttner
language:
- iso: eng
month: '08'
oa_version: None
page: 169-191
publication: Neocortical Neurogenesis in Development and Evolution
publication_identifier:
eisbn:
- '9781119860914'
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Interplay of Cell‐autonomous Gene Function and Tissue‐wide Mechanisms Regulating
Radial Glial Progenitor Lineage Progression
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14759'
abstract:
- lang: eng
text: "Proper operation of electro-optic I/Q modulators relies on precise adjustment
and control of the relative phase biases between the modulator’s internal interferometer
arms. We present an all-analog phase bias locking scheme where error signals are
obtained from the beat between the optical carrier and optical tones generated
by an auxiliary 2 MHz \U0001D445\U0001D439 tone to lock the phases of all three
involved interferometers for operation up to 10 GHz. With the developed method,
we demonstrate an I/Q modulator in carrier-suppressed single-sideband mode, where
the suppressed carrier and sideband are locked at optical power levels <−27dB\r\n
relative to the transmitted sideband. We describe a simple analytical model for
calculating the error signals and detail the implementation of the electronic
circuitry for the implementation of the method."
acknowledgement: We thank Jakob Vorlaufer for technical contributions and Vyacheslav
Li and Sofia Agafonova for comments on the manuscript.
article_processing_charge: No
article_type: original
author:
- first_name: Sebastian
full_name: Wald, Sebastian
id: 133F200A-B015-11E9-AD41-0EDAE5697425
last_name: Wald
orcid: 0000-0002-5869-1604
- first_name: Fritz R
full_name: Diorico, Fritz R
id: 2E054C4C-F248-11E8-B48F-1D18A9856A87
last_name: Diorico
orcid: 0000-0002-4947-8924
- first_name: Onur
full_name: Hosten, Onur
id: 4C02D85E-F248-11E8-B48F-1D18A9856A87
last_name: Hosten
orcid: 0000-0002-2031-204X
citation:
ama: Wald S, Diorico FR, Hosten O. Analog stabilization of an electro-optic I/Q
modulator with an auxiliary modulation tone. Applied Optics. 2023;62(1):1-7.
doi:10.1364/ao.474118
apa: Wald, S., Diorico, F. R., & Hosten, O. (2023). Analog stabilization of
an electro-optic I/Q modulator with an auxiliary modulation tone. Applied Optics.
Optica Publishing Group. https://doi.org/10.1364/ao.474118
chicago: Wald, Sebastian, Fritz R Diorico, and Onur Hosten. “Analog Stabilization
of an Electro-Optic I/Q Modulator with an Auxiliary Modulation Tone.” Applied
Optics. Optica Publishing Group, 2023. https://doi.org/10.1364/ao.474118.
ieee: S. Wald, F. R. Diorico, and O. Hosten, “Analog stabilization of an electro-optic
I/Q modulator with an auxiliary modulation tone,” Applied Optics, vol.
62, no. 1. Optica Publishing Group, pp. 1–7, 2023.
ista: Wald S, Diorico FR, Hosten O. 2023. Analog stabilization of an electro-optic
I/Q modulator with an auxiliary modulation tone. Applied Optics. 62(1), 1–7.
mla: Wald, Sebastian, et al. “Analog Stabilization of an Electro-Optic I/Q Modulator
with an Auxiliary Modulation Tone.” Applied Optics, vol. 62, no. 1, Optica
Publishing Group, 2023, pp. 1–7, doi:10.1364/ao.474118.
short: S. Wald, F.R. Diorico, O. Hosten, Applied Optics 62 (2023) 1–7.
date_created: 2024-01-08T13:19:14Z
date_published: 2023-01-01T00:00:00Z
date_updated: 2024-01-09T10:10:34Z
day: '01'
department:
- _id: OnHo
doi: 10.1364/ao.474118
external_id:
arxiv:
- '2208.11591'
intvolume: ' 62'
issue: '1'
keyword:
- Atomic and Molecular Physics
- and Optics
- Engineering (miscellaneous)
- Electrical and Electronic Engineering
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2208.11591
month: '01'
oa: 1
oa_version: Preprint
page: 1-7
publication: Applied Optics
publication_identifier:
eissn:
- 2155-3165
issn:
- 1559-128X
publication_status: published
publisher: Optica Publishing Group
quality_controlled: '1'
scopus_import: '1'
status: public
title: Analog stabilization of an electro-optic I/Q modulator with an auxiliary modulation
tone
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 62
year: '2023'
...