---
_id: '14851'
abstract:
- lang: ger
text: Die Quantenrotation ist ein spannendes Phänomen, das in vielen verschiedenen
Systemen auftritt, von Molekülen und Atomen bis hin zu subatomaren Teilchen wie
Neutronen und Protonen. Durch den Einsatz von starken Laserpulsen ist es möglich,
die mathematisch anspruchsvolle Topologie der Rotation von Molekülen aufzudecken
und topologisch geschützte Zustände zu erzeugen, die unerwartetes Verhalten zeigen.
Diese Entdeckungen könnten Auswirkungen auf die Molekülphysik und physikalische
Chemie haben und die Entwicklung neuer Technologien ermöglichen. Die Verbindung
von Quantenrotation und Topologie stellt ein aufregendes, interdisziplinäres Forschungsfeld
dar und bietet neue Wege zur Kontrolle und Nutzung von quantenmechanischen Phänomenen.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Volker
full_name: Karle, Volker
id: D7C012AE-D7ED-11E9-95E8-1EC5E5697425
last_name: Karle
orcid: 0000-0002-6963-0129
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
citation:
ama: Karle V, Lemeshko M. Die faszinierende Topologie rotierender Quanten. Physik
in unserer Zeit. 2024;55(1):28-33. doi:10.1002/piuz.202301690
apa: Karle, V., & Lemeshko, M. (2024). Die faszinierende Topologie rotierender
Quanten. Physik in unserer Zeit. Wiley. https://doi.org/10.1002/piuz.202301690
chicago: Karle, Volker, and Mikhail Lemeshko. “Die faszinierende Topologie rotierender
Quanten.” Physik in unserer Zeit. Wiley, 2024. https://doi.org/10.1002/piuz.202301690.
ieee: V. Karle and M. Lemeshko, “Die faszinierende Topologie rotierender Quanten,”
Physik in unserer Zeit, vol. 55, no. 1. Wiley, pp. 28–33, 2024.
ista: Karle V, Lemeshko M. 2024. Die faszinierende Topologie rotierender Quanten.
Physik in unserer Zeit. 55(1), 28–33.
mla: Karle, Volker, and Mikhail Lemeshko. “Die faszinierende Topologie rotierender
Quanten.” Physik in unserer Zeit, vol. 55, no. 1, Wiley, 2024, pp. 28–33,
doi:10.1002/piuz.202301690.
short: V. Karle, M. Lemeshko, Physik in unserer Zeit 55 (2024) 28–33.
date_created: 2024-01-22T08:19:36Z
date_published: 2024-01-01T00:00:00Z
date_updated: 2024-02-15T14:29:04Z
day: '01'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.1002/piuz.202301690
file:
- access_level: open_access
checksum: 3051dadcf9bc57da97e36b647c596ab1
content_type: application/pdf
creator: dernst
date_created: 2024-01-23T12:18:07Z
date_updated: 2024-01-23T12:18:07Z
file_id: '14878'
file_name: 2024_PhysikZeit_Karle.pdf
file_size: 1155244
relation: main_file
success: 1
file_date_updated: 2024-01-23T12:18:07Z
has_accepted_license: '1'
intvolume: ' 55'
issue: '1'
keyword:
- General Earth and Planetary Sciences
- General Environmental Science
language:
- iso: ger
month: '01'
oa: 1
oa_version: Published Version
page: 28-33
publication: Physik in unserer Zeit
publication_identifier:
eissn:
- 1521-3943
issn:
- 0031-9252
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Die faszinierende Topologie rotierender Quanten
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: 55
year: '2024'
...
---
_id: '14986'
abstract:
- lang: eng
text: We prove a version of the tamely ramified geometric Langlands correspondence
in positive characteristic for GLn(k). Let k be an algebraically closed field
of characteristic p>n. Let X be a smooth projective curve over k with marked points,
and fix a parabolic subgroup of GLn(k) at each marked point. We denote by Bunn,P
the moduli stack of (quasi-)parabolic vector bundles on X, and by Locn,P the moduli
stack of parabolic flat connections such that the residue is nilpotent with respect
to the parabolic reduction at each marked point. We construct an equivalence between
the bounded derived category Db(Qcoh(Loc0n,P)) of quasi-coherent sheaves on an
open substack Loc0n,P⊂Locn,P, and the bounded derived category Db(D0Bunn,P-mod)
of D0Bunn,P-modules, where D0Bunn,P is a localization of DBunn,P the sheaf of
crystalline differential operators on Bunn,P. Thus we extend the work of Bezrukavnikov-Braverman
to the tamely ramified case. We also prove a correspondence between flat connections
on X with regular singularities and meromorphic Higgs bundles on the Frobenius
twist X(1) of X with first order poles .
acknowledgement: "This work was supported by the NSF [DMS-1502125to S.S.]; and the
European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie
grant agreement [101034413 to S.S.].\r\nI would like to thank my advisor Tom Nevins
for many helpful discussions on this subject and for his comments on this paper.
I would like to thank Christopher Dodd, Michael Groechenig, and Tamas Hausel for
helpful conversations. I would like to thank Tsao-Hsien Chen for useful comments
on an earlier version of this paper."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Shiyu
full_name: Shen, Shiyu
id: 544cccd3-9005-11ec-87bc-94aef1c5b814
last_name: Shen
citation:
ama: Shen S. Tamely ramified geometric Langlands correspondence in positive characteristic.
International Mathematics Research Notices. 2024. doi:10.1093/imrn/rnae005
apa: Shen, S. (2024). Tamely ramified geometric Langlands correspondence in positive
characteristic. International Mathematics Research Notices. Oxford University
Press. https://doi.org/10.1093/imrn/rnae005
chicago: Shen, Shiyu. “Tamely Ramified Geometric Langlands Correspondence in Positive
Characteristic.” International Mathematics Research Notices. Oxford University
Press, 2024. https://doi.org/10.1093/imrn/rnae005.
ieee: S. Shen, “Tamely ramified geometric Langlands correspondence in positive characteristic,”
International Mathematics Research Notices. Oxford University Press, 2024.
ista: Shen S. 2024. Tamely ramified geometric Langlands correspondence in positive
characteristic. International Mathematics Research Notices.
mla: Shen, Shiyu. “Tamely Ramified Geometric Langlands Correspondence in Positive
Characteristic.” International Mathematics Research Notices, Oxford University
Press, 2024, doi:10.1093/imrn/rnae005.
short: S. Shen, International Mathematics Research Notices (2024).
date_created: 2024-02-14T12:16:17Z
date_published: 2024-02-05T00:00:00Z
date_updated: 2024-02-19T10:22:44Z
day: '05'
department:
- _id: TaHa
doi: 10.1093/imrn/rnae005
ec_funded: 1
external_id:
arxiv:
- '1810.12491'
keyword:
- General Mathematics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1093/imrn/rnae005
month: '02'
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: International Mathematics Research Notices
publication_identifier:
eissn:
- 1687-0247
issn:
- 1073-7928
publication_status: epub_ahead
publisher: Oxford University Press
quality_controlled: '1'
status: public
title: Tamely ramified geometric Langlands correspondence in positive characteristic
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '15016'
abstract:
- lang: eng
text: 'The development, evolution, and function of the vertebrate central nervous
system (CNS) can be best studied using diverse model organisms. Amphibians, with
their unique phylogenetic position at the transition between aquatic and terrestrial
lifestyles, are valuable for understanding the origin and evolution of the tetrapod
brain and spinal cord. Their metamorphic developmental transitions and unique
regenerative abilities also facilitate the discovery of mechanisms for neural
circuit remodeling and replacement. The genetic toolkit for amphibians, however,
remains limited, with only a few species having sequenced genomes and a small
number of transgenic lines available. In mammals, recombinant adeno-associated
viral vectors (AAVs) have become a powerful alternative to genome modification
for visualizing and perturbing the nervous system. AAVs are DNA viruses that enable
neuronal transduction in both developing and adult animals with low toxicity and
spatial, temporal, and cell-type specificity. However, AAVs have never been shown
to transduce amphibian cells efficiently. To bridge this gap, we established a
simple, scalable, and robust strategy to screen AAV serotypes in three distantly-related
amphibian species: the frogs Xenopus laevis and Pelophylax bedriagae, and the
salamander Pleurodeles waltl, in both developing larval tadpoles and post-metamorphic
animals. For each species, we successfully identified at least two AAV serotypes
capable of infecting the CNS; however, no pan-amphibian serotype was identified,
indicating rapid evolution of AAV tropism. In addition, we developed an AAV-based
strategy that targets isochronic cohorts of developing neurons – a critical tool
for parsing neural circuit assembly. Finally, to enable visualization and manipulation
of neural circuits, we identified AAV variants for retrograde tracing of neuronal
projections in adult animals. Our findings expand the toolkit for amphibians to
include AAVs, establish a generalizable workflow for AAV screening in non-canonical
research organisms, generate testable hypotheses for the evolution of AAV tropism,
and lay the foundation for modern cross-species comparisons of vertebrate CNS
development, function, and evolution. '
acknowledgement: "We would like to extend our thanks to members of the Sweeney, Tosches,
Shein-Idelson,\r\nYamaguchi, Kelley, and Cline Labs for their contributions to this
project, discussion and support.\r\nWe additionally thank the Beckman Institute
Clover Center and Viviana Gradinaru (Caltech),\r\nKimberly Ritola (UNC NeuroTools),
Flavia Gama Gomez Leite (ISTA Viral Core), and Hüseyin\r\nCihan Önal (Shigemoto
Group, ISTA) for their consultation and assistance regarding AAVs, as\r\nwell as
Andras Simon and Alberto Joven for feedback and discussions on AAVs in Pleurodeles.\r\nTo
do these experiments, we have also benefited from the tremendous support of our
animal care and imaging facilities at our respective institutions, as well as the
amphibian stock centers\r\n(National Xenopus Resource Center, European Xenopus Resource
Center, Xenopus Express)\r\nand our funding sources: U.S. National Science Foundation
(NSF) Grant Number IOS 2110086\r\n(D.B.K., L.B.S., M.A.T., A.Y., and H.T.C.); United
States-Israel Binational Science Foundation\r\n(BSF) Grant Number 2020702 (M.S.-I.);
NSF Award Number 1645105 (G.J.G., M.E.H.); FTI\r\nStrategy Lower Austria Dissertation
Grant Number FTI21-D-046 (D.V.); Horizon Europe ERC\r\nStarting Grant Number 101041551
(L.B.S.); NIH grant number R35GM146973 (M.A.T.); Rita Allen\r\nFoundation award
number GA_032522_FE (M.A.T.); European Molecular Biology Organization\r\nLong-Term
Fellowship ALTF 874-2021 (A.D.); National Science Foundation Graduate Research\r\nFellowship
DGE 2036197 (E.C.J.B.); NIH grant number P40OD010997 (M.E.H)."
article_processing_charge: No
author:
- first_name: Eliza C.B.
full_name: Jaeger, Eliza C.B.
last_name: Jaeger
- first_name: David
full_name: Vijatovic, David
id: cf391e77-ec3c-11ea-a124-d69323410b58
last_name: Vijatovic
- first_name: Astrid
full_name: Deryckere, Astrid
last_name: Deryckere
- first_name: Nikol
full_name: Zorin, Nikol
last_name: Zorin
- first_name: Akemi L.
full_name: Nguyen, Akemi L.
last_name: Nguyen
- first_name: Georgiy
full_name: Ivanian, Georgiy
id: eaf2b366-cfd1-11ee-bbdf-c8790f800a05
last_name: Ivanian
- first_name: Jamie
full_name: Woych, Jamie
last_name: Woych
- first_name: Rebecca C
full_name: Arnold, Rebecca C
id: d6cce458-14c9-11ed-a755-c1c8fc6fde6f
last_name: Arnold
- first_name: Alonso
full_name: Ortega Gurrola, Alonso
last_name: Ortega Gurrola
- first_name: Arik
full_name: Shvartsman, Arik
last_name: Shvartsman
- first_name: Francesca
full_name: Barbieri, Francesca
id: a9492887-8972-11ed-ae7b-bfae10998254
last_name: Barbieri
- first_name: Florina-Alexandra
full_name: Toma, Florina-Alexandra
id: 85dd99f2-15b2-11ec-abd3-d1ae4d57f3b5
last_name: Toma
- first_name: Gary J.
full_name: Gorbsky, Gary J.
last_name: Gorbsky
- first_name: Marko E.
full_name: Horb, Marko E.
last_name: Horb
- first_name: Hollis T.
full_name: Cline, Hollis T.
last_name: Cline
- first_name: Timothy F.
full_name: Shay, Timothy F.
last_name: Shay
- first_name: Darcy B.
full_name: Kelley, Darcy B.
last_name: Kelley
- first_name: Ayako
full_name: Yamaguchi, Ayako
last_name: Yamaguchi
- first_name: Mark
full_name: Shein-Idelson, Mark
last_name: Shein-Idelson
- first_name: Maria Antonietta
full_name: Tosches, Maria Antonietta
last_name: Tosches
- first_name: Lora Beatrice Jaeger
full_name: Sweeney, Lora Beatrice Jaeger
id: 56BE8254-C4F0-11E9-8E45-0B23E6697425
last_name: Sweeney
orcid: 0000-0001-9242-5601
citation:
ama: Jaeger ECB, Vijatovic D, Deryckere A, et al. Adeno-associated viral tools to
trace neural development and connectivity across amphibians. bioRxiv. doi:10.1101/2024.02.15.580289
apa: Jaeger, E. C. B., Vijatovic, D., Deryckere, A., Zorin, N., Nguyen, A. L., Ivanian,
G., … Sweeney, L. B. (n.d.). Adeno-associated viral tools to trace neural development
and connectivity across amphibians. bioRxiv. https://doi.org/10.1101/2024.02.15.580289
chicago: Jaeger, Eliza C.B., David Vijatovic, Astrid Deryckere, Nikol Zorin, Akemi
L. Nguyen, Georgiy Ivanian, Jamie Woych, et al. “Adeno-Associated Viral Tools
to Trace Neural Development and Connectivity across Amphibians.” BioRxiv,
n.d. https://doi.org/10.1101/2024.02.15.580289.
ieee: E. C. B. Jaeger et al., “Adeno-associated viral tools to trace neural
development and connectivity across amphibians,” bioRxiv. .
ista: Jaeger ECB, Vijatovic D, Deryckere A, Zorin N, Nguyen AL, Ivanian G, Woych
J, Arnold RC, Ortega Gurrola A, Shvartsman A, Barbieri F, Toma F-A, Gorbsky GJ,
Horb ME, Cline HT, Shay TF, Kelley DB, Yamaguchi A, Shein-Idelson M, Tosches MA,
Sweeney LB. Adeno-associated viral tools to trace neural development and connectivity
across amphibians. bioRxiv, 10.1101/2024.02.15.580289.
mla: Jaeger, Eliza C. B., et al. “Adeno-Associated Viral Tools to Trace Neural Development
and Connectivity across Amphibians.” BioRxiv, doi:10.1101/2024.02.15.580289.
short: E.C.B. Jaeger, D. Vijatovic, A. Deryckere, N. Zorin, A.L. Nguyen, G. Ivanian,
J. Woych, R.C. Arnold, A. Ortega Gurrola, A. Shvartsman, F. Barbieri, F.-A. Toma,
G.J. Gorbsky, M.E. Horb, H.T. Cline, T.F. Shay, D.B. Kelley, A. Yamaguchi, M.
Shein-Idelson, M.A. Tosches, L.B. Sweeney, BioRxiv (n.d.).
date_created: 2024-02-20T09:20:32Z
date_published: 2024-02-16T00:00:00Z
date_updated: 2024-02-20T09:34:25Z
day: '16'
department:
- _id: LoSw
- _id: MaDe
- _id: GaNo
doi: 10.1101/2024.02.15.580289
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2024.02.15.580289
month: '02'
oa: 1
oa_version: Preprint
project:
- _id: bd73af52-d553-11ed-ba76-912049f0ac7a
grant_number: FTI21-D-046
name: Entwicklung und Funktion der V1 Interneuronen vom Schwimmen zum Laufen während
der Metamorphose von Xenopus
- _id: ebb66355-77a9-11ec-83b8-b8ac210a4dae
grant_number: '101041551'
name: Development and Evolution of Tetrapod Motor Circuits
publication: bioRxiv
publication_status: submitted
status: public
title: Adeno-associated viral tools to trace neural development and connectivity across
amphibians
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '15012'
abstract:
- lang: eng
text: We solve a problem of Dujmović and Wood (2007) by showing that a complete
convex geometric graph on n vertices cannot be decomposed into fewer than n-1
star-forests, each consisting of noncrossing edges. This bound is clearly tight.
We also discuss similar questions for abstract graphs.
acknowledgement: János Pach’s Research partially supported by European Research Council
(ERC), grant “GeoScape” No. 882971 and by the Hungarian Science Foundation (NKFIH),
grant K-131529. Work by Morteza Saghafian is partially supported by the European
Research Council (ERC), grant No. 788183, and by the Wittgenstein Prize, Austrian
Science Fund (FWF), grant No. Z 342-N31.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: János
full_name: Pach, János
id: E62E3130-B088-11EA-B919-BF823C25FEA4
last_name: Pach
- first_name: Morteza
full_name: Saghafian, Morteza
id: f86f7148-b140-11ec-9577-95435b8df824
last_name: Saghafian
- first_name: Patrick
full_name: Schnider, Patrick
last_name: Schnider
citation:
ama: 'Pach J, Saghafian M, Schnider P. Decomposition of geometric graphs into star-forests.
In: 31st International Symposium on Graph Drawing and Network Visualization.
Vol 14465. Springer Nature; 2024:339-346. doi:10.1007/978-3-031-49272-3_23'
apa: 'Pach, J., Saghafian, M., & Schnider, P. (2024). Decomposition of geometric
graphs into star-forests. In 31st International Symposium on Graph Drawing
and Network Visualization (Vol. 14465, pp. 339–346). Isola delle Femmine,
Palermo, Italy: Springer Nature. https://doi.org/10.1007/978-3-031-49272-3_23'
chicago: Pach, János, Morteza Saghafian, and Patrick Schnider. “Decomposition of Geometric
Graphs into Star-Forests.” In 31st International Symposium on Graph Drawing
and Network Visualization, 14465:339–46. Springer Nature, 2024. https://doi.org/10.1007/978-3-031-49272-3_23.
ieee: J. Pach, M. Saghafian, and P. Schnider, “Decomposition of geometric graphs
into star-forests,” in 31st International Symposium on Graph Drawing and Network
Visualization, Isola delle Femmine, Palermo, Italy, 2024, vol. 14465, pp.
339–346.
ista: 'Pach J, Saghafian M, Schnider P. 2024. Decomposition of geometric graphs
into star-forests. 31st International Symposium on Graph Drawing and Network Visualization.
GD: Graph Drawing and Network Visualization, LNCS, vol. 14465, 339–346.'
mla: Pach, János, et al. “Decomposition of Geometric Graphs into Star-Forests.”
31st International Symposium on Graph Drawing and Network Visualization,
vol. 14465, Springer Nature, 2024, pp. 339–46, doi:10.1007/978-3-031-49272-3_23.
short: J. Pach, M. Saghafian, P. Schnider, in:, 31st International Symposium on
Graph Drawing and Network Visualization, Springer Nature, 2024, pp. 339–346.
conference:
end_date: 2023-09-22
location: Isola delle Femmine, Palermo, Italy
name: 'GD: Graph Drawing and Network Visualization'
start_date: 2023-09-20
date_created: 2024-02-18T23:01:03Z
date_published: 2024-01-01T00:00:00Z
date_updated: 2024-02-20T09:13:07Z
day: '01'
department:
- _id: HeEd
doi: 10.1007/978-3-031-49272-3_23
ec_funded: 1
external_id:
arxiv:
- '2306.13201'
intvolume: ' 14465'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2306.13201
month: '01'
oa: 1
oa_version: Preprint
page: 339-346
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
publication: 31st International Symposium on Graph Drawing and Network Visualization
publication_identifier:
eissn:
- '16113349'
isbn:
- '9783031492716'
issn:
- '03029743'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Decomposition of geometric graphs into star-forests
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14465
year: '2024'
...
---
_id: '15006'
abstract:
- lang: eng
text: Graphical games are a useful framework for modeling the interactions of (selfish)
agents who are connected via an underlying topology and whose behaviors influence
each other. They have wide applications ranging from computer science to economics
and biology. Yet, even though an agent’s payoff only depends on the actions of
their direct neighbors in graphical games, computing the Nash equilibria and making
statements about the convergence time of "natural" local dynamics in particular
can be highly challenging. In this work, we present a novel approach for classifying
complexity of Nash equilibria in graphical games by establishing a connection
to local graph algorithms, a subfield of distributed computing. In particular,
we make the observation that the equilibria of graphical games are equivalent
to locally verifiable labelings (LVL) in graphs; vertex labelings which are verifiable
with constant-round local algorithms. This connection allows us to derive novel
lower bounds on the convergence time to equilibrium of best-response dynamics
in graphical games. Since we establish that distributed convergence can sometimes
be provably slow, we also introduce and give bounds on an intuitive notion of
"time-constrained" inefficiency of best responses. We exemplify how our results
can be used in the implementation of mechanisms that ensure convergence of best
responses to a Nash equilibrium. Our results thus also give insight into the convergence
of strategy-proof algorithms for graphical games, which is still not well understood.
acknowledgement: This work was partially funded by the Academy of Finland, grant 314888,
the European Research Council CoG 863818 (ForM-SMArt), and the Austrian Science
Fund (FWF) project I 4800-N (ADVISE). LS was supported by the Stochastic Analysis
and Application Research Center (SAARC) under National Research Foundation of Korea
grant NRF-2019R1A5A1028324.
alternative_title:
- LIPIcs
article_number: '11'
article_processing_charge: No
author:
- first_name: Juho
full_name: Hirvonen, Juho
last_name: Hirvonen
- first_name: Laura
full_name: Schmid, Laura
id: 38B437DE-F248-11E8-B48F-1D18A9856A87
last_name: Schmid
orcid: 0000-0002-6978-7329
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Stefan
full_name: Schmid, Stefan
last_name: Schmid
citation:
ama: 'Hirvonen J, Schmid L, Chatterjee K, Schmid S. On the convergence time in graphical
games: A locality-sensitive approach. In: 27th International Conference on
Principles of Distributed Systems. Vol 286. Schloss Dagstuhl - Leibniz-Zentrum
für Informatik; 2024. doi:10.4230/LIPIcs.OPODIS.2023.11'
apa: 'Hirvonen, J., Schmid, L., Chatterjee, K., & Schmid, S. (2024). On the
convergence time in graphical games: A locality-sensitive approach. In 27th
International Conference on Principles of Distributed Systems (Vol. 286).
Tokyo, Japan: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.OPODIS.2023.11'
chicago: 'Hirvonen, Juho, Laura Schmid, Krishnendu Chatterjee, and Stefan Schmid.
“On the Convergence Time in Graphical Games: A Locality-Sensitive Approach.” In
27th International Conference on Principles of Distributed Systems, Vol.
286. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024. https://doi.org/10.4230/LIPIcs.OPODIS.2023.11.'
ieee: 'J. Hirvonen, L. Schmid, K. Chatterjee, and S. Schmid, “On the convergence
time in graphical games: A locality-sensitive approach,” in 27th International
Conference on Principles of Distributed Systems, Tokyo, Japan, 2024, vol.
286.'
ista: 'Hirvonen J, Schmid L, Chatterjee K, Schmid S. 2024. On the convergence time
in graphical games: A locality-sensitive approach. 27th International Conference
on Principles of Distributed Systems. OPODIS: Conference on Principles of Distributed
Systems, LIPIcs, vol. 286, 11.'
mla: 'Hirvonen, Juho, et al. “On the Convergence Time in Graphical Games: A Locality-Sensitive
Approach.” 27th International Conference on Principles of Distributed Systems,
vol. 286, 11, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024, doi:10.4230/LIPIcs.OPODIS.2023.11.'
short: J. Hirvonen, L. Schmid, K. Chatterjee, S. Schmid, in:, 27th International
Conference on Principles of Distributed Systems, Schloss Dagstuhl - Leibniz-Zentrum
für Informatik, 2024.
conference:
end_date: 2023-12-08
location: Tokyo, Japan
name: 'OPODIS: Conference on Principles of Distributed Systems'
start_date: 2023-12-06
date_created: 2024-02-18T23:01:01Z
date_published: 2024-01-18T00:00:00Z
date_updated: 2024-02-26T09:16:12Z
day: '18'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.4230/LIPIcs.OPODIS.2023.11
ec_funded: 1
external_id:
arxiv:
- '2102.13457'
file:
- access_level: open_access
checksum: 4fc7eea6e4ba140b904781fc7df868ec
content_type: application/pdf
creator: dernst
date_created: 2024-02-26T09:04:58Z
date_updated: 2024-02-26T09:04:58Z
file_id: '15028'
file_name: 2024_LIPICs_Hirvonen.pdf
file_size: 867363
relation: main_file
success: 1
file_date_updated: 2024-02-26T09:04:58Z
has_accepted_license: '1'
intvolume: ' 286'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
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 Principles of Distributed Systems
publication_identifier:
isbn:
- '9783959773089'
issn:
- '18688969'
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'On the convergence time in graphical games: A locality-sensitive approach'
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
volume: 286
year: '2024'
...
---
_id: '15001'
abstract:
- lang: eng
text: "Self-replication of amyloid fibrils via secondary nucleation is an intriguing
physicochemical phenomenon in which existing fibrils catalyze the formation of
their own copies. The molecular events behind this fibril surface-mediated process
remain largely inaccessible to current structural and imaging techniques. Using
statistical mechanics, computer modeling, and chemical kinetics, we show that
the catalytic structure of the fibril surface can be inferred from the aggregation
behavior in the presence and absence of a fibril-binding inhibitor. We apply our
approach to the case of Alzheimer’s A\r\n amyloid fibrils formed in the presence
of proSP-C Brichos inhibitors. We find that self-replication of A\r\n fibrils
occurs on small catalytic sites on the fibril surface, which are far apart from
each other, and each of which can be covered by a single Brichos inhibitor."
acknowledgement: We acknowledge support from the Erasmus programme and the University
College London Institute for the Physics of Living Systems (S.C., T.C.T.M., A.Š.),
the Biotechnology and Biological Sciences Research Council (T.P.J.K.), the Engineering
and Physical Sciences Research Council (D.F.), the European Research Council (T.P.J.K.,
S.L., D.F., and A.Š.), the Frances and Augustus Newman Foundation (T.P.J.K.), the
Academy of Medical Sciences and Wellcome Trust (A.Š.), and the Royal Society (S.C.
and A.Š.).
article_number: e2220075121
article_processing_charge: Yes
article_type: original
author:
- first_name: Samo
full_name: Curk, Samo
id: 031eff0d-d481-11ee-8508-cd12a7a86e5b
last_name: Curk
orcid: 0000-0001-6160-9766
- first_name: Johannes
full_name: Krausser, Johannes
last_name: Krausser
- first_name: Georg
full_name: Meisl, Georg
last_name: Meisl
- first_name: Daan
full_name: Frenkel, Daan
last_name: Frenkel
- first_name: Sara
full_name: Linse, Sara
last_name: Linse
- first_name: Thomas C.T.
full_name: Michaels, Thomas C.T.
last_name: Michaels
- first_name: Tuomas P.J.
full_name: Knowles, Tuomas P.J.
last_name: Knowles
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
citation:
ama: Curk S, Krausser J, Meisl G, et al. Self-replication of Aβ42 aggregates occurs
on small and isolated fibril sites. Proceedings of the National Academy of
Sciences of the United States of America. 2024;121(7). doi:10.1073/pnas.2220075121
apa: Curk, S., Krausser, J., Meisl, G., Frenkel, D., Linse, S., Michaels, T. C.
T., … Šarić, A. (2024). Self-replication of Aβ42 aggregates occurs on small and
isolated fibril sites. Proceedings of the National Academy of Sciences of the
United States of America. Proceedings of the National Academy of Sciences.
https://doi.org/10.1073/pnas.2220075121
chicago: Curk, Samo, Johannes Krausser, Georg Meisl, Daan Frenkel, Sara Linse, Thomas
C.T. Michaels, Tuomas P.J. Knowles, and Anđela Šarić. “Self-Replication of Aβ42
Aggregates Occurs on Small and Isolated Fibril Sites.” Proceedings of the National
Academy of Sciences of the United States of America. Proceedings of the National
Academy of Sciences, 2024. https://doi.org/10.1073/pnas.2220075121.
ieee: S. Curk et al., “Self-replication of Aβ42 aggregates occurs on small
and isolated fibril sites,” Proceedings of the National Academy of Sciences
of the United States of America, vol. 121, no. 7. Proceedings of the National
Academy of Sciences, 2024.
ista: Curk S, Krausser J, Meisl G, Frenkel D, Linse S, Michaels TCT, Knowles TPJ,
Šarić A. 2024. Self-replication of Aβ42 aggregates occurs on small and isolated
fibril sites. Proceedings of the National Academy of Sciences of the United States
of America. 121(7), e2220075121.
mla: Curk, Samo, et al. “Self-Replication of Aβ42 Aggregates Occurs on Small and
Isolated Fibril Sites.” Proceedings of the National Academy of Sciences of
the United States of America, vol. 121, no. 7, e2220075121, Proceedings of
the National Academy of Sciences, 2024, doi:10.1073/pnas.2220075121.
short: S. Curk, J. Krausser, G. Meisl, D. Frenkel, S. Linse, T.C.T. Michaels, T.P.J.
Knowles, A. Šarić, Proceedings of the National Academy of Sciences of the United
States of America 121 (2024).
date_created: 2024-02-18T23:01:00Z
date_published: 2024-02-13T00:00:00Z
date_updated: 2024-02-26T08:45:56Z
day: '13'
ddc:
- '570'
department:
- _id: AnSa
doi: 10.1073/pnas.2220075121
ec_funded: 1
external_id:
pmid:
- '38335256'
file:
- access_level: open_access
checksum: 5aeb65bcc0dd829b1f9ab307c5031d4b
content_type: application/pdf
creator: dernst
date_created: 2024-02-26T08:20:00Z
date_updated: 2024-02-26T08:20:00Z
file_id: '15026'
file_name: 2024_PNAS_Curk.pdf
file_size: 7699487
relation: main_file
success: 1
file_date_updated: 2024-02-26T08:20:00Z
has_accepted_license: '1'
intvolume: ' 121'
issue: '7'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: eba2549b-77a9-11ec-83b8-a81e493eae4e
call_identifier: H2020
grant_number: '802960'
name: 'Non-Equilibrium Protein Assembly: from Building Blocks to Biological Machines'
publication: Proceedings of the National Academy of Sciences of the United States
of America
publication_identifier:
eissn:
- 1091-6490
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
related_material:
record:
- id: '15027'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Self-replication of Aβ42 aggregates occurs on small and isolated fibril sites
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: 121
year: '2024'
...
---
_id: '15002'
abstract:
- lang: eng
text: "The lattice Schwinger model, the discrete version of QED in \r\n1\r\n+\r\n1\r\n
dimensions, is a well-studied test bench for lattice gauge theories. Here, we
study the fractal properties of this model. We reveal the self-similarity of the
ground state, which allows us to develop a recurrent procedure for finding the
ground-state wave functions and predicting ground-state energies. We present the
results of recurrently calculating ground-state wave functions using the fractal
Ansatz and automized software package for fractal image processing. In certain
parameter regimes, just a few terms are enough for our recurrent procedure to
predict ground-state energies close to the exact ones for several hundreds of
sites. Our findings pave the way to understanding the complexity of calculating
many-body wave functions in terms of their fractal properties as well as finding
new links between condensed matter and high-energy lattice models."
acknowledgement: "We thank A. Bargov, I. Khaymovich, and V. Tiunova for fruitful discussions
and for useful comments. M. C. B. thanks S. Kühn for discussions about the phase
structure of the model. A. K. F. thanks V. Gritsev and A. Garkun for insightful
comments. E. V. P., E. S. T., and A. K. F. are\r\nsupported by the RSF Grant No.
20-42-05002 (studying the fractal Ansatz) and the Roadmap on Quantum Computing (Contract
No. 868-1.3-15/15-2021, October 5, 2021; calculating on GS energies). A. K. F. thanks
the Priority 2030 program at the NIST “MISIS” under the project No. K1-2022-027.
M. C. B. was partly funded by the Deutsche Forschungsgemeinschaft (DFG, German Research
Foundation) under Germany’s Excellence Strategy—EXC-2111–390814868."
article_number: '050401'
article_processing_charge: No
article_type: original
author:
- first_name: Elena
full_name: Petrova, Elena
id: 0ac84990-897b-11ed-a09c-f5abb56a4ede
last_name: Petrova
- first_name: Egor S.
full_name: Tiunov, Egor S.
last_name: Tiunov
- first_name: Mari Carmen
full_name: Bañuls, Mari Carmen
last_name: Bañuls
- first_name: Aleksey K.
full_name: Fedorov, Aleksey K.
last_name: Fedorov
citation:
ama: Petrova E, Tiunov ES, Bañuls MC, Fedorov AK. Fractal states of the Schwinger
model. Physical Review Letters. 2024;132(5). doi:10.1103/PhysRevLett.132.050401
apa: Petrova, E., Tiunov, E. S., Bañuls, M. C., & Fedorov, A. K. (2024). Fractal
states of the Schwinger model. Physical Review Letters. American Physical
Society. https://doi.org/10.1103/PhysRevLett.132.050401
chicago: Petrova, Elena, Egor S. Tiunov, Mari Carmen Bañuls, and Aleksey K. Fedorov.
“Fractal States of the Schwinger Model.” Physical Review Letters. American
Physical Society, 2024. https://doi.org/10.1103/PhysRevLett.132.050401.
ieee: E. Petrova, E. S. Tiunov, M. C. Bañuls, and A. K. Fedorov, “Fractal states
of the Schwinger model,” Physical Review Letters, vol. 132, no. 5. American
Physical Society, 2024.
ista: Petrova E, Tiunov ES, Bañuls MC, Fedorov AK. 2024. Fractal states of the Schwinger
model. Physical Review Letters. 132(5), 050401.
mla: Petrova, Elena, et al. “Fractal States of the Schwinger Model.” Physical
Review Letters, vol. 132, no. 5, 050401, American Physical Society, 2024,
doi:10.1103/PhysRevLett.132.050401.
short: E. Petrova, E.S. Tiunov, M.C. Bañuls, A.K. Fedorov, Physical Review Letters
132 (2024).
date_created: 2024-02-18T23:01:00Z
date_published: 2024-01-30T00:00:00Z
date_updated: 2024-02-26T08:03:31Z
day: '30'
department:
- _id: MaSe
doi: 10.1103/PhysRevLett.132.050401
external_id:
arxiv:
- '2201.10220'
intvolume: ' 132'
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2201.10220
month: '01'
oa: 1
oa_version: Preprint
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: Fractal states of the Schwinger model
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 132
year: '2024'
...
---
_id: '12485'
abstract:
- lang: eng
text: In this paper we introduce the critical variational setting for parabolic
stochastic evolution equations of quasi- or semi-linear type. Our results improve
many of the abstract results in the classical variational setting. In particular,
we are able to replace the usual weak or local monotonicity condition by a more
flexible local Lipschitz condition. Moreover, the usual growth conditions on the
multiplicative noise are weakened considerably. Our new setting provides general
conditions under which local and global existence and uniqueness hold. Moreover,
we prove continuous dependence on the initial data. We show that many classical
SPDEs, which could not be covered by the classical variational setting, do fit
in the critical variational setting. In particular, this is the case for the Cahn-Hilliard
equations, tamed Navier-Stokes equations, and Allen-Cahn equation.
acknowledgement: The first 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) . The second author is supported by the VICI subsidy
VI.C.212.027 of the Netherlands Organisation for Scientific Research (NWO).
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
- first_name: Mark
full_name: Veraar, Mark
last_name: Veraar
citation:
ama: Agresti A, Veraar M. The critical variational setting for stochastic evolution
equations. Probability Theory and Related Fields. 2024. doi:10.1007/s00440-023-01249-x
apa: Agresti, A., & Veraar, M. (2024). The critical variational setting for
stochastic evolution equations. Probability Theory and Related Fields.
Springer Nature. https://doi.org/10.1007/s00440-023-01249-x
chicago: Agresti, Antonio, and Mark Veraar. “The Critical Variational Setting for
Stochastic Evolution Equations.” Probability Theory and Related Fields.
Springer Nature, 2024. https://doi.org/10.1007/s00440-023-01249-x.
ieee: A. Agresti and M. Veraar, “The critical variational setting for stochastic
evolution equations,” Probability Theory and Related Fields. Springer Nature,
2024.
ista: Agresti A, Veraar M. 2024. The critical variational setting for stochastic
evolution equations. Probability Theory and Related Fields.
mla: Agresti, Antonio, and Mark Veraar. “The Critical Variational Setting for Stochastic
Evolution Equations.” Probability Theory and Related Fields, Springer Nature,
2024, doi:10.1007/s00440-023-01249-x.
short: A. Agresti, M. Veraar, Probability Theory and Related Fields (2024).
date_created: 2023-02-02T10:45:15Z
date_published: 2024-02-02T00:00:00Z
date_updated: 2024-02-26T09:39:07Z
day: '02'
department:
- _id: JuFi
doi: 10.1007/s00440-023-01249-x
ec_funded: 1
external_id:
arxiv:
- '2206.00230'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1007/s00440-023-01249-x
month: '02'
oa: 1
oa_version: Preprint
project:
- _id: 0aa76401-070f-11eb-9043-b5bb049fa26d
call_identifier: H2020
grant_number: '948819'
name: Bridging Scales in Random Materials
publication: Probability Theory and Related Fields
publication_identifier:
eissn:
- 1432-2064
issn:
- 0178-8051
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: The critical variational setting for stochastic evolution equations
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '15008'
abstract:
- lang: eng
text: "Oblivious routing is a well-studied paradigm that uses static precomputed
routing tables for selecting routing paths within a network. Existing oblivious
routing schemes with polylogarithmic competitive ratio for general networks are
tree-based, in the sense that routing is performed according to a convex combination
of trees. However, this restriction to trees leads to a construction that has
time quadratic in the size of the network and does not parallelize well. \r\nIn
this paper we study oblivious routing schemes based on electrical routing. In
particular, we show that general networks with n vertices and m edges admit a
routing scheme that has competitive ratio O(log² n) and consists of a convex combination
of only O(√m) electrical routings. This immediately leads to an improved construction
algorithm with time Õ(m^{3/2}) that can also be implemented in parallel with
Õ(√m) depth."
acknowledgement: "Monika Henzinger and A. R. Sricharan: This project has received
funding from the European Research Council (ERC) under the European Union’s Horizon
2020 research and innovation\r\nprogramme (Grant agreement No. 101019564) and the
Austrian Science Fund (FWF) project Z\r\n422-N, project I 5982-N, and project P
33775-N, with additional funding from the netidee SCIENCE Stiftung, 2020–2024.\r\nHarald
Räcke: Research supported by German Research Foundation (DFG), grant 470029389\r\n(FlexNets),
2021-2024.\r\nSushant Sachdeva: SS’s work is supported by an Natural Sciences and
Engineering Research Council of Canada (NSERC) Discovery Grant RGPIN-2018-06398
and a Sloan Research Fellowship."
alternative_title:
- LIPIcs
article_number: '55'
article_processing_charge: No
author:
- first_name: Gramoz
full_name: Goranci, Gramoz
last_name: Goranci
- first_name: Monika H
full_name: Henzinger, Monika H
id: 540c9bbd-f2de-11ec-812d-d04a5be85630
last_name: Henzinger
orcid: 0000-0002-5008-6530
- first_name: Harald
full_name: Räcke, Harald
last_name: Räcke
- first_name: Sushant
full_name: Sachdeva, Sushant
last_name: Sachdeva
- first_name: A. R.
full_name: Sricharan, A. R.
last_name: Sricharan
citation:
ama: 'Goranci G, Henzinger MH, Räcke H, Sachdeva S, Sricharan AR. Electrical flows
for polylogarithmic competitive oblivious routing. In: 15th Innovations in
Theoretical Computer Science Conference. Vol 287. Schloss Dagstuhl - Leibniz-Zentrum
für Informatik; 2024. doi:10.4230/LIPIcs.ITCS.2024.55'
apa: 'Goranci, G., Henzinger, M. H., Räcke, H., Sachdeva, S., & Sricharan, A.
R. (2024). Electrical flows for polylogarithmic competitive oblivious routing.
In 15th Innovations in Theoretical Computer Science Conference (Vol. 287).
Berkeley, CA, United States: Schloss Dagstuhl - Leibniz-Zentrum für Informatik.
https://doi.org/10.4230/LIPIcs.ITCS.2024.55'
chicago: Goranci, Gramoz, Monika H Henzinger, Harald Räcke, Sushant Sachdeva, and
A. R. Sricharan. “Electrical Flows for Polylogarithmic Competitive Oblivious Routing.”
In 15th Innovations in Theoretical Computer Science Conference, Vol. 287.
Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024. https://doi.org/10.4230/LIPIcs.ITCS.2024.55.
ieee: G. Goranci, M. H. Henzinger, H. Räcke, S. Sachdeva, and A. R. Sricharan, “Electrical
flows for polylogarithmic competitive oblivious routing,” in 15th Innovations
in Theoretical Computer Science Conference, Berkeley, CA, United States, 2024,
vol. 287.
ista: 'Goranci G, Henzinger MH, Räcke H, Sachdeva S, Sricharan AR. 2024. Electrical
flows for polylogarithmic competitive oblivious routing. 15th Innovations in Theoretical
Computer Science Conference. ITCS: Innovations in Theoretical Computer Science
Conference, LIPIcs, vol. 287, 55.'
mla: Goranci, Gramoz, et al. “Electrical Flows for Polylogarithmic Competitive Oblivious
Routing.” 15th Innovations in Theoretical Computer Science Conference,
vol. 287, 55, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024, doi:10.4230/LIPIcs.ITCS.2024.55.
short: G. Goranci, M.H. Henzinger, H. Räcke, S. Sachdeva, A.R. Sricharan, in:, 15th
Innovations in Theoretical Computer Science Conference, Schloss Dagstuhl - Leibniz-Zentrum
für Informatik, 2024.
conference:
end_date: 2024-02-02
location: Berkeley, CA, United States
name: 'ITCS: Innovations in Theoretical Computer Science Conference'
start_date: 2024-01-30
date_created: 2024-02-18T23:01:02Z
date_published: 2024-01-24T00:00:00Z
date_updated: 2024-02-26T10:12:19Z
day: '24'
ddc:
- '000'
department:
- _id: MoHe
doi: 10.4230/LIPIcs.ITCS.2024.55
ec_funded: 1
external_id:
arxiv:
- '2303.02491'
file:
- access_level: open_access
checksum: b89716aae6a5599f187897e39de1e53a
content_type: application/pdf
creator: dernst
date_created: 2024-02-26T10:10:48Z
date_updated: 2024-02-26T10:10:48Z
file_id: '15030'
file_name: 2024_LIPICs_Goranci.pdf
file_size: 1054754
relation: main_file
success: 1
file_date_updated: 2024-02-26T10:10:48Z
has_accepted_license: '1'
intvolume: ' 287'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: bd9ca328-d553-11ed-ba76-dc4f890cfe62
call_identifier: H2020
grant_number: '101019564'
name: The design and evaluation of modern fully dynamic data structures
- _id: 34def286-11ca-11ed-8bc3-da5948e1613c
grant_number: Z00422
name: Wittgenstein Award - Monika Henzinger
- _id: bda196b2-d553-11ed-ba76-8e8ee6c21103
grant_number: I05982
name: Static and Dynamic Hierarchical Graph Decompositions
- _id: bd9e3a2e-d553-11ed-ba76-8aa684ce17fe
grant_number: 'P33775 '
name: Fast Algorithms for a Reactive Network Layer
publication: 15th Innovations in Theoretical Computer Science Conference
publication_identifier:
isbn:
- '9783959773096'
issn:
- 1868-8969
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
scopus_import: '1'
status: public
title: Electrical flows for polylogarithmic competitive oblivious routing
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
volume: 287
year: '2024'
...
---
_id: '15007'
abstract:
- lang: eng
text: Traditional blockchains grant the miner of a block full control not only over
which transactions but also their order. This constitutes a major flaw discovered
with the introduction of decentralized finance and allows miners to perform MEV
attacks. In this paper, we address the issue of sandwich attacks by providing
a construction that takes as input a blockchain protocol and outputs a new blockchain
protocol with the same security but in which sandwich attacks are not profitable.
Furthermore, our protocol is fully decentralized with no trusted third parties
or heavy cryptography primitives and carries a linear increase in latency and
minimum computation overhead.
acknowledgement: "We would like to thank Krzysztof Pietrzak and Jovana Mićić for useful
discussions. This work has been funded by the Swiss National Science Foundation
(SNSF) under grant agreement Nr. 200021_188443 (Advanced Consensus Protocols).\r\n"
alternative_title:
- LIPIcs
article_number: '12'
article_processing_charge: No
author:
- first_name: Orestis
full_name: Alpos, Orestis
last_name: Alpos
- first_name: Ignacio
full_name: Amores-Sesar, Ignacio
last_name: Amores-Sesar
- first_name: Christian
full_name: Cachin, Christian
last_name: Cachin
- first_name: Michelle X
full_name: Yeo, Michelle X
id: 2D82B818-F248-11E8-B48F-1D18A9856A87
last_name: Yeo
citation:
ama: 'Alpos O, Amores-Sesar I, Cachin C, Yeo MX. Eating sandwiches: Modular and
lightweight elimination of transaction reordering attacks. In: 27th International
Conference on Principles of Distributed Systems. Vol 286. Schloss Dagstuhl
- Leibniz-Zentrum für Informatik; 2024. doi:10.4230/LIPIcs.OPODIS.2023.12'
apa: 'Alpos, O., Amores-Sesar, I., Cachin, C., & Yeo, M. X. (2024). Eating sandwiches:
Modular and lightweight elimination of transaction reordering attacks. In 27th
International Conference on Principles of Distributed Systems (Vol. 286).
Tokyo, Japan: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.OPODIS.2023.12'
chicago: 'Alpos, Orestis, Ignacio Amores-Sesar, Christian Cachin, and Michelle X
Yeo. “Eating Sandwiches: Modular and Lightweight Elimination of Transaction Reordering
Attacks.” In 27th International Conference on Principles of Distributed Systems,
Vol. 286. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024. https://doi.org/10.4230/LIPIcs.OPODIS.2023.12.'
ieee: 'O. Alpos, I. Amores-Sesar, C. Cachin, and M. X. Yeo, “Eating sandwiches:
Modular and lightweight elimination of transaction reordering attacks,” in 27th
International Conference on Principles of Distributed Systems, Tokyo, Japan,
2024, vol. 286.'
ista: 'Alpos O, Amores-Sesar I, Cachin C, Yeo MX. 2024. Eating sandwiches: Modular
and lightweight elimination of transaction reordering attacks. 27th International
Conference on Principles of Distributed Systems. OPODIS: Conference on Principles
of Distributed Systems, LIPIcs, vol. 286, 12.'
mla: 'Alpos, Orestis, et al. “Eating Sandwiches: Modular and Lightweight Elimination
of Transaction Reordering Attacks.” 27th International Conference on Principles
of Distributed Systems, vol. 286, 12, Schloss Dagstuhl - Leibniz-Zentrum für
Informatik, 2024, doi:10.4230/LIPIcs.OPODIS.2023.12.'
short: O. Alpos, I. Amores-Sesar, C. Cachin, M.X. Yeo, in:, 27th International Conference
on Principles of Distributed Systems, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2024.
conference:
end_date: 2023-12-08
location: Tokyo, Japan
name: 'OPODIS: Conference on Principles of Distributed Systems'
start_date: 2023-12-06
date_created: 2024-02-18T23:01:02Z
date_published: 2024-01-18T00:00:00Z
date_updated: 2024-02-26T10:18:18Z
day: '18'
ddc:
- '000'
department:
- _id: KrPi
doi: 10.4230/LIPIcs.OPODIS.2023.12
external_id:
arxiv:
- '2307.02954'
file:
- access_level: open_access
checksum: 2993e810a45e8c8056106834b07aea92
content_type: application/pdf
creator: dernst
date_created: 2024-02-26T10:16:57Z
date_updated: 2024-02-26T10:16:57Z
file_id: '15031'
file_name: 2024_LIPICs_Alpos.pdf
file_size: 1505994
relation: main_file
success: 1
file_date_updated: 2024-02-26T10:16:57Z
has_accepted_license: '1'
intvolume: ' 286'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: 27th International Conference on Principles of Distributed Systems
publication_identifier:
isbn:
- '9783959773089'
issn:
- 1868-8969
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Eating sandwiches: Modular and lightweight elimination of transaction reordering
attacks'
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
volume: 286
year: '2024'
...
---
_id: '14769'
abstract:
- lang: eng
text: 'For a set of points in Rd, the Euclidean k-means problems consists of finding
k centers such that the sum of distances squared from each data point to its closest
center is minimized. Coresets are one the main tools developed recently to solve
this problem in a big data context. They allow to compress the initial dataset
while preserving its structure: running any algorithm on the coreset provides
a guarantee almost equivalent to running it on the full data. In this work, we
study coresets in a fully-dynamic setting: points are added and deleted with the
goal to efficiently maintain a coreset with which a k-means solution can be computed.
Based on an algorithm from Henzinger and Kale [ESA''20], we present an efficient
and practical implementation of a fully dynamic coreset algorithm, that improves
the running time by up to a factor of 20 compared to our non-optimized implementation
of the algorithm by Henzinger and Kale, without sacrificing more than 7% on the
quality of the k-means solution.'
acknowledgement: This project has received funding from the Euro-pean Research Council (ERC) under the EuropeanUnion’s Horizon 2020 research and innovation programme (Grant agreement No. 101019564 “The De-sign of Modern Fully Dynamic Data Structures (Mo-DynStruct)” and the Austrian Science Fund (FWF)project
Z 422-N, project “Static and Dynamic Hierar-chical Graph Decompositions”, I 5982-N, and project“Fast Algorithms for a Reactive Network Layer (Re-actNet)”,
P 33775-N, with additional funding from thenetidee SCIENCE Stiftung, 2020–2024.D. Sauplic has received funding from the Euro-pean Union’s Horizon 2020 research and innovation
programme under the Marie Sklodowska-Curie grant agreementNo 101034413.
article_processing_charge: No
author:
- first_name: Monika H
full_name: Henzinger, Monika H
id: 540c9bbd-f2de-11ec-812d-d04a5be85630
last_name: Henzinger
orcid: 0000-0002-5008-6530
- first_name: David
full_name: Saulpic, David
id: f8e48cf0-b0ff-11ed-b0e9-b4c35598f964
last_name: Saulpic
- first_name: Leonhard
full_name: Sidl, Leonhard
id: 8b563fd0-b441-11ee-9101-a3891c61efa6
last_name: Sidl
citation:
ama: 'Henzinger MH, Saulpic D, Sidl L. Experimental evaluation of fully dynamic
k-means via coresets. In: 2024 Proceedings of the Symposium on Algorithm Engineering
and Experiments. Society for Industrial & Applied Mathematics; 2024:220-233.
doi:10.1137/1.9781611977929.17'
apa: 'Henzinger, M. H., Saulpic, D., & Sidl, L. (2024). Experimental evaluation
of fully dynamic k-means via coresets. In 2024 Proceedings of the Symposium
on Algorithm Engineering and Experiments (pp. 220–233). Alexandria, VA, United
States: Society for Industrial & Applied Mathematics. https://doi.org/10.1137/1.9781611977929.17'
chicago: Henzinger, Monika H, David Saulpic, and Leonhard Sidl. “Experimental Evaluation
of Fully Dynamic K-Means via Coresets.” In 2024 Proceedings of the Symposium
on Algorithm Engineering and Experiments, 220–33. Society for Industrial &
Applied Mathematics, 2024. https://doi.org/10.1137/1.9781611977929.17.
ieee: M. H. Henzinger, D. Saulpic, and L. Sidl, “Experimental evaluation of fully
dynamic k-means via coresets,” in 2024 Proceedings of the Symposium on Algorithm
Engineering and Experiments, Alexandria, VA, United States, 2024, pp. 220–233.
ista: 'Henzinger MH, Saulpic D, Sidl L. 2024. Experimental evaluation of fully dynamic
k-means via coresets. 2024 Proceedings of the Symposium on Algorithm Engineering
and Experiments. ALENEX: Workshop on Algorithm Engineering and Experiments, 220–233.'
mla: Henzinger, Monika H., et al. “Experimental Evaluation of Fully Dynamic K-Means
via Coresets.” 2024 Proceedings of the Symposium on Algorithm Engineering and
Experiments, Society for Industrial & Applied Mathematics, 2024, pp. 220–33,
doi:10.1137/1.9781611977929.17.
short: M.H. Henzinger, D. Saulpic, L. Sidl, in:, 2024 Proceedings of the Symposium
on Algorithm Engineering and Experiments, Society for Industrial & Applied
Mathematics, 2024, pp. 220–233.
conference:
end_date: 2024-01-08
location: Alexandria, VA, United States
name: 'ALENEX: Workshop on Algorithm Engineering and Experiments'
start_date: 2024-01-07
date_created: 2024-01-09T16:22:47Z
date_published: 2024-01-04T00:00:00Z
date_updated: 2024-02-26T09:51:31Z
day: '04'
department:
- _id: MoHe
doi: 10.1137/1.9781611977929.17
ec_funded: 1
external_id:
arxiv:
- '2310.18034'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2310.18034
month: '01'
oa: 1
oa_version: Preprint
page: 220-233
project:
- _id: bd9ca328-d553-11ed-ba76-dc4f890cfe62
call_identifier: H2020
grant_number: '101019564'
name: The design and evaluation of modern fully dynamic data structures
- _id: 34def286-11ca-11ed-8bc3-da5948e1613c
grant_number: Z00422
name: Wittgenstein Award - Monika Henzinger
- _id: bda196b2-d553-11ed-ba76-8e8ee6c21103
grant_number: I05982
name: Static and Dynamic Hierarchical Graph Decompositions
- _id: bd9e3a2e-d553-11ed-ba76-8aa684ce17fe
grant_number: 'P33775 '
name: Fast Algorithms for a Reactive Network Layer
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: 2024 Proceedings of the Symposium on Algorithm Engineering and Experiments
publication_identifier:
eisbn:
- '9781611977929'
publication_status: published
publisher: Society for Industrial & Applied Mathematics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Experimental evaluation of fully dynamic k-means via coresets
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '15009'
abstract:
- lang: eng
text: Since the commercialization of brine shrimp (genus Artemia) in the 1950s,
this lineage, and in particular the model species Artemia franciscana, has been
the subject of extensive research. However, our understanding of the genetic mechanisms
underlying various aspects of their reproductive biology, including sex determination,
is still lacking. This is partly due to the scarcity of genomic resources for
Artemia species and crustaceans in general. Here, we present a chromosome-level
genome assembly of A. franciscana (Kellogg 1906), from the Great Salt Lake, United
States. The genome is 1 GB, and the majority of the genome (81%) is scaffolded
into 21 linkage groups using a previously published high-density linkage map.
We performed coverage and FST analyses using male and female genomic and transcriptomic
reads to quantify the extent of differentiation between the Z and W chromosomes.
Additionally, we quantified the expression levels in male and female heads and
gonads and found further evidence for dosage compensation in this species.
article_number: evae006
article_processing_charge: Yes
article_type: original
author:
- first_name: Vincent K
full_name: Bett, Vincent K
id: 57854184-AAE0-11E9-8D04-98D6E5697425
last_name: Bett
- 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
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
citation:
ama: Bett VK, Macon A, Vicoso B, Elkrewi MN. Chromosome-level assembly of Artemia
franciscana sheds light on sex chromosome differentiation. Genome Biology and
Evolution. 2024;16(1). doi:10.1093/gbe/evae006
apa: Bett, V. K., Macon, A., Vicoso, B., & Elkrewi, M. N. (2024). Chromosome-level
assembly of Artemia franciscana sheds light on sex chromosome differentiation.
Genome Biology and Evolution. Oxford University Press. https://doi.org/10.1093/gbe/evae006
chicago: Bett, Vincent K, Ariana Macon, Beatriz Vicoso, and Marwan N Elkrewi. “Chromosome-Level
Assembly of Artemia Franciscana Sheds Light on Sex Chromosome Differentiation.”
Genome Biology and Evolution. Oxford University Press, 2024. https://doi.org/10.1093/gbe/evae006.
ieee: V. K. Bett, A. Macon, B. Vicoso, and M. N. Elkrewi, “Chromosome-level assembly
of Artemia franciscana sheds light on sex chromosome differentiation,” Genome
Biology and Evolution, vol. 16, no. 1. Oxford University Press, 2024.
ista: Bett VK, Macon A, Vicoso B, Elkrewi MN. 2024. Chromosome-level assembly of
Artemia franciscana sheds light on sex chromosome differentiation. Genome Biology
and Evolution. 16(1), evae006.
mla: Bett, Vincent K., et al. “Chromosome-Level Assembly of Artemia Franciscana
Sheds Light on Sex Chromosome Differentiation.” Genome Biology and Evolution,
vol. 16, no. 1, evae006, Oxford University Press, 2024, doi:10.1093/gbe/evae006.
short: V.K. Bett, A. Macon, B. Vicoso, M.N. Elkrewi, Genome Biology and Evolution
16 (2024).
date_created: 2024-02-18T23:01:02Z
date_published: 2024-01-20T00:00:00Z
date_updated: 2024-02-26T09:59:30Z
day: '20'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1093/gbe/evae006
external_id:
pmid:
- '38245839'
file:
- access_level: open_access
checksum: 106a40f10443b2e7ba66749844ebbdf1
content_type: application/pdf
creator: dernst
date_created: 2024-02-26T09:54:59Z
date_updated: 2024-02-26T09:54:59Z
file_id: '15029'
file_name: 2024_GBE_Bett.pdf
file_size: 5213306
relation: main_file
success: 1
file_date_updated: 2024-02-26T09:54:59Z
has_accepted_license: '1'
intvolume: ' 16'
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: Genome Biology and Evolution
publication_identifier:
eissn:
- 1759-6653
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
related_material:
record:
- id: '14705'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Chromosome-level assembly of Artemia franciscana sheds light on sex chromosome
differentiation
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: 16
year: '2024'
...
---
_id: '15004'
abstract:
- lang: eng
text: The impulsive limit (the “sudden approximation”) has been widely employed
to describe the interaction between molecules and short, far-off-resonant laser
pulses. This approximation assumes that the timescale of the laser-molecule interaction
is significantly shorter than the internal rotational period of the molecule,
resulting in the rotational motion being instantaneously “frozen” during the interaction.
This simplified description of the laser-molecule interaction is incorporated
in various theoretical models predicting rotational dynamics of molecules driven
by short laser pulses. In this theoretical work, we develop an effective theory
for ultrashort laser pulses by examining the full time-evolution operator and
solving the time-dependent Schrödinger equation at the operator level. Our findings
reveal a critical angular momentum, lcrit, at which the impulsive limit breaks
down. In other words, the validity of the sudden approximation depends not only
on the pulse duration but also on its intensity, since the latter determines how
many angular momentum states are populated. We explore both ultrashort multicycle
(Gaussian) pulses and the somewhat less studied half-cycle pulses, which produce
distinct effective potentials. We discuss the limitations of the impulsive limit
and propose a method that rescales the effective matrix elements, enabling an
improved and more accurate description of laser-molecule interactions.
acknowledgement: We thank Bretislav Friedrich, Marjan Mirahmadi, Artem Volosniev,
and Burkhard Schmidt for insightful discussions. M.L. acknowledges support by the
European Research Council (ERC) under Starting Grant No. 801770 (ANGULON).
article_number: '023101'
article_processing_charge: No
article_type: original
author:
- first_name: Volker
full_name: Karle, Volker
id: D7C012AE-D7ED-11E9-95E8-1EC5E5697425
last_name: Karle
orcid: 0000-0002-6963-0129
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
citation:
ama: 'Karle V, Lemeshko M. Modeling laser pulses as δ kicks: Reevaluating the impulsive
limit in molecular rotational dynamics. Physical Review A. 2024;109(2).
doi:10.1103/PhysRevA.109.023101'
apa: 'Karle, V., & Lemeshko, M. (2024). Modeling laser pulses as δ kicks: Reevaluating
the impulsive limit in molecular rotational dynamics. Physical Review A.
American Physical Society. https://doi.org/10.1103/PhysRevA.109.023101'
chicago: 'Karle, Volker, and Mikhail Lemeshko. “Modeling Laser Pulses as δ Kicks:
Reevaluating the Impulsive Limit in Molecular Rotational Dynamics.” Physical
Review A. American Physical Society, 2024. https://doi.org/10.1103/PhysRevA.109.023101.'
ieee: 'V. Karle and M. Lemeshko, “Modeling laser pulses as δ kicks: Reevaluating
the impulsive limit in molecular rotational dynamics,” Physical Review A,
vol. 109, no. 2. American Physical Society, 2024.'
ista: 'Karle V, Lemeshko M. 2024. Modeling laser pulses as δ kicks: Reevaluating
the impulsive limit in molecular rotational dynamics. Physical Review A. 109(2),
023101.'
mla: 'Karle, Volker, and Mikhail Lemeshko. “Modeling Laser Pulses as δ Kicks: Reevaluating
the Impulsive Limit in Molecular Rotational Dynamics.” Physical Review A,
vol. 109, no. 2, 023101, American Physical Society, 2024, doi:10.1103/PhysRevA.109.023101.'
short: V. Karle, M. Lemeshko, Physical Review A 109 (2024).
date_created: 2024-02-18T23:01:01Z
date_published: 2024-02-01T00:00:00Z
date_updated: 2024-02-26T09:45:20Z
day: '01'
department:
- _id: MiLe
doi: 10.1103/PhysRevA.109.023101
ec_funded: 1
external_id:
arxiv:
- '2307.07256'
intvolume: ' 109'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2307.07256
month: '02'
oa: 1
oa_version: Preprint
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 A
publication_identifier:
eissn:
- 2469-9934
issn:
- 2469-9926
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Modeling laser pulses as δ kicks: Reevaluating the impulsive limit in molecular
rotational dynamics'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 109
year: '2024'
...
---
_id: '15003'
abstract:
- lang: eng
text: Magnetic frustration allows to access novel and intriguing properties of magnetic
systems and has been explored mainly in planar triangular-like arrays of magnetic
ions. In this work, we describe the phosphide Ce6Ni6P17, where the Ce+3 ions accommodate
in a body-centered cubic lattice of Ce6 regular octahedra. From measurements of
magnetization, specific heat, and resistivity, we determine a rich phase diagram
as a function of temperature and magnetic field in which different magnetic phases
are found. Besides clear evidence of magnetic frustration is obtained from entropy
analysis. At zero field, a second-order antiferromagnetic transition occurs at
TN1≈1 K followed by a first-order transition at TN2≈0.45 K. With magnetic field
new magnetic phases appear, including a weakly first-order transition which ends
in a classical critical point and a third magnetic phase. We also study the exact
solution of the spin-1/2 Heisenberg model in an octahedron which allows us a qualitative
understanding of the phase diagram and compare with the experimental results.
acknowledgement: "The authors thank Bernardo Pentke for the SEM micrographs (Departamento
Fisicoquímica de Materiales CABCNEA). We are indebted to Julián Sereni for useful
discussions. D. G. F. acknowledges financial support provided by Agencia I+D+i,
Argentina, Grant No. PICT-2021-I-INVI00852 and Universidad Nacional de Cuyo (SIIP)
Grant No. 06/C018-T1. A. A. A. acknowledges financial support provided by PICT 2018-01546
and PICT 2020A-03661 of the\r\nAgencia I+D+i. "
article_number: '054405'
article_processing_charge: No
article_type: original
author:
- first_name: D. G.
full_name: Franco, D. G.
last_name: Franco
- first_name: R.
full_name: Avalos, R.
last_name: Avalos
- first_name: D.
full_name: Hafner, D.
last_name: Hafner
- first_name: Kimberly A
full_name: Modic, Kimberly A
id: 13C26AC0-EB69-11E9-87C6-5F3BE6697425
last_name: Modic
orcid: 0000-0001-9760-3147
- first_name: Yu
full_name: Prots, Yu
last_name: Prots
- first_name: O.
full_name: Stockert, O.
last_name: Stockert
- first_name: A.
full_name: Hoser, A.
last_name: Hoser
- first_name: P. J.W.
full_name: Moll, P. J.W.
last_name: Moll
- first_name: M.
full_name: Brando, M.
last_name: Brando
- first_name: A. A.
full_name: Aligia, A. A.
last_name: Aligia
- first_name: C.
full_name: Geibel, C.
last_name: Geibel
citation:
ama: Franco DG, Avalos R, Hafner D, et al. Frustrated magnetism in octahedra-based
Ce6 Ni6 P17. Physical Review B. 2024;109(5). doi:10.1103/PhysRevB.109.054405
apa: Franco, D. G., Avalos, R., Hafner, D., Modic, K. A., Prots, Y., Stockert, O.,
… Geibel, C. (2024). Frustrated magnetism in octahedra-based Ce6 Ni6 P17. Physical
Review B. American Physical Society. https://doi.org/10.1103/PhysRevB.109.054405
chicago: Franco, D. G., R. Avalos, D. Hafner, Kimberly A Modic, Yu Prots, O. Stockert,
A. Hoser, et al. “Frustrated Magnetism in Octahedra-Based Ce6 Ni6 P17.” Physical
Review B. American Physical Society, 2024. https://doi.org/10.1103/PhysRevB.109.054405.
ieee: D. G. Franco et al., “Frustrated magnetism in octahedra-based Ce6 Ni6
P17,” Physical Review B, vol. 109, no. 5. American Physical Society, 2024.
ista: Franco DG, Avalos R, Hafner D, Modic KA, Prots Y, Stockert O, Hoser A, Moll
PJW, Brando M, Aligia AA, Geibel C. 2024. Frustrated magnetism in octahedra-based
Ce6 Ni6 P17. Physical Review B. 109(5), 054405.
mla: Franco, D. G., et al. “Frustrated Magnetism in Octahedra-Based Ce6 Ni6 P17.”
Physical Review B, vol. 109, no. 5, 054405, American Physical Society,
2024, doi:10.1103/PhysRevB.109.054405.
short: D.G. Franco, R. Avalos, D. Hafner, K.A. Modic, Y. Prots, O. Stockert, A.
Hoser, P.J.W. Moll, M. Brando, A.A. Aligia, C. Geibel, Physical Review B 109 (2024).
date_created: 2024-02-18T23:01:01Z
date_published: 2024-02-01T00:00:00Z
date_updated: 2024-02-26T09:50:10Z
day: '01'
department:
- _id: KiMo
doi: 10.1103/PhysRevB.109.054405
intvolume: ' 109'
issue: '5'
language:
- iso: eng
month: '02'
oa_version: None
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: Frustrated magnetism in octahedra-based Ce6 Ni6 P17
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 109
year: '2024'
...
---
_id: '15018'
abstract:
- lang: eng
text: The epitaxial growth of a strained Ge layer, which is a promising candidate
for the channel material of a hole spin qubit, has been demonstrated on 300 mm
Si wafers using commercially available Si0.3Ge0.7 strain relaxed buffer (SRB)
layers. The assessment of the layer and the interface qualities for a buried strained
Ge layer embedded in Si0.3Ge0.7 layers is reported. The XRD reciprocal space mapping
confirmed that the reduction of the growth temperature enables the 2-dimensional
growth of the Ge layer fully strained with respect to the Si0.3Ge0.7. Nevertheless,
dislocations at the top and/or bottom interface of the Ge layer were observed
by means of electron channeling contrast imaging, suggesting the importance of
the careful dislocation assessment. The interface abruptness does not depend on
the selection of the precursor gases, but it is strongly influenced by the growth
temperature which affects the coverage of the surface H-passivation. The mobility
of 2.7 × 105 cm2/Vs is promising, while the low percolation density of 3 × 1010
/cm2 measured with a Hall-bar device at 7 K illustrates the high quality of the
heterostructure thanks to the high Si0.3Ge0.7 SRB quality.
acknowledgement: The Ge project received funding from the European Union's Horizon
Europe programme under the Grant Agreement 101069515 – IGNITE. Siltronic AG is acknowledged
for providing the SRB wafers. This work was supported by Imec's Industrial Affiliation
Program on Quantum Computing.
article_number: '108231'
article_processing_charge: No
article_type: original
author:
- first_name: Yosuke
full_name: Shimura, Yosuke
last_name: Shimura
- first_name: Clement
full_name: Godfrin, Clement
last_name: Godfrin
- first_name: Andriy
full_name: Hikavyy, Andriy
last_name: Hikavyy
- first_name: Roy
full_name: Li, Roy
last_name: Li
- first_name: Juan L
full_name: Aguilera Servin, Juan L
id: 2A67C376-F248-11E8-B48F-1D18A9856A87
last_name: Aguilera Servin
orcid: 0000-0002-2862-8372
- first_name: Georgios
full_name: Katsaros, Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
orcid: 0000-0001-8342-202X
- first_name: Paola
full_name: Favia, Paola
last_name: Favia
- first_name: Han
full_name: Han, Han
last_name: Han
- first_name: Danny
full_name: Wan, Danny
last_name: Wan
- first_name: Kristiaan
full_name: de Greve, Kristiaan
last_name: de Greve
- first_name: Roger
full_name: Loo, Roger
last_name: Loo
citation:
ama: Shimura Y, Godfrin C, Hikavyy A, et al. Compressively strained epitaxial Ge
layers for quantum computing applications. Materials Science in Semiconductor
Processing. 2024;174(5). doi:10.1016/j.mssp.2024.108231
apa: Shimura, Y., Godfrin, C., Hikavyy, A., Li, R., Aguilera Servin, J. L., Katsaros,
G., … Loo, R. (2024). Compressively strained epitaxial Ge layers for quantum computing
applications. Materials Science in Semiconductor Processing. Elsevier.
https://doi.org/10.1016/j.mssp.2024.108231
chicago: Shimura, Yosuke, Clement Godfrin, Andriy Hikavyy, Roy Li, Juan L Aguilera
Servin, Georgios Katsaros, Paola Favia, et al. “Compressively Strained Epitaxial
Ge Layers for Quantum Computing Applications.” Materials Science in Semiconductor
Processing. Elsevier, 2024. https://doi.org/10.1016/j.mssp.2024.108231.
ieee: Y. Shimura et al., “Compressively strained epitaxial Ge layers for
quantum computing applications,” Materials Science in Semiconductor Processing,
vol. 174, no. 5. Elsevier, 2024.
ista: Shimura Y, Godfrin C, Hikavyy A, Li R, Aguilera Servin JL, Katsaros G, Favia
P, Han H, Wan D, de Greve K, Loo R. 2024. Compressively strained epitaxial Ge
layers for quantum computing applications. Materials Science in Semiconductor
Processing. 174(5), 108231.
mla: Shimura, Yosuke, et al. “Compressively Strained Epitaxial Ge Layers for Quantum
Computing Applications.” Materials Science in Semiconductor Processing,
vol. 174, no. 5, 108231, Elsevier, 2024, doi:10.1016/j.mssp.2024.108231.
short: Y. Shimura, C. Godfrin, A. Hikavyy, R. Li, J.L. Aguilera Servin, G. Katsaros,
P. Favia, H. Han, D. Wan, K. de Greve, R. Loo, Materials Science in Semiconductor
Processing 174 (2024).
date_created: 2024-02-22T14:10:40Z
date_published: 2024-02-20T00:00:00Z
date_updated: 2024-02-26T10:36:35Z
day: '20'
ddc:
- '530'
department:
- _id: GeKa
- _id: NanoFab
doi: 10.1016/j.mssp.2024.108231
has_accepted_license: '1'
intvolume: ' 174'
issue: '5'
keyword:
- Mechanical Engineering
- Mechanics of Materials
- Condensed Matter Physics
- General Materials Science
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.mssp.2024.108231
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 34c0acea-11ca-11ed-8bc3-8775e10fd452
grant_number: '101069515'
name: Integrated GermaNIum quanTum tEchnology
publication: Materials Science in Semiconductor Processing
publication_identifier:
issn:
- 1369-8001
publication_status: epub_ahead
publisher: Elsevier
quality_controlled: '1'
status: public
title: Compressively strained epitaxial Ge layers for quantum computing 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: 174
year: '2024'
...
---
_id: '15011'
abstract:
- lang: eng
text: Pruning large language models (LLMs) from the BERT family has emerged as a
standard compression benchmark, and several pruning methods have been proposed
for this task. The recent “Sparsity May Cry” (SMC) benchmark put into question
the validity of all existing methods, exhibiting a more complex setup where many
known pruning methods appear to fail. We revisit the question of accurate BERT-pruning
during fine-tuning on downstream datasets, and propose a set of general guidelines
for successful pruning, even on the challenging SMC benchmark. First, we perform
a cost-vs-benefits analysis of pruning model components, such as the embeddings
and the classification head; second, we provide a simple-yet-general way of scaling
training, sparsification and learning rate schedules relative to the desired target
sparsity; finally, we investigate the importance of proper parametrization for
Knowledge Distillation in the context of LLMs. Our simple insights lead to state-of-the-art
results, both on classic BERT-pruning benchmarks, as well as on the SMC benchmark,
showing that even classic gradual magnitude pruning (GMP) can yield competitive
results, with the right approach.
alternative_title:
- PMLR
article_processing_charge: No
author:
- first_name: Eldar
full_name: Kurtic, Eldar
id: 47beb3a5-07b5-11eb-9b87-b108ec578218
last_name: Kurtic
- first_name: Torsten
full_name: Hoefler, Torsten
last_name: Hoefler
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
citation:
ama: 'Kurtic E, Hoefler T, Alistarh D-A. How to prune your language model: Recovering
accuracy on the “Sparsity May Cry” benchmark. In: Proceedings of Machine Learning
Research. Vol 234. ML Research Press; 2024:542-553.'
apa: 'Kurtic, E., Hoefler, T., & Alistarh, D.-A. (2024). How to prune your language
model: Recovering accuracy on the “Sparsity May Cry” benchmark. In Proceedings
of Machine Learning Research (Vol. 234, pp. 542–553). Hongkong, China: ML
Research Press.'
chicago: 'Kurtic, Eldar, Torsten Hoefler, and Dan-Adrian Alistarh. “How to Prune
Your Language Model: Recovering Accuracy on the ‘Sparsity May Cry’ Benchmark.”
In Proceedings of Machine Learning Research, 234:542–53. ML Research Press,
2024.'
ieee: 'E. Kurtic, T. Hoefler, and D.-A. Alistarh, “How to prune your language model:
Recovering accuracy on the ‘Sparsity May Cry’ benchmark,” in Proceedings of
Machine Learning Research, Hongkong, China, 2024, vol. 234, pp. 542–553.'
ista: 'Kurtic E, Hoefler T, Alistarh D-A. 2024. How to prune your language model:
Recovering accuracy on the ‘Sparsity May Cry’ benchmark. Proceedings of Machine
Learning Research. CPAL: Conference on Parsimony and Learning, PMLR, vol. 234,
542–553.'
mla: 'Kurtic, Eldar, et al. “How to Prune Your Language Model: Recovering Accuracy
on the ‘Sparsity May Cry’ Benchmark.” Proceedings of Machine Learning Research,
vol. 234, ML Research Press, 2024, pp. 542–53.'
short: E. Kurtic, T. Hoefler, D.-A. Alistarh, in:, Proceedings of Machine Learning
Research, ML Research Press, 2024, pp. 542–553.
conference:
end_date: 2024-01-06
location: Hongkong, China
name: 'CPAL: Conference on Parsimony and Learning'
start_date: 2024-01-03
date_created: 2024-02-18T23:01:03Z
date_published: 2024-01-08T00:00:00Z
date_updated: 2024-02-26T10:30:52Z
day: '08'
department:
- _id: DaAl
external_id:
arxiv:
- '2312.13547'
intvolume: ' 234'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://proceedings.mlr.press/v234/kurtic24a
month: '01'
oa: 1
oa_version: Preprint
page: 542-553
publication: Proceedings of Machine Learning Research
publication_identifier:
eissn:
- 2640-3498
publication_status: published
publisher: ML Research Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'How to prune your language model: Recovering accuracy on the "Sparsity May
Cry" benchmark'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 234
year: '2024'
...
---
_id: '15024'
abstract:
- lang: eng
text: Electrostatic correlations between ions dissolved in water are known to impact
their transport properties in numerous ways, from conductivity to ion selectivity.
The effects of these correlations on the solvent itself remain, however, much
less clear. In particular, the addition of salt has been consistently reported
to affect the solution’s viscosity, but most modeling attempts fail to reproduce
experimental data even at moderate salt concentrations. Here, we use an approach
based on stochastic density functional theory, which accurately captures charge
fluctuations and correlations. We derive a simple analytical expression for the
viscosity correction in concentrated electrolytes, by directly linking it to the
liquid’s structure factor. Our prediction compares quantitatively to experimental
data at all temperatures and all salt concentrations up to the saturation limit.
This universal link between the microscopic structure and viscosity allows us
to shed light on the nanoscale dynamics of water and ions under highly concentrated
and correlated conditions.
acknowledgement: The author thanks Lydéric Bocquet, Baptiste Coquinot, and Mathieu
Lizée for fruitful discussions. This project received funding from the European
Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie
Grant Agreement No. 101034413.
article_number: '064503'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Paul
full_name: Robin, Paul
id: 48c58128-57b0-11ee-9095-dc28fd97fc1d
last_name: Robin
orcid: 0000-0002-5728-9189
citation:
ama: Robin P. Correlation-induced viscous dissipation in concentrated electrolytes.
Journal of Chemical Physics. 2024;160(6). doi:10.1063/5.0188215
apa: Robin, P. (2024). Correlation-induced viscous dissipation in concentrated electrolytes.
Journal of Chemical Physics. AIP Publishing. https://doi.org/10.1063/5.0188215
chicago: Robin, Paul. “Correlation-Induced Viscous Dissipation in Concentrated Electrolytes.”
Journal of Chemical Physics. AIP Publishing, 2024. https://doi.org/10.1063/5.0188215.
ieee: P. Robin, “Correlation-induced viscous dissipation in concentrated electrolytes,”
Journal of Chemical Physics, vol. 160, no. 6. AIP Publishing, 2024.
ista: Robin P. 2024. Correlation-induced viscous dissipation in concentrated electrolytes.
Journal of Chemical Physics. 160(6), 064503.
mla: Robin, Paul. “Correlation-Induced Viscous Dissipation in Concentrated Electrolytes.”
Journal of Chemical Physics, vol. 160, no. 6, 064503, AIP Publishing, 2024,
doi:10.1063/5.0188215.
short: P. Robin, Journal of Chemical Physics 160 (2024).
date_created: 2024-02-25T23:00:55Z
date_published: 2024-02-14T00:00:00Z
date_updated: 2024-02-27T08:16:06Z
day: '14'
ddc:
- '540'
department:
- _id: EdHa
doi: 10.1063/5.0188215
ec_funded: 1
external_id:
arxiv:
- '2311.11784'
pmid:
- '38349632'
file:
- access_level: open_access
checksum: 0a5e0ae70849bce674466fc054390ec0
content_type: application/pdf
creator: dernst
date_created: 2024-02-27T08:12:52Z
date_updated: 2024-02-27T08:12:52Z
file_id: '15034'
file_name: 2024_JourChemicalPhysics_Robin.pdf
file_size: 5452738
relation: main_file
success: 1
file_date_updated: 2024-02-27T08:12:52Z
has_accepted_license: '1'
intvolume: ' 160'
issue: '6'
language:
- iso: eng
month: '02'
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: Journal of Chemical Physics
publication_identifier:
eissn:
- 1089-7690
issn:
- 0021-9606
publication_status: published
publisher: AIP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Correlation-induced viscous dissipation in concentrated electrolytes
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: 160
year: '2024'
...
---
_id: '15025'
abstract:
- lang: eng
text: We consider quadratic forms of deterministic matrices A evaluated at the random
eigenvectors of a large N×N GOE or GUE matrix, or equivalently evaluated at the
columns of a Haar-orthogonal or Haar-unitary random matrix. We prove that, as
long as the deterministic matrix has rank much smaller than √N, the distributions
of the extrema of these quadratic forms are asymptotically the same as if the
eigenvectors were independent Gaussians. This reduces the problem to Gaussian
computations, which we carry out in several cases to illustrate our result, finding
Gumbel or Weibull limiting distributions depending on the signature of A. Our
result also naturally applies to the eigenvectors of any invariant ensemble.
acknowledgement: The first author was supported by the ERC Advanced Grant “RMTBeyond”
No. 101020331. The second author was supported by Fulbright Austria and the Austrian
Marshall Plan Foundation.
article_processing_charge: No
article_type: original
author:
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Benjamin
full_name: McKenna, Benjamin
id: b0cc634c-d549-11ee-96c8-87338c7ad808
last_name: McKenna
orcid: 0000-0003-2625-495X
citation:
ama: Erdös L, McKenna B. Extremal statistics of quadratic forms of GOE/GUE eigenvectors.
Annals of Applied Probability. 2024;34(1B):1623-1662. doi:10.1214/23-AAP2000
apa: Erdös, L., & McKenna, B. (2024). Extremal statistics of quadratic forms
of GOE/GUE eigenvectors. Annals of Applied Probability. Institute of Mathematical
Statistics. https://doi.org/10.1214/23-AAP2000
chicago: Erdös, László, and Benjamin McKenna. “Extremal Statistics of Quadratic
Forms of GOE/GUE Eigenvectors.” Annals of Applied Probability. Institute
of Mathematical Statistics, 2024. https://doi.org/10.1214/23-AAP2000.
ieee: L. Erdös and B. McKenna, “Extremal statistics of quadratic forms of GOE/GUE
eigenvectors,” Annals of Applied Probability, vol. 34, no. 1B. Institute
of Mathematical Statistics, pp. 1623–1662, 2024.
ista: Erdös L, McKenna B. 2024. Extremal statistics of quadratic forms of GOE/GUE
eigenvectors. Annals of Applied Probability. 34(1B), 1623–1662.
mla: Erdös, László, and Benjamin McKenna. “Extremal Statistics of Quadratic Forms
of GOE/GUE Eigenvectors.” Annals of Applied Probability, vol. 34, no. 1B,
Institute of Mathematical Statistics, 2024, pp. 1623–62, doi:10.1214/23-AAP2000.
short: L. Erdös, B. McKenna, Annals of Applied Probability 34 (2024) 1623–1662.
date_created: 2024-02-25T23:00:56Z
date_published: 2024-02-01T00:00:00Z
date_updated: 2024-02-27T08:29:05Z
day: '01'
department:
- _id: LaEr
doi: 10.1214/23-AAP2000
ec_funded: 1
external_id:
arxiv:
- '2208.12206'
intvolume: ' 34'
issue: 1B
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2208.12206
month: '02'
oa: 1
oa_version: Preprint
page: 1623-1662
project:
- _id: 62796744-2b32-11ec-9570-940b20777f1d
call_identifier: H2020
grant_number: '101020331'
name: Random matrices beyond Wigner-Dyson-Mehta
publication: 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: Extremal statistics of quadratic forms of GOE/GUE eigenvectors
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 34
year: '2024'
...
---
_id: '15033'
abstract:
- lang: eng
text: The GNOM (GN) Guanine nucleotide Exchange Factor for ARF small GTPases (ARF-GEF)
is among the best studied trafficking regulators in plants, playing crucial and
unique developmental roles in patterning and polarity. The current models place
GN at the Golgi apparatus (GA), where it mediates secretion/recycling, and at
the plasma membrane (PM) presumably contributing to clathrin-mediated endocytosis
(CME). The mechanistic basis of the developmental function of GN, distinct from
the other ARF-GEFs including its closest homologue GNOM-LIKE1 (GNL1), remains
elusive. Insights from this study largely extend the current notions of GN function.
We show that GN, but not GNL1, localizes to the cell periphery at long-lived structures
distinct from clathrin-coated pits, while CME and secretion proceed normally in
gn knockouts. The functional GN mutant variant GNfewerroots,
absent from the GA, suggests that the cell periphery is the major site of GN action
responsible for its developmental function. Following inhibition by Brefeldin
A, GN, but not GNL1, relocates to the PM likely on exocytic vesicles, suggesting
selective molecular associations en route to the cell periphery. A study of GN-GNL1
chimeric ARF-GEFs indicates that all GN domains contribute to the specific GN
function in a partially redundant manner. Together, this study offers significant
steps toward the elucidation of the mechanism underlying unique cellular and development
functions of GNOM.
acknowledgement: "The authors would like to gratefully acknowledge Dr Xixi Zhang for
cloning the GNL1/pDONR221 construct and for useful discussions.H2020 European Research\r\nCouncil
Advanced Grant ETAP742985 to Jiří Friml, Austrian Science Fund I 3630-B25 to Jiří
Friml"
article_processing_charge: Yes
article_type: original
author:
- first_name: Maciek
full_name: Adamowski, Maciek
id: 45F536D2-F248-11E8-B48F-1D18A9856A87
last_name: Adamowski
orcid: 0000-0001-6463-5257
- first_name: Ivana
full_name: Matijevic, Ivana
id: 83c17ce3-15b2-11ec-abd3-f486545870bd
last_name: Matijevic
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Adamowski M, Matijevic I, Friml J. Developmental patterning function of GNOM
ARF-GEF mediated from the cell periphery. eLife. 2024;13. doi:10.7554/elife.68993
apa: Adamowski, M., Matijevic, I., & Friml, J. (2024). Developmental patterning
function of GNOM ARF-GEF mediated from the cell periphery. ELife. eLife
Sciences Publications. https://doi.org/10.7554/elife.68993
chicago: Adamowski, Maciek, Ivana Matijevic, and Jiří Friml. “Developmental Patterning
Function of GNOM ARF-GEF Mediated from the Cell Periphery.” ELife. eLife
Sciences Publications, 2024. https://doi.org/10.7554/elife.68993.
ieee: M. Adamowski, I. Matijevic, and J. Friml, “Developmental patterning function
of GNOM ARF-GEF mediated from the cell periphery,” eLife, vol. 13. eLife
Sciences Publications, 2024.
ista: Adamowski M, Matijevic I, Friml J. 2024. Developmental patterning function
of GNOM ARF-GEF mediated from the cell periphery. eLife. 13.
mla: Adamowski, Maciek, et al. “Developmental Patterning Function of GNOM ARF-GEF
Mediated from the Cell Periphery.” ELife, vol. 13, eLife Sciences Publications,
2024, doi:10.7554/elife.68993.
short: M. Adamowski, I. Matijevic, J. Friml, ELife 13 (2024).
date_created: 2024-02-27T07:10:11Z
date_published: 2024-02-21T00:00:00Z
date_updated: 2024-02-28T12:29:43Z
day: '21'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.7554/elife.68993
ec_funded: 1
has_accepted_license: '1'
intvolume: ' 13'
keyword:
- General Immunology and Microbiology
- General Biochemistry
- Genetics and Molecular Biology
- General Medicine
- General Neuroscience
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.7554/eLife.68993
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
- _id: 26538374-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03630
name: Molecular mechanisms of endocytic cargo recognition in plants
publication: eLife
publication_identifier:
issn:
- 2050-084X
publication_status: epub_ahead
publisher: eLife Sciences Publications
quality_controlled: '1'
status: public
title: Developmental patterning function of GNOM ARF-GEF mediated from the cell periphery
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: '2024'
...
---
_id: '14479'
abstract:
- lang: eng
text: 'In animals, parasitic infections impose significant fitness costs.1,2,3,4,5,6
Infected animals can alter their feeding behavior to resist infection,7,8,9,10,11,12
but parasites can manipulate animal foraging behavior to their own benefits.13,14,15,16
How nutrition influences host-parasite interactions is not well understood, as
studies have mainly focused on the host and less on the parasite.9,12,17,18,19,20,21,22,23
We used the nutritional geometry framework24 to investigate the role of amino
acids (AA) and carbohydrates (C) in a host-parasite system: the Argentine ant,
Linepithema humile, and the entomopathogenic fungus, Metarhizium brunneum. First,
using 18 diets varying in AA:C composition, we established that the fungus performed
best on the high-amino-acid diet 1:4. Second, we found that the fungus reached
this optimal diet when given various diet pairings, revealing its ability to cope
with nutritional challenges. Third, we showed that the optimal fungal diet reduced
the lifespan of healthy ants when compared with a high-carbohydrate diet but had
no effect on infected ants. Fourth, we revealed that infected ant colonies, given
a choice between the optimal fungal diet and a high-carbohydrate diet, chose the
optimal fungal diet, whereas healthy colonies avoided it. Lastly, by disentangling
fungal infection from host immune response, we demonstrated that infected ants
foraged on the optimal fungal diet in response to immune activation and not as
a result of parasite manipulation. Therefore, we revealed that infected ant colonies
chose a diet that is costly for survival in the long term but beneficial in the
short term—a form of collective self-medication.'
acknowledgement: We are sincerely grateful to the referees for their valuable comments
and suggestions, which helped us to improve the paper. We are thankful to Jorgen
Eilenberg and Nicolai V. Meyling for the fungal strain, to Simon Tragust, Abel Bernadou,
and Brian Lazarro for insightful discussions, to Iago Sanmartín-Villar, Léa Briard,
Céline Maitrel, and Nolwenn Rissen for their help with the experiments. Furthermore,
we thank Anna V. Grasse for help with the immune gene expression analyses. We thank
Sergio Ibarra for creating the graphical abstract. E.C. was supported by a Fyssen
Foundation grant and the Alexander von Humboldt Foundation. A.D. was supported by
the CNRS.
article_processing_charge: No
article_type: original
author:
- first_name: Eniko
full_name: Csata, Eniko
last_name: Csata
- first_name: Alfonso
full_name: Perez-Escudero, Alfonso
last_name: Perez-Escudero
- first_name: Emmanuel
full_name: Laury, Emmanuel
last_name: Laury
- first_name: Hanna
full_name: Leitner, Hanna
id: 8fc5c6f6-5903-11ec-abad-c83f046253e7
last_name: Leitner
- first_name: Gerard
full_name: Latil, Gerard
last_name: Latil
- first_name: Juerge
full_name: Heinze, Juerge
last_name: Heinze
- first_name: Stephen
full_name: Simpson, Stephen
last_name: Simpson
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
- first_name: Audrey
full_name: Dussutour, Audrey
last_name: Dussutour
citation:
ama: Csata E, Perez-Escudero A, Laury E, et al. Fungal infection alters collective
nutritional intake of ant colonies. Current Biology. 2024;34(4):902-909.e6.
doi:10.1016/j.cub.2024.01.017
apa: Csata, E., Perez-Escudero, A., Laury, E., Leitner, H., Latil, G., Heinze, J.,
… Dussutour, A. (2024). Fungal infection alters collective nutritional intake
of ant colonies. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2024.01.017
chicago: Csata, Eniko, Alfonso Perez-Escudero, Emmanuel Laury, Hanna Leitner, Gerard
Latil, Juerge Heinze, Stephen Simpson, Sylvia Cremer, and Audrey Dussutour. “Fungal
Infection Alters Collective Nutritional Intake of Ant Colonies.” Current Biology.
Elsevier, 2024. https://doi.org/10.1016/j.cub.2024.01.017.
ieee: E. Csata et al., “Fungal infection alters collective nutritional intake
of ant colonies,” Current Biology, vol. 34, no. 4. Elsevier, p. 902–909.e6,
2024.
ista: Csata E, Perez-Escudero A, Laury E, Leitner H, Latil G, Heinze J, Simpson
S, Cremer S, Dussutour A. 2024. Fungal infection alters collective nutritional
intake of ant colonies. Current Biology. 34(4), 902–909.e6.
mla: Csata, Eniko, et al. “Fungal Infection Alters Collective Nutritional Intake
of Ant Colonies.” Current Biology, vol. 34, no. 4, Elsevier, 2024, p. 902–909.e6,
doi:10.1016/j.cub.2024.01.017.
short: E. Csata, A. Perez-Escudero, E. Laury, H. Leitner, G. Latil, J. Heinze, S.
Simpson, S. Cremer, A. Dussutour, Current Biology 34 (2024) 902–909.e6.
date_created: 2023-10-31T13:30:20Z
date_published: 2024-02-26T00:00:00Z
date_updated: 2024-03-04T07:14:41Z
day: '26'
department:
- _id: SyCr
doi: 10.1016/j.cub.2024.01.017
external_id:
pmid:
- '38307022'
intvolume: ' 34'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2023.10.26.564092
month: '02'
oa: 1
oa_version: Preprint
page: 902-909.e6
pmid: 1
publication: Current Biology
publication_identifier:
eissn:
- 1879-0445
issn:
- 0960-9822
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Fungal infection alters collective nutritional intake of ant colonies
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 34
year: '2024'
...
---
_id: '15045'
abstract:
- lang: eng
text: Coupling of orbital motion to a spin degree of freedom gives rise to various
transport phenomena in quantum systems that are beyond the standard paradigms
of classical physics. Here, we discuss features of spin-orbit dynamics that can
be visualized using a classical model with two coupled angular degrees of freedom.
Specifically, we demonstrate classical ‘spin’ filtering through our model and
show that the interplay between angular degrees of freedom and dissipation can
lead to asymmetric ‘spin’ transport.
acknowledgement: "We thank Mikhail Lemeshko and members of his group for many inspiring
discussions; Alberto Cappellaro for comments on the manuscript.\r\nOpen access funding
provided by Institute of Science and Technology (IST Austria)."
article_number: '12'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Atul
full_name: Varshney, Atul
id: 2A2006B2-F248-11E8-B48F-1D18A9856A87
last_name: Varshney
orcid: 0000-0002-3072-5999
- first_name: Areg
full_name: Ghazaryan, Areg
id: 4AF46FD6-F248-11E8-B48F-1D18A9856A87
last_name: Ghazaryan
orcid: 0000-0001-9666-3543
- first_name: Artem
full_name: Volosniev, Artem
id: 37D278BC-F248-11E8-B48F-1D18A9856A87
last_name: Volosniev
orcid: 0000-0003-0393-5525
citation:
ama: Varshney A, Ghazaryan A, Volosniev A. Classical ‘spin’ filtering with two degrees
of freedom and dissipation. Few-Body Systems. 2024;65. doi:10.1007/s00601-024-01880-x
apa: Varshney, A., Ghazaryan, A., & Volosniev, A. (2024). Classical ‘spin’ filtering
with two degrees of freedom and dissipation. Few-Body Systems. Springer
Nature. https://doi.org/10.1007/s00601-024-01880-x
chicago: Varshney, Atul, Areg Ghazaryan, and Artem Volosniev. “Classical ‘Spin’
Filtering with Two Degrees of Freedom and Dissipation.” Few-Body Systems.
Springer Nature, 2024. https://doi.org/10.1007/s00601-024-01880-x.
ieee: A. Varshney, A. Ghazaryan, and A. Volosniev, “Classical ‘spin’ filtering with
two degrees of freedom and dissipation,” Few-Body Systems, vol. 65. Springer
Nature, 2024.
ista: Varshney A, Ghazaryan A, Volosniev A. 2024. Classical ‘spin’ filtering with
two degrees of freedom and dissipation. Few-Body Systems. 65, 12.
mla: Varshney, Atul, et al. “Classical ‘Spin’ Filtering with Two Degrees of Freedom
and Dissipation.” Few-Body Systems, vol. 65, 12, Springer Nature, 2024,
doi:10.1007/s00601-024-01880-x.
short: A. Varshney, A. Ghazaryan, A. Volosniev, Few-Body Systems 65 (2024).
date_created: 2024-03-01T11:39:33Z
date_published: 2024-02-17T00:00:00Z
date_updated: 2024-03-04T07:08:16Z
day: '17'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.1007/s00601-024-01880-x
external_id:
arxiv:
- '2401.08454'
file:
- access_level: open_access
checksum: c4e08cc7bc756da69b1b36fda7bb92fb
content_type: application/pdf
creator: dernst
date_created: 2024-03-04T07:07:10Z
date_updated: 2024-03-04T07:07:10Z
file_id: '15049'
file_name: 2024_FewBodySys_Varshney.pdf
file_size: 436712
relation: main_file
success: 1
file_date_updated: 2024-03-04T07:07:10Z
has_accepted_license: '1'
intvolume: ' 65'
keyword:
- Atomic and Molecular Physics
- and Optics
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: Few-Body Systems
publication_identifier:
issn:
- 1432-5411
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Classical ‘spin’ filtering with two degrees of freedom and dissipation
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: 65
year: '2024'
...
---
_id: '15053'
abstract:
- lang: eng
text: Atom-based quantum simulators have had many successes in tackling challenging
quantum many-body problems, owing to the precise and dynamical control that they
provide over the systems' parameters. They are, however, often optimized to address
a specific type of problem. Here, we present the design and implementation of
a 6Li-based quantum gas platform that provides wide-ranging capabilities and is
able to address a variety of quantum many-body problems. Our two-chamber architecture
relies on a robust combination of gray molasses and optical transport from a laser-cooling
chamber to a glass cell with excellent optical access. There, we first create
unitary Fermi superfluids in a three-dimensional axially symmetric harmonic trap
and characterize them using in situ thermometry, reaching temperatures below 20
nK. This allows us to enter the deep superfluid regime with samples of extreme
diluteness, where the interparticle spacing is sufficiently large for direct single-atom
imaging. Second, we generate optical lattice potentials with triangular and honeycomb
geometry in which we study diffraction of molecular Bose-Einstein condensates,
and show how going beyond the Kapitza-Dirac regime allows us to unambiguously
distinguish between the two geometries. With the ability to probe quantum many-body
physics in both discrete and continuous space, and its suitability for bulk and
single-atom imaging, our setup represents an important step towards achieving
a wide-scope quantum simulator.
acknowledgement: We thank Clara Bachorz, Darby Bates, Markus Bohlen, Valentin Crépel,
Yann Kiefer, Joanna Lis, Mihail Rabinovic, and Julian Struck for experimental assistance
in the early stages of this project, and Sebastian Will for a critical reading of
the manuscript. This work has been supported by Agence Nationale de la Recherche
(Grant No. ANR-21-CE30-0021), the European Research Council (Grant No. ERC-2016-ADG-743159),
CNRS (Tremplin@INP 2020), and Région Ile-de-France in the framework of DIM SIRTEQ
(Super2D and SISCo) and DIM QuanTiP.
article_number: '013158'
article_processing_charge: Yes
article_type: original
author:
- first_name: Shuwei
full_name: Jin, Shuwei
last_name: Jin
- first_name: Kunlun
full_name: Dai, Kunlun
last_name: Dai
- first_name: Joris
full_name: Verstraten, Joris
last_name: Verstraten
- first_name: Maxime
full_name: Dixmerias, Maxime
last_name: Dixmerias
- first_name: Ragheed
full_name: Al Hyder, Ragheed
id: d1c405be-ae15-11ed-8510-ccf53278162e
last_name: Al Hyder
- first_name: Christophe
full_name: Salomon, Christophe
last_name: Salomon
- first_name: Bruno
full_name: Peaudecerf, Bruno
last_name: Peaudecerf
- first_name: Tim
full_name: de Jongh, Tim
last_name: de Jongh
- first_name: Tarik
full_name: Yefsah, Tarik
last_name: Yefsah
citation:
ama: Jin S, Dai K, Verstraten J, et al. Multipurpose platform for analog quantum
simulation. Physical Review Research. 2024;6(1). doi:10.1103/physrevresearch.6.013158
apa: Jin, S., Dai, K., Verstraten, J., Dixmerias, M., Al Hyder, R., Salomon, C.,
… Yefsah, T. (2024). Multipurpose platform for analog quantum simulation. Physical
Review Research. American Physical Society. https://doi.org/10.1103/physrevresearch.6.013158
chicago: Jin, Shuwei, Kunlun Dai, Joris Verstraten, Maxime Dixmerias, Ragheed Al
Hyder, Christophe Salomon, Bruno Peaudecerf, Tim de Jongh, and Tarik Yefsah. “Multipurpose
Platform for Analog Quantum Simulation.” Physical Review Research. American
Physical Society, 2024. https://doi.org/10.1103/physrevresearch.6.013158.
ieee: S. Jin et al., “Multipurpose platform for analog quantum simulation,”
Physical Review Research, vol. 6, no. 1. American Physical Society, 2024.
ista: Jin S, Dai K, Verstraten J, Dixmerias M, Al Hyder R, Salomon C, Peaudecerf
B, de Jongh T, Yefsah T. 2024. Multipurpose platform for analog quantum simulation.
Physical Review Research. 6(1), 013158.
mla: Jin, Shuwei, et al. “Multipurpose Platform for Analog Quantum Simulation.”
Physical Review Research, vol. 6, no. 1, 013158, American Physical Society,
2024, doi:10.1103/physrevresearch.6.013158.
short: S. Jin, K. Dai, J. Verstraten, M. Dixmerias, R. Al Hyder, C. Salomon, B.
Peaudecerf, T. de Jongh, T. Yefsah, Physical Review Research 6 (2024).
date_created: 2024-03-04T07:42:52Z
date_published: 2024-02-13T00:00:00Z
date_updated: 2024-03-04T07:55:29Z
day: '13'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.1103/physrevresearch.6.013158
external_id:
arxiv:
- '2304.08433'
file:
- access_level: open_access
checksum: ba2ae3e3a011f8897d3803c9366a67e2
content_type: application/pdf
creator: dernst
date_created: 2024-03-04T07:53:08Z
date_updated: 2024-03-04T07:53:08Z
file_id: '15054'
file_name: 2024_PhysicalReviewResearch_Jin.pdf
file_size: 4025988
relation: main_file
success: 1
file_date_updated: 2024-03-04T07:53:08Z
has_accepted_license: '1'
intvolume: ' 6'
issue: '1'
keyword:
- General Physics and Astronomy
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: Physical Review Research
publication_identifier:
issn:
- 2643-1564
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Multipurpose platform for analog quantum simulation
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: '2024'
...
---
_id: '15048'
abstract:
- lang: eng
text: Embryogenesis results from the coordinated activities of different signaling
pathways controlling cell fate specification and morphogenesis. In vertebrate
gastrulation, both Nodal and BMP signaling play key roles in germ layer specification
and morphogenesis, yet their interplay to coordinate embryo patterning with morphogenesis
is still insufficiently understood. Here, we took a reductionist approach using
zebrafish embryonic explants to study the coordination of Nodal and BMP signaling
for embryo patterning and morphogenesis. We show that Nodal signaling triggers
explant elongation by inducing mesendodermal progenitors but also suppressing
BMP signaling activity at the site of mesendoderm induction. Consistent with this,
ectopic BMP signaling in the mesendoderm blocks cell alignment and oriented mesendoderm
intercalations, key processes during explant elongation. Translating these ex
vivo observations to the intact embryo showed that, similar to explants, Nodal
signaling suppresses the effect of BMP signaling on cell intercalations in the
dorsal domain, thus allowing robust embryonic axis elongation. These findings
suggest a dual function of Nodal signaling in embryonic axis elongation by both
inducing mesendoderm and suppressing BMP effects in the dorsal portion of the
mesendoderm.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
acknowledgement: "We thank Patrick Müller for sharing the chordintt250 mutant zebrafish
line as well as the plasmid for chrd-GFP, Katherine Rogers for sharing the bmp2b
plasmid and Andrea Pauli for sharing the draculin plasmid. Diana Pinheiro generated
the MZlefty1,2;Tg(sebox::EGFP) line. We are grateful to Patrick Müller, Diana Pinheiro
and Katherine Rogers and members of the Heisenberg lab for discussions, technical
advice and feedback on the manuscript. We also thank Anna Kicheva and Edouard Hannezo
for discussions. We thank the Imaging and Optics Facility as well as the Life Science
facility at IST Austria for support with microscopy and fish maintenance.\r\nThis
work was supported by a European Research Council Advanced Grant\r\n(MECSPEC 742573
to C.-P.H.). A.S. is a recipient of a DOC Fellowship of the Austrian\r\nAcademy
of Sciences at IST Austria. Open Access funding provided by Institute of\r\nScience
and Technology Austria. "
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Alexandra
full_name: Schauer, Alexandra
id: 30A536BA-F248-11E8-B48F-1D18A9856A87
last_name: Schauer
orcid: 0000-0001-7659-9142
- first_name: Kornelija
full_name: Pranjic-Ferscha, Kornelija
id: 4362B3C2-F248-11E8-B48F-1D18A9856A87
last_name: Pranjic-Ferscha
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- 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
citation:
ama: Schauer A, Pranjic-Ferscha K, Hauschild R, Heisenberg C-PJ. Robust axis elongation
by Nodal-dependent restriction of BMP signaling. Development. 2024;151(4):1-18.
doi:10.1242/dev.202316
apa: Schauer, A., Pranjic-Ferscha, K., Hauschild, R., & Heisenberg, C.-P. J.
(2024). Robust axis elongation by Nodal-dependent restriction of BMP signaling.
Development. The Company of Biologists. https://doi.org/10.1242/dev.202316
chicago: Schauer, Alexandra, Kornelija Pranjic-Ferscha, Robert Hauschild, and Carl-Philipp
J Heisenberg. “Robust Axis Elongation by Nodal-Dependent Restriction of BMP Signaling.”
Development. The Company of Biologists, 2024. https://doi.org/10.1242/dev.202316.
ieee: A. Schauer, K. Pranjic-Ferscha, R. Hauschild, and C.-P. J. Heisenberg, “Robust
axis elongation by Nodal-dependent restriction of BMP signaling,” Development,
vol. 151, no. 4. The Company of Biologists, pp. 1–18, 2024.
ista: Schauer A, Pranjic-Ferscha K, Hauschild R, Heisenberg C-PJ. 2024. Robust axis
elongation by Nodal-dependent restriction of BMP signaling. Development. 151(4),
1–18.
mla: Schauer, Alexandra, et al. “Robust Axis Elongation by Nodal-Dependent Restriction
of BMP Signaling.” Development, vol. 151, no. 4, The Company of Biologists,
2024, pp. 1–18, doi:10.1242/dev.202316.
short: A. Schauer, K. Pranjic-Ferscha, R. Hauschild, C.-P.J. Heisenberg, Development
151 (2024) 1–18.
date_created: 2024-03-03T23:00:50Z
date_published: 2024-02-01T00:00:00Z
date_updated: 2024-03-04T07:28:25Z
day: '01'
ddc:
- '570'
department:
- _id: CaHe
- _id: Bio
doi: 10.1242/dev.202316
ec_funded: 1
file:
- access_level: open_access
checksum: 6961ea10012bf0d266681f9628bb8f13
content_type: application/pdf
creator: dernst
date_created: 2024-03-04T07:24:43Z
date_updated: 2024-03-04T07:24:43Z
file_id: '15050'
file_name: 2024_Development_Schauer.pdf
file_size: 14839986
relation: main_file
success: 1
file_date_updated: 2024-03-04T07:24:43Z
has_accepted_license: '1'
intvolume: ' 151'
issue: '4'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 1-18
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
- _id: 26B1E39C-B435-11E9-9278-68D0E5697425
grant_number: '25239'
name: 'Mesendoderm specification in zebrafish: The role of extraembryonic tissues'
publication: Development
publication_identifier:
eissn:
- 1477-9129
issn:
- 0950-1991
publication_status: published
publisher: The Company of Biologists
quality_controlled: '1'
related_material:
record:
- id: '14926'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Robust axis elongation by Nodal-dependent restriction of BMP signaling
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: 151
year: '2024'
...
---
_id: '15052'
abstract:
- lang: eng
text: "Substrate induces mechanical strain on perovskite devices, which can result
in alterations to its lattice dynamics and thermal transport. Herein, we have
performed a theoretical investigation on the anharmonic lattice dynamics and thermal
property of perovskite Rb2SnBr6 and Cs2SnBr6 under strains using perturbation
theory up to the fourth-order terms and the unified thermal transport theory.
We demonstrate a pronounced hardening of low-frequency optical phonons as temperature
increases, indicating strong lattice anharmonicity and the necessity of adopting
temperature-dependent interatomic force constants in the lattice thermal conductivity
(\r\nκL) calculations. It is found that the low-lying optical phonon modes of
Rb2SnBr6 are extremely soft and their phonon energies are almost strain independent,
which ultimately lead to a lower \r\nκL and a weaker strain dependence than Cs2SnBr6.
We further reveal that the strain dependence of these phonon modes in the A2XB6-type
perovskites weakens as their ibrational frequency decreases. This study deepens
the understanding of lattice thermal transport in perovskites A2XB6 and provides
a perspective on the selection of materials that meet the expected thermal behaviors
in practical applications."
acknowledgement: "This work is supported by the Research Grants Council of Hong Kong
(C7002-22Y and 17318122). The authors are grateful for the research computing facilities
offered by\r\nITS, HKU. Z.Z. acknowledges the European Union’s Horizon 2020 research
and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 101034413."
article_number: '054305'
article_processing_charge: No
article_type: original
author:
- first_name: Ruihuan
full_name: Cheng, Ruihuan
last_name: Cheng
- first_name: Zezhu
full_name: Zeng, Zezhu
id: 54a2c730-803f-11ed-ab7e-95b29d2680e7
last_name: Zeng
- first_name: Chen
full_name: Wang, Chen
last_name: Wang
- first_name: Niuchang
full_name: Ouyang, Niuchang
last_name: Ouyang
- first_name: Yue
full_name: Chen, Yue
last_name: Chen
citation:
ama: Cheng R, Zeng Z, Wang C, Ouyang N, Chen Y. Impact of strain-insensitive low-frequency
phonon modes on lattice thermal transport in AxXB6-type perovskites. Physical
Review B. 2024;109(5). doi:10.1103/physrevb.109.054305
apa: Cheng, R., Zeng, Z., Wang, C., Ouyang, N., & Chen, Y. (2024). Impact of
strain-insensitive low-frequency phonon modes on lattice thermal transport in
AxXB6-type perovskites. Physical Review B. American Physical Society. https://doi.org/10.1103/physrevb.109.054305
chicago: Cheng, Ruihuan, Zezhu Zeng, Chen Wang, Niuchang Ouyang, and Yue Chen. “Impact
of Strain-Insensitive Low-Frequency Phonon Modes on Lattice Thermal Transport
in AxXB6-Type Perovskites.” Physical Review B. American Physical Society,
2024. https://doi.org/10.1103/physrevb.109.054305.
ieee: R. Cheng, Z. Zeng, C. Wang, N. Ouyang, and Y. Chen, “Impact of strain-insensitive
low-frequency phonon modes on lattice thermal transport in AxXB6-type perovskites,”
Physical Review B, vol. 109, no. 5. American Physical Society, 2024.
ista: Cheng R, Zeng Z, Wang C, Ouyang N, Chen Y. 2024. Impact of strain-insensitive
low-frequency phonon modes on lattice thermal transport in AxXB6-type perovskites.
Physical Review B. 109(5), 054305.
mla: Cheng, Ruihuan, et al. “Impact of Strain-Insensitive Low-Frequency Phonon Modes
on Lattice Thermal Transport in AxXB6-Type Perovskites.” Physical Review B,
vol. 109, no. 5, 054305, American Physical Society, 2024, doi:10.1103/physrevb.109.054305.
short: R. Cheng, Z. Zeng, C. Wang, N. Ouyang, Y. Chen, Physical Review B 109 (2024).
date_created: 2024-03-04T07:41:23Z
date_published: 2024-02-14T00:00:00Z
date_updated: 2024-03-04T07:48:55Z
day: '14'
department:
- _id: BiCh
doi: 10.1103/physrevb.109.054305
ec_funded: 1
intvolume: ' 109'
issue: '5'
language:
- iso: eng
month: '02'
oa_version: None
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
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: Impact of strain-insensitive low-frequency phonon modes on lattice thermal
transport in AxXB6-type perovskites
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 109
year: '2024'
...
---
_id: '14926'
author:
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
citation:
ama: Hauschild R. Matlab script for analysis of clone dispersal. 2024. doi:10.15479/AT:ISTA:14926
apa: Hauschild, R. (2024). Matlab script for analysis of clone dispersal. ISTA.
https://doi.org/10.15479/AT:ISTA:14926
chicago: Hauschild, Robert. “Matlab Script for Analysis of Clone Dispersal.” ISTA,
2024. https://doi.org/10.15479/AT:ISTA:14926.
ieee: R. Hauschild, “Matlab script for analysis of clone dispersal.” ISTA, 2024.
ista: Hauschild R. 2024. Matlab script for analysis of clone dispersal, ISTA, 10.15479/AT:ISTA:14926.
mla: Hauschild, Robert. Matlab Script for Analysis of Clone Dispersal. ISTA,
2024, doi:10.15479/AT:ISTA:14926.
short: R. Hauschild, (2024).
date_created: 2024-02-02T14:42:26Z
date_published: 2024-02-02T00:00:00Z
date_updated: 2024-03-04T07:28:25Z
day: '02'
ddc:
- '570'
department:
- _id: Bio
doi: 10.15479/AT:ISTA:14926
file:
- access_level: open_access
checksum: df7f358ae19a176cf710c0a802ce31b1
content_type: application/octet-stream
creator: rhauschild
date_created: 2024-02-02T14:40:31Z
date_updated: 2024-02-02T14:40:31Z
file_id: '14927'
file_name: README.md
file_size: 736
relation: main_file
success: 1
- access_level: open_access
checksum: 10194cc11619eccd8f4b24472e465b7f
content_type: application/x-zip-compressed
creator: rhauschild
date_created: 2024-02-02T14:40:31Z
date_updated: 2024-02-02T14:40:31Z
file_id: '14928'
file_name: Supplementary_file_1.zip
file_size: 3543
relation: main_file
success: 1
file_date_updated: 2024-02-02T14:40:31Z
has_accepted_license: '1'
license: https://opensource.org/licenses/MIT
month: '02'
oa: 1
publisher: ISTA
related_material:
record:
- id: '15048'
relation: used_in_publication
status: public
status: public
title: Matlab script for analysis of clone dispersal
tmp:
legal_code_url: https://opensource.org/licenses/MIT
name: The MIT License
short: MIT
type: software
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '15047'
abstract:
- lang: eng
text: Tropical precipitation extremes and their changes with surface warming are
investigated using global storm resolving simulations and high-resolution observations.
The simulations demonstrate that the mesoscale organization of convection, a process
that cannot be physically represented by conventional global climate models, is
important for the variations of tropical daily accumulated precipitation extremes.
In both the simulations and observations, daily precipitation extremes increase
in a more organized state, in association with larger, but less frequent, storms.
Repeating the simulations for a warmer climate results in a robust increase in
monthly-mean daily precipitation extremes. Higher precipitation percentiles have
a greater sensitivity to convective organization, which is predicted to increase
with warming. Without changes in organization, the strongest daily precipitation
extremes over the tropical oceans increase at a rate close to Clausius-Clapeyron
(CC) scaling. Thus, in a future warmer state with increased organization, the
strongest daily precipitation extremes over oceans increase at a faster rate than
CC scaling.
acknowledgement: This work is supported by the Max-Planck-Gesellschaft (MPG). We greatly
appreciate computational resources from Deutsches Klimarechenzentrum (DKRZ) and
the Jülich Supercomputing Centre (JSC). ICONA/O simulations are funded through the
NextGEMS project by the EU’s Horizon 2020 programme (grant agreement no. 101003470).
ICONA simulations are funded through the MONSOON-2.0 project (grant agreement no.
01LP1927A) which is supported from German Federal Ministry of Education and Research
(BMBF). J.B. acknowledges funding from the European Union’s Horizon 2020 research
and innovation programme under the Marie Skłodowska-Curie grant (grant agreement
no. 101034413). B.S. acknowledges funding from the EU’s Horizon 2020 programme (grant
agreement no. 101003470). C.M. gratefully acknowledges funding from the European
Research Council (ERC) under the European Union’s Horizon 2020 research and innovation
program (Project CLUSTER, grant agreement no. 805041).
article_number: eadj6801
article_processing_charge: Yes
article_type: original
author:
- first_name: Jiawei
full_name: Bao, Jiawei
id: bb9a7399-fefd-11ed-be3c-ae648fd1d160
last_name: Bao
- first_name: Bjorn
full_name: Stevens, Bjorn
last_name: Stevens
- first_name: Lukas
full_name: Kluft, Lukas
last_name: Kluft
- first_name: Caroline J
full_name: Muller, Caroline J
id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b
last_name: Muller
orcid: 0000-0001-5836-5350
citation:
ama: Bao J, Stevens B, Kluft L, Muller CJ. Intensification of daily tropical precipitation
extremes from more organized convection. Science Advances. 2024;10(8).
doi:10.1126/sciadv.adj6801
apa: Bao, J., Stevens, B., Kluft, L., & Muller, C. J. (2024). Intensification
of daily tropical precipitation extremes from more organized convection. Science
Advances. American Association for the Advancement of Science. https://doi.org/10.1126/sciadv.adj6801
chicago: Bao, Jiawei, Bjorn Stevens, Lukas Kluft, and Caroline J Muller. “Intensification
of Daily Tropical Precipitation Extremes from More Organized Convection.” Science
Advances. American Association for the Advancement of Science, 2024. https://doi.org/10.1126/sciadv.adj6801.
ieee: J. Bao, B. Stevens, L. Kluft, and C. J. Muller, “Intensification of daily
tropical precipitation extremes from more organized convection,” Science Advances,
vol. 10, no. 8. American Association for the Advancement of Science, 2024.
ista: Bao J, Stevens B, Kluft L, Muller CJ. 2024. Intensification of daily tropical
precipitation extremes from more organized convection. Science Advances. 10(8),
eadj6801.
mla: Bao, Jiawei, et al. “Intensification of Daily Tropical Precipitation Extremes
from More Organized Convection.” Science Advances, vol. 10, no. 8, eadj6801,
American Association for the Advancement of Science, 2024, doi:10.1126/sciadv.adj6801.
short: J. Bao, B. Stevens, L. Kluft, C.J. Muller, Science Advances 10 (2024).
date_created: 2024-03-03T23:00:50Z
date_published: 2024-02-23T00:00:00Z
date_updated: 2024-03-05T09:26:47Z
day: '23'
ddc:
- '550'
department:
- _id: CaMu
doi: 10.1126/sciadv.adj6801
ec_funded: 1
external_id:
pmid:
- '38394192'
file:
- access_level: open_access
checksum: d4ec4f05a6d14745057e14d1b8bf45ae
content_type: application/pdf
creator: dernst
date_created: 2024-03-04T07:34:00Z
date_updated: 2024-03-04T07:34:00Z
file_id: '15051'
file_name: 2024_ScienceAdv_Bao.pdf
file_size: 800926
relation: main_file
success: 1
file_date_updated: 2024-03-04T07:34:00Z
has_accepted_license: '1'
intvolume: ' 10'
issue: '8'
language:
- iso: eng
month: '02'
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'
- _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: Science Advances
publication_identifier:
eissn:
- 2375-2548
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/cloud-clustering-causes-more-extreme-rain/
scopus_import: '1'
status: public
title: Intensification of daily tropical precipitation extremes from more organized
convection
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: 10
year: '2024'
...
---
_id: '12875'
abstract:
- lang: eng
text: The superior colliculus (SC) in the mammalian midbrain is essential for multisensory
integration and is composed of a rich diversity of excitatory and inhibitory neurons
and glia. However, the developmental principles directing the generation of SC
cell-type diversity are not understood. Here, we pursued systematic cell lineage
tracing in silico and in vivo, preserving full spatial information, using genetic
mosaic analysis with double markers (MADM)-based clonal analysis with single-cell
sequencing (MADM-CloneSeq). The analysis of clonally related cell lineages revealed
that radial glial progenitors (RGPs) in SC are exceptionally multipotent. Individual
resident RGPs have the capacity to produce all excitatory and inhibitory SC neuron
types, even at the stage of terminal division. While individual clonal units show
no pre-defined cellular composition, the establishment of appropriate relative
proportions of distinct neuronal types occurs in a PTEN-dependent manner. Collectively,
our findings provide an inaugural framework at the single-RGP/-cell level of the
mammalian SC ontogeny.
acknowledged_ssus:
- _id: Bio
- _id: M-Shop
- _id: LifeSc
- _id: PreCl
acknowledgement: "We thank Liqun Luo for his continued support, for providing essential
resources for generating Fzd10-CreER mice which were generated in his laboratory,
and for comments on the manuscript; W. Zhong for providing Nestin-Cre transgenic
mouse line for this study; A. Heger for mouse colony management; R. Beattie and
T. Asenov for designing and producing components of acute slice recovery chamber
for MADM-CloneSeq experiments; and K. Leopold, J. Rodarte and N. Amberg for initial
experiments, technical support and/or assistance. This study was supported by the
Scientific Service Units (SSU) of IST Austria through resources provided by the
Imaging & Optics Facility (IOF), Laboratory Support Facility (LSF), Miba Machine
Shop, and Pre-clinical Facility (PCF). G.C. received funding from European Commission
(IST plus postdoctoral fellowship). This work was supported by ISTA institutional\r\nfunds;
the Austrian Science Fund Special Research Programmes (FWF SFB F78 Neuro Stem Modulation)
to S.H. "
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- 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: Florian
full_name: Pauler, Florian
id: 48EA0138-F248-11E8-B48F-1D18A9856A87
last_name: Pauler
orcid: 0000-0002-7462-0048
- first_name: Peter
full_name: Koppensteiner, Peter
id: 3B8B25A8-F248-11E8-B48F-1D18A9856A87
last_name: Koppensteiner
orcid: 0000-0002-3509-1948
- first_name: Thomas
full_name: Krausgruber, Thomas
last_name: Krausgruber
- first_name: Carmen
full_name: Streicher, Carmen
id: 36BCB99C-F248-11E8-B48F-1D18A9856A87
last_name: Streicher
- first_name: Martin
full_name: Schrammel, Martin
id: f13e7cae-e8bd-11ed-841a-96dedf69f46d
last_name: Schrammel
- first_name: Natalie Y
full_name: Özgen, Natalie Y
id: e68ece33-f6e0-11ea-865d-ae1031dcc090
last_name: Özgen
- first_name: Alexis
full_name: Ivec, Alexis
id: 1d144691-e8be-11ed-9b33-bdd3077fad4c
last_name: Ivec
- first_name: Christoph
full_name: Bock, Christoph
last_name: Bock
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
citation:
ama: Cheung GT, Pauler F, Koppensteiner P, et al. Multipotent progenitors instruct
ontogeny of the superior colliculus. Neuron. 2024;112(2):230-246.e11. doi:10.1016/j.neuron.2023.11.009
apa: Cheung, G. T., Pauler, F., Koppensteiner, P., Krausgruber, T., Streicher, C.,
Schrammel, M., … Hippenmeyer, S. (2024). Multipotent progenitors instruct ontogeny
of the superior colliculus. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2023.11.009
chicago: Cheung, Giselle T, Florian Pauler, Peter Koppensteiner, Thomas Krausgruber,
Carmen Streicher, Martin Schrammel, Natalie Y Özgen, et al. “Multipotent Progenitors
Instruct Ontogeny of the Superior Colliculus.” Neuron. Elsevier, 2024.
https://doi.org/10.1016/j.neuron.2023.11.009.
ieee: G. T. Cheung et al., “Multipotent progenitors instruct ontogeny of
the superior colliculus,” Neuron, vol. 112, no. 2. Elsevier, p. 230–246.e11,
2024.
ista: Cheung GT, Pauler F, Koppensteiner P, Krausgruber T, Streicher C, Schrammel
M, Özgen NY, Ivec A, Bock C, Shigemoto R, Hippenmeyer S. 2024. Multipotent progenitors
instruct ontogeny of the superior colliculus. Neuron. 112(2), 230–246.e11.
mla: Cheung, Giselle T., et al. “Multipotent Progenitors Instruct Ontogeny of the
Superior Colliculus.” Neuron, vol. 112, no. 2, Elsevier, 2024, p. 230–246.e11,
doi:10.1016/j.neuron.2023.11.009.
short: G.T. Cheung, F. Pauler, P. Koppensteiner, T. Krausgruber, C. Streicher, M.
Schrammel, N.Y. Özgen, A. Ivec, C. Bock, R. Shigemoto, S. Hippenmeyer, Neuron
112 (2024) 230–246.e11.
date_created: 2023-04-27T09:41:48Z
date_published: 2024-01-17T00:00:00Z
date_updated: 2024-03-05T09:43:02Z
day: '17'
ddc:
- '570'
department:
- _id: SiHi
- _id: RySh
doi: 10.1016/j.neuron.2023.11.009
external_id:
pmid:
- '38096816'
file:
- access_level: open_access
checksum: 32b3788f7085cf44a84108d8faaff3ce
content_type: application/pdf
creator: dernst
date_created: 2024-02-06T13:56:15Z
date_updated: 2024-02-06T13:56:15Z
file_id: '14944'
file_name: 2024_Neuron_Cheung.pdf
file_size: 5942467
relation: main_file
success: 1
file_date_updated: 2024-02-06T13:56:15Z
has_accepted_license: '1'
intvolume: ' 112'
issue: '2'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 230-246.e11
pmid: 1
project:
- _id: 059F6AB4-7A3F-11EA-A408-12923DDC885E
grant_number: F07805
name: Molecular Mechanisms of Neural Stem Cell Lineage Progression
publication: Neuron
publication_identifier:
issn:
- 0896-6273
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/the-pedigree-of-brain-cells/
scopus_import: '1'
status: public
title: Multipotent progenitors instruct ontogeny of the superior colliculus
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: 112
year: '2024'
...
---
_id: '14979'
abstract:
- lang: eng
text: Poxviruses are among the largest double-stranded DNA viruses, with members
such as variola virus, monkeypox virus and the vaccination strain vaccinia virus
(VACV). Knowledge about the structural proteins that form the viral core has remained
sparse. While major core proteins have been annotated via indirect experimental
evidence, their structures have remained elusive and they could not be assigned
to individual core features. Hence, which proteins constitute which layers of
the core, such as the palisade layer and the inner core wall, has remained enigmatic.
Here we show, using a multi-modal cryo-electron microscopy (cryo-EM) approach
in combination with AlphaFold molecular modeling, that trimers formed by the cleavage
product of VACV protein A10 are the key component of the palisade layer. This
allows us to place previously obtained descriptions of protein interactions within
the core wall into perspective and to provide a detailed model of poxvirus core
architecture. Importantly, we show that interactions within A10 trimers are likely
generalizable over members of orthopox- and parapoxviruses.
acknowledged_ssus:
- _id: ScienComp
- _id: LifeSc
- _id: EM-Fac
acknowledgement: "We thank A. Bergthaler (Research Center for Molecular Medicine of
the Austrian Academy of Sciences) for providing VACV WR. We thank A. Nicholas and
his team at the ISTA proteomics facility, and S. Elefante at the ISTA Scientific
Computing facility for their support. We also thank F. Fäßler, D. Porley, T. Muthspiel
and other members of the Schur group for support and helpful discussions. We also
thank D. Castaño-Díez for support with Dynamo. We thank D. Farrell for his help
optimizing the Rosetta protocol to refine the atomic model into the cryo-EM map
with symmetry.\r\n\r\nF.K.M.S. acknowledges support from ISTA and EMBO. F.K.M.S.
also received support from the Austrian Science Fund (FWF) grant P31445. This publication
has been made possible in part by CZI grant DAF2021-234754 and grant https://doi.org/10.37921/812628ebpcwg
from the Chan Zuckerberg Initiative DAF, an advised fund of Silicon Valley Community
Foundation (funder https://doi.org/10.13039/100014989) awarded to F.K.M.S.\r\n\r\nThis
research was also supported by the Scientific Service Units (SSUs) of ISTA through
resources provided by Scientific Computing (SciComp), the Life Science Facility
(LSF), and the Electron Microscopy Facility (EMF). We also acknowledge the use of
COSMIC45 and Colabfold46."
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Julia
full_name: Datler, Julia
id: 3B12E2E6-F248-11E8-B48F-1D18A9856A87
last_name: Datler
orcid: 0000-0002-3616-8580
- first_name: Jesse
full_name: Hansen, Jesse
id: 1063c618-6f9b-11ec-9123-f912fccded63
last_name: Hansen
- first_name: Andreas
full_name: Thader, Andreas
id: 3A18A7B8-F248-11E8-B48F-1D18A9856A87
last_name: Thader
- first_name: Alois
full_name: Schlögl, Alois
id: 45BF87EE-F248-11E8-B48F-1D18A9856A87
last_name: Schlögl
orcid: 0000-0002-5621-8100
- first_name: Lukas W
full_name: Bauer, Lukas W
id: 0c894dcf-897b-11ed-a09c-8186353224b0
last_name: Bauer
- first_name: Victor-Valentin
full_name: Hodirnau, Victor-Valentin
id: 3661B498-F248-11E8-B48F-1D18A9856A87
last_name: Hodirnau
- first_name: Florian KM
full_name: Schur, Florian KM
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
citation:
ama: Datler J, Hansen J, Thader A, et al. Multi-modal cryo-EM reveals trimers of
protein A10 to form the palisade layer in poxvirus cores. Nature Structural
& Molecular Biology. 2024. doi:10.1038/s41594-023-01201-6
apa: Datler, J., Hansen, J., Thader, A., Schlögl, A., Bauer, L. W., Hodirnau, V.-V.,
& Schur, F. K. (2024). Multi-modal cryo-EM reveals trimers of protein A10
to form the palisade layer in poxvirus cores. Nature Structural & Molecular
Biology. Springer Nature. https://doi.org/10.1038/s41594-023-01201-6
chicago: Datler, Julia, Jesse Hansen, Andreas Thader, Alois Schlögl, Lukas W Bauer,
Victor-Valentin Hodirnau, and Florian KM Schur. “Multi-Modal Cryo-EM Reveals Trimers
of Protein A10 to Form the Palisade Layer in Poxvirus Cores.” Nature Structural
& Molecular Biology. Springer Nature, 2024. https://doi.org/10.1038/s41594-023-01201-6.
ieee: J. Datler et al., “Multi-modal cryo-EM reveals trimers of protein A10
to form the palisade layer in poxvirus cores,” Nature Structural & Molecular
Biology. Springer Nature, 2024.
ista: Datler J, Hansen J, Thader A, Schlögl A, Bauer LW, Hodirnau V-V, Schur FK.
2024. Multi-modal cryo-EM reveals trimers of protein A10 to form the palisade
layer in poxvirus cores. Nature Structural & Molecular Biology.
mla: Datler, Julia, et al. “Multi-Modal Cryo-EM Reveals Trimers of Protein A10 to
Form the Palisade Layer in Poxvirus Cores.” Nature Structural & Molecular
Biology, Springer Nature, 2024, doi:10.1038/s41594-023-01201-6.
short: J. Datler, J. Hansen, A. Thader, A. Schlögl, L.W. Bauer, V.-V. Hodirnau,
F.K. Schur, Nature Structural & Molecular Biology (2024).
date_created: 2024-02-12T09:59:45Z
date_published: 2024-02-05T00:00:00Z
date_updated: 2024-03-05T09:27:47Z
day: '05'
ddc:
- '570'
department:
- _id: FlSc
- _id: ScienComp
- _id: EM-Fac
doi: 10.1038/s41594-023-01201-6
external_id:
pmid:
- '38316877'
has_accepted_license: '1'
keyword:
- Molecular Biology
- Structural Biology
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/s41594-023-01201-6
month: '02'
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: Nature Structural & Molecular Biology
publication_identifier:
eissn:
- 1545-9985
issn:
- 1545-9993
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/down-to-the-core-of-poxviruses/
status: public
title: Multi-modal cryo-EM reveals trimers of protein A10 to form the palisade layer
in poxvirus cores
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: '2024'
...
---
_id: '14846'
abstract:
- lang: eng
text: Contraction and flow of the actin cell cortex have emerged as a common principle
by which cells reorganize their cytoplasm and take shape. However, how these cortical
flows interact with adjacent cytoplasmic components, changing their form and localization,
and how this affects cytoplasmic organization and cell shape remains unclear.
Here we show that in ascidian oocytes, the cooperative activities of cortical
actomyosin flows and deformation of the adjacent mitochondria-rich myoplasm drive
oocyte cytoplasmic reorganization and shape changes following fertilization. We
show that vegetal-directed cortical actomyosin flows, established upon oocyte
fertilization, lead to both the accumulation of cortical actin at the vegetal
pole of the zygote and compression and local buckling of the adjacent elastic
solid-like myoplasm layer due to friction forces generated at their interface.
Once cortical flows have ceased, the multiple myoplasm buckles resolve into one
larger buckle, which again drives the formation of the contraction pole—a protuberance
of the zygote’s vegetal pole where maternal mRNAs accumulate. Thus, our findings
reveal a mechanism where cortical actomyosin network flows determine cytoplasmic
reorganization and cell shape by deforming adjacent cytoplasmic components through
friction forces.
acknowledged_ssus:
- _id: EM-Fac
- _id: Bio
- _id: NanoFab
acknowledgement: We would like to thank A. McDougall, E. Hannezo and the Heisenberg
lab for fruitful discussions and reagents. We also thank E. Munro for the iMyo-YFP
and Bra>iMyo-mScarlet constructs. This research was supported by the Scientific
Service Units of the Institute of Science and Technology Austria through resources
provided by the Electron Microscopy Facility, Imaging and Optics Facility and the
Nanofabrication Facility. This work was supported by a Joint Project Grant from
the FWF (I 3601-B27).
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Silvia
full_name: Caballero Mancebo, Silvia
id: 2F1E1758-F248-11E8-B48F-1D18A9856A87
last_name: Caballero Mancebo
orcid: 0000-0002-5223-3346
- first_name: Rushikesh
full_name: Shinde, Rushikesh
last_name: Shinde
- first_name: Madison
full_name: Bolger-Munro, Madison
id: 516F03FA-93A3-11EA-A7C5-D6BE3DDC885E
last_name: Bolger-Munro
orcid: 0000-0002-8176-4824
- first_name: Matilda
full_name: Peruzzo, Matilda
id: 3F920B30-F248-11E8-B48F-1D18A9856A87
last_name: Peruzzo
orcid: 0000-0002-3415-4628
- first_name: Gregory
full_name: Szep, Gregory
id: 4BFB7762-F248-11E8-B48F-1D18A9856A87
last_name: Szep
- first_name: Irene
full_name: Steccari, Irene
id: 2705C766-9FE2-11EA-B224-C6773DDC885E
last_name: Steccari
- first_name: David
full_name: Labrousse Arias, David
id: CD573DF4-9ED3-11E9-9D77-3223E6697425
last_name: Labrousse Arias
- first_name: Vanessa
full_name: Zheden, Vanessa
id: 39C5A68A-F248-11E8-B48F-1D18A9856A87
last_name: Zheden
orcid: 0000-0002-9438-4783
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Andrew
full_name: Callan-Jones, Andrew
last_name: Callan-Jones
- first_name: Raphaël
full_name: Voituriez, Raphaël
last_name: Voituriez
- 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
citation:
ama: Caballero Mancebo S, Shinde R, Bolger-Munro M, et al. Friction forces determine
cytoplasmic reorganization and shape changes of ascidian oocytes upon fertilization.
Nature Physics. 2024. doi:10.1038/s41567-023-02302-1
apa: Caballero Mancebo, S., Shinde, R., Bolger-Munro, M., Peruzzo, M., Szep, G.,
Steccari, I., … Heisenberg, C.-P. J. (2024). Friction forces determine cytoplasmic
reorganization and shape changes of ascidian oocytes upon fertilization. Nature
Physics. Springer Nature. https://doi.org/10.1038/s41567-023-02302-1
chicago: Caballero Mancebo, Silvia, Rushikesh Shinde, Madison Bolger-Munro, Matilda
Peruzzo, Gregory Szep, Irene Steccari, David Labrousse Arias, et al. “Friction
Forces Determine Cytoplasmic Reorganization and Shape Changes of Ascidian Oocytes
upon Fertilization.” Nature Physics. Springer Nature, 2024. https://doi.org/10.1038/s41567-023-02302-1.
ieee: S. Caballero Mancebo et al., “Friction forces determine cytoplasmic
reorganization and shape changes of ascidian oocytes upon fertilization,” Nature
Physics. Springer Nature, 2024.
ista: Caballero Mancebo S, Shinde R, Bolger-Munro M, Peruzzo M, Szep G, Steccari
I, Labrousse Arias D, Zheden V, Merrin J, Callan-Jones A, Voituriez R, Heisenberg
C-PJ. 2024. Friction forces determine cytoplasmic reorganization and shape changes
of ascidian oocytes upon fertilization. Nature Physics.
mla: Caballero Mancebo, Silvia, et al. “Friction Forces Determine Cytoplasmic Reorganization
and Shape Changes of Ascidian Oocytes upon Fertilization.” Nature Physics,
Springer Nature, 2024, doi:10.1038/s41567-023-02302-1.
short: S. Caballero Mancebo, R. Shinde, M. Bolger-Munro, M. Peruzzo, G. Szep, I.
Steccari, D. Labrousse Arias, V. Zheden, J. Merrin, A. Callan-Jones, R. Voituriez,
C.-P.J. Heisenberg, Nature Physics (2024).
date_created: 2024-01-21T23:00:57Z
date_published: 2024-01-09T00:00:00Z
date_updated: 2024-03-05T09:33:38Z
day: '09'
department:
- _id: CaHe
- _id: JoFi
- _id: MiSi
- _id: EM-Fac
- _id: NanoFab
doi: 10.1038/s41567-023-02302-1
has_accepted_license: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/s41567-023-02302-1
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 2646861A-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03601
name: Control of embryonic cleavage pattern
publication: Nature Physics
publication_identifier:
eissn:
- 1745-2481
issn:
- 1745-2473
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/stranger-than-friction-a-force-initiating-life/
scopus_import: '1'
status: public
title: Friction forces determine cytoplasmic reorganization and shape changes of ascidian
oocytes upon fertilization
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: '2024'
...
---
_id: '14796'
abstract:
- lang: eng
text: Key innovations are fundamental to biological diversification, but their genetic
basis is poorly understood. A recent transition from egg-laying to live-bearing
in marine snails (Littorina spp.) provides the opportunity to study the genetic
architecture of an innovation that has evolved repeatedly across animals. Individuals
do not cluster by reproductive mode in a genome-wide phylogeny, but local genealogical
analysis revealed numerous small genomic regions where all live-bearers carry
the same core haplotype. Candidate regions show evidence for live-bearer–specific
positive selection and are enriched for genes that are differentially expressed
between egg-laying and live-bearing reproductive systems. Ages of selective sweeps
suggest that live-bearer–specific alleles accumulated over more than 200,000 generations.
Our results suggest that new functions evolve through the recruitment of many
alleles rather than in a single evolutionary step.
acknowledgement: "We thank J. Galindo, M. Montaño-Rendón, N. Mikhailova, A. Blakeslee,
E. Arnason, and P. Kemppainen for providing samples; R. Turney, G. Sotelo, J. Larsson,
T. Broquet, and S. Loisel for help collecting samples; Science Animated for providing
the snail cartoons shown in Fig. 1; M. Dunning for help in developing bioinformatic
pipelines; R. Faria, H. Morales, and V. Sousa for advice; and M. Hahn, J. Slate,
M. Ravinet, J. Raeymaekers, A. Comeault, and N. Barton for feedback on a draft manuscript.\r\nThis
work was supported by the Natural Environment Research Council (grant NE/P001610/1
to R.K.B.), the European Research Council (grant ERC-2015-AdG693030-BARRIERS to
R.K.B.), the Norwegian Research Council (RCN Project 315287 to A.M.W.), and the
Swedish Research Council (grant 2020-05385 to E.L.)."
article_processing_charge: No
article_type: original
author:
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Zuzanna B.
full_name: Zagrodzka, Zuzanna B.
last_name: Zagrodzka
- first_name: Martin D.
full_name: Garlovsky, Martin D.
last_name: Garlovsky
- first_name: Arka
full_name: Pal, Arka
id: 6AAB2240-CA9A-11E9-9C1A-D9D1E5697425
last_name: Pal
orcid: 0000-0002-4530-8469
- first_name: Daria
full_name: Shipilina, Daria
id: 428A94B0-F248-11E8-B48F-1D18A9856A87
last_name: Shipilina
orcid: 0000-0002-1145-9226
- first_name: Diego Fernando
full_name: Garcia Castillo, Diego Fernando
id: ae681a14-dc74-11ea-a0a7-c6ef18161701
last_name: Garcia Castillo
- first_name: Hila
full_name: Lifchitz, Hila
id: d6ab5470-2fb3-11ed-8633-986a9b84edac
last_name: Lifchitz
- first_name: Alan
full_name: Le Moan, Alan
last_name: Le Moan
- first_name: Erica
full_name: Leder, Erica
last_name: Leder
- first_name: James
full_name: Reeve, James
last_name: Reeve
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- 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: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
citation:
ama: Stankowski S, Zagrodzka ZB, Garlovsky MD, et al. The genetic basis of a recent
transition to live-bearing in marine snails. Science. 2024;383(6678):114-119.
doi:10.1126/science.adi2982
apa: Stankowski, S., Zagrodzka, Z. B., Garlovsky, M. D., Pal, A., Shipilina, D.,
Garcia Castillo, D. F., … Butlin, R. K. (2024). The genetic basis of a recent
transition to live-bearing in marine snails. Science. American Association
for the Advancement of Science. https://doi.org/10.1126/science.adi2982
chicago: Stankowski, Sean, Zuzanna B. Zagrodzka, Martin D. Garlovsky, Arka Pal,
Daria Shipilina, Diego Fernando Garcia Castillo, Hila Lifchitz, et al. “The Genetic
Basis of a Recent Transition to Live-Bearing in Marine Snails.” Science.
American Association for the Advancement of Science, 2024. https://doi.org/10.1126/science.adi2982.
ieee: S. Stankowski et al., “The genetic basis of a recent transition to
live-bearing in marine snails,” Science, vol. 383, no. 6678. American Association
for the Advancement of Science, pp. 114–119, 2024.
ista: Stankowski S, Zagrodzka ZB, Garlovsky MD, Pal A, Shipilina D, Garcia Castillo
DF, Lifchitz H, Le Moan A, Leder E, Reeve J, Johannesson K, Westram AM, Butlin
RK. 2024. The genetic basis of a recent transition to live-bearing in marine snails.
Science. 383(6678), 114–119.
mla: Stankowski, Sean, et al. “The Genetic Basis of a Recent Transition to Live-Bearing
in Marine Snails.” Science, vol. 383, no. 6678, American Association for
the Advancement of Science, 2024, pp. 114–19, doi:10.1126/science.adi2982.
short: S. Stankowski, Z.B. Zagrodzka, M.D. Garlovsky, A. Pal, D. Shipilina, D.F.
Garcia Castillo, H. Lifchitz, A. Le Moan, E. Leder, J. Reeve, K. Johannesson,
A.M. Westram, R.K. Butlin, Science 383 (2024) 114–119.
date_created: 2024-01-14T23:00:56Z
date_published: 2024-01-05T00:00:00Z
date_updated: 2024-03-05T09:35:25Z
day: '05'
department:
- _id: NiBa
- _id: GradSch
doi: 10.1126/science.adi2982
external_id:
pmid:
- '38175895'
intvolume: ' 383'
issue: '6678'
language:
- iso: eng
month: '01'
oa_version: None
page: 114-119
pmid: 1
publication: Science
publication_identifier:
eissn:
- 1095-9203
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/the-snail-or-the-egg/
record:
- id: '14812'
relation: research_data
status: public
scopus_import: '1'
status: public
title: The genetic basis of a recent transition to live-bearing in marine snails
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 383
year: '2024'
...
---
_id: '15020'
abstract:
- lang: eng
text: "This thesis consists of four distinct pieces of work within theoretical biology,
with two themes in common: the concept of optimization in biological systems,
and the use of information-theoretic tools to quantify biological stochasticity
and statistical uncertainty.\r\nChapter 2 develops a statistical framework for
studying biological systems which we believe to be optimized for a particular
utility function, such as retinal neurons conveying information about visual stimuli.
We formalize such beliefs as maximum-entropy Bayesian priors, constrained by the
expected utility. We explore how such priors aid inference of system parameters
with limited data and enable optimality hypothesis testing: is the utility higher
than by chance?\r\nChapter 3 examines the ultimate biological optimization process:
evolution by natural selection. As some individuals survive and reproduce more
successfully than others, populations evolve towards fitter genotypes and phenotypes.
We formalize this as accumulation of genetic information, and use population genetics
theory to study how much such information can be accumulated per generation and
maintained in the face of random mutation and genetic drift. We identify the population
size and fitness variance as the key quantities that control information accumulation
and maintenance.\r\nChapter 4 reuses the concept of genetic information from Chapter
3, but from a different perspective: we ask how much genetic information organisms
actually need, in particular in the context of gene regulation. For example, how
much information is needed to bind transcription factors at correct locations
within the genome? Population genetics provides us with a refined answer: with
an increasing population size, populations achieve higher fitness by maintaining
more genetic information. Moreover, regulatory parameters experience selection
pressure to optimize the fitness-information trade-off, i.e. minimize the information
needed for a given fitness. This provides an evolutionary derivation of the optimization
priors introduced in Chapter 2.\r\nChapter 5 proves an upper bound on mutual information
between a signal and a communication channel output (such as neural activity).
Mutual information is an important utility measure for biological systems, but
its practical use can be difficult due to the large dimensionality of many biological
channels. Sometimes, a lower bound on mutual information is computed by replacing
the high-dimensional channel outputs with decodes (signal estimates). Our result
provides a corresponding upper bound, provided that the decodes are the maximum
posterior estimates of the signal."
acknowledged_ssus:
- _id: ScienComp
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Michal
full_name: Hledik, Michal
id: 4171253A-F248-11E8-B48F-1D18A9856A87
last_name: Hledik
citation:
ama: Hledik M. Genetic information and biological optimization. 2024. doi:10.15479/at:ista:15020
apa: Hledik, M. (2024). Genetic information and biological optimization.
Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:15020
chicago: Hledik, Michal. “Genetic Information and Biological Optimization.” Institute
of Science and Technology Austria, 2024. https://doi.org/10.15479/at:ista:15020.
ieee: M. Hledik, “Genetic information and biological optimization,” Institute of
Science and Technology Austria, 2024.
ista: Hledik M. 2024. Genetic information and biological optimization. Institute
of Science and Technology Austria.
mla: Hledik, Michal. Genetic Information and Biological Optimization. Institute
of Science and Technology Austria, 2024, doi:10.15479/at:ista:15020.
short: M. Hledik, Genetic Information and Biological Optimization, Institute of
Science and Technology Austria, 2024.
date_created: 2024-02-23T14:02:04Z
date_published: 2024-02-23T00:00:00Z
date_updated: 2024-03-06T14:22:52Z
day: '23'
ddc:
- '576'
- '519'
degree_awarded: PhD
department:
- _id: GradSch
- _id: NiBa
- _id: GaTk
doi: 10.15479/at:ista:15020
ec_funded: 1
file:
- access_level: open_access
checksum: b2d3da47c98d481577a4baf68944fe41
content_type: application/pdf
creator: mhledik
date_created: 2024-02-23T13:50:53Z
date_updated: 2024-02-23T13:50:53Z
file_id: '15021'
file_name: hledik thesis pdfa 2b.pdf
file_size: 7102089
relation: main_file
success: 1
- access_level: closed
checksum: eda9b9430da2610fee7ce1c1419a479a
content_type: application/zip
creator: mhledik
date_created: 2024-02-23T13:50:54Z
date_updated: 2024-02-23T14:20:16Z
file_id: '15022'
file_name: hledik thesis source.zip
file_size: 14014790
relation: source_file
file_date_updated: 2024-02-23T14:20:16Z
has_accepted_license: '1'
keyword:
- Theoretical biology
- Optimality
- Evolution
- Information
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: '158'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: 2665AAFE-B435-11E9-9278-68D0E5697425
grant_number: RGP0034/2018
name: Can evolution minimize spurious signaling crosstalk to reach optimal performance?
- _id: bd6958e0-d553-11ed-ba76-86eba6a76c00
grant_number: '101055327'
name: Understanding the evolution of continuous genomes
publication_identifier:
issn:
- 2663 - 337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '7553'
relation: part_of_dissertation
status: public
- id: '12081'
relation: part_of_dissertation
status: public
- id: '7606'
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
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
title: Genetic information and biological optimization
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2024'
...
---
_id: '14842'
abstract:
- lang: eng
text: Eva Benkova received a PhD in Biophysics at the Institute of Biophysics of
the Czech Academy of Sciences in 1998. After working as a postdoc at the Max Planck
Institute in Cologne and the Center for Plant Molecular Biology (ZMBP) in Tübingen,
she became a group leader at the Plant Systems Biology Department of the Vlaams
Instituut voor Biotechnologie (VIB) in Gent. In 2012, she transitioned to an Assistant
Professor position at the Institute of Science and Technology Austria (ISTA) where
she was later promoted to Professor. Since 2021, she has served as the Dean of
the ISTA Graduate School. As a plant developmental biologist, she focuses on unraveling
the molecular mechanisms and principles that underlie hormonal interactions in
plants. In her current work, she explores the intricate connections between hormones
and regulatory pathways that mediate the perception of environmental stimuli,
including abiotic stress and nitrate availability.
article_processing_charge: No
author:
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
citation:
ama: Benková E. Eva Benkova. Vol 34. Elsevier; 2024:R3-R5. doi:10.1016/j.cub.2023.11.039
apa: Benková, E. (2024). Eva Benkova. Current Biology (Vol. 34, pp.
R3–R5). Elsevier. https://doi.org/10.1016/j.cub.2023.11.039
chicago: Benková, Eva. Eva Benkova. Current Biology. Vol. 34. Elsevier,
2024. https://doi.org/10.1016/j.cub.2023.11.039.
ieee: E. Benková, Eva Benkova, vol. 34, no. 1. Elsevier, 2024, pp. R3–R5.
ista: Benková E. 2024. Eva Benkova, Elsevier,p.
mla: Benková, Eva. “Eva Benkova.” Current Biology, vol. 34, no. 1, Elsevier,
2024, pp. R3–5, doi:10.1016/j.cub.2023.11.039.
short: E. Benková, Eva Benkova, Elsevier, 2024.
date_created: 2024-01-21T23:00:56Z
date_published: 2024-01-08T00:00:00Z
date_updated: 2024-03-12T12:19:12Z
day: '08'
department:
- _id: EvBe
doi: 10.1016/j.cub.2023.11.039
intvolume: ' 34'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.cub.2023.11.039
month: '01'
oa: 1
oa_version: Published Version
page: R3-R5
publication: Current Biology
publication_identifier:
eissn:
- 1879-0445
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Eva Benkova
type: other_academic_publication
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 34
year: '2024'
...
---
_id: '15084'
abstract:
- lang: eng
text: "GABAB receptor (GBR) activation inhibits neurotransmitter release in axon
terminals in the brain, except in medial habenula (MHb) terminals, which show
robust potentiation. However, mechanisms underlying this enigmatic potentiation
remain elusive. Here, we report that GBR activation on MHb terminals induces an
activity-dependent transition from a facilitating, tonic to a depressing, phasic
neurotransmitter release mode. This transition is accompanied by a 4.1-fold increase
in readily releasable vesicle pool (RRP) size and a 3.5-fold increase of docked
synaptic vesicles (SVs) at the presynaptic active zone (AZ). Strikingly, the depressing
phasic release exhibits looser coupling distance than the tonic release. Furthermore,
the tonic and phasic release are selectively affected by deletion of synaptoporin
(SPO) and Ca\r\n 2+\r\n -dependent
activator protein for secretion 2 (CAPS2), respectively. SPO modulates augmentation,
the short-term plasticity associated with tonic release, and CAPS2 retains the
increased RRP for initial responses in phasic response trains. The cytosolic protein
CAPS2 showed a SV-associated distribution similar to the vesicular transmembrane
protein SPO, and they were colocalized in the same terminals. We developed the
“Flash and Freeze-fracture” method, and revealed the release of SPO-associated
vesicles in both tonic and phasic modes and activity-dependent recruitment of
CAPS2 to the AZ during phasic release, which lasted several minutes. Overall,
these results indicate that GBR activation translocates CAPS2 to the AZ along
with the fusion of CAPS2-associated SVs, contributing to persistency of the RRP
increase. Thus, we identified structural and molecular mechanisms underlying tonic
and phasic neurotransmitter release and their transition by GBR activation in
MHb terminals."
acknowledged_ssus:
- _id: M-Shop
- _id: PreCl
- _id: EM-Fac
acknowledgement: We thank Erwin Neher and Ipe Ninan for critical comments on the manuscript.
This project has received funding from the European Research Council (ERC) and European
Commission, under the European Union’s Horizon 2020 research and innovation program
(ERC grant agreement no. 694539 to R.S. and the Marie Skłodowska-Curie grant agreement
no. 665385 to C.Ö.). This study was supported by the Cooperative Study Program of
Center for Animal Resources and Collaborative Study of NINS. We thank Kohgaku Eguchi
for statistical analysis, Yu Kasugai for additional EM imaging, Robert Beattie for
the design of the slice recovery chamber for Flash and Freeze experiments, Todor
Asenov from the ISTA machine shop for custom part preparations for high-pressure
freezing, the ISTA preclinical facility for animal caretaking, and the ISTA EM facilities
for technical support.
article_number: e2301449121
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Peter
full_name: Koppensteiner, Peter
id: 3B8B25A8-F248-11E8-B48F-1D18A9856A87
last_name: Koppensteiner
orcid: 0000-0002-3509-1948
- first_name: Pradeep
full_name: Bhandari, Pradeep
id: 45EDD1BC-F248-11E8-B48F-1D18A9856A87
last_name: Bhandari
orcid: 0000-0003-0863-4481
- first_name: Hüseyin C
full_name: Önal, Hüseyin C
id: 4659D740-F248-11E8-B48F-1D18A9856A87
last_name: Önal
orcid: 0000-0002-2771-2011
- first_name: Carolina
full_name: Borges Merjane, Carolina
id: 4305C450-F248-11E8-B48F-1D18A9856A87
last_name: Borges Merjane
orcid: 0000-0003-0005-401X
- first_name: Elodie
full_name: Le Monnier, Elodie
id: 3B59276A-F248-11E8-B48F-1D18A9856A87
last_name: Le Monnier
- first_name: Utsa
full_name: Roy, Utsa
id: 4d26cf11-5355-11ee-ae5a-eb05e255b9b2
last_name: Roy
- first_name: Yukihiro
full_name: Nakamura, Yukihiro
last_name: Nakamura
- first_name: Tetsushi
full_name: Sadakata, Tetsushi
last_name: Sadakata
- first_name: Makoto
full_name: Sanbo, Makoto
last_name: Sanbo
- first_name: Masumi
full_name: Hirabayashi, Masumi
last_name: Hirabayashi
- first_name: JeongSeop
full_name: Rhee, JeongSeop
last_name: Rhee
- first_name: Nils
full_name: Brose, Nils
last_name: Brose
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
citation:
ama: Koppensteiner P, Bhandari P, Önal C, et al. GABAB receptors induce phasic release
from medial habenula terminals through activity-dependent recruitment of release-ready
vesicles. Proceedings of the National Academy of Sciences. 2024;121(8).
doi:10.1073/pnas.2301449121
apa: Koppensteiner, P., Bhandari, P., Önal, C., Borges Merjane, C., Le Monnier,
E., Roy, U., … Shigemoto, R. (2024). GABAB receptors induce phasic release from
medial habenula terminals through activity-dependent recruitment of release-ready
vesicles. Proceedings of the National Academy of Sciences. Proceedings
of the National Academy of Sciences. https://doi.org/10.1073/pnas.2301449121
chicago: Koppensteiner, Peter, Pradeep Bhandari, Cihan Önal, Carolina Borges Merjane,
Elodie Le Monnier, Utsa Roy, Yukihiro Nakamura, et al. “GABAB Receptors Induce
Phasic Release from Medial Habenula Terminals through Activity-Dependent Recruitment
of Release-Ready Vesicles.” Proceedings of the National Academy of Sciences.
Proceedings of the National Academy of Sciences, 2024. https://doi.org/10.1073/pnas.2301449121.
ieee: P. Koppensteiner et al., “GABAB receptors induce phasic release from
medial habenula terminals through activity-dependent recruitment of release-ready
vesicles,” Proceedings of the National Academy of Sciences, vol. 121, no.
8. Proceedings of the National Academy of Sciences, 2024.
ista: Koppensteiner P, Bhandari P, Önal C, Borges Merjane C, Le Monnier E, Roy U,
Nakamura Y, Sadakata T, Sanbo M, Hirabayashi M, Rhee J, Brose N, Jonas PM, Shigemoto
R. 2024. GABAB receptors induce phasic release from medial habenula terminals
through activity-dependent recruitment of release-ready vesicles. Proceedings
of the National Academy of Sciences. 121(8), e2301449121.
mla: Koppensteiner, Peter, et al. “GABAB Receptors Induce Phasic Release from Medial
Habenula Terminals through Activity-Dependent Recruitment of Release-Ready Vesicles.”
Proceedings of the National Academy of Sciences, vol. 121, no. 8, e2301449121,
Proceedings of the National Academy of Sciences, 2024, doi:10.1073/pnas.2301449121.
short: P. Koppensteiner, P. Bhandari, C. Önal, C. Borges Merjane, E. Le Monnier,
U. Roy, Y. Nakamura, T. Sadakata, M. Sanbo, M. Hirabayashi, J. Rhee, N. Brose,
P.M. Jonas, R. Shigemoto, Proceedings of the National Academy of Sciences 121
(2024).
date_created: 2024-03-05T09:23:55Z
date_published: 2024-02-20T00:00:00Z
date_updated: 2024-03-12T13:44:18Z
day: '20'
ddc:
- '570'
department:
- _id: RySh
- _id: PeJo
doi: 10.1073/pnas.2301449121
ec_funded: 1
external_id:
pmid:
- '38346189'
file:
- access_level: open_access
checksum: b25b2a057c266ff317a48b0d54d6fc8a
content_type: application/pdf
creator: dernst
date_created: 2024-03-12T13:42:42Z
date_updated: 2024-03-12T13:42:42Z
file_id: '15110'
file_name: 2024_PNAS_Koppensteiner.pdf
file_size: 13648221
relation: main_file
success: 1
file_date_updated: 2024-03-12T13:42:42Z
has_accepted_license: '1'
intvolume: ' 121'
issue: '8'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25CA28EA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694539'
name: 'In situ analysis of single channel subunit composition in neurons: physiological
implication in synaptic plasticity and behaviour'
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/neuronal-insights-flash-and-freeze-fracture/
record:
- id: '13173'
relation: research_data
status: public
status: public
title: GABAB receptors induce phasic release from medial habenula terminals through
activity-dependent recruitment of release-ready vesicles
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: 121
year: '2024'
...
---
_id: '15083'
abstract:
- lang: eng
text: 'Direct reciprocity is a powerful mechanism for cooperation in social
dilemmas. The very logic of reciprocity, however, seems to require that individuals
are symmetric, and that everyone has the same means to influence each others’
payoffs. Yet in many applications, individuals are asymmetric. Herein, we study
the effect of asymmetry in linear public good games. Individuals may differ in
their endowments (their ability to contribute to a public good) and in their productivities
(how effective their contributions are). Given the individuals’ productivities,
we ask which allocation of endowments is optimal for cooperation. To this end,
we consider two notions of optimality. The first notion focuses on the resilience
of cooperation. The respective endowment distribution ensures that full cooperation
is feasible even under the most adverse conditions. The second notion focuses
on efficiency. The corresponding endowment distribution maximizes group welfare.
Using analytical methods, we fully characterize these two endowment distributions.
This analysis reveals that both optimality notions favor some endowment inequality:
More productive players ought to get higher endowments. Yet the two notions disagree
on how unequal endowments are supposed to be. A focus on resilience results in
less inequality. With additional simulations, we show that the optimal endowment
allocation needs to account for both the resilience and the efficiency of cooperation.'
acknowledgement: 'This work was supported by the European Research Council CoG 863818
(ForM-SMArt) (to K.C.) and 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 Skłodowska-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: e2315558121
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Valentin
full_name: Hübner, Valentin
id: 2c8aa207-dc7d-11ea-9b2f-f22972ecd910
last_name: Hübner
- first_name: Manuel
full_name: Staab, Manuel
last_name: Staab
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Maria
full_name: Kleshnina, Maria
last_name: Kleshnina
citation:
ama: Hübner V, Staab M, Hilbe C, Chatterjee K, Kleshnina M. Efficiency and resilience
of cooperation in asymmetric social dilemmas. Proceedings of the National Academy
of Sciences. 2024;121(10). doi:10.1073/pnas.2315558121
apa: Hübner, V., Staab, M., Hilbe, C., Chatterjee, K., & Kleshnina, M. (2024).
Efficiency and resilience of cooperation in asymmetric social dilemmas. Proceedings
of the National Academy of Sciences. Proceedings of the National Academy of
Sciences. https://doi.org/10.1073/pnas.2315558121
chicago: Hübner, Valentin, Manuel Staab, Christian Hilbe, Krishnendu Chatterjee,
and Maria Kleshnina. “Efficiency and Resilience of Cooperation in Asymmetric Social
Dilemmas.” Proceedings of the National Academy of Sciences. Proceedings
of the National Academy of Sciences, 2024. https://doi.org/10.1073/pnas.2315558121.
ieee: V. Hübner, M. Staab, C. Hilbe, K. Chatterjee, and M. Kleshnina, “Efficiency
and resilience of cooperation in asymmetric social dilemmas,” Proceedings of
the National Academy of Sciences, vol. 121, no. 10. Proceedings of the National
Academy of Sciences, 2024.
ista: Hübner V, Staab M, Hilbe C, Chatterjee K, Kleshnina M. 2024. Efficiency and
resilience of cooperation in asymmetric social dilemmas. Proceedings of the National
Academy of Sciences. 121(10), e2315558121.
mla: Hübner, Valentin, et al. “Efficiency and Resilience of Cooperation in Asymmetric
Social Dilemmas.” Proceedings of the National Academy of Sciences, vol.
121, no. 10, e2315558121, Proceedings of the National Academy of Sciences, 2024,
doi:10.1073/pnas.2315558121.
short: V. Hübner, M. Staab, C. Hilbe, K. Chatterjee, M. Kleshnina, Proceedings of
the National Academy of Sciences 121 (2024).
date_created: 2024-03-05T09:18:49Z
date_published: 2024-03-05T00:00:00Z
date_updated: 2024-03-12T13:29:25Z
day: '05'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1073/pnas.2315558121
ec_funded: 1
external_id:
pmid:
- '38408249'
file:
- access_level: open_access
checksum: 068520e3efd4d008bb9177e8aedb7d22
content_type: application/pdf
creator: dernst
date_created: 2024-03-12T13:12:22Z
date_updated: 2024-03-12T13:12:22Z
file_id: '15109'
file_name: 2024_PNAS_Huebner.pdf
file_size: 2203220
relation: main_file
success: 1
file_date_updated: 2024-03-12T13:12:22Z
has_accepted_license: '1'
intvolume: ' 121'
issue: '10'
language:
- iso: eng
month: '03'
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: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/what-math-tells-us-about-social-dilemmas/
record:
- id: '15108'
relation: research_data
status: public
status: public
title: Efficiency and resilience of cooperation in asymmetric social dilemmas
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: 121
year: '2024'
...
---
_id: '15108'
abstract:
- lang: eng
text: "in the research article \"Efficiency and resilience of cooperation in asymmetric
social dilemmas\" (by Valentin Hübner, Manuel Staab, Christian Hilbe, Krishnendu
Chatterjee, and Maria Kleshnina).\r\n\r\nWe used different implementations for
the case of two and three players, both described below."
article_processing_charge: No
author:
- first_name: Valentin
full_name: Hübner, Valentin
id: 2c8aa207-dc7d-11ea-9b2f-f22972ecd910
last_name: Hübner
- first_name: Maria
full_name: Kleshnina, Maria
last_name: Kleshnina
citation:
ama: Hübner V, Kleshnina M. Computer code for “Efficiency and resilience of cooperation
in asymmetric social dilemmas.” 2024. doi:10.5281/ZENODO.10639167
apa: Hübner, V., & Kleshnina, M. (2024). Computer code for “Efficiency and resilience
of cooperation in asymmetric social dilemmas.” Zenodo. https://doi.org/10.5281/ZENODO.10639167
chicago: Hübner, Valentin, and Maria Kleshnina. “Computer Code for ‘Efficiency and
Resilience of Cooperation in Asymmetric Social Dilemmas.’” Zenodo, 2024. https://doi.org/10.5281/ZENODO.10639167.
ieee: V. Hübner and M. Kleshnina, “Computer code for ‘Efficiency and resilience
of cooperation in asymmetric social dilemmas.’” Zenodo, 2024.
ista: Hübner V, Kleshnina M. 2024. Computer code for ‘Efficiency and resilience
of cooperation in asymmetric social dilemmas’, Zenodo, 10.5281/ZENODO.10639167.
mla: Hübner, Valentin, and Maria Kleshnina. Computer Code for “Efficiency and
Resilience of Cooperation in Asymmetric Social Dilemmas.” Zenodo, 2024, doi:10.5281/ZENODO.10639167.
short: V. Hübner, M. Kleshnina, (2024).
date_created: 2024-03-12T13:02:58Z
date_published: 2024-02-09T00:00:00Z
date_updated: 2024-03-12T13:29:26Z
day: '09'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.5281/ZENODO.10639167
has_accepted_license: '1'
main_file_link:
- open_access: '1'
url: https://10.5281/zenodo.10639167
month: '02'
oa: 1
oa_version: Published Version
publisher: Zenodo
related_material:
record:
- id: '15083'
relation: used_in_publication
status: public
status: public
title: Computer code for "Efficiency and resilience of cooperation in asymmetric social
dilemmas"
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_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '15097'
abstract:
- lang: eng
text: Global storm-resolving models (GSRMs) use strongly refined horizontal grids
compared with the climate models typically used in the Coupled Model Intercomparison
Project (CMIP) but employ comparable vertical grid spacings. Here, we study how
changes in the vertical grid spacing and adjustments to the integration time step
affect the basic climate quantities simulated by the ICON-Sapphire atmospheric
GSRM. Simulations are performed over a 45 d period for five different vertical
grids with between 55 and 540 vertical layers and maximum tropospheric vertical
grid spacings of between 800 and 50 m, respectively. The effects of changes in
the vertical grid spacing are compared with the effects of reducing the horizontal
grid spacing from 5 to 2.5 km. For most of the quantities considered, halving
the vertical grid spacing has a smaller effect than halving the horizontal grid
spacing, but it is not negligible. Each halving of the vertical grid spacing,
along with the necessary reductions in time step length, increases cloud liquid
water by about 7 %, compared with an approximate 16 % decrease for halving the
horizontal grid spacing. The effect is due to both the vertical grid refinement
and the time step reduction. There is no tendency toward convergence in the range
of grid spacings tested here. The cloud ice amount also increases with a refinement
in the vertical grid, but it is hardly affected by the time step length and does
show a tendency to converge. While the effect on shortwave radiation is globally
dominated by the altered reflection due to the change in the cloud liquid water
content, the effect on longwave radiation is more difficult to interpret because
changes in the cloud ice concentration and cloud fraction are anticorrelated in
some regions. The simulations show that using a maximum tropospheric vertical
grid spacing larger than 400 m would increase the truncation error strongly. Computing
time investments in a further vertical grid refinement can affect the truncation
errors of GSRMs similarly to comparable investments in horizontal refinement,
because halving the vertical grid spacing is generally cheaper than halving the
horizontal grid spacing. However, convergence of boundary layer cloud properties
cannot be expected, even for the smallest maximum tropospheric grid spacing of
50 m used in this study.
acknowledgement: "The authors wish to thank Ann Kristin Naumann and three anonymous
reviewers for very helpful comments on an earlier version of this paper. We are
grateful to René Redler and Karl-Hermann Wieners for useful recommendations regarding
running the simulations. We thank Luis Kornblueh for providing an external vertical
grid generator and resolving the memory requirements for the very fine vertical
grids. We acknowledge Hauke Schulz for providing the radiosonde data. The simulations
were run at the German Climate Computing Center (DKRZ), and we thank the DKRZ staff
for their support.\r\nHauke Schmidt and Diego Jimenez-de la Cuesta received financial
support from the SOCTOC project within the framework of the ROMIC program, funded
by the German Ministry of Education and Research (BMBF) (grant no. 01LG1903A).\r\nThe
article processing charges for this open-access publication were covered by the
Max Planck Society."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Hauke
full_name: Schmidt, Hauke
last_name: Schmidt
- first_name: Sebastian
full_name: Rast, Sebastian
last_name: Rast
- first_name: Jiawei
full_name: Bao, Jiawei
id: bb9a7399-fefd-11ed-be3c-ae648fd1d160
last_name: Bao
- first_name: Amrit
full_name: Cassim, Amrit
last_name: Cassim
- first_name: Shih Wei
full_name: Fang, Shih Wei
last_name: Fang
- first_name: Diego
full_name: Jimenez-De La Cuesta, Diego
last_name: Jimenez-De La Cuesta
- first_name: Paul
full_name: Keil, Paul
last_name: Keil
- first_name: Lukas
full_name: Kluft, Lukas
last_name: Kluft
- first_name: Clarissa
full_name: Kroll, Clarissa
last_name: Kroll
- first_name: Theresa
full_name: Lang, Theresa
last_name: Lang
- first_name: Ulrike
full_name: Niemeier, Ulrike
last_name: Niemeier
- first_name: Andrea
full_name: Schneidereit, Andrea
last_name: Schneidereit
- first_name: Andrew I.L.
full_name: Williams, Andrew I.L.
last_name: Williams
- first_name: Bjorn
full_name: Stevens, Bjorn
last_name: Stevens
citation:
ama: Schmidt H, Rast S, Bao J, et al. Effects of vertical grid spacing on the climate
simulated in the ICON-Sapphire global storm-resolving model. Geoscientific
Model Development. 2024;17(4):1563-1584. doi:10.5194/gmd-17-1563-2024
apa: Schmidt, H., Rast, S., Bao, J., Cassim, A., Fang, S. W., Jimenez-De La Cuesta,
D., … Stevens, B. (2024). Effects of vertical grid spacing on the climate simulated
in the ICON-Sapphire global storm-resolving model. Geoscientific Model Development.
European Geosciences Union. https://doi.org/10.5194/gmd-17-1563-2024
chicago: Schmidt, Hauke, Sebastian Rast, Jiawei Bao, Amrit Cassim, Shih Wei Fang,
Diego Jimenez-De La Cuesta, Paul Keil, et al. “Effects of Vertical Grid Spacing
on the Climate Simulated in the ICON-Sapphire Global Storm-Resolving Model.” Geoscientific
Model Development. European Geosciences Union, 2024. https://doi.org/10.5194/gmd-17-1563-2024.
ieee: H. Schmidt et al., “Effects of vertical grid spacing on the climate
simulated in the ICON-Sapphire global storm-resolving model,” Geoscientific
Model Development, vol. 17, no. 4. European Geosciences Union, pp. 1563–1584,
2024.
ista: Schmidt H, Rast S, Bao J, Cassim A, Fang SW, Jimenez-De La Cuesta D, Keil
P, Kluft L, Kroll C, Lang T, Niemeier U, Schneidereit A, Williams AIL, Stevens
B. 2024. Effects of vertical grid spacing on the climate simulated in the ICON-Sapphire
global storm-resolving model. Geoscientific Model Development. 17(4), 1563–1584.
mla: Schmidt, Hauke, et al. “Effects of Vertical Grid Spacing on the Climate Simulated
in the ICON-Sapphire Global Storm-Resolving Model.” Geoscientific Model Development,
vol. 17, no. 4, European Geosciences Union, 2024, pp. 1563–84, doi:10.5194/gmd-17-1563-2024.
short: H. Schmidt, S. Rast, J. Bao, A. Cassim, S.W. Fang, D. Jimenez-De La Cuesta,
P. Keil, L. Kluft, C. Kroll, T. Lang, U. Niemeier, A. Schneidereit, A.I.L. Williams,
B. Stevens, Geoscientific Model Development 17 (2024) 1563–1584.
date_created: 2024-03-10T23:00:53Z
date_published: 2024-02-22T00:00:00Z
date_updated: 2024-03-13T09:01:20Z
day: '22'
ddc:
- '550'
department:
- _id: CaMu
doi: 10.5194/gmd-17-1563-2024
file:
- access_level: open_access
checksum: 270d2340402729b0532f7072ea914cae
content_type: application/pdf
creator: dernst
date_created: 2024-03-13T08:59:21Z
date_updated: 2024-03-13T08:59:21Z
file_id: '15111'
file_name: 2024_GeoscientificModelDev_Schmidt.pdf
file_size: 13364601
relation: main_file
success: 1
file_date_updated: 2024-03-13T08:59:21Z
has_accepted_license: '1'
intvolume: ' 17'
issue: '4'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 1563-1584
publication: Geoscientific Model Development
publication_identifier:
eissn:
- 1991-9603
issn:
- 1991-959X
publication_status: published
publisher: European Geosciences Union
quality_controlled: '1'
scopus_import: '1'
status: public
title: Effects of vertical grid spacing on the climate simulated in the ICON-Sapphire
global storm-resolving model
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: 17
year: '2024'
...
---
_id: '12311'
abstract:
- lang: eng
text: In this note, we prove a formula for the cancellation exponent kv,n between
division polynomials ψn and ϕn associated with a sequence {nP}n∈N of points
on an elliptic curve E defined over a discrete valuation field K. The formula
greatly generalizes the previously known special cases and treats also the case
of non-standard Kodaira types for non-perfect residue fields.
acknowledgement: Silverman, and Paul Voutier for the comments on the earlier version
of this paper. The first author acknowledges the support by Dioscuri programme initiated
by the Max Planck Society, jointly managed with the National Science Centre (Poland),
and mutually funded by the Polish Ministry of Science and Higher Education and the
German Federal Ministry of Education and Research. The second author has been supported
by MIUR (Italy) through PRIN 2017 ‘Geometric, algebraic and analytic methods in
arithmetic’ and 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: '2203.02015'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Bartosz
full_name: Naskręcki, Bartosz
last_name: Naskręcki
- first_name: Matteo
full_name: Verzobio, Matteo
id: 7aa8f170-131e-11ed-88e1-a9efd01027cb
last_name: Verzobio
orcid: 0000-0002-0854-0306
citation:
ama: 'Naskręcki B, Verzobio M. Common valuations of division polynomials. Proceedings
of the Royal Society of Edinburgh Section A: Mathematics. 2024. doi:10.1017/prm.2024.7'
apa: 'Naskręcki, B., & Verzobio, M. (2024). Common valuations of division polynomials.
Proceedings of the Royal Society of Edinburgh Section A: Mathematics. Cambridge
University Press. https://doi.org/10.1017/prm.2024.7'
chicago: 'Naskręcki, Bartosz, and Matteo Verzobio. “Common Valuations of Division
Polynomials.” Proceedings of the Royal Society of Edinburgh Section A: Mathematics.
Cambridge University Press, 2024. https://doi.org/10.1017/prm.2024.7.'
ieee: 'B. Naskręcki and M. Verzobio, “Common valuations of division polynomials,”
Proceedings of the Royal Society of Edinburgh Section A: Mathematics. Cambridge
University Press, 2024.'
ista: 'Naskręcki B, Verzobio M. 2024. Common valuations of division polynomials.
Proceedings of the Royal Society of Edinburgh Section A: Mathematics., 2203.02015.'
mla: 'Naskręcki, Bartosz, and Matteo Verzobio. “Common Valuations of Division Polynomials.”
Proceedings of the Royal Society of Edinburgh Section A: Mathematics, 2203.02015,
Cambridge University Press, 2024, doi:10.1017/prm.2024.7.'
short: 'B. Naskręcki, M. Verzobio, Proceedings of the Royal Society of Edinburgh
Section A: Mathematics (2024).'
date_created: 2023-01-16T11:45:22Z
date_published: 2024-02-26T00:00:00Z
date_updated: 2024-03-13T11:55:21Z
day: '26'
ddc:
- '510'
department:
- _id: TiBr
doi: 10.1017/prm.2024.7
ec_funded: 1
external_id:
arxiv:
- '2203.02015'
has_accepted_license: '1'
keyword:
- Elliptic curves
- Néron models
- division polynomials
- height functions
- discrete valuation rings
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1017/prm.2024.7
month: '02'
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: 'Proceedings of the Royal Society of Edinburgh Section A: Mathematics'
publication_identifier:
eissn:
- 1473-7124
issn:
- 0308-2105
publication_status: epub_ahead
publisher: Cambridge University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Common valuations of division polynomials
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: '2024'
...
---
_id: '15099'
abstract:
- lang: eng
text: Speciation is a key evolutionary process that is not yet fully understood.
Combining population genomic and ecological data from multiple diverging pairs
of marine snails (Littorina) supports the search for speciation mechanisms. Placing
pairs on a one-dimensional speciation continuum, from undifferentiated populations
to species, obscured the complexity of speciation. Adding multiple axes helped
to describe either speciation routes or reproductive isolation in the snails.
Divergent ecological selection repeatedly generated barriers between ecotypes,
but appeared less important in completing speciation while genetic incompatibilities
played a key role. Chromosomal inversions contributed to genomic barriers, but
with variable impact. A multidimensional (hypercube) approach supported framing
of questions and identification of knowledge gaps and can be useful to understand
speciation in many other systems.
acknowledgement: KJ, MR, and RKB were supported by grants from the Swedish Research
Council (2021-0419, 2021-05243, and 2018-03695, respectively). RKB was also supported
by the Leverhulme Trust (RPG-2021-141), RF by FCT- Portuguese Science Foundation
(PTDC/BIA-EVL/1614/2021 and 2020.00275.CEECIND), and AMW by Norwegian Research Council
RCN (Project number 315287). We thank the members of the Integration of Speciation
Research network for stimulating discussions, the Littorina research community for
important contributions of data and analyses, and Cynthia Riginos for useful comments
on an earlier draft.
article_processing_charge: Yes (in subscription journal)
article_type: review
author:
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
- first_name: Alan
full_name: Le Moan, Alan
last_name: Le Moan
- first_name: Marina
full_name: Rafajlović, Marina
last_name: Rafajlović
- 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: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
citation:
ama: Johannesson K, Faria R, Le Moan A, et al. Diverse pathways to speciation revealed
by marine snails. Trends in Genetics. 2024. doi:10.1016/j.tig.2024.01.002
apa: Johannesson, K., Faria, R., Le Moan, A., Rafajlović, M., Westram, A. M., Butlin,
R. K., & Stankowski, S. (2024). Diverse pathways to speciation revealed by
marine snails. Trends in Genetics. Cell Press. https://doi.org/10.1016/j.tig.2024.01.002
chicago: Johannesson, Kerstin, Rui Faria, Alan Le Moan, Marina Rafajlović, Anja
M Westram, Roger K. Butlin, and Sean Stankowski. “Diverse Pathways to Speciation
Revealed by Marine Snails.” Trends in Genetics. Cell Press, 2024. https://doi.org/10.1016/j.tig.2024.01.002.
ieee: K. Johannesson et al., “Diverse pathways to speciation revealed by
marine snails,” Trends in Genetics. Cell Press, 2024.
ista: Johannesson K, Faria R, Le Moan A, Rafajlović M, Westram AM, Butlin RK, Stankowski
S. 2024. Diverse pathways to speciation revealed by marine snails. Trends in Genetics.
mla: Johannesson, Kerstin, et al. “Diverse Pathways to Speciation Revealed by Marine
Snails.” Trends in Genetics, Cell Press, 2024, doi:10.1016/j.tig.2024.01.002.
short: K. Johannesson, R. Faria, A. Le Moan, M. Rafajlović, A.M. Westram, R.K. Butlin,
S. Stankowski, Trends in Genetics (2024).
date_created: 2024-03-10T23:00:54Z
date_published: 2024-02-22T00:00:00Z
date_updated: 2024-03-13T12:08:57Z
day: '22'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1016/j.tig.2024.01.002
external_id:
pmid:
- '38395682'
has_accepted_license: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.tig.2024.01.002
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
publication: Trends in Genetics
publication_identifier:
eissn:
- 1362-4555
issn:
- 0168-9525
publication_status: epub_ahead
publisher: Cell Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Diverse pathways to speciation revealed by marine snails
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: '2024'
...
---
_id: '15098'
abstract:
- lang: eng
text: The paper is devoted to the analysis of the global well-posedness and the
interior regularity of the 2D Navier–Stokes equations with inhomogeneous stochastic
boundary conditions. The noise, white in time and coloured in space, can be interpreted
as the physical law describing the driving mechanism on the atmosphere–ocean interface,
i.e. as a balance of the shear stress of the ocean and the horizontal wind force.
acknowledgement: The authors thank Professor Franco Flandoli for useful discussions
and valuable insight into the subject. In particular, A.A. would like to thank professor
Franco Flandoli for hosting and financially contributing to his research visit at
Scuola Normale di Pisa in January 2023, where this work started. E.L. would like
to express sincere gratitude to Professor Marco Fuhrman for igniting his interest
in this particular field of research. E.L. want to thank Professor Matthias Hieber
and Dr. Martin Saal for useful discussions. Finally, the authors thank the anonymous
referee for helpful comments which improved the paper from its initial version.Open
access funding provided by Scuola Normale Superiore within the CRUI-CARE Agreement.
A. Agresti has received funding from the European Research Council (ERC) under the
European Union’s Horizon 2020 research and innovation programme (Grant Agreement
No. 948819).
article_processing_charge: Yes (via OA deal)
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
- first_name: Eliseo
full_name: Luongo, Eliseo
last_name: Luongo
citation:
ama: Agresti A, Luongo E. Global well-posedness and interior regularity of 2D Navier-Stokes
equations with stochastic boundary conditions. Mathematische Annalen. 2024.
doi:10.1007/s00208-024-02812-0
apa: Agresti, A., & Luongo, E. (2024). Global well-posedness and interior regularity
of 2D Navier-Stokes equations with stochastic boundary conditions. Mathematische
Annalen. Springer Nature. https://doi.org/10.1007/s00208-024-02812-0
chicago: Agresti, Antonio, and Eliseo Luongo. “Global Well-Posedness and Interior
Regularity of 2D Navier-Stokes Equations with Stochastic Boundary Conditions.”
Mathematische Annalen. Springer Nature, 2024. https://doi.org/10.1007/s00208-024-02812-0.
ieee: A. Agresti and E. Luongo, “Global well-posedness and interior regularity of
2D Navier-Stokes equations with stochastic boundary conditions,” Mathematische
Annalen. Springer Nature, 2024.
ista: Agresti A, Luongo E. 2024. Global well-posedness and interior regularity of
2D Navier-Stokes equations with stochastic boundary conditions. Mathematische
Annalen.
mla: Agresti, Antonio, and Eliseo Luongo. “Global Well-Posedness and Interior Regularity
of 2D Navier-Stokes Equations with Stochastic Boundary Conditions.” Mathematische
Annalen, Springer Nature, 2024, doi:10.1007/s00208-024-02812-0.
short: A. Agresti, E. Luongo, Mathematische Annalen (2024).
date_created: 2024-03-10T23:00:54Z
date_published: 2024-02-27T00:00:00Z
date_updated: 2024-03-13T12:20:23Z
day: '27'
department:
- _id: JuFi
doi: 10.1007/s00208-024-02812-0
ec_funded: 1
external_id:
arxiv:
- '2306.11081'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1007/s00208-024-02812-0
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 0aa76401-070f-11eb-9043-b5bb049fa26d
call_identifier: H2020
grant_number: '948819'
name: Bridging Scales in Random Materials
publication: Mathematische Annalen
publication_identifier:
eissn:
- 1432-1807
issn:
- 0025-5831
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Global well-posedness and interior regularity of 2D Navier-Stokes equations
with stochastic boundary conditions
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '14843'
abstract:
- lang: eng
text: The coupling between Ca2+ channels and release sensors is a key factor defining
the signaling properties of a synapse. However, the coupling nanotopography at
many synapses remains unknown, and it is unclear how it changes during development.
To address these questions, we examined coupling at the cerebellar inhibitory
basket cell (BC)-Purkinje cell (PC) synapse. Biophysical analysis of transmission
by paired recording and intracellular pipette perfusion revealed that the effects
of exogenous Ca2+ chelators decreased during development, despite constant reliance
of release on P/Q-type Ca2+ channels. Structural analysis by freeze-fracture replica
labeling (FRL) and transmission electron microscopy (EM) indicated that presynaptic
P/Q-type Ca2+ channels formed nanoclusters throughout development, whereas docked
vesicles were only clustered at later developmental stages. Modeling suggested
a developmental transformation from a more random to a more clustered coupling
nanotopography. Thus, presynaptic signaling developmentally approaches a point-to-point
configuration, optimizing speed, reliability, and energy efficiency of synaptic
transmission.
acknowledged_ssus:
- _id: EM-Fac
- _id: PreCl
- _id: M-Shop
acknowledgement: We thank Drs. David DiGregorio and Erwin Neher for critically reading
an earlier version of the manuscript, Ralf Schneggenburger for helpful discussions,
Benjamin Suter and Katharina Lichter for support with image analysis, Chris Wojtan
for advice on numerical solution of partial differential equations, Maria Reva for
help with Ripley analysis, Alois Schlögl for programming, and Akari Hagiwara and
Toshihisa Ohtsuka for anti-ELKS antibody. We are grateful to Florian Marr, Christina
Altmutter, and Vanessa Zheden for excellent technical assistance and to Eleftheria
Kralli-Beller for manuscript editing. This research was supported by the Scientific
Services Units (SSUs) of ISTA (Electron Microscopy Facility, Preclinical Facility,
and Machine Shop). The project received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation program (grant
agreement no. 692692), the Fonds zur Förderung der Wissenschaftlichen Forschung
(Z 312-B27, Wittgenstein award; P 36232-B), all to P.J., and a DOC fellowship of
the Austrian Academy of Sciences to J.-J.C.
article_processing_charge: No
article_type: original
author:
- first_name: JingJing
full_name: Chen, JingJing
id: 2C4E65C8-F248-11E8-B48F-1D18A9856A87
last_name: Chen
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Chong
full_name: Chen, Chong
id: 3DFD581A-F248-11E8-B48F-1D18A9856A87
last_name: Chen
- first_name: Itaru
full_name: Arai, Itaru
id: 32A73F6C-F248-11E8-B48F-1D18A9856A87
last_name: Arai
- first_name: Olena
full_name: Kim, Olena
id: 3F8ABDDA-F248-11E8-B48F-1D18A9856A87
last_name: Kim
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
citation:
ama: Chen J, Kaufmann W, Chen C, et al. Developmental transformation of Ca2+ channel-vesicle
nanotopography at a central GABAergic synapse. Neuron. doi:10.1016/j.neuron.2023.12.002
apa: Chen, J., Kaufmann, W., Chen, C., Arai, itaru, Kim, O., Shigemoto, R., &
Jonas, P. M. (n.d.). Developmental transformation of Ca2+ channel-vesicle nanotopography
at a central GABAergic synapse. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2023.12.002
chicago: Chen, JingJing, Walter Kaufmann, Chong Chen, itaru Arai, Olena Kim, Ryuichi
Shigemoto, and Peter M Jonas. “Developmental Transformation of Ca2+ Channel-Vesicle
Nanotopography at a Central GABAergic Synapse.” Neuron. Elsevier, n.d.
https://doi.org/10.1016/j.neuron.2023.12.002.
ieee: J. Chen et al., “Developmental transformation of Ca2+ channel-vesicle
nanotopography at a central GABAergic synapse,” Neuron. Elsevier.
ista: Chen J, Kaufmann W, Chen C, Arai itaru, Kim O, Shigemoto R, Jonas PM. Developmental
transformation of Ca2+ channel-vesicle nanotopography at a central GABAergic synapse.
Neuron.
mla: Chen, JingJing, et al. “Developmental Transformation of Ca2+ Channel-Vesicle
Nanotopography at a Central GABAergic Synapse.” Neuron, Elsevier, doi:10.1016/j.neuron.2023.12.002.
short: J. Chen, W. Kaufmann, C. Chen, itaru Arai, O. Kim, R. Shigemoto, P.M. Jonas,
Neuron (n.d.).
date_created: 2024-01-21T23:00:56Z
date_published: 2024-01-11T00:00:00Z
date_updated: 2024-03-14T13:14:18Z
day: '11'
department:
- _id: PeJo
- _id: EM-Fac
- _id: RySh
doi: 10.1016/j.neuron.2023.12.002
ec_funded: 1
external_id:
pmid:
- '38215739'
language:
- iso: eng
month: '01'
oa_version: None
pmid: 1
project:
- _id: 25B7EB9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '692692'
name: Biophysics and circuit function of a giant cortical glumatergic synapse
- _id: 25C5A090-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00312
name: The Wittgenstein Prize
- _id: bd88be38-d553-11ed-ba76-81d5a70a6ef5
grant_number: P36232
name: Mechanisms of GABA release in hippocampal circuits
- _id: 26B66A3E-B435-11E9-9278-68D0E5697425
grant_number: '25383'
name: Development of nanodomain coupling between Ca2+ channels and release sensors
at a central inhibitory synapse
publication: Neuron
publication_identifier:
eissn:
- 1097-4199
issn:
- 0896-6273
publication_status: inpress
publisher: Elsevier
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/synapses-brought-to-the-point/
record:
- id: '15101'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Developmental transformation of Ca2+ channel-vesicle nanotopography at a central
GABAergic synapse
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '15101'
acknowledged_ssus:
- _id: EM-Fac
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: JingJing
full_name: Chen, JingJing
id: 2C4E65C8-F248-11E8-B48F-1D18A9856A87
last_name: Chen
citation:
ama: Chen J. Developmental transformation of nanodomain coupling between Ca2+ channels
and release sensors at a central GABAergic synapse. 2024. doi:10.15479/at:ista:15101
apa: Chen, J. (2024). Developmental transformation of nanodomain coupling between
Ca2+ channels and release sensors at a central GABAergic synapse. Institute
of Science and Technology Austria. https://doi.org/10.15479/at:ista:15101
chicago: Chen, JingJing. “Developmental Transformation of Nanodomain Coupling between
Ca2+ Channels and Release Sensors at a Central GABAergic Synapse.” Institute of
Science and Technology Austria, 2024. https://doi.org/10.15479/at:ista:15101.
ieee: J. Chen, “Developmental transformation of nanodomain coupling between Ca2+
channels and release sensors at a central GABAergic synapse,” Institute of Science
and Technology Austria, 2024.
ista: Chen J. 2024. Developmental transformation of nanodomain coupling between
Ca2+ channels and release sensors at a central GABAergic synapse. Institute of
Science and Technology Austria.
mla: Chen, JingJing. Developmental Transformation of Nanodomain Coupling between
Ca2+ Channels and Release Sensors at a Central GABAergic Synapse. Institute
of Science and Technology Austria, 2024, doi:10.15479/at:ista:15101.
short: J. Chen, Developmental Transformation of Nanodomain Coupling between Ca2+
Channels and Release Sensors at a Central GABAergic Synapse, Institute of Science
and Technology Austria, 2024.
date_created: 2024-03-11T10:09:54Z
date_published: 2024-03-11T00:00:00Z
date_updated: 2024-03-14T13:14:19Z
day: '11'
ddc:
- '570'
degree_awarded: PhD
department:
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- _id: PeJo
doi: 10.15479/at:ista:15101
ec_funded: 1
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language:
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month: '03'
oa_version: Published Version
page: '84'
project:
- _id: 25B7EB9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '692692'
name: Biophysics and circuit function of a giant cortical glumatergic synapse
- _id: 25C5A090-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00312
name: The Wittgenstein Prize
- _id: bd88be38-d553-11ed-ba76-81d5a70a6ef5
grant_number: P36232
name: Mechanisms of GABA release in hippocampal circuits
- _id: 26B66A3E-B435-11E9-9278-68D0E5697425
grant_number: '25383'
name: Development of nanodomain coupling between Ca2+ channels and release sensors
at a central inhibitory synapse
publication_identifier:
issn:
- 2663 - 337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
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- id: '14843'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
title: Developmental transformation of nanodomain coupling between Ca2+ channels and
release sensors at a central GABAergic synapse
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: '2024'
...
---
_id: '15122'
abstract:
- lang: eng
text: Quantum computers are increasing in size and quality but are still very noisy.
Error mitigation extends the size of the quantum circuits that noisy devices can
meaningfully execute. However, state-of-the-art error mitigation methods are hard
to implement and the limited qubit connectivity in superconducting qubit devices
restricts most applications to the hardware's native topology. Here we show a
quantum approximate optimization algorithm (QAOA) on nonplanar random regular
graphs with up to 40 nodes enabled by a machine learning-based error mitigation.
We use a swap network with careful decision-variable-to-qubit mapping and a feed-forward
neural network to optimize a depth-two QAOA on up to 40 qubits. We observe a meaningful
parameter optimization for the largest graph which requires running quantum circuits
with 958 two-qubit gates. Our paper emphasizes the need to mitigate samples, and
not only expectation values, in quantum approximate optimization. These results
are a step towards executing quantum approximate optimization at a scale that
is not classically simulable. Reaching such system sizes is key to properly understanding
the true potential of heuristic algorithms like QAOA.
acknowledgement: S.H.S. acknowledges support from the IBM Ph.D. fellowship 2022 in
quantum computing. The authors also thank M. Serbyn, R. Kueng, R. A. Medina, and
S. Woerner for fruitful discussions.
article_number: '013223'
article_processing_charge: Yes
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: Daniel J.
full_name: Egger, Daniel J.
last_name: Egger
citation:
ama: Sack S, Egger DJ. Large-scale quantum approximate optimization on nonplanar
graphs with machine learning noise mitigation. Physical Review Research.
2024;6(1). doi:10.1103/PhysRevResearch.6.013223
apa: Sack, S., & Egger, D. J. (2024). Large-scale quantum approximate optimization
on nonplanar graphs with machine learning noise mitigation. Physical Review
Research. American Physical Society. https://doi.org/10.1103/PhysRevResearch.6.013223
chicago: Sack, Stefan, and Daniel J. Egger. “Large-Scale Quantum Approximate Optimization
on Nonplanar Graphs with Machine Learning Noise Mitigation.” Physical Review
Research. American Physical Society, 2024. https://doi.org/10.1103/PhysRevResearch.6.013223.
ieee: S. Sack and D. J. Egger, “Large-scale quantum approximate optimization on
nonplanar graphs with machine learning noise mitigation,” Physical Review Research,
vol. 6, no. 1. American Physical Society, 2024.
ista: Sack S, Egger DJ. 2024. Large-scale quantum approximate optimization on nonplanar
graphs with machine learning noise mitigation. Physical Review Research. 6(1),
013223.
mla: Sack, Stefan, and Daniel J. Egger. “Large-Scale Quantum Approximate Optimization
on Nonplanar Graphs with Machine Learning Noise Mitigation.” Physical Review
Research, vol. 6, no. 1, 013223, American Physical Society, 2024, doi:10.1103/PhysRevResearch.6.013223.
short: S. Sack, D.J. Egger, Physical Review Research 6 (2024).
date_created: 2024-03-17T23:00:59Z
date_published: 2024-03-01T00:00:00Z
date_updated: 2024-03-19T07:24:03Z
day: '01'
ddc:
- '530'
department:
- _id: MaSe
doi: 10.1103/PhysRevResearch.6.013223
external_id:
arxiv:
- '2307.14427'
file:
- access_level: open_access
checksum: 274c9f1b15b3547a10a03f39e4ccc582
content_type: application/pdf
creator: dernst
date_created: 2024-03-19T07:16:38Z
date_updated: 2024-03-19T07:16:38Z
file_id: '15123'
file_name: 2024_PhysicalReviewResearch_Sack.pdf
file_size: 2777593
relation: main_file
success: 1
file_date_updated: 2024-03-19T07:16:38Z
has_accepted_license: '1'
intvolume: ' 6'
issue: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
project:
- _id: bd660c93-d553-11ed-ba76-fb0fb6f49c0d
name: Quantum_Quantum Circuits and Software_Variational quantum algorithms on NISQ
devices
publication: Physical Review Research
publication_identifier:
issn:
- 2643-1564
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Large-scale quantum approximate optimization on nonplanar graphs with machine
learning noise mitigation
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: '2024'
...
---
_id: '15118'
abstract:
- lang: eng
text: Cell division in all domains of life requires the orchestration of many proteins,
but in Archaea most of the machinery remains poorly characterized. Here we investigate
the FtsZ-based cell division mechanism in Haloferax volcanii and find proteins
containing photosynthetic reaction centre (PRC) barrel domains that play an essential
role in archaeal cell division. We rename these proteins cell division protein
B 1 (CdpB1) and CdpB2. Depletions and deletions in their respective genes cause
severe cell division defects, generating drastically enlarged cells. Fluorescence
microscopy of tagged FtsZ1, FtsZ2 and SepF in CdpB1 and CdpB2 mutant strains revealed
an unusually disordered divisome that is not organized into a distinct ring-like
structure. Biochemical analysis shows that SepF forms a tripartite complex with
CdpB1/2 and crystal structures suggest that these two proteins might form filaments,
possibly aligning SepF and the FtsZ2 ring during cell division. Overall our results
indicate that PRC-domain proteins play essential roles in FtsZ-based cell division
in Archaea.
acknowledged_ssus:
- _id: LifeSc
acknowledgement: We thank X. Ye (ISTA) for providing the His–SUMO expression plasmid
pSVA13429. pCDB302 was a gift from C. Bahl (Addgene plasmid number 113673; http://n2t.net/addgene:113673;
RRID Addgene_113673). We thank B. Ahsan, G. Sharov, G. Cannone and S. Chen from
the Medical Research Council (MRC) LMB Electron Microscopy Facility for help and
support. We thank Scientific Computing at the MRC LMB for their support. We thank
L. Trübestein and N. Krasnici of the protein service unit of the ISTA Lab Support
Facility for help with the SEC coupled with multi-angle light scattering experiments.
We thank D. Grohmann and R. Reichelt from the Archaea Centre at the University of
Regensburg for providing the P. furiosus cell material. P.N. and S.-V.A. were supported
by a Momentum grant from the Volkswagen (VW) Foundation (grant number 94933). D.K.-C.
and D.B. were supported by the VW Stiftung ‘Life?’ programme (to J.L.; grant number
Az 96727) and by the MRC, as part of UK Research and Innovation (UKRI), MRC file
reference number U105184326 (to J.L.). N.T. and S.G. acknowledge support from the
French Government’s Investissement d’Avenir program, Laboratoire d’Excellence ‘Integrative
Biology of Emerging Infectious Diseases’ (grant number ANR-10-LABX-62-IBEID), and
the computational and storage services (Maestro cluster) provided by the IT department
at Institut Pasteur. M.K. and M.L. were supported by the Austrian Science Fund (FWF)
Stand-Alone P34607. For the purpose of open access, the MRC Laboratory of Molecular
Biology has applied a CC BY public copyright licence to any author accepted manuscript
version arising.
article_processing_charge: No
article_type: original
author:
- first_name: Phillip
full_name: Nußbaum, Phillip
last_name: Nußbaum
- first_name: Danguole
full_name: Kureisaite-Ciziene, Danguole
last_name: Kureisaite-Ciziene
- first_name: Dom
full_name: Bellini, Dom
last_name: Bellini
- first_name: Chris
full_name: Van Der Does, Chris
last_name: Van Der Does
- first_name: Marko
full_name: Kojic, Marko
id: 73e7ecd4-dc85-11ea-9058-88a16394b160
last_name: Kojic
- first_name: Najwa
full_name: Taib, Najwa
last_name: Taib
- first_name: Anna
full_name: Yeates, Anna
last_name: Yeates
- first_name: Maxime
full_name: Tourte, Maxime
last_name: Tourte
- first_name: Simonetta
full_name: Gribaldo, Simonetta
last_name: Gribaldo
- first_name: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
- first_name: Jan
full_name: Löwe, Jan
last_name: Löwe
- first_name: Sonja Verena
full_name: Albers, Sonja Verena
last_name: Albers
citation:
ama: Nußbaum P, Kureisaite-Ciziene D, Bellini D, et al. Proteins containing photosynthetic
reaction centre domains modulate FtsZ-based archaeal cell division. Nature
Microbiology. 2024;9(3):698-711. doi:10.1038/s41564-024-01600-5
apa: Nußbaum, P., Kureisaite-Ciziene, D., Bellini, D., Van Der Does, C., Kojic,
M., Taib, N., … Albers, S. V. (2024). Proteins containing photosynthetic reaction
centre domains modulate FtsZ-based archaeal cell division. Nature Microbiology.
Springer Nature. https://doi.org/10.1038/s41564-024-01600-5
chicago: Nußbaum, Phillip, Danguole Kureisaite-Ciziene, Dom Bellini, Chris Van Der
Does, Marko Kojic, Najwa Taib, Anna Yeates, et al. “Proteins Containing Photosynthetic
Reaction Centre Domains Modulate FtsZ-Based Archaeal Cell Division.” Nature
Microbiology. Springer Nature, 2024. https://doi.org/10.1038/s41564-024-01600-5.
ieee: P. Nußbaum et al., “Proteins containing photosynthetic reaction centre
domains modulate FtsZ-based archaeal cell division,” Nature Microbiology,
vol. 9, no. 3. Springer Nature, pp. 698–711, 2024.
ista: Nußbaum P, Kureisaite-Ciziene D, Bellini D, Van Der Does C, Kojic M, Taib
N, Yeates A, Tourte M, Gribaldo S, Loose M, Löwe J, Albers SV. 2024. Proteins
containing photosynthetic reaction centre domains modulate FtsZ-based archaeal
cell division. Nature Microbiology. 9(3), 698–711.
mla: Nußbaum, Phillip, et al. “Proteins Containing Photosynthetic Reaction Centre
Domains Modulate FtsZ-Based Archaeal Cell Division.” Nature Microbiology,
vol. 9, no. 3, Springer Nature, 2024, pp. 698–711, doi:10.1038/s41564-024-01600-5.
short: P. Nußbaum, D. Kureisaite-Ciziene, D. Bellini, C. Van Der Does, M. Kojic,
N. Taib, A. Yeates, M. Tourte, S. Gribaldo, M. Loose, J. Löwe, S.V. Albers, Nature
Microbiology 9 (2024) 698–711.
date_created: 2024-03-17T23:00:58Z
date_published: 2024-03-04T00:00:00Z
date_updated: 2024-03-19T07:30:53Z
day: '04'
department:
- _id: MaLo
doi: 10.1038/s41564-024-01600-5
external_id:
pmid:
- '38443575'
intvolume: ' 9'
issue: '3'
language:
- iso: eng
month: '03'
oa_version: None
page: 698-711
pmid: 1
project:
- _id: fc38323b-9c52-11eb-aca3-ff8afb4a011d
grant_number: P34607
name: "Understanding bacterial cell division by in vitro\r\nreconstitution"
publication: Nature Microbiology
publication_identifier:
eissn:
- 2058-5276
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Proteins containing photosynthetic reaction centre domains modulate FtsZ-based
archaeal cell division
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2024'
...
---
_id: '15119'
abstract:
- lang: eng
text: In this paper we consider an SPDE where the leading term is a second order
operator with periodic boundary conditions, coefficients which are measurable
in (t,ω) , and Hölder continuous in space. Assuming stochastic parabolicity conditions,
we prove Lp((0,T)×Ω,tκdt;Hσ,q(Td)) -estimates. The main novelty is that we do
not require p=q . Moreover, we allow arbitrary σ∈R and weights in time. Such
mixed regularity estimates play a crucial role in applications to nonlinear SPDEs
which is clear from our previous work. To prove our main results we develop a
general perturbation theory for SPDEs. Moreover, we prove a new result on pointwise
multiplication in spaces with fractional smoothness.
acknowledgement: The first author has been partially supported by the Nachwuchsring
– Network for the promotion of young scientists – at TU Kaiserslautern. The second
author is supported by the VIDI subsidy 639.032.427 of the Netherlands Organisation
for Scientific Research (NWO). The authors thank the anonymous referees and Max
Sauerbrey for careful reading and helpful suggestions.
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
- first_name: Mark
full_name: Veraar, Mark
last_name: Veraar
citation:
ama: Agresti A, Veraar M. Stochastic maximal Lp(Lq)-regularity for second order
systems with periodic boundary conditions. Annales de l’institut Henri Poincare
Probability and Statistics. 2024;60(1):413-430. doi:10.1214/22-AIHP1333
apa: Agresti, A., & Veraar, M. (2024). Stochastic maximal Lp(Lq)-regularity
for second order systems with periodic boundary conditions. Annales de l’institut
Henri Poincare Probability and Statistics. Institute of Mathematical Statistics.
https://doi.org/10.1214/22-AIHP1333
chicago: Agresti, Antonio, and Mark Veraar. “Stochastic Maximal Lp(Lq)-Regularity
for Second Order Systems with Periodic Boundary Conditions.” Annales de l’institut
Henri Poincare Probability and Statistics. Institute of Mathematical Statistics,
2024. https://doi.org/10.1214/22-AIHP1333.
ieee: A. Agresti and M. Veraar, “Stochastic maximal Lp(Lq)-regularity for second
order systems with periodic boundary conditions,” Annales de l’institut Henri
Poincare Probability and Statistics, vol. 60, no. 1. Institute of Mathematical
Statistics, pp. 413–430, 2024.
ista: Agresti A, Veraar M. 2024. Stochastic maximal Lp(Lq)-regularity for second
order systems with periodic boundary conditions. Annales de l’institut Henri Poincare
Probability and Statistics. 60(1), 413–430.
mla: Agresti, Antonio, and Mark Veraar. “Stochastic Maximal Lp(Lq)-Regularity for
Second Order Systems with Periodic Boundary Conditions.” Annales de l’institut
Henri Poincare Probability and Statistics, vol. 60, no. 1, Institute of Mathematical
Statistics, 2024, pp. 413–30, doi:10.1214/22-AIHP1333.
short: A. Agresti, M. Veraar, Annales de l’institut Henri Poincare Probability and
Statistics 60 (2024) 413–430.
date_created: 2024-03-17T23:00:58Z
date_published: 2024-02-01T00:00:00Z
date_updated: 2024-03-19T08:14:17Z
day: '01'
department:
- _id: JuFi
doi: 10.1214/22-AIHP1333
external_id:
arxiv:
- '2106.01274'
intvolume: ' 60'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2106.01274
month: '02'
oa: 1
oa_version: Preprint
page: 413-430
publication: Annales de l'institut Henri Poincare Probability and Statistics
publication_identifier:
issn:
- 0246-0203
publication_status: published
publisher: Institute of Mathematical Statistics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Stochastic maximal Lp(Lq)-regularity for second order systems with periodic
boundary conditions
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 60
year: '2024'
...
---
_id: '14478'
abstract:
- lang: eng
text: Entire chromosomes are typically only transmitted vertically from one generation
to the next. The horizontal transfer of such chromosomes has long been considered
improbable, yet gained recent support in several pathogenic fungi where it may
affect the fitness or host specificity. To date, it is unknown how these transfers
occur, how common they are and whether they can occur between different species.
In this study, we show multiple independent instances of horizontal transfers
of the same accessory chromosome between two distinct strains of the asexual entomopathogenic
fungusMetarhizium robertsiiduring experimental co-infection
of its insect host, the Argentine ant. Notably, only the one chromosome – but
no other – was transferred from the donor to the recipient strain. The recipient
strain, now harboring the accessory chromosome, exhibited a competitive advantage
under certain host conditions. By phylogenetic analysis we further demonstrate
that the same accessory chromosome was horizontally transferred in a natural environment
betweenM. robertsiiand another congeneric insect pathogen,M.
guizhouense. Hence horizontal chromosome transfer is not limited
to the observed frequent events within species during experimental infections
but also occurs naturally across species. The transferred accessory chromosome
contains genes that might be involved in its preferential horizontal transfer,
encoding putative histones and histone-modifying enzymes, but also putative virulence
factors that may support its establishment. Our study reveals that both intra-
and interspecies horizontal transfer of entire chromosomes is more frequent than
previously assumed, likely representing a not uncommon mechanism for gene exchange.Significance
StatementThe enormous success of bacterial pathogens has
been attributed to their ability to exchange genetic material between one another.
Similarly, in eukaryotes, horizontal transfer of genetic material allowed the
spread of virulence factors across species. The horizontal transfer of whole chromosomes
could be an important pathway for such exchange of genetic material, but little
is known about the origin of transferable chromosomes and how frequently they
are exchanged. Here, we show that the transfer of accessory chromosomes - chromosomes
that are non-essential but may provide fitness benefits - is common during fungal
co-infections and is even possible between distant pathogenic species, highlighting
the importance of horizontal gene transfer via chromosome transfer also for the
evolution and function of eukaryotic pathogens.
acknowledgement: We thank Bernhardt Steinwender, Jorgen Eilenberg, and Nicolai V.
Meyling for the fungal strains. We further thank Chengshu Wang for providing the
short sequencing reads for M. guizhouense ARESF977 he used for his published genome
assembly, and Kristian Ullrich for help in the bioinformatics analysis for methylation
pattern in Nanopore reads, and the VBC and the Max Planck Society for the use of
their sequencing centers. We thank Barbara Milutinović and Hinrich Schulenburg for
discussion, and Tal Dagan and Jens Rolff for comments on a previous version of the
manuscript. Fig. 1A was created with BioRender.com. This study received funding
by the European Research Council under the European Union’s Horizon 2020 Research
and Innovation Programme (No. 771402; EPIDEMICSonCHIP) to S.C. and by the German
Research Foundation (DFG grant HA9263/1-1) to M.H.
article_number: e2316284121
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Michael
full_name: Habig, Michael
last_name: Habig
- first_name: Anna V
full_name: Grasse, Anna V
id: 406F989C-F248-11E8-B48F-1D18A9856A87
last_name: Grasse
- first_name: Judith
full_name: Müller, Judith
last_name: Müller
- first_name: Eva H.
full_name: Stukenbrock, Eva H.
last_name: Stukenbrock
- first_name: Hanna
full_name: Leitner, Hanna
id: 8fc5c6f6-5903-11ec-abad-c83f046253e7
last_name: Leitner
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
citation:
ama: Habig M, Grasse AV, Müller J, Stukenbrock EH, Leitner H, Cremer S. Frequent
horizontal chromosome transfer between asexual fungal insect pathogens. Proceedings
of the National Academy of Sciences of the United States of America. 2024;121(11).
doi:10.1073/pnas.2316284121
apa: Habig, M., Grasse, A. V., Müller, J., Stukenbrock, E. H., Leitner, H., &
Cremer, S. (2024). Frequent horizontal chromosome transfer between asexual fungal
insect pathogens. Proceedings of the National Academy of Sciences of the United
States of America. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.2316284121
chicago: Habig, Michael, Anna V Grasse, Judith Müller, Eva H. Stukenbrock, Hanna
Leitner, and Sylvia Cremer. “Frequent Horizontal Chromosome Transfer between Asexual
Fungal Insect Pathogens.” Proceedings of the National Academy of Sciences of
the United States of America. Proceedings of the National Academy of Sciences,
2024. https://doi.org/10.1073/pnas.2316284121.
ieee: M. Habig, A. V. Grasse, J. Müller, E. H. Stukenbrock, H. Leitner, and S. Cremer,
“Frequent horizontal chromosome transfer between asexual fungal insect pathogens,”
Proceedings of the National Academy of Sciences of the United States of America,
vol. 121, no. 11. Proceedings of the National Academy of Sciences, 2024.
ista: Habig M, Grasse AV, Müller J, Stukenbrock EH, Leitner H, Cremer S. 2024. Frequent
horizontal chromosome transfer between asexual fungal insect pathogens. Proceedings
of the National Academy of Sciences of the United States of America. 121(11),
e2316284121.
mla: Habig, Michael, et al. “Frequent Horizontal Chromosome Transfer between Asexual
Fungal Insect Pathogens.” Proceedings of the National Academy of Sciences of
the United States of America, vol. 121, no. 11, e2316284121, Proceedings of
the National Academy of Sciences, 2024, doi:10.1073/pnas.2316284121.
short: M. Habig, A.V. Grasse, J. Müller, E.H. Stukenbrock, H. Leitner, S. Cremer,
Proceedings of the National Academy of Sciences of the United States of America
121 (2024).
date_created: 2023-10-31T13:30:00Z
date_published: 2024-03-12T00:00:00Z
date_updated: 2024-03-19T09:07:20Z
day: '12'
ddc:
- '570'
department:
- _id: SyCr
doi: 10.1073/pnas.2316284121
ec_funded: 1
external_id:
pmid:
- '38442176'
file:
- access_level: open_access
checksum: f5e871db617b682edc71fcd08670dc81
content_type: application/pdf
creator: dernst
date_created: 2024-03-19T09:02:57Z
date_updated: 2024-03-19T09:02:57Z
file_id: '15124'
file_name: 2024_PNAS_Habig.pdf
file_size: 5750361
relation: main_file
success: 1
file_date_updated: 2024-03-19T09:02:57Z
has_accepted_license: '1'
intvolume: ' 121'
issue: '11'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 2649B4DE-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '771402'
name: Epidemics in ant societies on a chip
publication: Proceedings of the National Academy of Sciences of the United States
of America
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: Frequent horizontal chromosome transfer between asexual fungal insect pathogens
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: 121
year: '2024'
...
---
_id: '10045'
abstract:
- lang: eng
text: "Given a fixed finite metric space (V,μ), the {\\em minimum 0-extension problem},
denoted as 0-Ext[μ], is equivalent to the following optimization problem: minimize
function of the form minx∈Vn∑ifi(xi)+∑ijcijμ(xi,xj) where cij,cvi are given nonnegative
costs and fi:V→R are functions given by fi(xi)=∑v∈Vcviμ(xi,v). The computational
complexity of 0-Ext[μ] has been recently established by Karzanov and by Hirai:
if metric μ is {\\em orientable modular} then 0-Ext[μ] can be solved in polynomial
time, otherwise 0-Ext[μ] is NP-hard. To prove the tractability part, Hirai developed
a theory of discrete convex functions on orientable modular graphs generalizing
several known classes of functions in discrete convex analysis, such as L♮-convex
functions. We consider a more general version of the problem in which unary functions
fi(xi) can additionally have terms of the form cuv;iμ(xi,{u,v}) for {u,v}∈F, where
set F⊆(V2) is fixed. We extend the complexity classification above by providing
an explicit condition on (μ,F) for the problem to be tractable. In order to prove
the tractability part, we generalize Hirai's theory and define a larger class
of discrete convex functions. It covers, in particular, another well-known class
of functions, namely submodular functions on an integer lattice. Finally, we improve
the complexity of Hirai's algorithm for solving 0-Ext on orientable modular graphs.\r\n"
acknowledgement: We thank the anonymous reviewers for their careful reading of our
manuscript and their many insightful comments and suggestions. Open access funding
provided by Institute of Science and Technology (IST Austria).
article_number: '2109.10203'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Martin
full_name: Dvorak, Martin
id: 40ED02A8-C8B4-11E9-A9C0-453BE6697425
last_name: Dvorak
orcid: 0000-0001-5293-214X
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
citation:
ama: Dvorak M, Kolmogorov V. Generalized minimum 0-extension problem and discrete
convexity. Mathematical Programming. 2024. doi:10.1007/s10107-024-02064-5
apa: Dvorak, M., & Kolmogorov, V. (2024). Generalized minimum 0-extension problem
and discrete convexity. Mathematical Programming. Springer Nature. https://doi.org/10.1007/s10107-024-02064-5
chicago: Dvorak, Martin, and Vladimir Kolmogorov. “Generalized Minimum 0-Extension
Problem and Discrete Convexity.” Mathematical Programming. Springer Nature,
2024. https://doi.org/10.1007/s10107-024-02064-5.
ieee: M. Dvorak and V. Kolmogorov, “Generalized minimum 0-extension problem and
discrete convexity,” Mathematical Programming. Springer Nature, 2024.
ista: Dvorak M, Kolmogorov V. 2024. Generalized minimum 0-extension problem and
discrete convexity. Mathematical Programming., 2109.10203.
mla: Dvorak, Martin, and Vladimir Kolmogorov. “Generalized Minimum 0-Extension Problem
and Discrete Convexity.” Mathematical Programming, 2109.10203, Springer
Nature, 2024, doi:10.1007/s10107-024-02064-5.
short: M. Dvorak, V. Kolmogorov, Mathematical Programming (2024).
date_created: 2021-09-27T10:48:23Z
date_published: 2024-03-07T00:00:00Z
date_updated: 2024-03-19T08:20:31Z
day: '07'
ddc:
- '004'
department:
- _id: GradSch
- _id: VlKo
doi: 10.1007/s10107-024-02064-5
external_id:
arxiv:
- '2109.10203'
file:
- access_level: open_access
checksum: e7e83065f7bc18b9c188bf93b5ca5db6
content_type: application/pdf
creator: mdvorak
date_created: 2021-09-27T10:54:51Z
date_updated: 2021-09-27T10:54:51Z
file_id: '10046'
file_name: Generalized-0-Ext.pdf
file_size: 603672
relation: main_file
success: 1
file_date_updated: 2021-09-27T10:54:51Z
has_accepted_license: '1'
keyword:
- minimum 0-extension problem
- metric labeling problem
- discrete metric spaces
- metric extensions
- computational complexity
- valued constraint satisfaction problems
- discrete convex analysis
- L-convex functions
language:
- iso: eng
month: '03'
oa: 1
oa_version: Preprint
publication: Mathematical Programming
publication_identifier:
eissn:
- 1436-4646
issn:
- 0025-5610
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Generalized minimum 0-extension problem and discrete convexity
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: '2024'
...
---
_id: '15121'
abstract:
- lang: eng
text: We present an auction algorithm using multiplicative instead of constant weight
updates to compute a (1-E)-approximate maximum weight matching (MWM) in a bipartite
graph with n vertices and m edges in time 0(mE-1), beating the running time of
the fastest known approximation algorithm of Duan and Pettie [JACM ’14] that runs
in 0(mE-1 log E-1). Our algorithm is very simple and it can be extended to give
a dynamic data structure that maintains a (1-E)-approximate maximum weight matching
under (1) one-sided vertex deletions (with incident edges) and (2) one-sided vertex
insertions (with incident edges sorted by weight) to the other side. The total
time time used is 0(mE-1), where m is the sum of the number of initially existing
and inserted edges.
acknowledgement: The first author thanks Chandra Chekuri for useful discussions about
this paper. This work was done in part at the University of Vienna. This project
has received funding from the European Research Council (ERC) under the European
Union’s Horizon 2020 research and innovation programme (Grant agreement No. 101019564
“The Design of Modern Fully Dynamic Data Structures (MoDynStruct)” and from the
Austrian Science Fund (FWF) project “Fast Algorithms for a Reactive Network Layer
(ReactNet)”, P 33775-N, with additional funding from the netidee SCIENCE Stiftung,
2020–2024.
article_processing_charge: No
article_type: original
author:
- first_name: Da Wei
full_name: Zheng, Da Wei
last_name: Zheng
- first_name: Monika H
full_name: Henzinger, Monika H
id: 540c9bbd-f2de-11ec-812d-d04a5be85630
last_name: Henzinger
orcid: 0000-0002-5008-6530
citation:
ama: Zheng DW, Henzinger MH. Multiplicative auction algorithm for approximate maximum
weight bipartite matching. Mathematical Programming. 2024. doi:10.1007/s10107-024-02066-3
apa: Zheng, D. W., & Henzinger, M. H. (2024). Multiplicative auction algorithm
for approximate maximum weight bipartite matching. Mathematical Programming.
Springer Nature. https://doi.org/10.1007/s10107-024-02066-3
chicago: Zheng, Da Wei, and Monika H Henzinger. “Multiplicative Auction Algorithm
for Approximate Maximum Weight Bipartite Matching.” Mathematical Programming.
Springer Nature, 2024. https://doi.org/10.1007/s10107-024-02066-3.
ieee: D. W. Zheng and M. H. Henzinger, “Multiplicative auction algorithm for approximate
maximum weight bipartite matching,” Mathematical Programming. Springer
Nature, 2024.
ista: Zheng DW, Henzinger MH. 2024. Multiplicative auction algorithm for approximate
maximum weight bipartite matching. Mathematical Programming.
mla: Zheng, Da Wei, and Monika H. Henzinger. “Multiplicative Auction Algorithm for
Approximate Maximum Weight Bipartite Matching.” Mathematical Programming,
Springer Nature, 2024, doi:10.1007/s10107-024-02066-3.
short: D.W. Zheng, M.H. Henzinger, Mathematical Programming (2024).
date_created: 2024-03-17T23:00:58Z
date_published: 2024-03-06T00:00:00Z
date_updated: 2024-03-19T08:32:32Z
day: '06'
department:
- _id: MoHe
doi: 10.1007/s10107-024-02066-3
ec_funded: 1
external_id:
arxiv:
- '2301.09217'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2301.09217
month: '03'
oa: 1
oa_version: Preprint
project:
- _id: bd9ca328-d553-11ed-ba76-dc4f890cfe62
call_identifier: H2020
grant_number: '101019564'
name: The design and evaluation of modern fully dynamic data structures
- _id: bd9e3a2e-d553-11ed-ba76-8aa684ce17fe
grant_number: 'P33775 '
name: Fast Algorithms for a Reactive Network Layer
publication: Mathematical Programming
publication_identifier:
eissn:
- 1436-4646
issn:
- 0025-5610
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '13236'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Multiplicative auction algorithm for approximate maximum weight bipartite matching
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '15114'
abstract:
- lang: eng
text: As a key liquid organic hydrogen carrier, investigating the decomposition
of formic acid (HCOOH) on the Pd (1 1 1) transition metal surface is imperative
for harnessing hydrogen energy. Despite a multitude of studies, the major mechanisms
and key intermediates involved in the dehydrogenation process of formic acid remain
a great topic of debate due to ambiguous adsorbate interactions. In this research,
we develop an advanced microkinetic model based on first-principles calculations,
accounting for adsorbate–adsorbate interactions. Our study unveils a comprehensive
mechanism for the Pd (1 1 1) surface, highlighting the significance of coverage
effects in formic acid dehydrogenation. Our findings unequivocally demonstrate
that H coverage on the Pd (1 1 1) surface renders formic acid more susceptible
to decompose into H2 and CO2 through COOH intermediates. Consistent with experimental
results, the selectivity of H2 in the decomposition of formic acid on the Pd (1
1 1) surface approaches 100 %. Considering the influence of H coverage, our kinetic
analysis aligns perfectly with experimental values at a temperature of 373 K.
acknowledgement: The authors acknowledge the financial support from the National Key
Research and Development Project of China (2021YFA1500900, 2022YFE0113800), the
National Natural Science Foundation of China (22141001, U21A20298), Zhejiang Innovation
Team (2017R5203).
article_number: '119959'
article_processing_charge: No
article_type: original
author:
- first_name: Zihao
full_name: Yao, Zihao
last_name: Yao
- first_name: Xu
full_name: Liu, Xu
last_name: Liu
- first_name: Rhys
full_name: Bunting, Rhys
id: 91deeae8-1207-11ec-b130-c194ad5b50c6
last_name: Bunting
orcid: 0000-0001-6928-074X
- first_name: Jianguo
full_name: Wang, Jianguo
last_name: Wang
citation:
ama: 'Yao Z, Liu X, Bunting R, Wang J. Unravelling the reaction mechanism for H2
production via formic acid decomposition over Pd: Coverage-dependent microkinetic
modeling. Chemical Engineering Science. 2024;291. doi:10.1016/j.ces.2024.119959'
apa: 'Yao, Z., Liu, X., Bunting, R., & Wang, J. (2024). Unravelling the reaction
mechanism for H2 production via formic acid decomposition over Pd: Coverage-dependent
microkinetic modeling. Chemical Engineering Science. Elsevier. https://doi.org/10.1016/j.ces.2024.119959'
chicago: 'Yao, Zihao, Xu Liu, Rhys Bunting, and Jianguo Wang. “Unravelling the Reaction
Mechanism for H2 Production via Formic Acid Decomposition over Pd: Coverage-Dependent
Microkinetic Modeling.” Chemical Engineering Science. Elsevier, 2024. https://doi.org/10.1016/j.ces.2024.119959.'
ieee: 'Z. Yao, X. Liu, R. Bunting, and J. Wang, “Unravelling the reaction mechanism
for H2 production via formic acid decomposition over Pd: Coverage-dependent microkinetic
modeling,” Chemical Engineering Science, vol. 291. Elsevier, 2024.'
ista: 'Yao Z, Liu X, Bunting R, Wang J. 2024. Unravelling the reaction mechanism
for H2 production via formic acid decomposition over Pd: Coverage-dependent microkinetic
modeling. Chemical Engineering Science. 291, 119959.'
mla: 'Yao, Zihao, et al. “Unravelling the Reaction Mechanism for H2 Production via
Formic Acid Decomposition over Pd: Coverage-Dependent Microkinetic Modeling.”
Chemical Engineering Science, vol. 291, 119959, Elsevier, 2024, doi:10.1016/j.ces.2024.119959.'
short: Z. Yao, X. Liu, R. Bunting, J. Wang, Chemical Engineering Science 291 (2024).
date_created: 2024-03-17T23:00:57Z
date_published: 2024-03-04T00:00:00Z
date_updated: 2024-03-19T08:47:42Z
day: '04'
department:
- _id: MaIb
doi: 10.1016/j.ces.2024.119959
intvolume: ' 291'
language:
- iso: eng
month: '03'
oa_version: None
publication: Chemical Engineering Science
publication_identifier:
issn:
- 0009-2509
publication_status: epub_ahead
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Unravelling the reaction mechanism for H2 production via formic acid decomposition
over Pd: Coverage-dependent microkinetic modeling'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 291
year: '2024'
...
---
_id: '15116'
abstract:
- lang: eng
text: Water is known to play an important role in collagen self-assembly, but it
is still largely unclear how water–collagen interactions influence the assembly
process and determine the fibril network properties. Here, we use the H2O/D2O
isotope effect on the hydrogen-bond strength in water to investigate the role
of hydration in collagen self-assembly. We dissolve collagen in H2O and D2O and
compare the growth kinetics and the structure of the collagen assemblies formed
in these water isotopomers. Surprisingly, collagen assembly occurs ten times faster
in D2O than in H2O, and collagen in D2O self-assembles into much thinner fibrils,
that form a more inhomogeneous and softer network, with a fourfold reduction in
elastic modulus when compared to H2O. Combining spectroscopic measurements with
atomistic simulations, we show that collagen in D2O is less hydrated than in H2O.
This partial dehydration lowers the enthalpic penalty for water removal and reorganization
at the collagen–water interface, increasing the self-assembly rate and the number
of nucleation centers, leading to thinner fibrils and a softer network. Coarse-grained
simulations show that the acceleration in the initial nucleation rate can be reproduced
by the enhancement of electrostatic interactions. These results show that water
acts as a mediator between collagen monomers, by modulating their interactions
so as to optimize the assembly process and, thus, the final network properties.
We believe that isotopically modulating the hydration of proteins can be a valuable
method to investigate the role of water in protein structural dynamics and protein
self-assembly.
acknowledgement: We thank Dr. Steven Roeters (Aarhus University), Dr. Federica Burla,
and Prof. Dr. Mischa Bonn (Institute for Polymer Research, Mainz, Germany) for the
useful discussions. We thank Dr. Wim Roeterdink and Michiel Hilberts for technical
support. G.H.K. acknowledges financial support by the “BaSyC Building a Synthetic
Cell” Gravitation grant (024.003.019) of The Netherlands Ministry of Education,
Culture and Science (OCW) and The Netherlands Organization for Scientific Research
and from NWO grant OCENW.GROOT.2019.022. This work has received support from the
National Research Foundation of Korea (NRF), funded by the Ministry of Science and
ICT, under Grant No. 2022K1A3A1A04062969. This publication is part of the project
(with Project Number VI.Veni.212.240) of the research programme NWO Talent Programme
Veni 2021, which is financed by the Dutch Research Council (NWO). I.M.I. acknowledges
support from the Sectorplan Bèta & Techniek of the Dutch Government and the Dementia
Research - Synapsis Foundation Switzerland. A.Š. and K.K. acknowledge support from
Royal Society and European Research Council Starting Grant. G. Giubertoni kindly
thanks to the Care4Bones community and the Collagen Café community for reminding
that we do not own the knowledge we create, but it is, rather, a collective resource
intended for the advancement of human progress.
article_number: e2313162121
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Giulia
full_name: Giubertoni, Giulia
last_name: Giubertoni
- first_name: Liru
full_name: Feng, Liru
last_name: Feng
- first_name: Kevin
full_name: Klein, Kevin
last_name: Klein
- first_name: Guido
full_name: Giannetti, Guido
last_name: Giannetti
- first_name: Luco
full_name: Rutten, Luco
last_name: Rutten
- first_name: Yeji
full_name: Choi, Yeji
last_name: Choi
- first_name: Anouk
full_name: Van Der Net, Anouk
last_name: Van Der Net
- first_name: Gerard
full_name: Castro-Linares, Gerard
last_name: Castro-Linares
- first_name: Federico
full_name: Caporaletti, Federico
last_name: Caporaletti
- first_name: Dimitra
full_name: Micha, Dimitra
last_name: Micha
- first_name: Johannes
full_name: Hunger, Johannes
last_name: Hunger
- first_name: Antoine
full_name: Deblais, Antoine
last_name: Deblais
- first_name: Daniel
full_name: Bonn, Daniel
last_name: Bonn
- first_name: Nico
full_name: Sommerdijk, Nico
last_name: Sommerdijk
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
- first_name: Ioana M.
full_name: Ilie, Ioana M.
last_name: Ilie
- first_name: Gijsje H.
full_name: Koenderink, Gijsje H.
last_name: Koenderink
- first_name: Sander
full_name: Woutersen, Sander
last_name: Woutersen
citation:
ama: Giubertoni G, Feng L, Klein K, et al. Elucidating the role of water in collagen
self-assembly by isotopically modulating collagen hydration. Proceedings of
the National Academy of Sciences of the United States of America. 2024;121(11).
doi:10.1073/pnas.2313162121
apa: Giubertoni, G., Feng, L., Klein, K., Giannetti, G., Rutten, L., Choi, Y., …
Woutersen, S. (2024). Elucidating the role of water in collagen self-assembly
by isotopically modulating collagen hydration. Proceedings of the National
Academy of Sciences of the United States of America. Proceedings of the National
Academy of Sciences. https://doi.org/10.1073/pnas.2313162121
chicago: Giubertoni, Giulia, Liru Feng, Kevin Klein, Guido Giannetti, Luco Rutten,
Yeji Choi, Anouk Van Der Net, et al. “Elucidating the Role of Water in Collagen
Self-Assembly by Isotopically Modulating Collagen Hydration.” Proceedings of
the National Academy of Sciences of the United States of America. Proceedings
of the National Academy of Sciences, 2024. https://doi.org/10.1073/pnas.2313162121.
ieee: G. Giubertoni et al., “Elucidating the role of water in collagen self-assembly
by isotopically modulating collagen hydration,” Proceedings of the National
Academy of Sciences of the United States of America, vol. 121, no. 11. Proceedings
of the National Academy of Sciences, 2024.
ista: Giubertoni G, Feng L, Klein K, Giannetti G, Rutten L, Choi Y, Van Der Net
A, Castro-Linares G, Caporaletti F, Micha D, Hunger J, Deblais A, Bonn D, Sommerdijk
N, Šarić A, Ilie IM, Koenderink GH, Woutersen S. 2024. Elucidating the role of
water in collagen self-assembly by isotopically modulating collagen hydration.
Proceedings of the National Academy of Sciences of the United States of America.
121(11), e2313162121.
mla: Giubertoni, Giulia, et al. “Elucidating the Role of Water in Collagen Self-Assembly
by Isotopically Modulating Collagen Hydration.” Proceedings of the National
Academy of Sciences of the United States of America, vol. 121, no. 11, e2313162121,
Proceedings of the National Academy of Sciences, 2024, doi:10.1073/pnas.2313162121.
short: G. Giubertoni, L. Feng, K. Klein, G. Giannetti, L. Rutten, Y. Choi, A. Van
Der Net, G. Castro-Linares, F. Caporaletti, D. Micha, J. Hunger, A. Deblais, D.
Bonn, N. Sommerdijk, A. Šarić, I.M. Ilie, G.H. Koenderink, S. Woutersen, Proceedings
of the National Academy of Sciences of the United States of America 121 (2024).
date_created: 2024-03-17T23:00:57Z
date_published: 2024-03-12T00:00:00Z
date_updated: 2024-03-19T11:41:32Z
day: '12'
ddc:
- '550'
department:
- _id: AnSa
doi: 10.1073/pnas.2313162121
external_id:
pmid:
- '38451946'
file:
- access_level: open_access
checksum: a3f7fdc29dd9f0a38952ab4e322b3a05
content_type: application/pdf
creator: dernst
date_created: 2024-03-19T10:22:42Z
date_updated: 2024-03-19T10:22:42Z
file_id: '15125'
file_name: 2024_PNAS_Giubertoni.pdf
file_size: 12952586
relation: main_file
success: 1
file_date_updated: 2024-03-19T10:22:42Z
has_accepted_license: '1'
intvolume: ' 121'
issue: '11'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
publication: Proceedings of the National Academy of Sciences of the United States
of America
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
related_material:
record:
- id: '15126'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Elucidating the role of water in collagen self-assembly by isotopically modulating
collagen hydration
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: 121
year: '2024'
...
---
_id: '15117'
abstract:
- lang: eng
text: 'The hippocampal mossy fiber synapse, formed between axons of dentate gyrus
granule cells and dendrites of CA3 pyramidal neurons, is a key synapse in the
trisynaptic circuitry of the hippocampus. Because of its comparatively large size,
this synapse is accessible to direct presynaptic recording, allowing a rigorous
investigation of the biophysical mechanisms of synaptic transmission and plasticity.
Furthermore, because of its placement in the very center of the hippocampal memory
circuit, this synapse seems to be critically involved in several higher network
functions, such as learning, memory, pattern separation, and pattern completion.
Recent work based on new technologies in both nanoanatomy and nanophysiology,
including presynaptic patch-clamp recording, paired recording, super-resolution
light microscopy, and freeze-fracture and “flash-and-freeze” electron microscopy,
has provided new insights into the structure, biophysics, and network function
of this intriguing synapse. This brings us one step closer to answering a fundamental
question in neuroscience: how basic synaptic properties shape higher network computations.'
acknowledgement: "We thank previous students, postdocs, and collaborators, particularly
J. Geiger, and (in alphabetical order) H. Alle, J. Bischofberger, C. Borges-Merjane,
D. Engel, M. Frotscher, S. Hallermann, M. Heckmann, S. Jamrichova, O. Kim, L. Li,
K. Lichter, P. Lin, J. Lübke, Y. Okamoto, C. Pawlu, C. Schmidt-Hieber, N. Spruston,
and N. Vyleta for their outstanding experimental contributions. We also thank P.
Castillo, J. Geiger, T. Sakaba, S. Siegert, T. Vogels, and J. Watson for critically
reading the manuscript, E. Kralli-Beller for text editing, and J. Malikovic and
L. Slomianka for useful discussions. We apologize that, due to space constraints,
not all relevant papers could be cited.\r\nThis project was supported by the European
Research Council (ERC) under the European Union’s Horizon 2020 research and innovation
program (grant agreement 692692, AdG “GIANTSYN”) and the Fonds zur Förderung der
Wissenschaftlichen Forschung (Z 312-B27, Wittgenstein Award; P 36232-B, stand-alone
grant), both to P.J."
article_processing_charge: No
article_type: review
author:
- first_name: David H
full_name: Vandael, David H
id: 3AE48E0A-F248-11E8-B48F-1D18A9856A87
last_name: Vandael
orcid: 0000-0001-7577-1676
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
citation:
ama: Vandael DH, Jonas PM. Structure, biophysics, and circuit function of a “giant”
cortical presynaptic terminal. Science. 2024;383(6687):eadg6757. doi:10.1126/science.adg6757
apa: Vandael, D. H., & Jonas, P. M. (2024). Structure, biophysics, and circuit
function of a “giant” cortical presynaptic terminal. Science. AAAS. https://doi.org/10.1126/science.adg6757
chicago: Vandael, David H, and Peter M Jonas. “Structure, Biophysics, and Circuit
Function of a ‘Giant’ Cortical Presynaptic Terminal.” Science. AAAS, 2024.
https://doi.org/10.1126/science.adg6757.
ieee: D. H. Vandael and P. M. Jonas, “Structure, biophysics, and circuit function
of a ‘giant’ cortical presynaptic terminal,” Science, vol. 383, no. 6687.
AAAS, p. eadg6757, 2024.
ista: Vandael DH, Jonas PM. 2024. Structure, biophysics, and circuit function of
a ‘giant’ cortical presynaptic terminal. Science. 383(6687), eadg6757.
mla: Vandael, David H., and Peter M. Jonas. “Structure, Biophysics, and Circuit
Function of a ‘Giant’ Cortical Presynaptic Terminal.” Science, vol. 383,
no. 6687, AAAS, 2024, p. eadg6757, doi:10.1126/science.adg6757.
short: D.H. Vandael, P.M. Jonas, Science 383 (2024) eadg6757.
date_created: 2024-03-17T23:00:57Z
date_published: 2024-03-08T00:00:00Z
date_updated: 2024-03-20T07:42:52Z
day: '08'
department:
- _id: PeJo
doi: 10.1126/science.adg6757
ec_funded: 1
external_id:
pmid:
- '38452088'
intvolume: ' 383'
issue: '6687'
language:
- iso: eng
month: '03'
oa_version: None
page: eadg6757
pmid: 1
project:
- _id: 25B7EB9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '692692'
name: Biophysics and circuit function of a giant cortical glumatergic synapse
- _id: 25C5A090-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00312
name: The Wittgenstein Prize
- _id: bd88be38-d553-11ed-ba76-81d5a70a6ef5
grant_number: P36232
name: Mechanisms of GABA release in hippocampal circuits
publication: Science
publication_identifier:
eissn:
- 1095-9203
publication_status: published
publisher: AAAS
quality_controlled: '1'
scopus_import: '1'
status: public
title: Structure, biophysics, and circuit function of a "giant" cortical presynaptic
terminal
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 383
year: '2024'
...