---
_id: '7622'
abstract:
- lang: eng
text: The International Young Physicists' Tournament (IYPT) continued in 2018 in
Beijing, China and 2019 in Warsaw, Poland with its 31st and 32nd editions. The
IYPT is a modern scientific competition for teams of high school students, also
known as the Physics World Cup. It involves long-term theoretical and experimental
work focused on solving 17 publicly announced open-ended problems in teams of
five. On top of that, teams have to present their solutions in front of other
teams and a scientific jury, and get opposed and reviewed by their peers. Here
we present a brief information about the competition with a specific focus on
one of the IYPT 2018 tasks, the 'Ring Oiler'. This seemingly simple mechanical
problem appeared to be of such a complexity that even the dozens of participating
teams and jurying scientists were not able to solve all of its subtleties.
article_number: '034001'
article_processing_charge: No
article_type: original
author:
- first_name: Martin
full_name: Plesch, Martin
last_name: Plesch
- first_name: Samuel
full_name: Plesník, Samuel
last_name: Plesník
- first_name: Natalia
full_name: Ruzickova, Natalia
id: D2761128-D73D-11E9-A1BF-BA0DE6697425
last_name: Ruzickova
citation:
ama: Plesch M, Plesník S, Ruzickova N. The IYPT and the “Ring Oiler” problem. European
Journal of Physics. 2020;41(3). doi:10.1088/1361-6404/ab6414
apa: Plesch, M., Plesník, S., & Ruzickova, N. (2020). The IYPT and the “Ring
Oiler” problem. European Journal of Physics. IOP Publishing. https://doi.org/10.1088/1361-6404/ab6414
chicago: Plesch, Martin, Samuel Plesník, and Natalia Ruzickova. “The IYPT and the
‘Ring Oiler’ Problem.” European Journal of Physics. IOP Publishing, 2020.
https://doi.org/10.1088/1361-6404/ab6414.
ieee: M. Plesch, S. Plesník, and N. Ruzickova, “The IYPT and the ‘Ring Oiler’ problem,”
European Journal of Physics, vol. 41, no. 3. IOP Publishing, 2020.
ista: Plesch M, Plesník S, Ruzickova N. 2020. The IYPT and the ‘Ring Oiler’ problem.
European Journal of Physics. 41(3), 034001.
mla: Plesch, Martin, et al. “The IYPT and the ‘Ring Oiler’ Problem.” European
Journal of Physics, vol. 41, no. 3, 034001, IOP Publishing, 2020, doi:10.1088/1361-6404/ab6414.
short: M. Plesch, S. Plesník, N. Ruzickova, European Journal of Physics 41 (2020).
date_created: 2020-03-31T11:25:04Z
date_published: 2020-02-24T00:00:00Z
date_updated: 2023-08-18T10:18:29Z
day: '24'
ddc:
- '530'
department:
- _id: FyKo
doi: 10.1088/1361-6404/ab6414
external_id:
arxiv:
- '1910.03290'
isi:
- '000537425400001'
file:
- access_level: open_access
checksum: 47dda164e33b6c0c6c3ed14aad298376
content_type: application/pdf
creator: dernst
date_created: 2020-04-06T08:53:53Z
date_updated: 2020-07-14T12:48:01Z
file_id: '7641'
file_name: 2020_EuropJourPhysics_Plesch.pdf
file_size: 1533672
relation: main_file
file_date_updated: 2020-07-14T12:48:01Z
has_accepted_license: '1'
intvolume: ' 41'
isi: 1
issue: '3'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: European Journal of Physics
publication_identifier:
eissn:
- '13616404'
issn:
- '01430807'
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: The IYPT and the 'Ring Oiler' problem
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 41
year: '2020'
...
---
_id: '7623'
abstract:
- lang: eng
text: A two-dimensional mathematical model for cells migrating without adhesion
capabilities is presented and analyzed. Cells are represented by their cortex,
which is modeled as an elastic curve, subject to an internal pressure force. Net
polymerization or depolymerization in the cortex is modeled via local addition
or removal of material, driving a cortical flow. The model takes the form of a
fully nonlinear degenerate parabolic system. An existence analysis is carried
out by adapting ideas from the theory of gradient flows. Numerical simulations
show that these simple rules can account for the behavior observed in experiments,
suggesting a possible mechanical mechanism for adhesion-independent motility.
acknowledgement: This work has been supported by the Vienna Science and Technology
Fund, Grant no. LS13-029. G.J. and C.S. also acknowledge support by the Austrian
Science Fund, Grants no. W1245, F 65, and W1261, as well as by the Fondation Sciences
Mathématiques de Paris, and by Paris-Sciences-et-Lettres.
article_processing_charge: No
article_type: original
author:
- first_name: Gaspard
full_name: Jankowiak, Gaspard
last_name: Jankowiak
- first_name: Diane
full_name: Peurichard, Diane
last_name: Peurichard
- first_name: Anne
full_name: Reversat, Anne
id: 35B76592-F248-11E8-B48F-1D18A9856A87
last_name: Reversat
orcid: 0000-0003-0666-8928
- first_name: Christian
full_name: Schmeiser, Christian
last_name: Schmeiser
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
citation:
ama: Jankowiak G, Peurichard D, Reversat A, Schmeiser C, Sixt MK. Modeling adhesion-independent
cell migration. Mathematical Models and Methods in Applied Sciences. 2020;30(3):513-537.
doi:10.1142/S021820252050013X
apa: Jankowiak, G., Peurichard, D., Reversat, A., Schmeiser, C., & Sixt, M.
K. (2020). Modeling adhesion-independent cell migration. Mathematical Models
and Methods in Applied Sciences. World Scientific. https://doi.org/10.1142/S021820252050013X
chicago: Jankowiak, Gaspard, Diane Peurichard, Anne Reversat, Christian Schmeiser,
and Michael K Sixt. “Modeling Adhesion-Independent Cell Migration.” Mathematical
Models and Methods in Applied Sciences. World Scientific, 2020. https://doi.org/10.1142/S021820252050013X.
ieee: G. Jankowiak, D. Peurichard, A. Reversat, C. Schmeiser, and M. K. Sixt, “Modeling
adhesion-independent cell migration,” Mathematical Models and Methods in Applied
Sciences, vol. 30, no. 3. World Scientific, pp. 513–537, 2020.
ista: Jankowiak G, Peurichard D, Reversat A, Schmeiser C, Sixt MK. 2020. Modeling
adhesion-independent cell migration. Mathematical Models and Methods in Applied
Sciences. 30(3), 513–537.
mla: Jankowiak, Gaspard, et al. “Modeling Adhesion-Independent Cell Migration.”
Mathematical Models and Methods in Applied Sciences, vol. 30, no. 3, World
Scientific, 2020, pp. 513–37, doi:10.1142/S021820252050013X.
short: G. Jankowiak, D. Peurichard, A. Reversat, C. Schmeiser, M.K. Sixt, Mathematical
Models and Methods in Applied Sciences 30 (2020) 513–537.
date_created: 2020-03-31T11:25:05Z
date_published: 2020-03-18T00:00:00Z
date_updated: 2023-08-18T10:18:56Z
day: '18'
department:
- _id: MiSi
doi: 10.1142/S021820252050013X
external_id:
arxiv:
- '1903.09426'
isi:
- '000525349900003'
intvolume: ' 30'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1903.09426
month: '03'
oa: 1
oa_version: Preprint
page: 513-537
project:
- _id: 25AD6156-B435-11E9-9278-68D0E5697425
grant_number: LS13-029
name: Modeling of Polarization and Motility of Leukocytes in Three-Dimensional Environments
publication: Mathematical Models and Methods in Applied Sciences
publication_identifier:
issn:
- '02182025'
publication_status: published
publisher: World Scientific
quality_controlled: '1'
scopus_import: '1'
status: public
title: Modeling adhesion-independent cell migration
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 30
year: '2020'
...
---
_id: '7646'
abstract:
- lang: eng
text: In plant cells, environmental stressors promote changes in connectivity between
the cortical ER and the PM. Although this process is tightly regulated in space
and time, the molecular signals and structural components mediating these changes
in inter-organelle communication are only starting to be characterized. In this
report, we confirm the presence of a putative tethering complex containing the
synaptotagmins 1 and 5 (SYT1 and SYT5) and the Ca2+ and lipid binding protein
1 (CLB1/SYT7). This complex is enriched at ER-PM contact sites (EPCS), have slow
responses to changes in extracellular Ca2+, and display severe cytoskeleton-dependent
rearrangements in response to the trivalent lanthanum (La3+) and gadolinium (Gd3+)
rare earth elements (REEs). Although REEs are generally used as non-selective
cation channel blockers at the PM, here we show that the slow internalization
of REEs into the cytosol underlies the activation of the Ca2+/Calmodulin intracellular
signaling, the accumulation of phosphatidylinositol-4-phosphate (PI4P) at the
PM, and the cytoskeleton-dependent rearrangement of the SYT1/SYT5 EPCS complexes.
We propose that the observed EPCS rearrangements act as a slow adaptive response
to sustained stress conditions, and that this process involves the accumulation
of stress-specific phosphoinositides species at the PM.
article_processing_charge: No
article_type: original
author:
- first_name: E
full_name: Lee, E
last_name: Lee
- first_name: B
full_name: Vila Nova Santana, B
last_name: Vila Nova Santana
- first_name: E
full_name: Samuels, E
last_name: Samuels
- first_name: F
full_name: Benitez-Fuente, F
last_name: Benitez-Fuente
- first_name: E
full_name: Corsi, E
last_name: Corsi
- first_name: MA
full_name: Botella, MA
last_name: Botella
- first_name: J
full_name: Perez-Sancho, J
last_name: Perez-Sancho
- first_name: S
full_name: Vanneste, S
last_name: Vanneste
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: A
full_name: Macho, A
last_name: Macho
- first_name: A
full_name: Alves Azevedo, A
last_name: Alves Azevedo
- first_name: A
full_name: Rosado, A
last_name: Rosado
citation:
ama: Lee E, Vila Nova Santana B, Samuels E, et al. Rare earth elements induce cytoskeleton-dependent
and PI4P-associated rearrangement of SYT1/SYT5 ER-PM contact site complexes in
Arabidopsis. Journal of Experimental Botany. 2020;71(14):3986–3998. doi:10.1093/jxb/eraa138
apa: Lee, E., Vila Nova Santana, B., Samuels, E., Benitez-Fuente, F., Corsi, E.,
Botella, M., … Rosado, A. (2020). Rare earth elements induce cytoskeleton-dependent
and PI4P-associated rearrangement of SYT1/SYT5 ER-PM contact site complexes in
Arabidopsis. Journal of Experimental Botany. Oxford University Press. https://doi.org/10.1093/jxb/eraa138
chicago: Lee, E, B Vila Nova Santana, E Samuels, F Benitez-Fuente, E Corsi, MA Botella,
J Perez-Sancho, et al. “Rare Earth Elements Induce Cytoskeleton-Dependent and
PI4P-Associated Rearrangement of SYT1/SYT5 ER-PM Contact Site Complexes in Arabidopsis.”
Journal of Experimental Botany. Oxford University Press, 2020. https://doi.org/10.1093/jxb/eraa138.
ieee: E. Lee et al., “Rare earth elements induce cytoskeleton-dependent and
PI4P-associated rearrangement of SYT1/SYT5 ER-PM contact site complexes in Arabidopsis,”
Journal of Experimental Botany, vol. 71, no. 14. Oxford University Press,
pp. 3986–3998, 2020.
ista: Lee E, Vila Nova Santana B, Samuels E, Benitez-Fuente F, Corsi E, Botella
M, Perez-Sancho J, Vanneste S, Friml J, Macho A, Alves Azevedo A, Rosado A. 2020.
Rare earth elements induce cytoskeleton-dependent and PI4P-associated rearrangement
of SYT1/SYT5 ER-PM contact site complexes in Arabidopsis. Journal of Experimental
Botany. 71(14), 3986–3998.
mla: Lee, E., et al. “Rare Earth Elements Induce Cytoskeleton-Dependent and PI4P-Associated
Rearrangement of SYT1/SYT5 ER-PM Contact Site Complexes in Arabidopsis.” Journal
of Experimental Botany, vol. 71, no. 14, Oxford University Press, 2020, pp.
3986–3998, doi:10.1093/jxb/eraa138.
short: E. Lee, B. Vila Nova Santana, E. Samuels, F. Benitez-Fuente, E. Corsi, M.
Botella, J. Perez-Sancho, S. Vanneste, J. Friml, A. Macho, A. Alves Azevedo, A.
Rosado, Journal of Experimental Botany 71 (2020) 3986–3998.
date_created: 2020-04-06T10:57:08Z
date_published: 2020-07-06T00:00:00Z
date_updated: 2023-08-18T10:27:52Z
day: '06'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1093/jxb/eraa138
external_id:
isi:
- '000553125400007'
pmid:
- '32179893'
file:
- access_level: open_access
checksum: b06aaaa93dc41896da805fe4b75cf3a1
content_type: application/pdf
creator: dernst
date_created: 2020-10-06T07:41:35Z
date_updated: 2020-10-06T07:41:35Z
file_id: '8613'
file_name: 2020_JourExperimBotany_Lee.pdf
file_size: 1916031
relation: main_file
success: 1
file_date_updated: 2020-10-06T07:41:35Z
has_accepted_license: '1'
intvolume: ' 71'
isi: 1
issue: '14'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 3986–3998
pmid: 1
publication: Journal of Experimental Botany
publication_identifier:
eissn:
- 1460-2431
issn:
- 0022-0957
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
status: public
title: Rare earth elements induce cytoskeleton-dependent and PI4P-associated rearrangement
of SYT1/SYT5 ER-PM contact site complexes in Arabidopsis
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 71
year: '2020'
...
---
_id: '7656'
abstract:
- lang: eng
text: 'We propose that correlations among neurons are generically strong enough
to organize neural activity patterns into a discrete set of clusters, which can
each be viewed as a population codeword. Our reasoning starts with the analysis
of retinal ganglion cell data using maximum entropy models, showing that the population
is robustly in a frustrated, marginally sub-critical, or glassy, state. This leads
to an argument that neural populations in many other brain areas might share this
structure. Next, we use latent variable models to show that this glassy state
possesses well-defined clusters of neural activity. Clusters have three appealing
properties: (i) clusters exhibit error correction, i.e., they are reproducibly
elicited by the same stimulus despite variability at the level of constituent
neurons; (ii) clusters encode qualitatively different visual features than their
constituent neurons; and (iii) clusters can be learned by downstream neural circuits
in an unsupervised fashion. We hypothesize that these properties give rise to
a “learnable” neural code which the cortical hierarchy uses to extract increasingly
complex features without supervision or reinforcement.'
article_number: '20'
article_processing_charge: No
article_type: original
author:
- first_name: Michael J.
full_name: Berry, Michael J.
last_name: Berry
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
citation:
ama: 'Berry MJ, Tkačik G. Clustering of neural activity: A design principle for
population codes. Frontiers in Computational Neuroscience. 2020;14. doi:10.3389/fncom.2020.00020'
apa: 'Berry, M. J., & Tkačik, G. (2020). Clustering of neural activity: A design
principle for population codes. Frontiers in Computational Neuroscience.
Frontiers. https://doi.org/10.3389/fncom.2020.00020'
chicago: 'Berry, Michael J., and Gašper Tkačik. “Clustering of Neural Activity:
A Design Principle for Population Codes.” Frontiers in Computational Neuroscience.
Frontiers, 2020. https://doi.org/10.3389/fncom.2020.00020.'
ieee: 'M. J. Berry and G. Tkačik, “Clustering of neural activity: A design principle
for population codes,” Frontiers in Computational Neuroscience, vol. 14.
Frontiers, 2020.'
ista: 'Berry MJ, Tkačik G. 2020. Clustering of neural activity: A design principle
for population codes. Frontiers in Computational Neuroscience. 14, 20.'
mla: 'Berry, Michael J., and Gašper Tkačik. “Clustering of Neural Activity: A Design
Principle for Population Codes.” Frontiers in Computational Neuroscience,
vol. 14, 20, Frontiers, 2020, doi:10.3389/fncom.2020.00020.'
short: M.J. Berry, G. Tkačik, Frontiers in Computational Neuroscience 14 (2020).
date_created: 2020-04-12T22:00:40Z
date_published: 2020-03-13T00:00:00Z
date_updated: 2023-08-18T10:30:11Z
day: '13'
ddc:
- '570'
department:
- _id: GaTk
doi: 10.3389/fncom.2020.00020
external_id:
isi:
- '000525543200001'
pmid:
- '32231528'
file:
- access_level: open_access
checksum: 2b1da23823eae9cedbb42d701945b61e
content_type: application/pdf
creator: dernst
date_created: 2020-04-14T12:20:39Z
date_updated: 2020-07-14T12:48:01Z
file_id: '7659'
file_name: 2020_Frontiers_Berry.pdf
file_size: 4082937
relation: main_file
file_date_updated: 2020-07-14T12:48:01Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
publication: Frontiers in Computational Neuroscience
publication_identifier:
eissn:
- '16625188'
publication_status: published
publisher: Frontiers
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Clustering of neural activity: A design principle for population codes'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 14
year: '2020'
...
---
_id: '7638'
abstract:
- lang: eng
text: Following on from our recent work, we investigate a stochastic approach to
non-equilibrium quantum spin systems. We show how the method can be applied to
a variety of physical observables and for different initial conditions. We provide
exact formulae of broad applicability for the time-dependence of expectation values
and correlation functions following a quantum quench in terms of averages over
classical stochastic processes. We further explore the behavior of the classical
stochastic variables in the presence of dynamical quantum phase transitions, including
results for their distributions and correlation functions. We provide details
on the numerical solution of the associated stochastic differential equations,
and examine the growth of fluctuations in the classical description. We discuss
the strengths and limitations of the current implementation of the stochastic
approach and the potential for further development.
article_number: '013106'
article_processing_charge: No
article_type: original
author:
- first_name: Stefano
full_name: De Nicola, Stefano
id: 42832B76-F248-11E8-B48F-1D18A9856A87
last_name: De Nicola
orcid: 0000-0002-4842-6671
- first_name: B.
full_name: Doyon, B.
last_name: Doyon
- first_name: M. J.
full_name: Bhaseen, M. J.
last_name: Bhaseen
citation:
ama: 'De Nicola S, Doyon B, Bhaseen MJ. Non-equilibrium quantum spin dynamics from
classical stochastic processes. Journal of Statistical Mechanics: Theory and
Experiment. 2020;2020(1). doi:10.1088/1742-5468/ab6093'
apa: 'De Nicola, S., Doyon, B., & Bhaseen, M. J. (2020). Non-equilibrium quantum
spin dynamics from classical stochastic processes. Journal of Statistical Mechanics:
Theory and Experiment. IOP Publishing. https://doi.org/10.1088/1742-5468/ab6093'
chicago: 'De Nicola, Stefano, B. Doyon, and M. J. Bhaseen. “Non-Equilibrium Quantum
Spin Dynamics from Classical Stochastic Processes.” Journal of Statistical
Mechanics: Theory and Experiment. IOP Publishing, 2020. https://doi.org/10.1088/1742-5468/ab6093.'
ieee: 'S. De Nicola, B. Doyon, and M. J. Bhaseen, “Non-equilibrium quantum spin
dynamics from classical stochastic processes,” Journal of Statistical Mechanics:
Theory and Experiment, vol. 2020, no. 1. IOP Publishing, 2020.'
ista: 'De Nicola S, Doyon B, Bhaseen MJ. 2020. Non-equilibrium quantum spin dynamics
from classical stochastic processes. Journal of Statistical Mechanics: Theory
and Experiment. 2020(1), 013106.'
mla: 'De Nicola, Stefano, et al. “Non-Equilibrium Quantum Spin Dynamics from Classical
Stochastic Processes.” Journal of Statistical Mechanics: Theory and Experiment,
vol. 2020, no. 1, 013106, IOP Publishing, 2020, doi:10.1088/1742-5468/ab6093.'
short: 'S. De Nicola, B. Doyon, M.J. Bhaseen, Journal of Statistical Mechanics:
Theory and Experiment 2020 (2020).'
date_created: 2020-04-05T22:00:50Z
date_published: 2020-01-22T00:00:00Z
date_updated: 2023-08-18T10:27:15Z
day: '22'
ddc:
- '530'
department:
- _id: MaSe
doi: 10.1088/1742-5468/ab6093
ec_funded: 1
external_id:
arxiv:
- '1909.13142'
isi:
- '000520187500001'
file:
- access_level: open_access
checksum: 4030e683c15d30b7b4794ec7dc1b6537
content_type: application/pdf
creator: dernst
date_created: 2020-04-06T13:15:49Z
date_updated: 2020-07-14T12:48:01Z
file_id: '7648'
file_name: 2020_JournStatisticalMech_DeNicola.pdf
file_size: 3159026
relation: main_file
file_date_updated: 2020-07-14T12:48:01Z
has_accepted_license: '1'
intvolume: ' 2020'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: 'Journal of Statistical Mechanics: Theory and Experiment'
publication_identifier:
eissn:
- '17425468'
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Non-equilibrium quantum spin dynamics from classical stochastic processes
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 2020
year: '2020'
...
---
_id: '7637'
abstract:
- lang: eng
text: The evolution of finitely many particles obeying Langevin dynamics is described
by Dean–Kawasaki equations, a class of stochastic equations featuring a non-Lipschitz
multiplicative noise in divergence form. We derive a regularised Dean–Kawasaki
model based on second order Langevin dynamics by analysing a system of particles
interacting via a pairwise potential. Key tools of our analysis are the propagation
of chaos and Simon's compactness criterion. The model we obtain is a small-noise
stochastic perturbation of the undamped McKean–Vlasov equation. We also provide
a high-probability result for existence and uniqueness for our model.
article_processing_charge: No
article_type: original
author:
- first_name: Federico
full_name: Cornalba, Federico
id: 2CEB641C-A400-11E9-A717-D712E6697425
last_name: Cornalba
orcid: 0000-0002-6269-5149
- first_name: Tony
full_name: Shardlow, Tony
last_name: Shardlow
- first_name: Johannes
full_name: Zimmer, Johannes
last_name: Zimmer
citation:
ama: Cornalba F, Shardlow T, Zimmer J. From weakly interacting particles to a regularised
Dean-Kawasaki model. Nonlinearity. 2020;33(2):864-891. doi:10.1088/1361-6544/ab5174
apa: Cornalba, F., Shardlow, T., & Zimmer, J. (2020). From weakly interacting
particles to a regularised Dean-Kawasaki model. Nonlinearity. IOP Publishing.
https://doi.org/10.1088/1361-6544/ab5174
chicago: Cornalba, Federico, Tony Shardlow, and Johannes Zimmer. “From Weakly Interacting
Particles to a Regularised Dean-Kawasaki Model.” Nonlinearity. IOP Publishing,
2020. https://doi.org/10.1088/1361-6544/ab5174.
ieee: F. Cornalba, T. Shardlow, and J. Zimmer, “From weakly interacting particles
to a regularised Dean-Kawasaki model,” Nonlinearity, vol. 33, no. 2. IOP
Publishing, pp. 864–891, 2020.
ista: Cornalba F, Shardlow T, Zimmer J. 2020. From weakly interacting particles
to a regularised Dean-Kawasaki model. Nonlinearity. 33(2), 864–891.
mla: Cornalba, Federico, et al. “From Weakly Interacting Particles to a Regularised
Dean-Kawasaki Model.” Nonlinearity, vol. 33, no. 2, IOP Publishing, 2020,
pp. 864–91, doi:10.1088/1361-6544/ab5174.
short: F. Cornalba, T. Shardlow, J. Zimmer, Nonlinearity 33 (2020) 864–891.
date_created: 2020-04-05T22:00:49Z
date_published: 2020-01-10T00:00:00Z
date_updated: 2023-08-18T10:26:07Z
day: '10'
department:
- _id: JuFi
doi: 10.1088/1361-6544/ab5174
external_id:
arxiv:
- '1811.06448'
isi:
- '000508175400001'
intvolume: ' 33'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1811.06448
month: '01'
oa: 1
oa_version: Preprint
page: 864-891
publication: Nonlinearity
publication_identifier:
eissn:
- '13616544'
issn:
- '09517715'
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: From weakly interacting particles to a regularised Dean-Kawasaki model
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 33
year: '2020'
...
---
_id: '7664'
abstract:
- lang: eng
text: Metabotropic γ-aminobutyric acid (GABAB) receptors contribute to the control
of network activity and information processing in hippocampal circuits by regulating
neuronal excitability and synaptic transmission. The dysfunction in the dentate
gyrus (DG) has been implicated in Alzheimer´s disease (AD). Given the involvement
of GABAB receptors in AD, to determine their subcellular localisation and possible
alteration in granule cells of the DG in a mouse model of AD at 12 months of age,
we used high-resolution immunoelectron microscopic analysis. Immunohistochemistry
at the light microscopic level showed that the regional and cellular expression
pattern of GABAB1 was similar in an AD model mouse expressing mutated human amyloid
precursor protein and presenilin1 (APP/PS1) and in age-matched wild type mice.
High-resolution immunoelectron microscopy revealed a distance-dependent gradient
of immunolabelling for GABAB receptors, increasing from proximal to distal dendrites
in both wild type and APP/PS1 mice. However, the overall density of GABAB receptors
at the neuronal surface of these postsynaptic compartments of granule cells was
significantly reduced in APP/PS1 mice. Parallel to this reduction in surface receptors,
we found a significant increase in GABAB1 at cytoplasmic sites. GABAB receptors
were also detected at presynaptic sites in the molecular layer of the DG. We also
found a decrease in plasma membrane GABAB receptors in axon terminals contacting
dendritic spines of granule cells, which was more pronounced in the outer than
in the inner molecular layer. Altogether, our data showing post- and presynaptic
reduction in surface GABAB receptors in the DG suggest the alteration of the GABAB-mediated
modulation of excitability and synaptic transmission in granule cells, which may
contribute to the cognitive dysfunctions in the APP/PS1 model of AD
article_number: '2459'
article_processing_charge: No
article_type: original
author:
- first_name: Alejandro
full_name: Martín-Belmonte, Alejandro
last_name: Martín-Belmonte
- first_name: Carolina
full_name: Aguado, Carolina
last_name: Aguado
- first_name: Rocío
full_name: Alfaro-Ruíz, Rocío
last_name: Alfaro-Ruíz
- first_name: Ana Esther
full_name: Moreno-Martínez, Ana Esther
last_name: Moreno-Martínez
- first_name: Luis
full_name: De La Ossa, Luis
last_name: De La Ossa
- first_name: José
full_name: Martínez-Hernández, José
last_name: Martínez-Hernández
- first_name: Alain
full_name: Buisson, Alain
last_name: Buisson
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Yugo
full_name: Fukazawa, Yugo
last_name: Fukazawa
- first_name: Rafael
full_name: Luján, Rafael
last_name: Luján
citation:
ama: Martín-Belmonte A, Aguado C, Alfaro-Ruíz R, et al. Density of GABAB receptors
is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s
disease. International journal of molecular sciences. 2020;21(7). doi:10.3390/ijms21072459
apa: Martín-Belmonte, A., Aguado, C., Alfaro-Ruíz, R., Moreno-Martínez, A. E., De
La Ossa, L., Martínez-Hernández, J., … Luján, R. (2020). Density of GABAB receptors
is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s
disease. International Journal of Molecular Sciences. MDPI. https://doi.org/10.3390/ijms21072459
chicago: Martín-Belmonte, Alejandro, Carolina Aguado, Rocío Alfaro-Ruíz, Ana Esther
Moreno-Martínez, Luis De La Ossa, José Martínez-Hernández, Alain Buisson, Ryuichi
Shigemoto, Yugo Fukazawa, and Rafael Luján. “Density of GABAB Receptors Is Reduced
in Granule Cells of the Hippocampus in a Mouse Model of Alzheimer’s Disease.”
International Journal of Molecular Sciences. MDPI, 2020. https://doi.org/10.3390/ijms21072459.
ieee: A. Martín-Belmonte et al., “Density of GABAB receptors is reduced in
granule cells of the hippocampus in a mouse model of Alzheimer’s disease,” International
journal of molecular sciences, vol. 21, no. 7. MDPI, 2020.
ista: Martín-Belmonte A, Aguado C, Alfaro-Ruíz R, Moreno-Martínez AE, De La Ossa
L, Martínez-Hernández J, Buisson A, Shigemoto R, Fukazawa Y, Luján R. 2020. Density
of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model
of Alzheimer’s disease. International journal of molecular sciences. 21(7), 2459.
mla: Martín-Belmonte, Alejandro, et al. “Density of GABAB Receptors Is Reduced in
Granule Cells of the Hippocampus in a Mouse Model of Alzheimer’s Disease.” International
Journal of Molecular Sciences, vol. 21, no. 7, 2459, MDPI, 2020, doi:10.3390/ijms21072459.
short: A. Martín-Belmonte, C. Aguado, R. Alfaro-Ruíz, A.E. Moreno-Martínez, L. De
La Ossa, J. Martínez-Hernández, A. Buisson, R. Shigemoto, Y. Fukazawa, R. Luján,
International Journal of Molecular Sciences 21 (2020).
date_created: 2020-04-19T22:00:55Z
date_published: 2020-04-02T00:00:00Z
date_updated: 2023-08-21T06:13:19Z
day: '02'
ddc:
- '570'
department:
- _id: RySh
doi: 10.3390/ijms21072459
external_id:
isi:
- '000535574200201'
pmid:
- '32252271'
file:
- access_level: open_access
checksum: b9d2f1657d8c4a74b01a62b474d009b0
content_type: application/pdf
creator: dernst
date_created: 2020-04-20T11:43:18Z
date_updated: 2020-07-14T12:48:01Z
file_id: '7669'
file_name: 2020_JournMolecSciences_Martin_Belmonte.pdf
file_size: 2941197
relation: main_file
file_date_updated: 2020-07-14T12:48:01Z
has_accepted_license: '1'
intvolume: ' 21'
isi: 1
issue: '7'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
publication: International journal of molecular sciences
publication_identifier:
eissn:
- '14220067'
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Density of GABAB receptors is reduced in granule cells of the hippocampus in
a mouse model of Alzheimer's disease
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 21
year: '2020'
...
---
_id: '7665'
abstract:
- lang: eng
text: Acute brain slice preparation is a powerful experimental model for investigating
the characteristics of synaptic function in the brain. Although brain tissue is
usually cut at ice-cold temperature (CT) to facilitate slicing and avoid neuronal
damage, exposure to CT causes molecular and architectural changes of synapses.
To address these issues, we investigated ultrastructural and electrophysiological
features of synapses in mouse acute cerebellar slices prepared at ice-cold and
physiological temperature (PT). In the slices prepared at CT, we found significant
spine loss and reconstruction, synaptic vesicle rearrangement and decrease in
synaptic proteins, all of which were not detected in slices prepared at PT. Consistent
with these structural findings, slices prepared at PT showed higher release probability.
Furthermore, preparation at PT allows electrophysiological recording immediately
after slicing resulting in higher detectability of long-term depression (LTD)
after motor learning compared with that at CT. These results indicate substantial
advantages of the slice preparation at PT for investigating synaptic functions
in different physiological conditions.
article_number: '63'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Kohgaku
full_name: Eguchi, Kohgaku
id: 2B7846DC-F248-11E8-B48F-1D18A9856A87
last_name: Eguchi
orcid: 0000-0002-6170-2546
- first_name: Philipp
full_name: Velicky, Philipp
id: 39BDC62C-F248-11E8-B48F-1D18A9856A87
last_name: Velicky
orcid: 0000-0002-2340-7431
- first_name: Elena
full_name: Hollergschwandtner, Elena
id: 3C054040-F248-11E8-B48F-1D18A9856A87
last_name: Hollergschwandtner
- first_name: Makoto
full_name: Itakura, Makoto
last_name: Itakura
- first_name: Yugo
full_name: Fukazawa, Yugo
last_name: Fukazawa
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
citation:
ama: Eguchi K, Velicky P, Saeckl E, et al. Advantages of acute brain slices prepared
at physiological temperature in the characterization of synaptic functions. Frontiers
in Cellular Neuroscience. 2020;14. doi:10.3389/fncel.2020.00063
apa: Eguchi, K., Velicky, P., Saeckl, E., Itakura, M., Fukazawa, Y., Danzl, J. G.,
& Shigemoto, R. (2020). Advantages of acute brain slices prepared at physiological
temperature in the characterization of synaptic functions. Frontiers in Cellular
Neuroscience. Frontiers Media. https://doi.org/10.3389/fncel.2020.00063
chicago: Eguchi, Kohgaku, Philipp Velicky, Elena Saeckl, Makoto Itakura, Yugo Fukazawa,
Johann G Danzl, and Ryuichi Shigemoto. “Advantages of Acute Brain Slices Prepared
at Physiological Temperature in the Characterization of Synaptic Functions.” Frontiers
in Cellular Neuroscience. Frontiers Media, 2020. https://doi.org/10.3389/fncel.2020.00063.
ieee: K. Eguchi et al., “Advantages of acute brain slices prepared at physiological
temperature in the characterization of synaptic functions,” Frontiers in Cellular
Neuroscience, vol. 14. Frontiers Media, 2020.
ista: Eguchi K, Velicky P, Saeckl E, Itakura M, Fukazawa Y, Danzl JG, Shigemoto
R. 2020. Advantages of acute brain slices prepared at physiological temperature
in the characterization of synaptic functions. Frontiers in Cellular Neuroscience.
14, 63.
mla: Eguchi, Kohgaku, et al. “Advantages of Acute Brain Slices Prepared at Physiological
Temperature in the Characterization of Synaptic Functions.” Frontiers in Cellular
Neuroscience, vol. 14, 63, Frontiers Media, 2020, doi:10.3389/fncel.2020.00063.
short: K. Eguchi, P. Velicky, E. Saeckl, M. Itakura, Y. Fukazawa, J.G. Danzl, R.
Shigemoto, Frontiers in Cellular Neuroscience 14 (2020).
date_created: 2020-04-19T22:00:55Z
date_published: 2020-03-19T00:00:00Z
date_updated: 2023-08-21T06:12:48Z
day: '19'
ddc:
- '570'
department:
- _id: JoDa
- _id: RySh
doi: 10.3389/fncel.2020.00063
ec_funded: 1
external_id:
isi:
- '000525582200001'
file:
- access_level: open_access
checksum: 1c145123c6f8dc3e2e4bd5a66a1ad60e
content_type: application/pdf
creator: dernst
date_created: 2020-04-20T10:59:49Z
date_updated: 2020-07-14T12:48:01Z
file_id: '7668'
file_name: 2020_FrontiersCellularNeurosc_Eguchi.pdf
file_size: 9227283
relation: main_file
file_date_updated: 2020-07-14T12:48:01Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
project:
- _id: 2659CC84-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '793482'
name: 'Ultrastructural analysis of phosphoinositides in nerve terminals: distribution,
dynamics and physiological roles in synaptic transmission'
- _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: 265CB4D0-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03600
name: Optical control of synaptic function via adhesion molecules
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Frontiers in Cellular Neuroscience
publication_identifier:
issn:
- '16625102'
publication_status: published
publisher: Frontiers Media
quality_controlled: '1'
scopus_import: '1'
status: public
title: Advantages of acute brain slices prepared at physiological temperature in the
characterization of synaptic functions
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 14
year: '2020'
...
---
_id: '7663'
abstract:
- lang: eng
text: Wood, as the most abundant carbon dioxide storing bioresource, is currently
driven beyond its traditional use through creative innovations and nanotechnology.
For many properties the micro- and nanostructure plays a crucial role and one
key challenge is control and detection of chemical and physical processes in the
confined microstructure and nanopores of the wooden cell wall. In this study,
correlative Raman and atomic force microscopy show high potential for tracking
in situ molecular rearrangement of wood polymers during compression. More water
molecules (interpreted as wider cellulose microfibril distances) and disentangling
of hemicellulose chains are detected in the opened cell wall regions, whereas
an increase of lignin is revealed in the compressed areas. These results support
a new more “loose” cell wall model based on flexible lignin nanodomains and advance
our knowledge of the molecular reorganization during deformation of wood for optimized
processing and utilization.
article_processing_charge: No
article_type: original
author:
- first_name: Martin
full_name: Felhofer, Martin
last_name: Felhofer
- first_name: Peter
full_name: Bock, Peter
last_name: Bock
- first_name: Adya
full_name: Singh, Adya
last_name: Singh
- first_name: Batirtze
full_name: Prats Mateu, Batirtze
id: 299FE892-F248-11E8-B48F-1D18A9856A87
last_name: Prats Mateu
- first_name: Ronald
full_name: Zirbs, Ronald
last_name: Zirbs
- first_name: Notburga
full_name: Gierlinger, Notburga
last_name: Gierlinger
citation:
ama: Felhofer M, Bock P, Singh A, Prats Mateu B, Zirbs R, Gierlinger N. Wood deformation
leads to rearrangement of molecules at the nanoscale. Nano Letters. 2020;20(4):2647-2653.
doi:10.1021/acs.nanolett.0c00205
apa: Felhofer, M., Bock, P., Singh, A., Prats Mateu, B., Zirbs, R., & Gierlinger,
N. (2020). Wood deformation leads to rearrangement of molecules at the nanoscale.
Nano Letters. American Chemical Society. https://doi.org/10.1021/acs.nanolett.0c00205
chicago: Felhofer, Martin, Peter Bock, Adya Singh, Batirtze Prats Mateu, Ronald
Zirbs, and Notburga Gierlinger. “Wood Deformation Leads to Rearrangement of Molecules
at the Nanoscale.” Nano Letters. American Chemical Society, 2020. https://doi.org/10.1021/acs.nanolett.0c00205.
ieee: M. Felhofer, P. Bock, A. Singh, B. Prats Mateu, R. Zirbs, and N. Gierlinger,
“Wood deformation leads to rearrangement of molecules at the nanoscale,” Nano
Letters, vol. 20, no. 4. American Chemical Society, pp. 2647–2653, 2020.
ista: Felhofer M, Bock P, Singh A, Prats Mateu B, Zirbs R, Gierlinger N. 2020. Wood
deformation leads to rearrangement of molecules at the nanoscale. Nano Letters.
20(4), 2647–2653.
mla: Felhofer, Martin, et al. “Wood Deformation Leads to Rearrangement of Molecules
at the Nanoscale.” Nano Letters, vol. 20, no. 4, American Chemical Society,
2020, pp. 2647–53, doi:10.1021/acs.nanolett.0c00205.
short: M. Felhofer, P. Bock, A. Singh, B. Prats Mateu, R. Zirbs, N. Gierlinger,
Nano Letters 20 (2020) 2647–2653.
date_created: 2020-04-19T22:00:54Z
date_published: 2020-04-08T00:00:00Z
date_updated: 2023-08-21T06:12:09Z
day: '08'
ddc:
- '530'
department:
- _id: MaLo
doi: 10.1021/acs.nanolett.0c00205
external_id:
isi:
- '000526413400055'
pmid:
- '32196350'
file:
- access_level: open_access
checksum: fe46146a9c4c620592a1932a8599069e
content_type: application/pdf
creator: dernst
date_created: 2020-04-20T10:43:36Z
date_updated: 2020-07-14T12:48:01Z
file_id: '7667'
file_name: 2020_NanoLetters_Felhofer.pdf
file_size: 7108014
relation: main_file
file_date_updated: 2020-07-14T12:48:01Z
has_accepted_license: '1'
intvolume: ' 20'
isi: 1
issue: '4'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 2647-2653
pmid: 1
publication: Nano Letters
publication_identifier:
eissn:
- '15306992'
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Wood deformation leads to rearrangement of molecules at the nanoscale
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 20
year: '2020'
...
---
_id: '7666'
abstract:
- lang: eng
text: Generalizing the decomposition of a connected planar graph into a tree and
a dual tree, we prove a combinatorial analog of the classic Helmholtz–Hodge decomposition
of a smooth vector field. Specifically, we show that for every polyhedral complex,
K, and every dimension, p, there is a partition of the set of p-cells into a maximal
p-tree, a maximal p-cotree, and a collection of p-cells whose cardinality is the
p-th reduced Betti number of K. Given an ordering of the p-cells, this tri-partition
is unique, and it can be computed by a matrix reduction algorithm that also constructs
canonical bases of cycle and boundary groups.
acknowledgement: This project has received funding from the European Research Council
under the European Union’s Horizon 2020 research and innovation programme (Grant
Agreement No. 78818 Alpha). It is also partially supported by the DFG Collaborative
Research Center TRR 109, ‘Discretization in Geometry and Dynamics’, through Grant
No. I02979-N35 of the Austrian Science Fund (FWF).
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Katharina
full_name: Ölsböck, Katharina
id: 4D4AA390-F248-11E8-B48F-1D18A9856A87
last_name: Ölsböck
orcid: 0000-0002-4672-8297
citation:
ama: Edelsbrunner H, Ölsböck K. Tri-partitions and bases of an ordered complex.
Discrete and Computational Geometry. 2020;64:759-775. doi:10.1007/s00454-020-00188-x
apa: Edelsbrunner, H., & Ölsböck, K. (2020). Tri-partitions and bases of an
ordered complex. Discrete and Computational Geometry. Springer Nature.
https://doi.org/10.1007/s00454-020-00188-x
chicago: Edelsbrunner, Herbert, and Katharina Ölsböck. “Tri-Partitions and Bases
of an Ordered Complex.” Discrete and Computational Geometry. Springer Nature,
2020. https://doi.org/10.1007/s00454-020-00188-x.
ieee: H. Edelsbrunner and K. Ölsböck, “Tri-partitions and bases of an ordered complex,”
Discrete and Computational Geometry, vol. 64. Springer Nature, pp. 759–775,
2020.
ista: Edelsbrunner H, Ölsböck K. 2020. Tri-partitions and bases of an ordered complex.
Discrete and Computational Geometry. 64, 759–775.
mla: Edelsbrunner, Herbert, and Katharina Ölsböck. “Tri-Partitions and Bases of
an Ordered Complex.” Discrete and Computational Geometry, vol. 64, Springer
Nature, 2020, pp. 759–75, doi:10.1007/s00454-020-00188-x.
short: H. Edelsbrunner, K. Ölsböck, Discrete and Computational Geometry 64 (2020)
759–775.
date_created: 2020-04-19T22:00:56Z
date_published: 2020-03-20T00:00:00Z
date_updated: 2023-08-21T06:13:48Z
day: '20'
ddc:
- '510'
department:
- _id: HeEd
doi: 10.1007/s00454-020-00188-x
ec_funded: 1
external_id:
isi:
- '000520918800001'
file:
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checksum: f8cc96e497f00c38340b5dafe0cb91d7
content_type: application/pdf
creator: dernst
date_created: 2020-11-20T13:22:21Z
date_updated: 2020-11-20T13:22:21Z
file_id: '8786'
file_name: 2020_DiscreteCompGeo_Edelsbrunner.pdf
file_size: 701673
relation: main_file
success: 1
file_date_updated: 2020-11-20T13:22:21Z
has_accepted_license: '1'
intvolume: ' 64'
isi: 1
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 759-775
project:
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
- _id: 266A2E9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '788183'
name: Alpha Shape Theory Extended
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I02979-N35
name: Persistence and stability of geometric complexes
publication: Discrete and Computational Geometry
publication_identifier:
eissn:
- '14320444'
issn:
- '01795376'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Tri-partitions and bases of an ordered complex
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 64
year: '2020'
...
---
_id: '7683'
abstract:
- lang: eng
text: For any free oriented Borel–Moore homology theory A, we construct an associative
product on the A-theory of the stack of Higgs torsion sheaves over a projective
curve C. We show that the resulting algebra AHa0C admits a natural shuffle presentation,
and prove it is faithful when A is replaced with usual Borel–Moore homology groups.
We also introduce moduli spaces of stable triples, heavily inspired by Nakajima
quiver varieties, whose A-theory admits an AHa0C-action. These triples can be
interpreted as certain sheaves on PC(ωC⊕OC). In particular, we obtain an action
of AHa0C on the cohomology of Hilbert schemes of points on T∗C.
article_number: '30'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Sasha
full_name: Minets, Sasha
id: 3E7C5304-F248-11E8-B48F-1D18A9856A87
last_name: Minets
orcid: 0000-0003-3883-1806
citation:
ama: Minets S. Cohomological Hall algebras for Higgs torsion sheaves, moduli of
triples and sheaves on surfaces. Selecta Mathematica, New Series. 2020;26(2).
doi:10.1007/s00029-020-00553-x
apa: Minets, S. (2020). Cohomological Hall algebras for Higgs torsion sheaves, moduli
of triples and sheaves on surfaces. Selecta Mathematica, New Series. Springer
Nature. https://doi.org/10.1007/s00029-020-00553-x
chicago: Minets, Sasha. “Cohomological Hall Algebras for Higgs Torsion Sheaves,
Moduli of Triples and Sheaves on Surfaces.” Selecta Mathematica, New Series.
Springer Nature, 2020. https://doi.org/10.1007/s00029-020-00553-x.
ieee: S. Minets, “Cohomological Hall algebras for Higgs torsion sheaves, moduli
of triples and sheaves on surfaces,” Selecta Mathematica, New Series, vol.
26, no. 2. Springer Nature, 2020.
ista: Minets S. 2020. Cohomological Hall algebras for Higgs torsion sheaves, moduli
of triples and sheaves on surfaces. Selecta Mathematica, New Series. 26(2), 30.
mla: Minets, Sasha. “Cohomological Hall Algebras for Higgs Torsion Sheaves, Moduli
of Triples and Sheaves on Surfaces.” Selecta Mathematica, New Series, vol.
26, no. 2, 30, Springer Nature, 2020, doi:10.1007/s00029-020-00553-x.
short: S. Minets, Selecta Mathematica, New Series 26 (2020).
date_created: 2020-04-26T22:00:44Z
date_published: 2020-04-15T00:00:00Z
date_updated: 2023-08-21T06:14:58Z
day: '15'
ddc:
- '510'
department:
- _id: TaHa
doi: 10.1007/s00029-020-00553-x
external_id:
arxiv:
- '1801.01429'
isi:
- '000526036400001'
file:
- access_level: open_access
checksum: 2368c4662629b4759295eb365323b2ad
content_type: application/pdf
creator: dernst
date_created: 2020-04-28T10:57:58Z
date_updated: 2020-07-14T12:48:02Z
file_id: '7690'
file_name: 2020_SelectaMathematica_Minets.pdf
file_size: 792469
relation: main_file
file_date_updated: 2020-07-14T12:48:02Z
has_accepted_license: '1'
intvolume: ' 26'
isi: 1
issue: '2'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
project:
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Selecta Mathematica, New Series
publication_identifier:
eissn:
- '14209020'
issn:
- '10221824'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Cohomological Hall algebras for Higgs torsion sheaves, moduli of triples and
sheaves on surfaces
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 26
year: '2020'
...
---
_id: '7672'
abstract:
- lang: eng
text: Large overpotentials upon discharge and charge of Li-O2 cells have motivated
extensive research into heterogeneous solid electrocatalysts or non-carbon electrodes
with the aim to improve rate capability, round-trip efficiency and cycle life.
These features are equally governed by parasitic reactions, which are now recognized
to be caused by the highly reactive singlet oxygen (1O2). However, the link between
the presence of electrocatalysts and 1O2 formation in metal-O2 cells is unknown.
Here, we show that, compared to pristine carbon black electrodes, a representative
selection of electrocatalysts or non-carbon electrodes (noble metal, transition
metal compounds) may both slightly reduce or severely increase the 1O2 formation.
The individual reaction steps, where the surfaces impact the 1O2 yield are deciphered,
showing that 1O2 yield from superoxide disproportionation as well as the decomposition
of trace H2O2 are sensitive to catalysts. Transition metal compounds in general
are prone to increase 1O2.
acknowledgement: S.A.F. thanks the International Society of Electrochemistry for awarding
the Tajima Prize 2019 “in recognition of outstanding re- searches on Li-Air batteries
by the use of a range of in-situ elec- trochemical methods to achieve comprehensive
understanding of the reactions taking place at the oxygen electrode”. This article
is dedicated to the special issue of Electrochmica Acta associated with the awarding
conference. S.A.F. is indebted to and the Austrian Federal Ministry of Science,
Research and Economy and the Austrian Research Promotion Agency (grant No. 845364
) and the European Research Council (ERC) under the European Union’s Horizon 2020
research and innovation programme (grant agreement No 636069). The authors thank
J. Schlegl for manufacturing instrumentation, M. Winkler of Acib GmbH and G. Strohmeier
for help with HPLC measurements, S. Eder for cyclic voltammetry measurements, and
C. Slugovc for discussions and continuous support. We thank S. Borisov for access
and advice with fluorescence measurements. We thank EL-Cell GmbH, Hamburg, Germany
for providing the PAT-Cell-Press electrochemical cell.
article_number: '137175'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Aleksej
full_name: Samojlov, Aleksej
last_name: Samojlov
- first_name: David
full_name: Schuster, David
last_name: Schuster
- first_name: Jürgen
full_name: Kahr, Jürgen
last_name: Kahr
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: Samojlov A, Schuster D, Kahr J, Freunberger SA. Surface and catalyst driven
singlet oxygen formation in Li-O2 cells. Electrochimica Acta. 2020;362(12).
doi:10.1016/j.electacta.2020.137175
apa: Samojlov, A., Schuster, D., Kahr, J., & Freunberger, S. A. (2020). Surface
and catalyst driven singlet oxygen formation in Li-O2 cells. Electrochimica
Acta. Elsevier. https://doi.org/10.1016/j.electacta.2020.137175
chicago: Samojlov, Aleksej, David Schuster, Jürgen Kahr, and Stefan Alexander Freunberger.
“Surface and Catalyst Driven Singlet Oxygen Formation in Li-O2 Cells.” Electrochimica
Acta. Elsevier, 2020. https://doi.org/10.1016/j.electacta.2020.137175.
ieee: A. Samojlov, D. Schuster, J. Kahr, and S. A. Freunberger, “Surface and catalyst
driven singlet oxygen formation in Li-O2 cells,” Electrochimica Acta, vol.
362, no. 12. Elsevier, 2020.
ista: Samojlov A, Schuster D, Kahr J, Freunberger SA. 2020. Surface and catalyst
driven singlet oxygen formation in Li-O2 cells. Electrochimica Acta. 362(12),
137175.
mla: Samojlov, Aleksej, et al. “Surface and Catalyst Driven Singlet Oxygen Formation
in Li-O2 Cells.” Electrochimica Acta, vol. 362, no. 12, 137175, Elsevier,
2020, doi:10.1016/j.electacta.2020.137175.
short: A. Samojlov, D. Schuster, J. Kahr, S.A. Freunberger, Electrochimica Acta
362 (2020).
date_created: 2020-04-20T19:29:31Z
date_published: 2020-12-01T00:00:00Z
date_updated: 2023-08-21T06:14:21Z
day: '01'
ddc:
- '540'
department:
- _id: StFr
doi: 10.1016/j.electacta.2020.137175
external_id:
isi:
- '000582869700060'
file:
- access_level: open_access
checksum: 1ab1aa2024d431e2a089ea336bc08298
content_type: application/pdf
creator: dernst
date_created: 2020-10-01T13:20:45Z
date_updated: 2020-10-01T13:20:45Z
file_id: '8593'
file_name: 2020_ElectrochimicaActa_Samojlov.pdf
file_size: 1404030
relation: main_file
success: 1
file_date_updated: 2020-10-01T13:20:45Z
has_accepted_license: '1'
intvolume: ' 362'
isi: 1
issue: '12'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '12'
oa: 1
oa_version: Published Version
publication: Electrochimica Acta
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Surface and catalyst driven singlet oxygen formation in Li-O2 cells
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 362
year: '2020'
...
---
_id: '7684'
article_processing_charge: No
article_type: original
author:
- first_name: Igor
full_name: Gridchyn, Igor
id: 4B60654C-F248-11E8-B48F-1D18A9856A87
last_name: Gridchyn
orcid: 0000-0002-1807-1929
- first_name: Philipp
full_name: Schönenberger, Philipp
id: 3B9D816C-F248-11E8-B48F-1D18A9856A87
last_name: Schönenberger
- first_name: Joseph
full_name: O'Neill, Joseph
id: 426376DC-F248-11E8-B48F-1D18A9856A87
last_name: O'Neill
- first_name: Jozsef L
full_name: Csicsvari, Jozsef L
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
citation:
ama: Gridchyn I, Schönenberger P, O’Neill J, Csicsvari JL. Assembly-specific disruption
of hippocampal replay leads to selective memory deficit. Neuron. 2020;106(2):291-300.e6.
doi:10.1016/j.neuron.2020.01.021
apa: Gridchyn, I., Schönenberger, P., O’Neill, J., & Csicsvari, J. L. (2020).
Assembly-specific disruption of hippocampal replay leads to selective memory deficit.
Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2020.01.021
chicago: Gridchyn, Igor, Philipp Schönenberger, Joseph O’Neill, and Jozsef L Csicsvari.
“Assembly-Specific Disruption of Hippocampal Replay Leads to Selective Memory
Deficit.” Neuron. Elsevier, 2020. https://doi.org/10.1016/j.neuron.2020.01.021.
ieee: I. Gridchyn, P. Schönenberger, J. O’Neill, and J. L. Csicsvari, “Assembly-specific
disruption of hippocampal replay leads to selective memory deficit,” Neuron,
vol. 106, no. 2. Elsevier, p. 291–300.e6, 2020.
ista: Gridchyn I, Schönenberger P, O’Neill J, Csicsvari JL. 2020. Assembly-specific
disruption of hippocampal replay leads to selective memory deficit. Neuron. 106(2),
291–300.e6.
mla: Gridchyn, Igor, et al. “Assembly-Specific Disruption of Hippocampal Replay
Leads to Selective Memory Deficit.” Neuron, vol. 106, no. 2, Elsevier,
2020, p. 291–300.e6, doi:10.1016/j.neuron.2020.01.021.
short: I. Gridchyn, P. Schönenberger, J. O’Neill, J.L. Csicsvari, Neuron 106 (2020)
291–300.e6.
date_created: 2020-04-26T22:00:45Z
date_published: 2020-04-22T00:00:00Z
date_updated: 2023-08-21T06:15:31Z
day: '22'
department:
- _id: JoCs
doi: 10.1016/j.neuron.2020.01.021
ec_funded: 1
external_id:
isi:
- '000528268200013'
pmid:
- '32070475'
intvolume: ' 106'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.neuron.2020.01.021
month: '04'
oa: 1
oa_version: Published Version
page: 291-300.e6
pmid: 1
project:
- _id: 257A4776-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '281511'
name: Memory-related information processing in neuronal circuits of the hippocampus
and entorhinal cortex
publication: Neuron
publication_identifier:
eissn:
- '10974199'
issn:
- '08966273'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/librarian-of-memory/
scopus_import: '1'
status: public
title: Assembly-specific disruption of hippocampal replay leads to selective memory
deficit
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 106
year: '2020'
...
---
_id: '7788'
abstract:
- lang: eng
text: Mutations in NDUFS4, which encodes an accessory subunit of mitochondrial oxidative
phosphorylation (OXPHOS) complex I (CI), induce Leigh syndrome (LS). LS is a poorly
understood pediatric disorder featuring brain-specific anomalies and early death.
To study the LS pathomechanism, we here compared OXPHOS proteomes between various
Ndufs4−/− mouse tissues. Ndufs4−/− animals displayed significantly lower CI subunit
levels in brain/diaphragm relative to other tissues (liver/heart/kidney/skeletal
muscle), whereas other OXPHOS subunit levels were not reduced. Absence of NDUFS4
induced near complete absence of the NDUFA12 accessory subunit, a 50% reduction
in other CI subunit levels, and an increase in specific CI assembly factors. Among
the latter, NDUFAF2 was most highly increased. Regarding NDUFS4, NDUFA12 and NDUFAF2,
identical results were obtained in Ndufs4−/− mouse embryonic fibroblasts (MEFs)
and NDUFS4-mutated LS patient cells. Ndufs4−/− MEFs contained active CI in situ
but blue-native-PAGE highlighted that NDUFAF2 attached to an inactive CI subcomplex
(CI-830) and inactive assemblies of higher MW. In NDUFA12-mutated LS patient cells,
NDUFA12 absence did not reduce NDUFS4 levels but triggered NDUFAF2 association
to active CI. BN-PAGE revealed no such association in LS patient fibroblasts with
mutations in other CI subunit-encoding genes where NDUFAF2 was attached to CI-830
(NDUFS1, NDUFV1 mutation) or not detected (NDUFS7 mutation). Supported by enzymological
and CI in silico structural analysis, we conclude that absence of NDUFS4 induces
near complete absence of NDUFA12 but not vice versa, and that NDUFAF2 stabilizes
active CI in Ndufs4−/− mice and LS patient cells, perhaps in concert with mitochondrial
inner membrane lipids.
article_number: '148213'
article_processing_charge: No
article_type: original
author:
- first_name: Merel J.W.
full_name: Adjobo-Hermans, Merel J.W.
last_name: Adjobo-Hermans
- first_name: Ria
full_name: De Haas, Ria
last_name: De Haas
- first_name: Peter H.G.M.
full_name: Willems, Peter H.G.M.
last_name: Willems
- first_name: Aleksandra
full_name: Wojtala, Aleksandra
last_name: Wojtala
- first_name: Sjenet E.
full_name: Van Emst-De Vries, Sjenet E.
last_name: Van Emst-De Vries
- first_name: Jori A.
full_name: Wagenaars, Jori A.
last_name: Wagenaars
- first_name: Mariel
full_name: Van Den Brand, Mariel
last_name: Van Den Brand
- first_name: Richard J.
full_name: Rodenburg, Richard J.
last_name: Rodenburg
- first_name: Jan A.M.
full_name: Smeitink, Jan A.M.
last_name: Smeitink
- first_name: Leo G.
full_name: Nijtmans, Leo G.
last_name: Nijtmans
- first_name: Leonid A
full_name: Sazanov, Leonid A
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
- first_name: Mariusz R.
full_name: Wieckowski, Mariusz R.
last_name: Wieckowski
- first_name: Werner J.H.
full_name: Koopman, Werner J.H.
last_name: Koopman
citation:
ama: 'Adjobo-Hermans MJW, De Haas R, Willems PHGM, et al. NDUFS4 deletion triggers
loss of NDUFA12 in Ndufs4−/− mice and Leigh syndrome patients: A stabilizing role
for NDUFAF2. Biochimica et Biophysica Acta - Bioenergetics. 2020;1861(8).
doi:10.1016/j.bbabio.2020.148213'
apa: 'Adjobo-Hermans, M. J. W., De Haas, R., Willems, P. H. G. M., Wojtala, A.,
Van Emst-De Vries, S. E., Wagenaars, J. A., … Koopman, W. J. H. (2020). NDUFS4
deletion triggers loss of NDUFA12 in Ndufs4−/− mice and Leigh syndrome patients:
A stabilizing role for NDUFAF2. Biochimica et Biophysica Acta - Bioenergetics.
Elsevier. https://doi.org/10.1016/j.bbabio.2020.148213'
chicago: 'Adjobo-Hermans, Merel J.W., Ria De Haas, Peter H.G.M. Willems, Aleksandra
Wojtala, Sjenet E. Van Emst-De Vries, Jori A. Wagenaars, Mariel Van Den Brand,
et al. “NDUFS4 Deletion Triggers Loss of NDUFA12 in Ndufs4−/− Mice and Leigh Syndrome
Patients: A Stabilizing Role for NDUFAF2.” Biochimica et Biophysica Acta -
Bioenergetics. Elsevier, 2020. https://doi.org/10.1016/j.bbabio.2020.148213.'
ieee: 'M. J. W. Adjobo-Hermans et al., “NDUFS4 deletion triggers loss of
NDUFA12 in Ndufs4−/− mice and Leigh syndrome patients: A stabilizing role for
NDUFAF2,” Biochimica et Biophysica Acta - Bioenergetics, vol. 1861, no.
8. Elsevier, 2020.'
ista: 'Adjobo-Hermans MJW, De Haas R, Willems PHGM, Wojtala A, Van Emst-De Vries
SE, Wagenaars JA, Van Den Brand M, Rodenburg RJ, Smeitink JAM, Nijtmans LG, Sazanov
LA, Wieckowski MR, Koopman WJH. 2020. NDUFS4 deletion triggers loss of NDUFA12
in Ndufs4−/− mice and Leigh syndrome patients: A stabilizing role for NDUFAF2.
Biochimica et Biophysica Acta - Bioenergetics. 1861(8), 148213.'
mla: 'Adjobo-Hermans, Merel J. W., et al. “NDUFS4 Deletion Triggers Loss of NDUFA12
in Ndufs4−/− Mice and Leigh Syndrome Patients: A Stabilizing Role for NDUFAF2.”
Biochimica et Biophysica Acta - Bioenergetics, vol. 1861, no. 8, 148213,
Elsevier, 2020, doi:10.1016/j.bbabio.2020.148213.'
short: M.J.W. Adjobo-Hermans, R. De Haas, P.H.G.M. Willems, A. Wojtala, S.E. Van
Emst-De Vries, J.A. Wagenaars, M. Van Den Brand, R.J. Rodenburg, J.A.M. Smeitink,
L.G. Nijtmans, L.A. Sazanov, M.R. Wieckowski, W.J.H. Koopman, Biochimica et Biophysica
Acta - Bioenergetics 1861 (2020).
date_created: 2020-05-03T22:00:47Z
date_published: 2020-08-01T00:00:00Z
date_updated: 2023-08-21T06:19:18Z
day: '01'
ddc:
- '570'
department:
- _id: LeSa
doi: 10.1016/j.bbabio.2020.148213
external_id:
isi:
- '000540842000012'
pmid:
- '32335026'
file:
- access_level: open_access
checksum: a9b152381307cf45fe266a8dc5640388
content_type: application/pdf
creator: dernst
date_created: 2020-05-04T12:25:19Z
date_updated: 2020-07-14T12:48:03Z
file_id: '7798'
file_name: 2020_BBA_Adjobo_Hermans.pdf
file_size: 3826792
relation: main_file
file_date_updated: 2020-07-14T12:48:03Z
has_accepted_license: '1'
intvolume: ' 1861'
isi: 1
issue: '8'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
pmid: 1
publication: Biochimica et Biophysica Acta - Bioenergetics
publication_identifier:
eissn:
- '18792650'
issn:
- '00052728'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'NDUFS4 deletion triggers loss of NDUFA12 in Ndufs4−/− mice and Leigh syndrome
patients: A stabilizing role for NDUFAF2'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 1861
year: '2020'
...
---
_id: '7789'
abstract:
- lang: eng
text: During embryonic and postnatal development, organs and tissues grow steadily
to achieve their final size at the end of puberty. However, little is known about
the cellular dynamics that mediate postnatal growth. By combining in vivo clonal
lineage tracing, proliferation kinetics, single-cell transcriptomics, andin vitro
micro-pattern experiments, we resolved the cellular dynamics taking place during
postnatal skin epidermis expansion. Our data revealed that harmonious growth is
engineered by a single population of developmental progenitors presenting a fixed
fate imbalance of self-renewing divisions with an ever-decreasing proliferation
rate. Single-cell RNA sequencing revealed that epidermal developmental progenitors
form a more uniform population compared with adult stem and progenitor cells.
Finally, we found that the spatial pattern of cell division orientation is dictated
locally by the underlying collagen fiber orientation. Our results uncover a simple
design principle of organ growth where progenitors and differentiated cells expand
in harmony with their surrounding tissues.
article_processing_charge: No
article_type: original
author:
- first_name: Sophie
full_name: Dekoninck, Sophie
last_name: Dekoninck
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Alejandro
full_name: Sifrim, Alejandro
last_name: Sifrim
- first_name: Yekaterina A.
full_name: Miroshnikova, Yekaterina A.
last_name: Miroshnikova
- first_name: Mariaceleste
full_name: Aragona, Mariaceleste
last_name: Aragona
- first_name: Milan
full_name: Malfait, Milan
last_name: Malfait
- first_name: Souhir
full_name: Gargouri, Souhir
last_name: Gargouri
- first_name: Charlotte
full_name: De Neunheuser, Charlotte
last_name: De Neunheuser
- first_name: Christine
full_name: Dubois, Christine
last_name: Dubois
- first_name: Thierry
full_name: Voet, Thierry
last_name: Voet
- first_name: Sara A.
full_name: Wickström, Sara A.
last_name: Wickström
- first_name: Benjamin D.
full_name: Simons, Benjamin D.
last_name: Simons
- first_name: Cédric
full_name: Blanpain, Cédric
last_name: Blanpain
citation:
ama: Dekoninck S, Hannezo EB, Sifrim A, et al. Defining the design principles of
skin epidermis postnatal growth. Cell. 2020;181(3):604-620.e22. doi:10.1016/j.cell.2020.03.015
apa: Dekoninck, S., Hannezo, E. B., Sifrim, A., Miroshnikova, Y. A., Aragona, M.,
Malfait, M., … Blanpain, C. (2020). Defining the design principles of skin epidermis
postnatal growth. Cell. Elsevier. https://doi.org/10.1016/j.cell.2020.03.015
chicago: Dekoninck, Sophie, Edouard B Hannezo, Alejandro Sifrim, Yekaterina A. Miroshnikova,
Mariaceleste Aragona, Milan Malfait, Souhir Gargouri, et al. “Defining the Design
Principles of Skin Epidermis Postnatal Growth.” Cell. Elsevier, 2020. https://doi.org/10.1016/j.cell.2020.03.015.
ieee: S. Dekoninck et al., “Defining the design principles of skin epidermis
postnatal growth,” Cell, vol. 181, no. 3. Elsevier, p. 604–620.e22, 2020.
ista: Dekoninck S, Hannezo EB, Sifrim A, Miroshnikova YA, Aragona M, Malfait M,
Gargouri S, De Neunheuser C, Dubois C, Voet T, Wickström SA, Simons BD, Blanpain
C. 2020. Defining the design principles of skin epidermis postnatal growth. Cell.
181(3), 604–620.e22.
mla: Dekoninck, Sophie, et al. “Defining the Design Principles of Skin Epidermis
Postnatal Growth.” Cell, vol. 181, no. 3, Elsevier, 2020, p. 604–620.e22,
doi:10.1016/j.cell.2020.03.015.
short: S. Dekoninck, E.B. Hannezo, A. Sifrim, Y.A. Miroshnikova, M. Aragona, M.
Malfait, S. Gargouri, C. De Neunheuser, C. Dubois, T. Voet, S.A. Wickström, B.D.
Simons, C. Blanpain, Cell 181 (2020) 604–620.e22.
date_created: 2020-05-03T22:00:48Z
date_published: 2020-04-30T00:00:00Z
date_updated: 2023-08-21T06:17:43Z
day: '30'
ddc:
- '570'
department:
- _id: EdHa
doi: 10.1016/j.cell.2020.03.015
external_id:
isi:
- '000530708400016'
pmid:
- '32259486'
file:
- access_level: open_access
checksum: e2114902f4e9d75a752e9efb5ae06011
content_type: application/pdf
creator: dernst
date_created: 2020-05-04T10:20:55Z
date_updated: 2020-07-14T12:48:03Z
file_id: '7795'
file_name: 2020_Cell_Dekoninck.pdf
file_size: 17992888
relation: main_file
file_date_updated: 2020-07-14T12:48:03Z
has_accepted_license: '1'
intvolume: ' 181'
isi: 1
issue: '3'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 604-620.e22
pmid: 1
publication: Cell
publication_identifier:
eissn:
- '10974172'
issn:
- '00928674'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Defining the design principles of skin epidermis postnatal growth
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 181
year: '2020'
...
---
_id: '7793'
abstract:
- lang: eng
text: Hormonal signalling in animals often involves direct transcription factor-hormone
interactions that modulate gene expression. In contrast, plant hormone signalling
is most commonly based on de-repression via the degradation of transcriptional
repressors. Recently, we uncovered a non-canonical signalling mechanism for the
plant hormone auxin whereby auxin directly affects the activity of the atypical
auxin response factor (ARF), ETTIN towards target genes without the requirement
for protein degradation. Here we show that ETTIN directly binds auxin, leading
to dissociation from co-repressor proteins of the TOPLESS/TOPLESS-RELATED family
followed by histone acetylation and induction of gene expression. This mechanism
is reminiscent of animal hormone signalling as it affects the activity towards
regulation of target genes and provides the first example of a DNA-bound hormone
receptor in plants. Whilst auxin affects canonical ARFs indirectly by facilitating
degradation of Aux/IAA repressors, direct ETTIN-auxin interactions allow switching
between repressive and de-repressive chromatin states in an instantly-reversible
manner.
article_number: e51787
article_processing_charge: No
article_type: original
author:
- first_name: André
full_name: Kuhn, André
last_name: Kuhn
- first_name: Sigurd
full_name: Ramans Harborough, Sigurd
last_name: Ramans Harborough
- first_name: Heather M
full_name: McLaughlin, Heather M
last_name: McLaughlin
- first_name: Bhavani
full_name: Natarajan, Bhavani
last_name: Natarajan
- first_name: Inge
full_name: Verstraeten, Inge
id: 362BF7FE-F248-11E8-B48F-1D18A9856A87
last_name: Verstraeten
orcid: 0000-0001-7241-2328
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Stefan
full_name: Kepinski, Stefan
last_name: Kepinski
- first_name: Lars
full_name: Østergaard, Lars
last_name: Østergaard
citation:
ama: Kuhn A, Ramans Harborough S, McLaughlin HM, et al. Direct ETTIN-auxin interaction
controls chromatin states in gynoecium development. eLife. 2020;9. doi:10.7554/elife.51787
apa: Kuhn, A., Ramans Harborough, S., McLaughlin, H. M., Natarajan, B., Verstraeten,
I., Friml, J., … Østergaard, L. (2020). Direct ETTIN-auxin interaction controls
chromatin states in gynoecium development. ELife. eLife Sciences Publications.
https://doi.org/10.7554/elife.51787
chicago: Kuhn, André, Sigurd Ramans Harborough, Heather M McLaughlin, Bhavani Natarajan,
Inge Verstraeten, Jiří Friml, Stefan Kepinski, and Lars Østergaard. “Direct ETTIN-Auxin
Interaction Controls Chromatin States in Gynoecium Development.” ELife.
eLife Sciences Publications, 2020. https://doi.org/10.7554/elife.51787.
ieee: A. Kuhn et al., “Direct ETTIN-auxin interaction controls chromatin
states in gynoecium development,” eLife, vol. 9. eLife Sciences Publications,
2020.
ista: Kuhn A, Ramans Harborough S, McLaughlin HM, Natarajan B, Verstraeten I, Friml
J, Kepinski S, Østergaard L. 2020. Direct ETTIN-auxin interaction controls chromatin
states in gynoecium development. eLife. 9, e51787.
mla: Kuhn, André, et al. “Direct ETTIN-Auxin Interaction Controls Chromatin States
in Gynoecium Development.” ELife, vol. 9, e51787, eLife Sciences Publications,
2020, doi:10.7554/elife.51787.
short: A. Kuhn, S. Ramans Harborough, H.M. McLaughlin, B. Natarajan, I. Verstraeten,
J. Friml, S. Kepinski, L. Østergaard, ELife 9 (2020).
date_created: 2020-05-04T08:50:47Z
date_published: 2020-04-08T00:00:00Z
date_updated: 2023-08-21T06:17:12Z
day: '08'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.7554/elife.51787
external_id:
isi:
- '000527752200001'
pmid:
- '32267233'
file:
- access_level: open_access
checksum: 15d740de1a741fdcc6ec128c48eed017
content_type: application/pdf
creator: dernst
date_created: 2020-05-04T09:06:43Z
date_updated: 2020-07-14T12:48:03Z
file_id: '7794'
file_name: 2020_eLife_Kuhn.pdf
file_size: 2893082
relation: main_file
file_date_updated: 2020-07-14T12:48:03Z
has_accepted_license: '1'
intvolume: ' 9'
isi: 1
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
publication: eLife
publication_identifier:
issn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: Direct ETTIN-auxin interaction controls chromatin states in gynoecium development
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 9
year: '2020'
...
---
_id: '7790'
abstract:
- lang: eng
text: "We prove a lower bound for the free energy (per unit volume) of the two-dimensional
Bose gas in the thermodynamic limit. We show that the free energy at density \U0001D70C
and inverse temperature \U0001D6FD differs from the one of the noninteracting
system by the correction term \U0001D70B\U0001D70C\U0001D70C\U0001D6FD\U0001D6FD
. Here, is the scattering length of the interaction potential, and \U0001D6FD
is the inverse Berezinskii–Kosterlitz–Thouless critical temperature for superfluidity.
The result is valid in the dilute limit \U0001D70C and if \U0001D6FD\U0001D70C
."
article_number: e20
article_processing_charge: No
article_type: original
author:
- first_name: Andreas
full_name: Deuchert, Andreas
id: 4DA65CD0-F248-11E8-B48F-1D18A9856A87
last_name: Deuchert
orcid: 0000-0003-3146-6746
- first_name: Simon
full_name: Mayer, Simon
id: 30C4630A-F248-11E8-B48F-1D18A9856A87
last_name: Mayer
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Deuchert A, Mayer S, Seiringer R. The free energy of the two-dimensional dilute
Bose gas. I. Lower bound. Forum of Mathematics, Sigma. 2020;8. doi:10.1017/fms.2020.17
apa: Deuchert, A., Mayer, S., & Seiringer, R. (2020). The free energy of the
two-dimensional dilute Bose gas. I. Lower bound. Forum of Mathematics, Sigma.
Cambridge University Press. https://doi.org/10.1017/fms.2020.17
chicago: Deuchert, Andreas, Simon Mayer, and Robert Seiringer. “The Free Energy
of the Two-Dimensional Dilute Bose Gas. I. Lower Bound.” Forum of Mathematics,
Sigma. Cambridge University Press, 2020. https://doi.org/10.1017/fms.2020.17.
ieee: A. Deuchert, S. Mayer, and R. Seiringer, “The free energy of the two-dimensional
dilute Bose gas. I. Lower bound,” Forum of Mathematics, Sigma, vol. 8.
Cambridge University Press, 2020.
ista: Deuchert A, Mayer S, Seiringer R. 2020. The free energy of the two-dimensional
dilute Bose gas. I. Lower bound. Forum of Mathematics, Sigma. 8, e20.
mla: Deuchert, Andreas, et al. “The Free Energy of the Two-Dimensional Dilute Bose
Gas. I. Lower Bound.” Forum of Mathematics, Sigma, vol. 8, e20, Cambridge
University Press, 2020, doi:10.1017/fms.2020.17.
short: A. Deuchert, S. Mayer, R. Seiringer, Forum of Mathematics, Sigma 8 (2020).
date_created: 2020-05-03T22:00:48Z
date_published: 2020-03-14T00:00:00Z
date_updated: 2023-08-21T06:18:49Z
day: '14'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1017/fms.2020.17
ec_funded: 1
external_id:
arxiv:
- '1910.03372'
isi:
- '000527342000001'
file:
- access_level: open_access
checksum: 8a64da99d107686997876d7cad8cfe1e
content_type: application/pdf
creator: dernst
date_created: 2020-05-04T12:02:41Z
date_updated: 2020-07-14T12:48:03Z
file_id: '7797'
file_name: 2020_ForumMath_Deuchert.pdf
file_size: 692530
relation: main_file
file_date_updated: 2020-07-14T12:48:03Z
has_accepted_license: '1'
intvolume: ' 8'
isi: 1
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
project:
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
publication: Forum of Mathematics, Sigma
publication_identifier:
eissn:
- '20505094'
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
related_material:
record:
- id: '7524'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: The free energy of the two-dimensional dilute Bose gas. I. Lower bound
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 8
year: '2020'
...
---
_id: '7805'
abstract:
- lang: eng
text: Plants as non-mobile organisms constantly integrate varying environmental
signals to flexibly adapt their growth and development. Local fluctuations in
water and nutrient availability, sudden changes in temperature or other abiotic
and biotic stresses can trigger changes in the growth of plant organs. Multiple
mutually interconnected hormonal signaling cascades act as essential endogenous
translators of these exogenous signals in the adaptive responses of plants. Although
the molecular backbones of hormone transduction pathways have been identified,
the mechanisms underlying their interactions are largely unknown. Here, using
genome wide transcriptome profiling we identify an auxin and cytokinin cross-talk
component; SYNERGISTIC ON AUXIN AND CYTOKININ 1 (SYAC1), whose expression in roots
is strictly dependent on both of these hormonal pathways. We show that SYAC1 is
a regulator of secretory pathway, whose enhanced activity interferes with deposition
of cell wall components and can fine-tune organ growth and sensitivity to soil
pathogens.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
acknowledgement: We thank Daria Siekhaus, Jiri Friml and Alexander Johnson for critical
reading of the manuscript, Peter Pimpl, Christian Luschnig and Liwen Jiang for sharing
published material, Lesia Rodriguez Solovey for technical assistance. This work
was supported by the Austrian Science Fund (FWF01_I1774S) to A.H., K.Ö., and E.B.,
the German Research Foundation (DFG; He3424/6-1 to I.H.), by the People Programme
(Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007-2013)
under REA grant agreement n° [291734] (to N.C.), by the EU in the framework of the
Marie-Curie FP7 COFUND People Programme through the award of an AgreenSkills+ fellowship
No. 609398 (to J.S.) and by the Scientific Service Units of IST-Austria through
resources provided by the Bioimaging Facility, the Life Science Facility. The IJPB
benefits from the support of Saclay Plant Sciences-SPS (ANR-17-EUR-0007).
article_number: '2170'
article_processing_charge: No
article_type: original
author:
- first_name: Andrej
full_name: Hurny, Andrej
id: 4DC4AF46-F248-11E8-B48F-1D18A9856A87
last_name: Hurny
orcid: 0000-0003-3638-1426
- first_name: Candela
full_name: Cuesta, Candela
id: 33A3C818-F248-11E8-B48F-1D18A9856A87
last_name: Cuesta
orcid: 0000-0003-1923-2410
- first_name: Nicola
full_name: Cavallari, Nicola
id: 457160E6-F248-11E8-B48F-1D18A9856A87
last_name: Cavallari
- first_name: Krisztina
full_name: Ötvös, Krisztina
id: 29B901B0-F248-11E8-B48F-1D18A9856A87
last_name: Ötvös
orcid: 0000-0002-5503-4983
- first_name: Jerome
full_name: Duclercq, Jerome
last_name: Duclercq
- first_name: Ladislav
full_name: Dokládal, Ladislav
last_name: Dokládal
- first_name: Juan C
full_name: Montesinos López, Juan C
id: 310A8E3E-F248-11E8-B48F-1D18A9856A87
last_name: Montesinos López
orcid: 0000-0001-9179-6099
- first_name: Marçal
full_name: Gallemi, Marçal
id: 460C6802-F248-11E8-B48F-1D18A9856A87
last_name: Gallemi
orcid: 0000-0003-4675-6893
- first_name: Hana
full_name: Semeradova, Hana
id: 42FE702E-F248-11E8-B48F-1D18A9856A87
last_name: Semeradova
- first_name: Thomas
full_name: Rauter, Thomas
id: A0385D1A-9376-11EA-A47D-9862C5E3AB22
last_name: Rauter
- first_name: Irene
full_name: Stenzel, Irene
last_name: Stenzel
- first_name: Geert
full_name: Persiau, Geert
last_name: Persiau
- first_name: Freia
full_name: Benade, Freia
last_name: Benade
- first_name: Rishikesh
full_name: Bhalearo, Rishikesh
last_name: Bhalearo
- first_name: Eva
full_name: Sýkorová, Eva
last_name: Sýkorová
- first_name: András
full_name: Gorzsás, András
last_name: Gorzsás
- first_name: Julien
full_name: Sechet, Julien
last_name: Sechet
- first_name: Gregory
full_name: Mouille, Gregory
last_name: Mouille
- first_name: Ingo
full_name: Heilmann, Ingo
last_name: Heilmann
- first_name: Geert
full_name: De Jaeger, Geert
last_name: De Jaeger
- first_name: Jutta
full_name: Ludwig-Müller, Jutta
last_name: Ludwig-Müller
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
citation:
ama: Hurny A, Cuesta C, Cavallari N, et al. Synergistic on Auxin and Cytokinin 1
positively regulates growth and attenuates soil pathogen resistance. Nature
Communications. 2020;11. doi:10.1038/s41467-020-15895-5
apa: Hurny, A., Cuesta, C., Cavallari, N., Ötvös, K., Duclercq, J., Dokládal, L.,
… Benková, E. (2020). Synergistic on Auxin and Cytokinin 1 positively regulates
growth and attenuates soil pathogen resistance. Nature Communications.
Springer Nature. https://doi.org/10.1038/s41467-020-15895-5
chicago: Hurny, Andrej, Candela Cuesta, Nicola Cavallari, Krisztina Ötvös, Jerome
Duclercq, Ladislav Dokládal, Juan C Montesinos López, et al. “Synergistic on Auxin
and Cytokinin 1 Positively Regulates Growth and Attenuates Soil Pathogen Resistance.”
Nature Communications. Springer Nature, 2020. https://doi.org/10.1038/s41467-020-15895-5.
ieee: A. Hurny et al., “Synergistic on Auxin and Cytokinin 1 positively regulates
growth and attenuates soil pathogen resistance,” Nature Communications,
vol. 11. Springer Nature, 2020.
ista: Hurny A, Cuesta C, Cavallari N, Ötvös K, Duclercq J, Dokládal L, Montesinos
López JC, Gallemi M, Semerádová H, Rauter T, Stenzel I, Persiau G, Benade F, Bhalearo
R, Sýkorová E, Gorzsás A, Sechet J, Mouille G, Heilmann I, De Jaeger G, Ludwig-Müller
J, Benková E. 2020. Synergistic on Auxin and Cytokinin 1 positively regulates
growth and attenuates soil pathogen resistance. Nature Communications. 11, 2170.
mla: Hurny, Andrej, et al. “Synergistic on Auxin and Cytokinin 1 Positively Regulates
Growth and Attenuates Soil Pathogen Resistance.” Nature Communications,
vol. 11, 2170, Springer Nature, 2020, doi:10.1038/s41467-020-15895-5.
short: A. Hurny, C. Cuesta, N. Cavallari, K. Ötvös, J. Duclercq, L. Dokládal, J.C.
Montesinos López, M. Gallemi, H. Semerádová, T. Rauter, I. Stenzel, G. Persiau,
F. Benade, R. Bhalearo, E. Sýkorová, A. Gorzsás, J. Sechet, G. Mouille, I. Heilmann,
G. De Jaeger, J. Ludwig-Müller, E. Benková, Nature Communications 11 (2020).
date_created: 2020-05-10T22:00:48Z
date_published: 2020-05-01T00:00:00Z
date_updated: 2023-08-21T06:21:56Z
day: '01'
ddc:
- '570'
department:
- _id: EvBe
doi: 10.1038/s41467-020-15895-5
ec_funded: 1
external_id:
isi:
- '000531425900012'
pmid:
- '32358503'
file:
- access_level: open_access
checksum: 2cba327c9e9416d75cb96be54b0fb441
content_type: application/pdf
creator: dernst
date_created: 2020-10-06T07:47:53Z
date_updated: 2020-10-06T07:47:53Z
file_id: '8614'
file_name: 2020_NatureComm_Hurny.pdf
file_size: 4743576
relation: main_file
success: 1
file_date_updated: 2020-10-06T07:47:53Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 2542D156-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I 1774-B16
name: Hormone cross-talk drives nutrient dependent plant development
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Nature Communications
publication_identifier:
eissn:
- '20411723'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Synergistic on Auxin and Cytokinin 1 positively regulates growth and attenuates
soil pathogen resistance
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 11
year: '2020'
...
---
_id: '7882'
abstract:
- lang: eng
text: A few-body cluster is a building block of a many-body system in a gas phase
provided the temperature at most is of the order of the binding energy of this
cluster. Here we illustrate this statement by considering a system of tubes filled
with dipolar distinguishable particles. We calculate the partition function, which
determines the probability to find a few-body cluster at a given temperature.
The input for our calculations—the energies of few-body clusters—is estimated
using the harmonic approximation. We first describe and demonstrate the validity
of our numerical procedure. Then we discuss the results featuring melting of the
zero-temperature many-body state into a gas of free particles and few-body clusters.
For temperature higher than its binding energy threshold, the dimers overwhelmingly
dominate the ensemble, where the remaining probability is in free particles. At
very high temperatures free (harmonic oscillator trap-bound) particle dominance
is eventually reached. This structure evolution appears both for one and two particles
in each layer providing crucial information about the behavior of ultracold dipolar
gases. The investigation addresses the transition region between few- and many-body
physics as a function of temperature using a system of ten dipoles in five tubes.
article_number: '484'
article_processing_charge: No
article_type: original
author:
- first_name: Jeremy R.
full_name: Armstrong, Jeremy R.
last_name: Armstrong
- first_name: Aksel S.
full_name: Jensen, Aksel S.
last_name: Jensen
- first_name: Artem
full_name: Volosniev, Artem
id: 37D278BC-F248-11E8-B48F-1D18A9856A87
last_name: Volosniev
orcid: 0000-0003-0393-5525
- first_name: Nikolaj T.
full_name: Zinner, Nikolaj T.
last_name: Zinner
citation:
ama: Armstrong JR, Jensen AS, Volosniev A, Zinner NT. Clusters in separated tubes
of tilted dipoles. Mathematics. 2020;8(4). doi:10.3390/math8040484
apa: Armstrong, J. R., Jensen, A. S., Volosniev, A., & Zinner, N. T. (2020).
Clusters in separated tubes of tilted dipoles. Mathematics. MDPI. https://doi.org/10.3390/math8040484
chicago: Armstrong, Jeremy R., Aksel S. Jensen, Artem Volosniev, and Nikolaj T.
Zinner. “Clusters in Separated Tubes of Tilted Dipoles.” Mathematics. MDPI,
2020. https://doi.org/10.3390/math8040484.
ieee: J. R. Armstrong, A. S. Jensen, A. Volosniev, and N. T. Zinner, “Clusters in
separated tubes of tilted dipoles,” Mathematics, vol. 8, no. 4. MDPI, 2020.
ista: Armstrong JR, Jensen AS, Volosniev A, Zinner NT. 2020. Clusters in separated
tubes of tilted dipoles. Mathematics. 8(4), 484.
mla: Armstrong, Jeremy R., et al. “Clusters in Separated Tubes of Tilted Dipoles.”
Mathematics, vol. 8, no. 4, 484, MDPI, 2020, doi:10.3390/math8040484.
short: J.R. Armstrong, A.S. Jensen, A. Volosniev, N.T. Zinner, Mathematics 8 (2020).
date_created: 2020-05-24T22:01:00Z
date_published: 2020-04-01T00:00:00Z
date_updated: 2023-08-21T06:23:36Z
day: '01'
ddc:
- '510'
department:
- _id: MiLe
doi: 10.3390/math8040484
ec_funded: 1
external_id:
isi:
- '000531824100024'
file:
- access_level: open_access
checksum: a05a7df724522203d079673a0d4de4bc
content_type: application/pdf
creator: dernst
date_created: 2020-05-25T14:42:22Z
date_updated: 2020-07-14T12:48:04Z
file_id: '7887'
file_name: 2020_Mathematics_Armstrong.pdf
file_size: 990540
relation: main_file
file_date_updated: 2020-07-14T12:48:04Z
has_accepted_license: '1'
intvolume: ' 8'
isi: 1
issue: '4'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Mathematics
publication_identifier:
eissn:
- '22277390'
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Clusters in separated tubes of tilted dipoles
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 8
year: '2020'
...
---
_id: '7804'
abstract:
- lang: eng
text: Besides pro-inflammatory roles, the ancient cytokine interleukin-17 (IL-17)
modulates neural circuit function. We investigate IL-17 signaling in neurons,
and the extent it can alter organismal phenotypes. We combine immunoprecipitation
and mass spectrometry to biochemically characterize endogenous signaling complexes
that function downstream of IL-17 receptors in C. elegans neurons. We identify
the paracaspase MALT-1 as a critical output of the pathway. MALT1 mediates signaling
from many immune receptors in mammals, but was not previously implicated in IL-17
signaling or nervous system function. C. elegans MALT-1 forms a complex with homologs
of Act1 and IRAK and appears to function both as a scaffold and a protease. MALT-1
is expressed broadly in the C. elegans nervous system, and neuronal IL-17–MALT-1
signaling regulates multiple phenotypes, including escape behavior, associative
learning, immunity and longevity. Our data suggest MALT1 has an ancient role modulating
neural circuit function downstream of IL-17 to remodel physiology and behavior.
article_number: '2099'
article_processing_charge: No
article_type: original
author:
- first_name: Sean M.
full_name: Flynn, Sean M.
last_name: Flynn
- first_name: Changchun
full_name: Chen, Changchun
last_name: Chen
- first_name: Murat
full_name: Artan, Murat
id: C407B586-6052-11E9-B3AE-7006E6697425
last_name: Artan
orcid: 0000-0001-8945-6992
- first_name: Stephen
full_name: Barratt, Stephen
last_name: Barratt
- first_name: Alastair
full_name: Crisp, Alastair
last_name: Crisp
- first_name: Geoffrey M.
full_name: Nelson, Geoffrey M.
last_name: Nelson
- first_name: Sew Yeu
full_name: Peak-Chew, Sew Yeu
last_name: Peak-Chew
- first_name: Farida
full_name: Begum, Farida
last_name: Begum
- first_name: Mark
full_name: Skehel, Mark
last_name: Skehel
- first_name: Mario
full_name: De Bono, Mario
id: 4E3FF80E-F248-11E8-B48F-1D18A9856A87
last_name: De Bono
orcid: 0000-0001-8347-0443
citation:
ama: Flynn SM, Chen C, Artan M, et al. MALT-1 mediates IL-17 neural signaling to
regulate C. elegans behavior, immunity and longevity. Nature Communications.
2020;11. doi:10.1038/s41467-020-15872-y
apa: Flynn, S. M., Chen, C., Artan, M., Barratt, S., Crisp, A., Nelson, G. M., …
de Bono, M. (2020). MALT-1 mediates IL-17 neural signaling to regulate C. elegans
behavior, immunity and longevity. Nature Communications. Springer Nature.
https://doi.org/10.1038/s41467-020-15872-y
chicago: Flynn, Sean M., Changchun Chen, Murat Artan, Stephen Barratt, Alastair
Crisp, Geoffrey M. Nelson, Sew Yeu Peak-Chew, Farida Begum, Mark Skehel, and Mario
de Bono. “MALT-1 Mediates IL-17 Neural Signaling to Regulate C. Elegans Behavior,
Immunity and Longevity.” Nature Communications. Springer Nature, 2020.
https://doi.org/10.1038/s41467-020-15872-y.
ieee: S. M. Flynn et al., “MALT-1 mediates IL-17 neural signaling to regulate C.
elegans behavior, immunity and longevity,” Nature Communications, vol.
11. Springer Nature, 2020.
ista: Flynn SM, Chen C, Artan M, Barratt S, Crisp A, Nelson GM, Peak-Chew SY, Begum
F, Skehel M, de Bono M. 2020. MALT-1 mediates IL-17 neural signaling to regulate C.
elegans behavior, immunity and longevity. Nature Communications. 11, 2099.
mla: Flynn, Sean M., et al. “MALT-1 Mediates IL-17 Neural Signaling to Regulate C.
Elegans Behavior, Immunity and Longevity.” Nature Communications, vol.
11, 2099, Springer Nature, 2020, doi:10.1038/s41467-020-15872-y.
short: S.M. Flynn, C. Chen, M. Artan, S. Barratt, A. Crisp, G.M. Nelson, S.Y. Peak-Chew,
F. Begum, M. Skehel, M. de Bono, Nature Communications 11 (2020).
date_created: 2020-05-10T22:00:47Z
date_published: 2020-04-29T00:00:00Z
date_updated: 2023-08-21T06:21:14Z
day: '29'
ddc:
- '570'
department:
- _id: MaDe
doi: 10.1038/s41467-020-15872-y
external_id:
isi:
- '000531855500029'
file:
- access_level: open_access
checksum: dce367abf2c1a1d15f58fe6f7de82893
content_type: application/pdf
creator: dernst
date_created: 2020-05-11T10:36:33Z
date_updated: 2020-07-14T12:48:03Z
file_id: '7817'
file_name: 2020_NatureComm_Flynn.pdf
file_size: 4609120
relation: main_file
file_date_updated: 2020-07-14T12:48:03Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
eissn:
- '20411723'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: MALT-1 mediates IL-17 neural signaling to regulate C. elegans behavior, immunity
and longevity
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 11
year: '2020'
...
---
_id: '7875'
abstract:
- lang: eng
text: 'Cells navigating through complex tissues face a fundamental challenge: while
multiple protrusions explore different paths, the cell needs to avoid entanglement.
How a cell surveys and then corrects its own shape is poorly understood. Here,
we demonstrate that spatially distinct microtubule dynamics regulate amoeboid
cell migration by locally promoting the retraction of protrusions. In migrating
dendritic cells, local microtubule depolymerization within protrusions remote
from the microtubule organizing center triggers actomyosin contractility controlled
by RhoA and its exchange factor Lfc. Depletion of Lfc leads to aberrant myosin
localization, thereby causing two effects that rate-limit locomotion: (1) impaired
cell edge coordination during path finding and (2) defective adhesion resolution.
Compromised shape control is particularly hindering in geometrically complex microenvironments,
where it leads to entanglement and ultimately fragmentation of the cell body.
We thus demonstrate that microtubules can act as a proprioceptive device: they
sense cell shape and control actomyosin retraction to sustain cellular coherence.'
acknowledged_ssus:
- _id: LifeSc
- _id: Bio
- _id: PreCl
acknowledgement: "The authors thank the Scientific Service Units (Life Sciences, Bioimaging,
Preclinical) of the Institute of Science and Technology Austria for excellent support.
This work was funded by the European Research Council (ERC StG 281556 and CoG 724373),
two grants from the Austrian\r\nScience Fund (FWF; P29911 and DK Nanocell W1250-B20
to M. Sixt) and by the German Research Foundation (DFG SFB1032 project B09) to O.
Thorn-Seshold and D. Trauner. J. Renkawitz was supported by ISTFELLOW funding from
the People Program (Marie Curie Actions) of the European Union’s Seventh Framework
Programme (FP7/2007-2013) under the Research Executive Agency grant agreement (291734)
and a European Molecular Biology Organization long-term fellowship (ALTF 1396-2014)
co-funded by the European Commission (LTFCOFUND2013, GA-2013-609409), E. Kiermaier
by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany’s
Excellence Strategy—EXC 2151—390873048, and H. Hacker by the American Lebanese Syrian
Associated ¨Charities. K.-D. Fischer was supported by the Analysis, Imaging and
Modelling of Neuronal and Inflammatory Processes graduate school funded by the Ministry
of Economics, Science, and Digitisation of the State Saxony-Anhalt and by the European
Funds for Social and Regional Development."
article_number: e201907154
article_processing_charge: No
article_type: original
author:
- first_name: Aglaja
full_name: Kopf, Aglaja
id: 31DAC7B6-F248-11E8-B48F-1D18A9856A87
last_name: Kopf
orcid: 0000-0002-2187-6656
- first_name: Jörg
full_name: Renkawitz, Jörg
id: 3F0587C8-F248-11E8-B48F-1D18A9856A87
last_name: Renkawitz
orcid: 0000-0003-2856-3369
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Irute
full_name: Girkontaite, Irute
last_name: Girkontaite
- first_name: Kerry
full_name: Tedford, Kerry
last_name: Tedford
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Oliver
full_name: Thorn-Seshold, Oliver
last_name: Thorn-Seshold
- first_name: Dirk
full_name: Trauner, Dirk
id: E8F27F48-3EBA-11E9-92A1-B709E6697425
last_name: Trauner
- first_name: Hans
full_name: Häcker, Hans
last_name: Häcker
- first_name: Klaus Dieter
full_name: Fischer, Klaus Dieter
last_name: Fischer
- first_name: Eva
full_name: Kiermaier, Eva
id: 3EB04B78-F248-11E8-B48F-1D18A9856A87
last_name: Kiermaier
orcid: 0000-0001-6165-5738
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
citation:
ama: Kopf A, Renkawitz J, Hauschild R, et al. Microtubules control cellular shape
and coherence in amoeboid migrating cells. The Journal of Cell Biology.
2020;219(6). doi:10.1083/jcb.201907154
apa: Kopf, A., Renkawitz, J., Hauschild, R., Girkontaite, I., Tedford, K., Merrin,
J., … Sixt, M. K. (2020). Microtubules control cellular shape and coherence in
amoeboid migrating cells. The Journal of Cell Biology. Rockefeller University
Press. https://doi.org/10.1083/jcb.201907154
chicago: Kopf, Aglaja, Jörg Renkawitz, Robert Hauschild, Irute Girkontaite, Kerry
Tedford, Jack Merrin, Oliver Thorn-Seshold, et al. “Microtubules Control Cellular
Shape and Coherence in Amoeboid Migrating Cells.” The Journal of Cell Biology.
Rockefeller University Press, 2020. https://doi.org/10.1083/jcb.201907154.
ieee: A. Kopf et al., “Microtubules control cellular shape and coherence
in amoeboid migrating cells,” The Journal of Cell Biology, vol. 219, no.
6. Rockefeller University Press, 2020.
ista: Kopf A, Renkawitz J, Hauschild R, Girkontaite I, Tedford K, Merrin J, Thorn-Seshold
O, Trauner D, Häcker H, Fischer KD, Kiermaier E, Sixt MK. 2020. Microtubules control
cellular shape and coherence in amoeboid migrating cells. The Journal of Cell
Biology. 219(6), e201907154.
mla: Kopf, Aglaja, et al. “Microtubules Control Cellular Shape and Coherence in
Amoeboid Migrating Cells.” The Journal of Cell Biology, vol. 219, no. 6,
e201907154, Rockefeller University Press, 2020, doi:10.1083/jcb.201907154.
short: A. Kopf, J. Renkawitz, R. Hauschild, I. Girkontaite, K. Tedford, J. Merrin,
O. Thorn-Seshold, D. Trauner, H. Häcker, K.D. Fischer, E. Kiermaier, M.K. Sixt,
The Journal of Cell Biology 219 (2020).
date_created: 2020-05-24T22:00:56Z
date_published: 2020-06-01T00:00:00Z
date_updated: 2023-08-21T06:28:17Z
day: '01'
ddc:
- '570'
department:
- _id: MiSi
- _id: Bio
- _id: NanoFab
doi: 10.1083/jcb.201907154
ec_funded: 1
external_id:
isi:
- '000538141100020'
pmid:
- '32379884'
file:
- access_level: open_access
checksum: cb0b9c77842ae1214caade7b77e4d82d
content_type: application/pdf
creator: dernst
date_created: 2020-11-24T13:25:13Z
date_updated: 2020-11-24T13:25:13Z
file_id: '8801'
file_name: 2020_JCellBiol_Kopf.pdf
file_size: 7536712
relation: main_file
success: 1
file_date_updated: 2020-11-24T13:25:13Z
has_accepted_license: '1'
intvolume: ' 219'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25A603A2-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '281556'
name: Cytoskeletal force generation and force transduction of migrating leukocytes
- _id: 25FE9508-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '724373'
name: Cellular navigation along spatial gradients
- _id: 26018E70-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P29911
name: Mechanical adaptation of lamellipodial actin
- _id: 252C3B08-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: W 1250-B20
name: Nano-Analytics of Cellular Systems
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: 25A48D24-B435-11E9-9278-68D0E5697425
grant_number: ALTF 1396-2014
name: Molecular and system level view of immune cell migration
publication: The Journal of Cell Biology
publication_identifier:
eissn:
- 1540-8140
publication_status: published
publisher: Rockefeller University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Microtubules control cellular shape and coherence in amoeboid migrating cells
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 219
year: '2020'
...
---
_id: '7888'
abstract:
- lang: eng
text: Embryonic stem cell cultures are thought to self-organize into embryoid bodies,
able to undergo symmetry-breaking, germ layer specification and even morphogenesis.
Yet, it is unclear how to reconcile this remarkable self-organization capacity
with classical experiments demonstrating key roles for extrinsic biases by maternal
factors and/or extraembryonic tissues in embryogenesis. Here, we show that zebrafish
embryonic tissue explants, prepared prior to germ layer induction and lacking
extraembryonic tissues, can specify all germ layers and form a seemingly complete
mesendoderm anlage. Importantly, explant organization requires polarized inheritance
of maternal factors from dorsal-marginal regions of the blastoderm. Moreover,
induction of endoderm and head-mesoderm, which require peak Nodal-signaling levels,
is highly variable in explants, reminiscent of embryos with reduced Nodal signals
from the extraembryonic tissues. Together, these data suggest that zebrafish explants
do not undergo bona fide self-organization, but rather display features of genetically
encoded self-assembly, where intrinsic genetic programs control the emergence
of order.
article_number: e55190
article_processing_charge: No
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: Diana C
full_name: Nunes Pinheiro, Diana C
id: 2E839F16-F248-11E8-B48F-1D18A9856A87
last_name: Nunes Pinheiro
orcid: 0000-0003-4333-7503
- 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, Nunes Pinheiro DC, Hauschild R, Heisenberg C-PJ. Zebrafish embryonic
explants undergo genetically encoded self-assembly. eLife. 2020;9. doi:10.7554/elife.55190
apa: Schauer, A., Nunes Pinheiro, D. C., Hauschild, R., & Heisenberg, C.-P.
J. (2020). Zebrafish embryonic explants undergo genetically encoded self-assembly.
ELife. eLife Sciences Publications. https://doi.org/10.7554/elife.55190
chicago: Schauer, Alexandra, Diana C Nunes Pinheiro, Robert Hauschild, and Carl-Philipp
J Heisenberg. “Zebrafish Embryonic Explants Undergo Genetically Encoded Self-Assembly.”
ELife. eLife Sciences Publications, 2020. https://doi.org/10.7554/elife.55190.
ieee: A. Schauer, D. C. Nunes Pinheiro, R. Hauschild, and C.-P. J. Heisenberg, “Zebrafish
embryonic explants undergo genetically encoded self-assembly,” eLife, vol.
9. eLife Sciences Publications, 2020.
ista: Schauer A, Nunes Pinheiro DC, Hauschild R, Heisenberg C-PJ. 2020. Zebrafish
embryonic explants undergo genetically encoded self-assembly. eLife. 9, e55190.
mla: Schauer, Alexandra, et al. “Zebrafish Embryonic Explants Undergo Genetically
Encoded Self-Assembly.” ELife, vol. 9, e55190, eLife Sciences Publications,
2020, doi:10.7554/elife.55190.
short: A. Schauer, D.C. Nunes Pinheiro, R. Hauschild, C.-P.J. Heisenberg, ELife
9 (2020).
date_created: 2020-05-25T15:01:40Z
date_published: 2020-04-06T00:00:00Z
date_updated: 2023-08-21T06:25:49Z
day: '06'
ddc:
- '570'
department:
- _id: CaHe
- _id: Bio
doi: 10.7554/elife.55190
ec_funded: 1
external_id:
isi:
- '000531544400001'
pmid:
- '32250246'
file:
- access_level: open_access
checksum: f6aad884cf706846ae9357fcd728f8b5
content_type: application/pdf
creator: dernst
date_created: 2020-05-25T15:15:43Z
date_updated: 2020-07-14T12:48:04Z
file_id: '7890'
file_name: 2020_eLife_Schauer.pdf
file_size: 7744848
relation: main_file
file_date_updated: 2020-07-14T12:48:04Z
has_accepted_license: '1'
intvolume: ' 9'
isi: 1
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
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'
- _id: 26520D1E-B435-11E9-9278-68D0E5697425
grant_number: ALTF 850-2017
name: Coordination of mesendoderm cell fate specification and internalization during
zebrafish gastrulation
- _id: 266BC5CE-B435-11E9-9278-68D0E5697425
grant_number: LT000429
name: Coordination of mesendoderm fate specification and internalization during
zebrafish gastrulation
publication: eLife
publication_identifier:
issn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
related_material:
record:
- id: '12891'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Zebrafish embryonic explants undergo genetically encoded self-assembly
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 9
year: '2020'
...
---
_id: '7877'
abstract:
- lang: eng
text: The NIPBL/MAU2 heterodimer loads cohesin onto chromatin. Mutations inNIPBLaccount
for most cases ofthe rare developmental disorder Cornelia de Lange syndrome (CdLS).
Here we report aMAU2 variant causing CdLS, a deletion of seven amino acids that
impairs the interaction between MAU2 and the NIPBL N terminus.Investigating this
interaction, we discovered that MAU2 and the NIPBL N terminus are largely dispensable
fornormal cohesin and NIPBL function in cells with a NIPBL early truncating mutation.
Despite a predicted fataloutcome of an out-of-frame single nucleotide duplication
inNIPBL, engineered in two different cell lines,alternative translation initiation
yields a form of NIPBL missing N-terminal residues. This form cannot interactwith
MAU2, but binds DNA and mediates cohesin loading. Altogether, our work reveals
that cohesin loading can occur independently of functional NIPBL/MAU2 complexes
and highlights a novel mechanism protectiveagainst out-of-frame mutations that
is potentially relevant for other genetic conditions.
article_number: '107647'
article_processing_charge: No
article_type: original
author:
- first_name: Ilaria
full_name: Parenti, Ilaria
id: D93538B0-5B71-11E9-AC62-02EBE5697425
last_name: Parenti
- first_name: Farah
full_name: Diab, Farah
last_name: Diab
- first_name: Sara Ruiz
full_name: Gil, Sara Ruiz
last_name: Gil
- first_name: Eskeatnaf
full_name: Mulugeta, Eskeatnaf
last_name: Mulugeta
- first_name: Valentina
full_name: Casa, Valentina
last_name: Casa
- first_name: Riccardo
full_name: Berutti, Riccardo
last_name: Berutti
- first_name: Rutger W.W.
full_name: Brouwer, Rutger W.W.
last_name: Brouwer
- first_name: Valerie
full_name: Dupé, Valerie
last_name: Dupé
- first_name: Juliane
full_name: Eckhold, Juliane
last_name: Eckhold
- first_name: Elisabeth
full_name: Graf, Elisabeth
last_name: Graf
- first_name: Beatriz
full_name: Puisac, Beatriz
last_name: Puisac
- first_name: Feliciano
full_name: Ramos, Feliciano
last_name: Ramos
- first_name: Thomas
full_name: Schwarzmayr, Thomas
last_name: Schwarzmayr
- first_name: Macarena Moronta
full_name: Gines, Macarena Moronta
last_name: Gines
- first_name: Thomas
full_name: Van Staveren, Thomas
last_name: Van Staveren
- first_name: Wilfred F.J.
full_name: Van Ijcken, Wilfred F.J.
last_name: Van Ijcken
- first_name: Tim M.
full_name: Strom, Tim M.
last_name: Strom
- first_name: Juan
full_name: Pié, Juan
last_name: Pié
- first_name: Erwan
full_name: Watrin, Erwan
last_name: Watrin
- first_name: Frank J.
full_name: Kaiser, Frank J.
last_name: Kaiser
- first_name: Kerstin S.
full_name: Wendt, Kerstin S.
last_name: Wendt
citation:
ama: Parenti I, Diab F, Gil SR, et al. MAU2 and NIPBL variants impair the heterodimerization
of the cohesin loader subunits and cause Cornelia de Lange syndrome. Cell Reports.
2020;31(7). doi:10.1016/j.celrep.2020.107647
apa: Parenti, I., Diab, F., Gil, S. R., Mulugeta, E., Casa, V., Berutti, R., … Wendt,
K. S. (2020). MAU2 and NIPBL variants impair the heterodimerization of the cohesin
loader subunits and cause Cornelia de Lange syndrome. Cell Reports. Elsevier.
https://doi.org/10.1016/j.celrep.2020.107647
chicago: Parenti, Ilaria, Farah Diab, Sara Ruiz Gil, Eskeatnaf Mulugeta, Valentina
Casa, Riccardo Berutti, Rutger W.W. Brouwer, et al. “MAU2 and NIPBL Variants Impair
the Heterodimerization of the Cohesin Loader Subunits and Cause Cornelia de Lange
Syndrome.” Cell Reports. Elsevier, 2020. https://doi.org/10.1016/j.celrep.2020.107647.
ieee: I. Parenti et al., “MAU2 and NIPBL variants impair the heterodimerization
of the cohesin loader subunits and cause Cornelia de Lange syndrome,” Cell
Reports, vol. 31, no. 7. Elsevier, 2020.
ista: Parenti I, Diab F, Gil SR, Mulugeta E, Casa V, Berutti R, Brouwer RWW, Dupé
V, Eckhold J, Graf E, Puisac B, Ramos F, Schwarzmayr T, Gines MM, Van Staveren
T, Van Ijcken WFJ, Strom TM, Pié J, Watrin E, Kaiser FJ, Wendt KS. 2020. MAU2
and NIPBL variants impair the heterodimerization of the cohesin loader subunits
and cause Cornelia de Lange syndrome. Cell Reports. 31(7), 107647.
mla: Parenti, Ilaria, et al. “MAU2 and NIPBL Variants Impair the Heterodimerization
of the Cohesin Loader Subunits and Cause Cornelia de Lange Syndrome.” Cell
Reports, vol. 31, no. 7, 107647, Elsevier, 2020, doi:10.1016/j.celrep.2020.107647.
short: I. Parenti, F. Diab, S.R. Gil, E. Mulugeta, V. Casa, R. Berutti, R.W.W. Brouwer,
V. Dupé, J. Eckhold, E. Graf, B. Puisac, F. Ramos, T. Schwarzmayr, M.M. Gines,
T. Van Staveren, W.F.J. Van Ijcken, T.M. Strom, J. Pié, E. Watrin, F.J. Kaiser,
K.S. Wendt, Cell Reports 31 (2020).
date_created: 2020-05-24T22:00:57Z
date_published: 2020-05-19T00:00:00Z
date_updated: 2023-08-21T06:27:47Z
day: '19'
ddc:
- '570'
department:
- _id: GaNo
doi: 10.1016/j.celrep.2020.107647
external_id:
isi:
- '000535655200005'
file:
- access_level: open_access
checksum: 64d8f7467731ee5c166b10b939b8310b
content_type: application/pdf
creator: dernst
date_created: 2020-05-26T11:05:01Z
date_updated: 2020-07-14T12:48:04Z
file_id: '7892'
file_name: 2020_CellReports_Parenti.pdf
file_size: 4695682
relation: main_file
file_date_updated: 2020-07-14T12:48:04Z
has_accepted_license: '1'
intvolume: ' 31'
isi: 1
issue: '7'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
publication: Cell Reports
publication_identifier:
eissn:
- '22111247'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: MAU2 and NIPBL variants impair the heterodimerization of the cohesin loader
subunits and cause Cornelia de Lange syndrome
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 31
year: '2020'
...
---
_id: '7878'
abstract:
- lang: eng
text: Type 1 metabotropic glutamate receptors (mGluR1s) are key elements in neuronal
signaling. While their function is well documented in slices, requirements for
their activation in vivo are poorly understood. We examine this question in adult
mice in vivo using 2-photon imaging of cerebellar molecular layer interneurons
(MLIs) expressing GCaMP. In anesthetized mice, parallel fiber activation evokes
beam-like Cai rises in postsynaptic MLIs which depend on co-activation of mGluR1s
and ionotropic glutamate receptors (iGluRs). In awake mice, blocking mGluR1 decreases
Cai rises associated with locomotion. In vitro studies and freeze-fracture electron
microscopy show that the iGluR-mGluR1 interaction is synergistic and favored by
close association of the two classes of receptors. Altogether our results suggest
that mGluR1s, acting in synergy with iGluRs, potently contribute to processing
cerebellar neuronal signaling under physiological conditions.
article_number: e56839
article_processing_charge: No
article_type: original
author:
- first_name: Jin
full_name: Bao, Jin
last_name: Bao
- first_name: Michael
full_name: Graupner, Michael
last_name: Graupner
- first_name: Guadalupe
full_name: Astorga, Guadalupe
last_name: Astorga
- first_name: Thibault
full_name: Collin, Thibault
last_name: Collin
- first_name: Abdelali
full_name: Jalil, Abdelali
last_name: Jalil
- first_name: Dwi Wahyu
full_name: Indriati, Dwi Wahyu
last_name: Indriati
- first_name: Jonathan
full_name: Bradley, Jonathan
last_name: Bradley
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Isabel
full_name: Llano, Isabel
last_name: Llano
citation:
ama: Bao J, Graupner M, Astorga G, et al. Synergism of type 1 metabotropic and ionotropic
glutamate receptors in cerebellar molecular layer interneurons in vivo. eLife.
2020;9. doi:10.7554/eLife.56839
apa: Bao, J., Graupner, M., Astorga, G., Collin, T., Jalil, A., Indriati, D. W.,
… Llano, I. (2020). Synergism of type 1 metabotropic and ionotropic glutamate
receptors in cerebellar molecular layer interneurons in vivo. ELife. eLife
Sciences Publications. https://doi.org/10.7554/eLife.56839
chicago: Bao, Jin, Michael Graupner, Guadalupe Astorga, Thibault Collin, Abdelali
Jalil, Dwi Wahyu Indriati, Jonathan Bradley, Ryuichi Shigemoto, and Isabel Llano.
“Synergism of Type 1 Metabotropic and Ionotropic Glutamate Receptors in Cerebellar
Molecular Layer Interneurons in Vivo.” ELife. eLife Sciences Publications,
2020. https://doi.org/10.7554/eLife.56839.
ieee: J. Bao et al., “Synergism of type 1 metabotropic and ionotropic glutamate
receptors in cerebellar molecular layer interneurons in vivo,” eLife, vol.
9. eLife Sciences Publications, 2020.
ista: Bao J, Graupner M, Astorga G, Collin T, Jalil A, Indriati DW, Bradley J, Shigemoto
R, Llano I. 2020. Synergism of type 1 metabotropic and ionotropic glutamate receptors
in cerebellar molecular layer interneurons in vivo. eLife. 9, e56839.
mla: Bao, Jin, et al. “Synergism of Type 1 Metabotropic and Ionotropic Glutamate
Receptors in Cerebellar Molecular Layer Interneurons in Vivo.” ELife, vol.
9, e56839, eLife Sciences Publications, 2020, doi:10.7554/eLife.56839.
short: J. Bao, M. Graupner, G. Astorga, T. Collin, A. Jalil, D.W. Indriati, J. Bradley,
R. Shigemoto, I. Llano, ELife 9 (2020).
date_created: 2020-05-24T22:00:58Z
date_published: 2020-05-13T00:00:00Z
date_updated: 2023-08-21T06:26:50Z
day: '13'
ddc:
- '570'
department:
- _id: RySh
doi: 10.7554/eLife.56839
external_id:
isi:
- '000535191600001'
pmid:
- '32401196'
file:
- access_level: open_access
checksum: 8ea99bb6660cc407dbdb00c173b01683
content_type: application/pdf
creator: dernst
date_created: 2020-05-26T09:34:54Z
date_updated: 2020-07-14T12:48:04Z
file_id: '7891'
file_name: 2020_eLife_Bao.pdf
file_size: 4832050
relation: main_file
file_date_updated: 2020-07-14T12:48:04Z
has_accepted_license: '1'
intvolume: ' 9'
isi: 1
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
pmid: 1
publication: eLife
publication_identifier:
eissn:
- 2050084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: Synergism of type 1 metabotropic and ionotropic glutamate receptors in cerebellar
molecular layer interneurons in vivo
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 9
year: '2020'
...
---
_id: '7880'
abstract:
- lang: eng
text: 'Following its evoked release, dopamine (DA) signaling is rapidly terminated
by presynaptic reuptake, mediated by the cocaine-sensitive DA transporter (DAT).
DAT surface availability is dynamically regulated by endocytic trafficking, and
direct protein kinase C (PKC) activation acutely diminishes DAT surface expression
by accelerating DAT internalization. Previous cell line studies demonstrated that
PKC-stimulated DAT endocytosis requires both Ack1 inactivation, which releases
a DAT-specific endocytic brake, and the neuronal GTPase, Rit2, which binds DAT.
However, it is unknown whether Rit2 is required for PKC-stimulated DAT endocytosis
in DAergic terminals or whether there are region- and/or sex-dependent differences
in PKC-stimulated DAT trafficking. Moreover, the mechanisms by which Rit2 controls
PKC-stimulated DAT endocytosis are unknown. Here, we directly examined these important
questions. Ex vivo studies revealed that PKC activation acutely decreased DAT
surface expression selectively in ventral, but not dorsal, striatum. AAV-mediated,
conditional Rit2 knockdown in DAergic neurons impacted baseline DAT surface:intracellular
distribution in DAergic terminals from female ventral, but not dorsal, striatum.
Further, Rit2 was required for PKC-stimulated DAT internalization in both male
and female ventral striatum. FRET and surface pulldown studies in cell lines revealed
that PKC activation drives DAT-Rit2 surface dissociation and that the DAT N terminus
is required for both PKC-mediated DAT-Rit2 dissociation and DAT internalization.
Finally, we found that Rit2 and Ack1 independently converge on DAT to facilitate
PKC-stimulated DAT endocytosis. Together, our data provide greater insight into
mechanisms that mediate PKC-regulated DAT internalization and reveal unexpected
region-specific differences in PKC-stimulated DAT trafficking in bona fide DAergic
terminals. '
article_processing_charge: No
article_type: original
author:
- first_name: Rita R.
full_name: Fagan, Rita R.
last_name: Fagan
- first_name: Patrick J.
full_name: Kearney, Patrick J.
last_name: Kearney
- first_name: Carolyn G.
full_name: Sweeney, Carolyn G.
last_name: Sweeney
- first_name: Dino
full_name: Luethi, Dino
last_name: Luethi
- first_name: Florianne E
full_name: Schoot Uiterkamp, Florianne E
id: 3526230C-F248-11E8-B48F-1D18A9856A87
last_name: Schoot Uiterkamp
- first_name: Klaus
full_name: Schicker, Klaus
last_name: Schicker
- first_name: Brian S.
full_name: Alejandro, Brian S.
last_name: Alejandro
- first_name: Lauren C.
full_name: O'Connor, Lauren C.
last_name: O'Connor
- first_name: Harald H.
full_name: Sitte, Harald H.
last_name: Sitte
- first_name: Haley E.
full_name: Melikian, Haley E.
last_name: Melikian
citation:
ama: 'Fagan RR, Kearney PJ, Sweeney CG, et al. Dopamine transporter trafficking
and Rit2 GTPase: Mechanism of action and in vivo impact. Journal of Biological
Chemistry. 2020;295(16):5229-5244. doi:10.1074/jbc.RA120.012628'
apa: 'Fagan, R. R., Kearney, P. J., Sweeney, C. G., Luethi, D., Schoot Uiterkamp,
F. E., Schicker, K., … Melikian, H. E. (2020). Dopamine transporter trafficking
and Rit2 GTPase: Mechanism of action and in vivo impact. Journal of Biological
Chemistry. ASBMB Publications. https://doi.org/10.1074/jbc.RA120.012628'
chicago: 'Fagan, Rita R., Patrick J. Kearney, Carolyn G. Sweeney, Dino Luethi, Florianne
E Schoot Uiterkamp, Klaus Schicker, Brian S. Alejandro, Lauren C. O’Connor, Harald
H. Sitte, and Haley E. Melikian. “Dopamine Transporter Trafficking and Rit2 GTPase:
Mechanism of Action and in Vivo Impact.” Journal of Biological Chemistry.
ASBMB Publications, 2020. https://doi.org/10.1074/jbc.RA120.012628.'
ieee: 'R. R. Fagan et al., “Dopamine transporter trafficking and Rit2 GTPase:
Mechanism of action and in vivo impact,” Journal of Biological Chemistry,
vol. 295, no. 16. ASBMB Publications, pp. 5229–5244, 2020.'
ista: 'Fagan RR, Kearney PJ, Sweeney CG, Luethi D, Schoot Uiterkamp FE, Schicker
K, Alejandro BS, O’Connor LC, Sitte HH, Melikian HE. 2020. Dopamine transporter
trafficking and Rit2 GTPase: Mechanism of action and in vivo impact. Journal of
Biological Chemistry. 295(16), 5229–5244.'
mla: 'Fagan, Rita R., et al. “Dopamine Transporter Trafficking and Rit2 GTPase:
Mechanism of Action and in Vivo Impact.” Journal of Biological Chemistry,
vol. 295, no. 16, ASBMB Publications, 2020, pp. 5229–44, doi:10.1074/jbc.RA120.012628.'
short: R.R. Fagan, P.J. Kearney, C.G. Sweeney, D. Luethi, F.E. Schoot Uiterkamp,
K. Schicker, B.S. Alejandro, L.C. O’Connor, H.H. Sitte, H.E. Melikian, Journal
of Biological Chemistry 295 (2020) 5229–5244.
date_created: 2020-05-24T22:00:59Z
date_published: 2020-04-17T00:00:00Z
date_updated: 2023-08-21T06:26:22Z
day: '17'
department:
- _id: SaSi
doi: 10.1074/jbc.RA120.012628
external_id:
isi:
- '000530288000006'
pmid:
- '32132171'
intvolume: ' 295'
isi: 1
issue: '16'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://escholarship.umassmed.edu/oapubs/4187
month: '04'
oa: 1
oa_version: Submitted Version
page: 5229-5244
pmid: 1
publication: Journal of Biological Chemistry
publication_identifier:
eissn:
- 1083351X
issn:
- '00219258'
publication_status: published
publisher: ASBMB Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Dopamine transporter trafficking and Rit2 GTPase: Mechanism of action and
in vivo impact'
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 295
year: '2020'
...
---
_id: '7876'
abstract:
- lang: eng
text: 'In contrast to lymph nodes, the lymphoid regions of the spleen—the white
pulp—are located deep within the organ, yielding the trafficking paths of T cells
in the white pulp largely invisible. In an intravital microscopy tour de force
reported in this issue of Immunity, Chauveau et al. show that T cells perform
unidirectional, perivascular migration through the enigmatic marginal zone bridging
channels. '
article_processing_charge: No
article_type: original
author:
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Tim
full_name: Lämmermann, Tim
last_name: Lämmermann
citation:
ama: 'Sixt MK, Lämmermann T. T cells: Bridge-and-channel commute to the white pulp.
Immunity. 2020;52(5):721-723. doi:10.1016/j.immuni.2020.04.020'
apa: 'Sixt, M. K., & Lämmermann, T. (2020). T cells: Bridge-and-channel commute
to the white pulp. Immunity. Elsevier. https://doi.org/10.1016/j.immuni.2020.04.020'
chicago: 'Sixt, Michael K, and Tim Lämmermann. “T Cells: Bridge-and-Channel Commute
to the White Pulp.” Immunity. Elsevier, 2020. https://doi.org/10.1016/j.immuni.2020.04.020.'
ieee: 'M. K. Sixt and T. Lämmermann, “T cells: Bridge-and-channel commute to the
white pulp,” Immunity, vol. 52, no. 5. Elsevier, pp. 721–723, 2020.'
ista: 'Sixt MK, Lämmermann T. 2020. T cells: Bridge-and-channel commute to the white
pulp. Immunity. 52(5), 721–723.'
mla: 'Sixt, Michael K., and Tim Lämmermann. “T Cells: Bridge-and-Channel Commute
to the White Pulp.” Immunity, vol. 52, no. 5, Elsevier, 2020, pp. 721–23,
doi:10.1016/j.immuni.2020.04.020.'
short: M.K. Sixt, T. Lämmermann, Immunity 52 (2020) 721–723.
date_created: 2020-05-24T22:00:57Z
date_published: 2020-05-19T00:00:00Z
date_updated: 2023-08-21T06:27:18Z
day: '19'
department:
- _id: MiSi
doi: 10.1016/j.immuni.2020.04.020
external_id:
isi:
- '000535371100002'
intvolume: ' 52'
isi: 1
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://pure.mpg.de/pubman/item/item_3265599_2/component/file_3265620/Sixt%20et%20al..pdf
month: '05'
oa: 1
oa_version: Published Version
page: 721-723
publication: Immunity
publication_identifier:
eissn:
- '10974180'
issn:
- '10747613'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'T cells: Bridge-and-channel commute to the white pulp'
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 52
year: '2020'
...
---
_id: '7909'
abstract:
- lang: eng
text: Cell migration entails networks and bundles of actin filaments termed lamellipodia
and microspikes or filopodia, respectively, as well as focal adhesions, all of
which recruit Ena/VASP family members hitherto thought to antagonize efficient
cell motility. However, we find these proteins to act as positive regulators of
migration in different murine cell lines. CRISPR/Cas9-mediated loss of Ena/VASP
proteins reduced lamellipodial actin assembly and perturbed lamellipodial architecture,
as evidenced by changed network geometry as well as reduction of filament length
and number that was accompanied by abnormal Arp2/3 complex and heterodimeric capping
protein accumulation. Loss of Ena/VASP function also abolished the formation of
microspikes normally embedded in lamellipodia, but not of filopodia capable of
emanating without lamellipodia. Ena/VASP-deficiency also impaired integrin-mediated
adhesion accompanied by reduced traction forces exerted through these structures.
Our data thus uncover novel Ena/VASP functions of these actin polymerases that
are fully consistent with their promotion of cell migration.
article_number: e55351
article_processing_charge: No
article_type: original
author:
- first_name: Julia
full_name: Damiano-Guercio, Julia
last_name: Damiano-Guercio
- first_name: Laëtitia
full_name: Kurzawa, Laëtitia
last_name: Kurzawa
- first_name: Jan
full_name: Müller, Jan
id: AD07FDB4-0F61-11EA-8158-C4CC64CEAA8D
last_name: Müller
- first_name: Georgi A
full_name: Dimchev, Georgi A
id: 38C393BE-F248-11E8-B48F-1D18A9856A87
last_name: Dimchev
orcid: 0000-0001-8370-6161
- first_name: Matthias
full_name: Schaks, Matthias
last_name: Schaks
- first_name: Maria
full_name: Nemethova, Maria
id: 34E27F1C-F248-11E8-B48F-1D18A9856A87
last_name: Nemethova
- first_name: Thomas
full_name: Pokrant, Thomas
last_name: Pokrant
- first_name: Stefan
full_name: Brühmann, Stefan
last_name: Brühmann
- first_name: Joern
full_name: Linkner, Joern
last_name: Linkner
- first_name: Laurent
full_name: Blanchoin, Laurent
last_name: Blanchoin
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Klemens
full_name: Rottner, Klemens
last_name: Rottner
- first_name: Jan
full_name: Faix, Jan
last_name: Faix
citation:
ama: Damiano-Guercio J, Kurzawa L, Müller J, et al. Loss of Ena/VASP interferes
with lamellipodium architecture, motility and integrin-dependent adhesion. eLife.
2020;9. doi:10.7554/eLife.55351
apa: Damiano-Guercio, J., Kurzawa, L., Müller, J., Dimchev, G. A., Schaks, M., Nemethova,
M., … Faix, J. (2020). Loss of Ena/VASP interferes with lamellipodium architecture,
motility and integrin-dependent adhesion. ELife. eLife Sciences Publications.
https://doi.org/10.7554/eLife.55351
chicago: Damiano-Guercio, Julia, Laëtitia Kurzawa, Jan Müller, Georgi A Dimchev,
Matthias Schaks, Maria Nemethova, Thomas Pokrant, et al. “Loss of Ena/VASP Interferes
with Lamellipodium Architecture, Motility and Integrin-Dependent Adhesion.” ELife.
eLife Sciences Publications, 2020. https://doi.org/10.7554/eLife.55351.
ieee: J. Damiano-Guercio et al., “Loss of Ena/VASP interferes with lamellipodium
architecture, motility and integrin-dependent adhesion,” eLife, vol. 9.
eLife Sciences Publications, 2020.
ista: Damiano-Guercio J, Kurzawa L, Müller J, Dimchev GA, Schaks M, Nemethova M,
Pokrant T, Brühmann S, Linkner J, Blanchoin L, Sixt MK, Rottner K, Faix J. 2020.
Loss of Ena/VASP interferes with lamellipodium architecture, motility and integrin-dependent
adhesion. eLife. 9, e55351.
mla: Damiano-Guercio, Julia, et al. “Loss of Ena/VASP Interferes with Lamellipodium
Architecture, Motility and Integrin-Dependent Adhesion.” ELife, vol. 9,
e55351, eLife Sciences Publications, 2020, doi:10.7554/eLife.55351.
short: J. Damiano-Guercio, L. Kurzawa, J. Müller, G.A. Dimchev, M. Schaks, M. Nemethova,
T. Pokrant, S. Brühmann, J. Linkner, L. Blanchoin, M.K. Sixt, K. Rottner, J. Faix,
ELife 9 (2020).
date_created: 2020-05-31T22:00:49Z
date_published: 2020-05-11T00:00:00Z
date_updated: 2023-08-21T06:32:25Z
day: '11'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.7554/eLife.55351
ec_funded: 1
external_id:
isi:
- '000537208000001'
file:
- access_level: open_access
checksum: d33bd4441b9a0195718ce1ba5d2c48a6
content_type: application/pdf
creator: dernst
date_created: 2020-06-02T10:35:37Z
date_updated: 2020-07-14T12:48:05Z
file_id: '7914'
file_name: 2020_eLife_Damiano_Guercio.pdf
file_size: 10535713
relation: main_file
file_date_updated: 2020-07-14T12:48:05Z
has_accepted_license: '1'
intvolume: ' 9'
isi: 1
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
project:
- _id: 25FE9508-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '724373'
name: Cellular navigation along spatial gradients
publication: eLife
publication_identifier:
eissn:
- 2050084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: Loss of Ena/VASP interferes with lamellipodium architecture, motility and integrin-dependent
adhesion
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 9
year: '2020'
...
---
_id: '7908'
abstract:
- lang: eng
text: Volatile anesthetics are widely used for surgery, but neuronal mechanisms
of anesthesia remain unidentified. At the calyx of Held in brainstem slices from
rats of either sex, isoflurane at clinical doses attenuated EPSCs by decreasing
the release probability and the number of readily releasable vesicles. In presynaptic
recordings of Ca2+ currents and exocytic capacitance changes, isoflurane attenuated
exocytosis by inhibiting Ca2+ currents evoked by a short presynaptic depolarization,
whereas it inhibited exocytosis evoked by a prolonged depolarization via directly
blocking exocytic machinery downstream of Ca2+ influx. Since the length of presynaptic
depolarization can simulate the frequency of synaptic inputs, isoflurane anesthesia
is likely mediated by distinct dual mechanisms, depending on input frequencies.
In simultaneous presynaptic and postsynaptic action potential recordings, isoflurane
impaired the fidelity of repetitive spike transmission, more strongly at higher
frequencies. Furthermore, in the cerebrum of adult mice, isoflurane inhibited
monosynaptic corticocortical spike transmission, preferentially at a higher frequency.
We conclude that dual presynaptic mechanisms operate for the anesthetic action
of isoflurane, of which direct inhibition of exocytic machinery plays a low-pass
filtering role in spike transmission at central excitatory synapses.
article_processing_charge: No
article_type: original
author:
- first_name: Han Ying
full_name: Wang, Han Ying
last_name: Wang
- first_name: Kohgaku
full_name: Eguchi, Kohgaku
id: 2B7846DC-F248-11E8-B48F-1D18A9856A87
last_name: Eguchi
orcid: 0000-0002-6170-2546
- first_name: Takayuki
full_name: Yamashita, Takayuki
last_name: Yamashita
- first_name: Tomoyuki
full_name: Takahashi, Tomoyuki
last_name: Takahashi
citation:
ama: Wang HY, Eguchi K, Yamashita T, Takahashi T. Frequency-dependent block of excitatory
neurotransmission by isoflurane via dual presynaptic mechanisms. Journal of
Neuroscience. 2020;40(21):4103-4115. doi:10.1523/JNEUROSCI.2946-19.2020
apa: Wang, H. Y., Eguchi, K., Yamashita, T., & Takahashi, T. (2020). Frequency-dependent
block of excitatory neurotransmission by isoflurane via dual presynaptic mechanisms.
Journal of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.2946-19.2020
chicago: Wang, Han Ying, Kohgaku Eguchi, Takayuki Yamashita, and Tomoyuki Takahashi.
“Frequency-Dependent Block of Excitatory Neurotransmission by Isoflurane via Dual
Presynaptic Mechanisms.” Journal of Neuroscience. Society for Neuroscience,
2020. https://doi.org/10.1523/JNEUROSCI.2946-19.2020.
ieee: H. Y. Wang, K. Eguchi, T. Yamashita, and T. Takahashi, “Frequency-dependent
block of excitatory neurotransmission by isoflurane via dual presynaptic mechanisms,”
Journal of Neuroscience, vol. 40, no. 21. Society for Neuroscience, pp.
4103–4115, 2020.
ista: Wang HY, Eguchi K, Yamashita T, Takahashi T. 2020. Frequency-dependent block
of excitatory neurotransmission by isoflurane via dual presynaptic mechanisms.
Journal of Neuroscience. 40(21), 4103–4115.
mla: Wang, Han Ying, et al. “Frequency-Dependent Block of Excitatory Neurotransmission
by Isoflurane via Dual Presynaptic Mechanisms.” Journal of Neuroscience,
vol. 40, no. 21, Society for Neuroscience, 2020, pp. 4103–15, doi:10.1523/JNEUROSCI.2946-19.2020.
short: H.Y. Wang, K. Eguchi, T. Yamashita, T. Takahashi, Journal of Neuroscience
40 (2020) 4103–4115.
date_created: 2020-05-31T22:00:48Z
date_published: 2020-05-20T00:00:00Z
date_updated: 2023-08-21T06:31:25Z
day: '20'
ddc:
- '570'
department:
- _id: RySh
doi: 10.1523/JNEUROSCI.2946-19.2020
external_id:
isi:
- '000535694700004'
file:
- access_level: open_access
checksum: 6571607ea9036154b67cc78e848a7f7d
content_type: application/pdf
creator: dernst
date_created: 2020-06-02T09:12:16Z
date_updated: 2020-07-14T12:48:05Z
file_id: '7912'
file_name: 2020_JourNeuroscience_Wang.pdf
file_size: 3817360
relation: main_file
file_date_updated: 2020-07-14T12:48:05Z
has_accepted_license: '1'
intvolume: ' 40'
isi: 1
issue: '21'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 4103-4115
publication: Journal of Neuroscience
publication_identifier:
eissn:
- '15292401'
publication_status: published
publisher: Society for Neuroscience
quality_controlled: '1'
scopus_import: '1'
status: public
title: Frequency-dependent block of excitatory neurotransmission by isoflurane via
dual presynaptic mechanisms
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 40
year: '2020'
...
---
_id: '7931'
abstract:
- lang: eng
text: In the course of sample preparation for Next Generation Sequencing (NGS),
DNA is fragmented by various methods. Fragmentation shows a persistent bias with
regard to the cleavage rates of various dinucleotides. With the exception of CpG
dinucleotides the previously described biases were consistent with results of
the DNA cleavage in solution. Here we computed cleavage rates of all dinucleotides
including the methylated CpG and unmethylated CpG dinucleotides using data of
the Whole Genome Sequencing datasets of the 1000 Genomes project. We found that
the cleavage rate of CpG is significantly higher for the methylated CpG dinucleotides.
Using this information, we developed a classifier for distinguishing cancer and
healthy tissues based on their CpG islands statuses of the fragmentation. A simple
Support Vector Machine classifier based on this algorithm shows an accuracy of
84%. The proposed method allows the detection of epigenetic markers purely based
on mechanochemical DNA fragmentation, which can be detected by a simple analysis
of the NGS sequencing data.
article_number: '8635'
article_processing_charge: No
article_type: original
author:
- first_name: Leonid A.
full_name: Uroshlev, Leonid A.
last_name: Uroshlev
- first_name: Eldar T.
full_name: Abdullaev, Eldar T.
last_name: Abdullaev
- first_name: Iren R.
full_name: Umarova, Iren R.
last_name: Umarova
- first_name: Irina A.
full_name: Il’Icheva, Irina A.
last_name: Il’Icheva
- first_name: Larisa A.
full_name: Panchenko, Larisa A.
last_name: Panchenko
- first_name: Robert V.
full_name: Polozov, Robert V.
last_name: Polozov
- first_name: Fyodor
full_name: Kondrashov, Fyodor
id: 44FDEF62-F248-11E8-B48F-1D18A9856A87
last_name: Kondrashov
orcid: 0000-0001-8243-4694
- first_name: Yury D.
full_name: Nechipurenko, Yury D.
last_name: Nechipurenko
- first_name: Sergei L.
full_name: Grokhovsky, Sergei L.
last_name: Grokhovsky
citation:
ama: Uroshlev LA, Abdullaev ET, Umarova IR, et al. A method for identification of
the methylation level of CpG islands from NGS data. Scientific Reports.
2020;10. doi:10.1038/s41598-020-65406-1
apa: Uroshlev, L. A., Abdullaev, E. T., Umarova, I. R., Il’Icheva, I. A., Panchenko,
L. A., Polozov, R. V., … Grokhovsky, S. L. (2020). A method for identification
of the methylation level of CpG islands from NGS data. Scientific Reports.
Springer Nature. https://doi.org/10.1038/s41598-020-65406-1
chicago: Uroshlev, Leonid A., Eldar T. Abdullaev, Iren R. Umarova, Irina A. Il’Icheva,
Larisa A. Panchenko, Robert V. Polozov, Fyodor Kondrashov, Yury D. Nechipurenko,
and Sergei L. Grokhovsky. “A Method for Identification of the Methylation Level
of CpG Islands from NGS Data.” Scientific Reports. Springer Nature, 2020.
https://doi.org/10.1038/s41598-020-65406-1.
ieee: L. A. Uroshlev et al., “A method for identification of the methylation
level of CpG islands from NGS data,” Scientific Reports, vol. 10. Springer
Nature, 2020.
ista: Uroshlev LA, Abdullaev ET, Umarova IR, Il’Icheva IA, Panchenko LA, Polozov
RV, Kondrashov F, Nechipurenko YD, Grokhovsky SL. 2020. A method for identification
of the methylation level of CpG islands from NGS data. Scientific Reports. 10,
8635.
mla: Uroshlev, Leonid A., et al. “A Method for Identification of the Methylation
Level of CpG Islands from NGS Data.” Scientific Reports, vol. 10, 8635,
Springer Nature, 2020, doi:10.1038/s41598-020-65406-1.
short: L.A. Uroshlev, E.T. Abdullaev, I.R. Umarova, I.A. Il’Icheva, L.A. Panchenko,
R.V. Polozov, F. Kondrashov, Y.D. Nechipurenko, S.L. Grokhovsky, Scientific Reports
10 (2020).
date_created: 2020-06-07T22:00:51Z
date_published: 2020-05-25T00:00:00Z
date_updated: 2023-08-21T07:00:17Z
day: '25'
ddc:
- '570'
department:
- _id: FyKo
doi: 10.1038/s41598-020-65406-1
external_id:
isi:
- '000560774200007'
file:
- access_level: open_access
checksum: 099e51611a5b7ca04244d03b2faddf33
content_type: application/pdf
creator: dernst
date_created: 2020-06-08T06:27:32Z
date_updated: 2020-07-14T12:48:05Z
file_id: '7947'
file_name: 2020_ScientificReports_Uroshlev.pdf
file_size: 1001724
relation: main_file
file_date_updated: 2020-07-14T12:48:05Z
has_accepted_license: '1'
intvolume: ' 10'
isi: 1
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
publication: Scientific Reports
publication_identifier:
eissn:
- '20452322'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: A method for identification of the methylation level of CpG islands from NGS
data
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 10
year: '2020'
...
---
_id: '7933'
abstract:
- lang: eng
text: We study a mobile quantum impurity, possessing internal rotational degrees
of freedom, confined to a ring in the presence of a many-particle bosonic bath.
By considering the recently introduced rotating polaron problem, we define the
Hamiltonian and examine the energy spectrum. The weak-coupling regime is studied
by means of a variational ansatz in the truncated Fock space. The corresponding
spectrum indicates that there emerges a coupling between the internal and orbital
angular momenta of the impurity as a consequence of the phonon exchange. We interpret
the coupling as a phonon-mediated spin-orbit coupling and quantify it by using
a correlation function between the internal and the orbital angular momentum operators.
The strong-coupling regime is investigated within the Pekar approach, and it is
shown that the correlation function of the ground state shows a kink at a critical
coupling, that is explained by a sharp transition from the noninteracting state
to the states that exhibit strong interaction with the surroundings. The results
might find applications in such fields as spintronics or topological insulators
where spin-orbit coupling is of crucial importance.
article_number: '184104 '
article_processing_charge: No
article_type: original
author:
- first_name: Mikhail
full_name: Maslov, Mikhail
id: 2E65BB0E-F248-11E8-B48F-1D18A9856A87
last_name: Maslov
orcid: 0000-0003-4074-2570
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
- first_name: Enderalp
full_name: Yakaboylu, Enderalp
id: 38CB71F6-F248-11E8-B48F-1D18A9856A87
last_name: Yakaboylu
orcid: 0000-0001-5973-0874
citation:
ama: Maslov M, Lemeshko M, Yakaboylu E. Synthetic spin-orbit coupling mediated by
a bosonic environment. Physical Review B. 2020;101(18). doi:10.1103/PhysRevB.101.184104
apa: Maslov, M., Lemeshko, M., & Yakaboylu, E. (2020). Synthetic spin-orbit
coupling mediated by a bosonic environment. Physical Review B. American
Physical Society. https://doi.org/10.1103/PhysRevB.101.184104
chicago: Maslov, Mikhail, Mikhail Lemeshko, and Enderalp Yakaboylu. “Synthetic Spin-Orbit
Coupling Mediated by a Bosonic Environment.” Physical Review B. American
Physical Society, 2020. https://doi.org/10.1103/PhysRevB.101.184104.
ieee: M. Maslov, M. Lemeshko, and E. Yakaboylu, “Synthetic spin-orbit coupling mediated
by a bosonic environment,” Physical Review B, vol. 101, no. 18. American
Physical Society, 2020.
ista: Maslov M, Lemeshko M, Yakaboylu E. 2020. Synthetic spin-orbit coupling mediated
by a bosonic environment. Physical Review B. 101(18), 184104.
mla: Maslov, Mikhail, et al. “Synthetic Spin-Orbit Coupling Mediated by a Bosonic
Environment.” Physical Review B, vol. 101, no. 18, 184104, American Physical
Society, 2020, doi:10.1103/PhysRevB.101.184104.
short: M. Maslov, M. Lemeshko, E. Yakaboylu, Physical Review B 101 (2020).
date_created: 2020-06-07T22:00:52Z
date_published: 2020-05-01T00:00:00Z
date_updated: 2023-08-21T07:05:15Z
day: '01'
department:
- _id: MiLe
doi: 10.1103/PhysRevB.101.184104
ec_funded: 1
external_id:
arxiv:
- '1912.03092'
isi:
- '000530754700003'
intvolume: ' 101'
isi: 1
issue: '18'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1912.03092
month: '05'
oa: 1
oa_version: Preprint
project:
- _id: 26031614-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P29902
name: Quantum rotations in the presence of a many-body environment
- _id: 2688CF98-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '801770'
name: 'Angulon: physics and applications of a new quasiparticle'
publication: Physical Review B
publication_identifier:
eissn:
- '24699969'
issn:
- '24699950'
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Synthetic spin-orbit coupling mediated by a bosonic environment
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 101
year: '2020'
...
---
_id: '7942'
abstract:
- lang: eng
text: An understanding of the missing antinodal electronic excitations in the pseudogap
state is essential for uncovering the physics of the underdoped cuprate high-temperature
superconductors1,2,3,4,5,6. The majority of high-temperature experiments performed
thus far, however, have been unable to discern whether the antinodal states are
rendered unobservable due to their damping or whether they vanish due to their
gapping7,8,9,10,11,12,13,14,15,16,17,18. Here, we distinguish between these two
scenarios by using quantum oscillations to examine whether the small Fermi surface
pocket, found to occupy only 2% of the Brillouin zone in the underdoped cuprates19,20,21,22,23,24,
exists in isolation against a majority of completely gapped density of states
spanning the antinodes, or whether it is thermodynamically coupled to a background
of ungapped antinodal states. We find that quantum oscillations associated with
the small Fermi surface pocket exhibit a signature sawtooth waveform characteristic
of an isolated two-dimensional Fermi surface pocket25,26,27,28,29,30,31,32. This
finding reveals that the antinodal states are destroyed by a hard gap that extends
over the majority of the Brillouin zone, placing strong constraints on a drastic
underlying origin of quasiparticle disappearance over almost the entire Brillouin
zone in the pseudogap regime7,8,9,10,11,12,13,14,15,16,17,18.
acknowledgement: M.H., Y.-T.H. and S.E.S. acknowledge support from the Royal Society,
the Winton Programme for the Physics of Sustainability, EPSRC (studentship, grant
no. EP/P024947/1 and EPSRC Strategic Equipment grant no. EP/M000524/1) and the European
Research Council (grant no. 772891). S.E.S. acknowledges support from the Leverhulme
Trust by way of the award of a Philip Leverhulme Prize. H.Z., J.W. and Z.Z. acknowledge
support from the National Key Research and Development Program of China (grant no.
2016YFA0401704). A portion of this work was performed at the National High Magnetic
Field Laboratory, which is supported by the National Science Foundation Cooperative
Agreement no. DMR-1644779, the state of Florida and the US Department of Energy.
Work performed by M.K.C., R.D.M. and N.H. was supported by the US DOE BES ‘Science
of 100 T’ programme.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Máté
full_name: Hartstein, Máté
last_name: Hartstein
- first_name: Yu Te
full_name: Hsu, Yu Te
last_name: Hsu
- 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: Juan
full_name: Porras, Juan
last_name: Porras
- first_name: Toshinao
full_name: Loew, Toshinao
last_name: Loew
- first_name: Matthieu Le
full_name: Tacon, Matthieu Le
last_name: Tacon
- first_name: Huakun
full_name: Zuo, Huakun
last_name: Zuo
- first_name: Jinhua
full_name: Wang, Jinhua
last_name: Wang
- first_name: Zengwei
full_name: Zhu, Zengwei
last_name: Zhu
- first_name: Mun K.
full_name: Chan, Mun K.
last_name: Chan
- first_name: Ross D.
full_name: Mcdonald, Ross D.
last_name: Mcdonald
- first_name: Gilbert G.
full_name: Lonzarich, Gilbert G.
last_name: Lonzarich
- first_name: Bernhard
full_name: Keimer, Bernhard
last_name: Keimer
- first_name: Suchitra E.
full_name: Sebastian, Suchitra E.
last_name: Sebastian
- first_name: Neil
full_name: Harrison, Neil
last_name: Harrison
citation:
ama: Hartstein M, Hsu YT, Modic KA, et al. Hard antinodal gap revealed by quantum
oscillations in the pseudogap regime of underdoped high-Tc superconductors. Nature
Physics. 2020;16:841-847. doi:10.1038/s41567-020-0910-0
apa: Hartstein, M., Hsu, Y. T., Modic, K. A., Porras, J., Loew, T., Tacon, M. L.,
… Harrison, N. (2020). Hard antinodal gap revealed by quantum oscillations in
the pseudogap regime of underdoped high-Tc superconductors. Nature Physics.
Springer Nature. https://doi.org/10.1038/s41567-020-0910-0
chicago: Hartstein, Máté, Yu Te Hsu, Kimberly A Modic, Juan Porras, Toshinao Loew,
Matthieu Le Tacon, Huakun Zuo, et al. “Hard Antinodal Gap Revealed by Quantum
Oscillations in the Pseudogap Regime of Underdoped High-Tc Superconductors.” Nature
Physics. Springer Nature, 2020. https://doi.org/10.1038/s41567-020-0910-0.
ieee: M. Hartstein et al., “Hard antinodal gap revealed by quantum oscillations
in the pseudogap regime of underdoped high-Tc superconductors,” Nature Physics,
vol. 16. Springer Nature, pp. 841–847, 2020.
ista: Hartstein M, Hsu YT, Modic KA, Porras J, Loew T, Tacon ML, Zuo H, Wang J,
Zhu Z, Chan MK, Mcdonald RD, Lonzarich GG, Keimer B, Sebastian SE, Harrison N.
2020. Hard antinodal gap revealed by quantum oscillations in the pseudogap regime
of underdoped high-Tc superconductors. Nature Physics. 16, 841–847.
mla: Hartstein, Máté, et al. “Hard Antinodal Gap Revealed by Quantum Oscillations
in the Pseudogap Regime of Underdoped High-Tc Superconductors.” Nature Physics,
vol. 16, Springer Nature, 2020, pp. 841–47, doi:10.1038/s41567-020-0910-0.
short: M. Hartstein, Y.T. Hsu, K.A. Modic, J. Porras, T. Loew, M.L. Tacon, H. Zuo,
J. Wang, Z. Zhu, M.K. Chan, R.D. Mcdonald, G.G. Lonzarich, B. Keimer, S.E. Sebastian,
N. Harrison, Nature Physics 16 (2020) 841–847.
date_created: 2020-06-07T22:00:56Z
date_published: 2020-08-01T00:00:00Z
date_updated: 2023-08-21T07:06:49Z
day: '01'
department:
- _id: KiMo
doi: 10.1038/s41567-020-0910-0
external_id:
arxiv:
- '2005.14123'
isi:
- '000535464400005'
intvolume: ' 16'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2005.14123
month: '08'
oa: 1
oa_version: Preprint
page: 841-847
publication: Nature Physics
publication_identifier:
eissn:
- '17452481'
issn:
- '17452473'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '9708'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Hard antinodal gap revealed by quantum oscillations in the pseudogap regime
of underdoped high-Tc superconductors
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 16
year: '2020'
...
---
_id: '7948'
abstract:
- lang: eng
text: In agricultural systems, nitrate is the main source of nitrogen available
for plants. Besides its role as a nutrient, nitrate has been shown to act as a
signal molecule for plant growth, development and stress responses. In Arabidopsis,
the NRT1.1 nitrate transceptor represses lateral root (LR) development at low
nitrate availability by promoting auxin basipetal transport out of the LR primordia
(LRPs). In addition, our present study shows that NRT1.1 acts as a negative regulator
of the TAR2 auxin biosynthetic gene expression in the root stele. This is expected
to repress local auxin biosynthesis and thus to reduce acropetal auxin supply
to the LRPs. Moreover, NRT1.1 also negatively affects expression of the LAX3 auxin
influx carrier, thus preventing cell wall remodeling required for overlying tissues
separation during LRP emergence. Both NRT1.1-mediated repression of TAR2 and LAX3
are suppressed at high nitrate availability, resulting in the nitrate induction
of TAR2 and LAX3 expression that is required for optimal stimulation of LR development
by nitrate. Altogether, our results indicate that the NRT1.1 transceptor coordinately
controls several crucial auxin-associated processes required for LRP development,
and as a consequence that NRT1.1 plays a much more integrated role than previously
anticipated in regulating the nitrate response of root system architecture.
article_processing_charge: No
article_type: original
author:
- first_name: A
full_name: Maghiaoui, A
last_name: Maghiaoui
- first_name: E
full_name: Bouguyon, E
last_name: Bouguyon
- first_name: Candela
full_name: Cuesta, Candela
id: 33A3C818-F248-11E8-B48F-1D18A9856A87
last_name: Cuesta
orcid: 0000-0003-1923-2410
- first_name: F
full_name: Perrine-Walker, F
last_name: Perrine-Walker
- first_name: C
full_name: Alcon, C
last_name: Alcon
- first_name: G
full_name: Krouk, G
last_name: Krouk
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
- first_name: P
full_name: Nacry, P
last_name: Nacry
- first_name: A
full_name: Gojon, A
last_name: Gojon
- first_name: L
full_name: Bach, L
last_name: Bach
citation:
ama: Maghiaoui A, Bouguyon E, Cuesta C, et al. The Arabidopsis NRT1.1 transceptor
coordinately controls auxin biosynthesis and transport to regulate root branching
in response to nitrate. Journal of Experimental Botany. 2020;71(15):4480-4494.
doi:10.1093/jxb/eraa242
apa: Maghiaoui, A., Bouguyon, E., Cuesta, C., Perrine-Walker, F., Alcon, C., Krouk,
G., … Bach, L. (2020). The Arabidopsis NRT1.1 transceptor coordinately controls
auxin biosynthesis and transport to regulate root branching in response to nitrate.
Journal of Experimental Botany. Oxford University Press. https://doi.org/10.1093/jxb/eraa242
chicago: Maghiaoui, A, E Bouguyon, Candela Cuesta, F Perrine-Walker, C Alcon, G
Krouk, Eva Benková, P Nacry, A Gojon, and L Bach. “The Arabidopsis NRT1.1 Transceptor
Coordinately Controls Auxin Biosynthesis and Transport to Regulate Root Branching
in Response to Nitrate.” Journal of Experimental Botany. Oxford University
Press, 2020. https://doi.org/10.1093/jxb/eraa242.
ieee: A. Maghiaoui et al., “The Arabidopsis NRT1.1 transceptor coordinately
controls auxin biosynthesis and transport to regulate root branching in response
to nitrate,” Journal of Experimental Botany, vol. 71, no. 15. Oxford University
Press, pp. 4480–4494, 2020.
ista: Maghiaoui A, Bouguyon E, Cuesta C, Perrine-Walker F, Alcon C, Krouk G, Benková
E, Nacry P, Gojon A, Bach L. 2020. The Arabidopsis NRT1.1 transceptor coordinately
controls auxin biosynthesis and transport to regulate root branching in response
to nitrate. Journal of Experimental Botany. 71(15), 4480–4494.
mla: Maghiaoui, A., et al. “The Arabidopsis NRT1.1 Transceptor Coordinately Controls
Auxin Biosynthesis and Transport to Regulate Root Branching in Response to Nitrate.”
Journal of Experimental Botany, vol. 71, no. 15, Oxford University Press,
2020, pp. 4480–94, doi:10.1093/jxb/eraa242.
short: A. Maghiaoui, E. Bouguyon, C. Cuesta, F. Perrine-Walker, C. Alcon, G. Krouk,
E. Benková, P. Nacry, A. Gojon, L. Bach, Journal of Experimental Botany 71 (2020)
4480–4494.
date_created: 2020-06-08T10:10:28Z
date_published: 2020-07-25T00:00:00Z
date_updated: 2023-08-21T07:07:30Z
day: '25'
department:
- _id: EvBe
doi: 10.1093/jxb/eraa242
external_id:
isi:
- '000553127600013'
pmid:
- '32428238'
intvolume: ' 71'
isi: 1
issue: '15'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://hal.inrae.fr/hal-02619371
month: '07'
oa: 1
oa_version: Submitted Version
page: 4480-4494
pmid: 1
publication: Journal of Experimental Botany
publication_identifier:
eissn:
- 1460-2431
issn:
- 0022-0957
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
status: public
title: The Arabidopsis NRT1.1 transceptor coordinately controls auxin biosynthesis
and transport to regulate root branching in response to nitrate
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 71
year: '2020'
...
---
_id: '7940'
abstract:
- lang: eng
text: We prove that the Yangian associated to an untwisted symmetric affine Kac–Moody
Lie algebra is isomorphic to the Drinfeld double of a shuffle algebra. The latter
is constructed in [YZ14] as an algebraic formalism of cohomological Hall algebras.
As a consequence, we obtain the Poincare–Birkhoff–Witt (PBW) theorem for this
class of affine Yangians. Another independent proof of the PBW theorem is given
recently by Guay, Regelskis, and Wendlandt [GRW18].
acknowledgement: Gufang Zhao is affiliated to IST Austria, Hausel group until July
of 2018. Supported by the Advanced Grant Arithmetic and Physics of Higgs moduli
spaces No. 320593 of the European Research Council.
article_processing_charge: No
article_type: original
author:
- first_name: Yaping
full_name: Yang, Yaping
id: 360D8648-F248-11E8-B48F-1D18A9856A87
last_name: Yang
- first_name: Gufang
full_name: Zhao, Gufang
id: 2BC2AC5E-F248-11E8-B48F-1D18A9856A87
last_name: Zhao
citation:
ama: Yang Y, Zhao G. The PBW theorem for affine Yangians. Transformation Groups.
2020;25:1371-1385. doi:10.1007/s00031-020-09572-6
apa: Yang, Y., & Zhao, G. (2020). The PBW theorem for affine Yangians. Transformation
Groups. Springer Nature. https://doi.org/10.1007/s00031-020-09572-6
chicago: Yang, Yaping, and Gufang Zhao. “The PBW Theorem for Affine Yangians.” Transformation
Groups. Springer Nature, 2020. https://doi.org/10.1007/s00031-020-09572-6.
ieee: Y. Yang and G. Zhao, “The PBW theorem for affine Yangians,” Transformation
Groups, vol. 25. Springer Nature, pp. 1371–1385, 2020.
ista: Yang Y, Zhao G. 2020. The PBW theorem for affine Yangians. Transformation
Groups. 25, 1371–1385.
mla: Yang, Yaping, and Gufang Zhao. “The PBW Theorem for Affine Yangians.” Transformation
Groups, vol. 25, Springer Nature, 2020, pp. 1371–85, doi:10.1007/s00031-020-09572-6.
short: Y. Yang, G. Zhao, Transformation Groups 25 (2020) 1371–1385.
date_created: 2020-06-07T22:00:55Z
date_published: 2020-12-01T00:00:00Z
date_updated: 2023-08-21T07:06:21Z
day: '01'
department:
- _id: TaHa
doi: 10.1007/s00031-020-09572-6
ec_funded: 1
external_id:
arxiv:
- '1804.04375'
isi:
- '000534874300003'
intvolume: ' 25'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1804.04375
month: '12'
oa: 1
oa_version: Preprint
page: 1371-1385
project:
- _id: 25E549F4-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '320593'
name: Arithmetic and physics of Higgs moduli spaces
publication: Transformation Groups
publication_identifier:
eissn:
- 1531586X
issn:
- '10834362'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: The PBW theorem for affine Yangians
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 25
year: '2020'
...
---
_id: '9708'
abstract:
- lang: eng
text: This research data supports 'Hard antinodal gap revealed by quantum oscillations
in the pseudogap regime of underdoped high-Tc superconductors'. A Readme file
for plotting each figure is provided.
article_processing_charge: No
author:
- first_name: Mate
full_name: Hartstein, Mate
last_name: Hartstein
- first_name: Yu-Te
full_name: Hsu, Yu-Te
last_name: Hsu
- 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: Juan
full_name: Porras, Juan
last_name: Porras
- first_name: Toshinao
full_name: Loew, Toshinao
last_name: Loew
- first_name: Matthieu
full_name: Le Tacon, Matthieu
last_name: Le Tacon
- first_name: Huakun
full_name: Zuo, Huakun
last_name: Zuo
- first_name: Jinhua
full_name: Wang, Jinhua
last_name: Wang
- first_name: Zengwei
full_name: Zhu, Zengwei
last_name: Zhu
- first_name: Mun
full_name: Chan, Mun
last_name: Chan
- first_name: Ross
full_name: McDonald, Ross
last_name: McDonald
- first_name: Gilbert
full_name: Lonzarich, Gilbert
last_name: Lonzarich
- first_name: Bernhard
full_name: Keimer, Bernhard
last_name: Keimer
- first_name: Suchitra
full_name: Sebastian, Suchitra
last_name: Sebastian
- first_name: Neil
full_name: Harrison, Neil
last_name: Harrison
citation:
ama: Hartstein M, Hsu Y-T, Modic KA, et al. Accompanying dataset for “Hard antinodal
gap revealed by quantum oscillations in the pseudogap regime of underdoped high-Tc
superconductors.” 2020. doi:10.17863/cam.50169
apa: Hartstein, M., Hsu, Y.-T., Modic, K. A., Porras, J., Loew, T., Le Tacon, M.,
… Harrison, N. (2020). Accompanying dataset for “Hard antinodal gap revealed by
quantum oscillations in the pseudogap regime of underdoped high-Tc superconductors.”
Apollo - University of Cambridge. https://doi.org/10.17863/cam.50169
chicago: Hartstein, Mate, Yu-Te Hsu, Kimberly A Modic, Juan Porras, Toshinao Loew,
Matthieu Le Tacon, Huakun Zuo, et al. “Accompanying Dataset for ‘Hard Antinodal
Gap Revealed by Quantum Oscillations in the Pseudogap Regime of Underdoped High-Tc
Superconductors.’” Apollo - University of Cambridge, 2020. https://doi.org/10.17863/cam.50169.
ieee: M. Hartstein et al., “Accompanying dataset for ‘Hard antinodal gap
revealed by quantum oscillations in the pseudogap regime of underdoped high-Tc
superconductors.’” Apollo - University of Cambridge, 2020.
ista: Hartstein M, Hsu Y-T, Modic KA, Porras J, Loew T, Le Tacon M, Zuo H, Wang
J, Zhu Z, Chan M, McDonald R, Lonzarich G, Keimer B, Sebastian S, Harrison N.
2020. Accompanying dataset for ‘Hard antinodal gap revealed by quantum oscillations
in the pseudogap regime of underdoped high-Tc superconductors’, Apollo - University
of Cambridge, 10.17863/cam.50169.
mla: Hartstein, Mate, et al. Accompanying Dataset for “Hard Antinodal Gap Revealed
by Quantum Oscillations in the Pseudogap Regime of Underdoped High-Tc Superconductors.”
Apollo - University of Cambridge, 2020, doi:10.17863/cam.50169.
short: M. Hartstein, Y.-T. Hsu, K.A. Modic, J. Porras, T. Loew, M. Le Tacon, H.
Zuo, J. Wang, Z. Zhu, M. Chan, R. McDonald, G. Lonzarich, B. Keimer, S. Sebastian,
N. Harrison, (2020).
date_created: 2021-07-23T10:00:35Z
date_published: 2020-05-29T00:00:00Z
date_updated: 2023-08-21T07:06:48Z
day: '29'
department:
- _id: KiMo
doi: 10.17863/cam.50169
has_accepted_license: '1'
main_file_link:
- open_access: '1'
url: https://doi.org/10.17863/CAM.50169
month: '05'
oa: 1
oa_version: Published Version
publisher: Apollo - University of Cambridge
related_material:
record:
- id: '7942'
relation: used_in_publication
status: public
status: public
title: Accompanying dataset for 'Hard antinodal gap revealed by quantum oscillations
in the pseudogap regime of underdoped high-Tc superconductors'
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: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2020'
...
---
_id: '7955'
abstract:
- lang: eng
text: Simple stochastic games are turn-based 2½-player games with a reachability
objective. The basic question asks whether one player can ensure reaching a given
target with at least a given probability. A natural extension is games with a
conjunction of such conditions as objective. Despite a plethora of recent results
on the analysis of systems with multiple objectives, the decidability of this
basic problem remains open. In this paper, we present an algorithm approximating
the Pareto frontier of the achievable values to a given precision. Moreover, it
is an anytime algorithm, meaning it can be stopped at any time returning the current
approximation and its error bound.
acknowledgement: "Pranav Ashok, Jan Křetínský and Maximilian Weininger were funded
in part by TUM IGSSE Grant 10.06 (PARSEC) and the German Research Foundation (DFG)
project KR 4890/2-1\r\n“Statistical Unbounded Verification”. Krishnendu Chatterjee
was supported by the ERC CoG 863818 (ForM-SMArt) and Vienna Science and Technology
Fund (WWTF) Project ICT15-\r\n003. Tobias Winkler was supported by the RTG 2236
UnRAVe."
article_processing_charge: No
author:
- first_name: Pranav
full_name: Ashok, Pranav
last_name: Ashok
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Jan
full_name: Kretinsky, Jan
last_name: Kretinsky
- first_name: Maximilian
full_name: Weininger, Maximilian
last_name: Weininger
- first_name: Tobias
full_name: Winkler, Tobias
last_name: Winkler
citation:
ama: 'Ashok P, Chatterjee K, Kretinsky J, Weininger M, Winkler T. Approximating
values of generalized-reachability stochastic games. In: Proceedings of the
35th Annual ACM/IEEE Symposium on Logic in Computer Science . Association
for Computing Machinery; 2020:102-115. doi:10.1145/3373718.3394761'
apa: 'Ashok, P., Chatterjee, K., Kretinsky, J., Weininger, M., & Winkler, T.
(2020). Approximating values of generalized-reachability stochastic games. In
Proceedings of the 35th Annual ACM/IEEE Symposium on Logic in Computer Science
(pp. 102–115). Saarbrücken, Germany: Association for Computing Machinery.
https://doi.org/10.1145/3373718.3394761'
chicago: Ashok, Pranav, Krishnendu Chatterjee, Jan Kretinsky, Maximilian Weininger,
and Tobias Winkler. “Approximating Values of Generalized-Reachability Stochastic
Games.” In Proceedings of the 35th Annual ACM/IEEE Symposium on Logic in Computer
Science , 102–15. Association for Computing Machinery, 2020. https://doi.org/10.1145/3373718.3394761.
ieee: P. Ashok, K. Chatterjee, J. Kretinsky, M. Weininger, and T. Winkler, “Approximating
values of generalized-reachability stochastic games,” in Proceedings of the
35th Annual ACM/IEEE Symposium on Logic in Computer Science , Saarbrücken,
Germany, 2020, pp. 102–115.
ista: 'Ashok P, Chatterjee K, Kretinsky J, Weininger M, Winkler T. 2020. Approximating
values of generalized-reachability stochastic games. Proceedings of the 35th Annual
ACM/IEEE Symposium on Logic in Computer Science . LICS: Symposium on Logic in
Computer Science, 102–115.'
mla: Ashok, Pranav, et al. “Approximating Values of Generalized-Reachability Stochastic
Games.” Proceedings of the 35th Annual ACM/IEEE Symposium on Logic in Computer
Science , Association for Computing Machinery, 2020, pp. 102–15, doi:10.1145/3373718.3394761.
short: P. Ashok, K. Chatterjee, J. Kretinsky, M. Weininger, T. Winkler, in:, Proceedings
of the 35th Annual ACM/IEEE Symposium on Logic in Computer Science , Association
for Computing Machinery, 2020, pp. 102–115.
conference:
end_date: 2020-07-11
location: Saarbrücken, Germany
name: 'LICS: Symposium on Logic in Computer Science'
start_date: 2020-07-08
date_created: 2020-06-14T22:00:48Z
date_published: 2020-07-08T00:00:00Z
date_updated: 2023-08-21T08:24:36Z
day: '08'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1145/3373718.3394761
ec_funded: 1
external_id:
arxiv:
- '1908.05106'
isi:
- '000665014900010'
file:
- access_level: open_access
checksum: d0d0288fe991dd16cf5f02598b794240
content_type: application/pdf
creator: dernst
date_created: 2020-11-25T09:38:14Z
date_updated: 2020-11-25T09:38:14Z
file_id: '8804'
file_name: 2020_LICS_Ashok.pdf
file_size: 1001395
relation: main_file
success: 1
file_date_updated: 2020-11-25T09:38:14Z
has_accepted_license: '1'
isi: 1
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 102-115
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '863818'
name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
- _id: 25892FC0-B435-11E9-9278-68D0E5697425
grant_number: ICT15-003
name: Efficient Algorithms for Computer Aided Verification
publication: 'Proceedings of the 35th Annual ACM/IEEE Symposium on Logic in Computer
Science '
publication_identifier:
isbn:
- '9781450371049'
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
scopus_import: '1'
status: public
title: Approximating values of generalized-reachability stochastic games
type: conference
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
year: '2020'
...
---
_id: '7957'
abstract:
- lang: eng
text: "Neurodevelopmental disorders (NDDs) are a class of disorders affecting brain
development and function and are characterized by wide genetic and clinical variability.
In this review, we discuss the multiple factors that influence the clinical presentation
of NDDs, with particular attention to gene vulnerability, mutational load, and
the two-hit model. Despite the complex architecture of\r\nmutational events associated
with NDDs, the various proteins involved appear to converge on common pathways,
such as synaptic plasticity/function, chromatin remodelers and the mammalian target
of rapamycin (mTOR) pathway. A thorough understanding of the mechanisms behind
these pathways will hopefully lead to the identification of candidates that could
be targeted for treatment approaches."
acknowledgement: We wish to thank Jasmin Morandell for generously sharing Figure 2.
This work was supported by the European Research Council Starting Grant (grant 715508
) to G.N.
article_processing_charge: No
article_type: original
author:
- first_name: Ilaria
full_name: Parenti, Ilaria
id: D93538B0-5B71-11E9-AC62-02EBE5697425
last_name: Parenti
- first_name: Luis E
full_name: Garcia Rabaneda, Luis E
id: 33D1B084-F248-11E8-B48F-1D18A9856A87
last_name: Garcia Rabaneda
- first_name: Hanna
full_name: Schön, Hanna
id: C8E17EDC-D7AA-11E9-B7B7-45ECE5697425
last_name: Schön
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
citation:
ama: 'Parenti I, Garcia Rabaneda LE, Schön H, Novarino G. Neurodevelopmental disorders:
From genetics to functional pathways. Trends in Neurosciences. 2020;43(8):608-621.
doi:10.1016/j.tins.2020.05.004'
apa: 'Parenti, I., Garcia Rabaneda, L. E., Schön, H., & Novarino, G. (2020).
Neurodevelopmental disorders: From genetics to functional pathways. Trends
in Neurosciences. Elsevier. https://doi.org/10.1016/j.tins.2020.05.004'
chicago: 'Parenti, Ilaria, Luis E Garcia Rabaneda, Hanna Schön, and Gaia Novarino.
“Neurodevelopmental Disorders: From Genetics to Functional Pathways.” Trends
in Neurosciences. Elsevier, 2020. https://doi.org/10.1016/j.tins.2020.05.004.'
ieee: 'I. Parenti, L. E. Garcia Rabaneda, H. Schön, and G. Novarino, “Neurodevelopmental
disorders: From genetics to functional pathways,” Trends in Neurosciences,
vol. 43, no. 8. Elsevier, pp. 608–621, 2020.'
ista: 'Parenti I, Garcia Rabaneda LE, Schön H, Novarino G. 2020. Neurodevelopmental
disorders: From genetics to functional pathways. Trends in Neurosciences. 43(8),
608–621.'
mla: 'Parenti, Ilaria, et al. “Neurodevelopmental Disorders: From Genetics to Functional
Pathways.” Trends in Neurosciences, vol. 43, no. 8, Elsevier, 2020, pp.
608–21, doi:10.1016/j.tins.2020.05.004.'
short: I. Parenti, L.E. Garcia Rabaneda, H. Schön, G. Novarino, Trends in Neurosciences
43 (2020) 608–621.
date_created: 2020-06-14T22:00:49Z
date_published: 2020-08-01T00:00:00Z
date_updated: 2023-08-21T08:25:31Z
day: '01'
ddc:
- '570'
department:
- _id: GaNo
doi: 10.1016/j.tins.2020.05.004
ec_funded: 1
external_id:
isi:
- '000553090600008'
pmid:
- '32507511'
file:
- access_level: open_access
checksum: 67db0251b1d415ae59005f876fcf9e34
content_type: application/pdf
creator: dernst
date_created: 2020-11-25T09:43:40Z
date_updated: 2020-11-25T09:43:40Z
file_id: '8805'
file_name: 2020_TrendsNeuroscience_Parenti.pdf
file_size: 1439550
relation: main_file
success: 1
file_date_updated: 2020-11-25T09:43:40Z
has_accepted_license: '1'
intvolume: ' 43'
isi: 1
issue: '8'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 608-621
pmid: 1
project:
- _id: 25444568-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715508'
name: Probing the Reversibility of Autism Spectrum Disorders by Employing in vivo
and in vitro Models
publication: Trends in Neurosciences
publication_identifier:
eissn:
- 1878108X
issn:
- '01662236'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Neurodevelopmental disorders: From genetics to functional pathways'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 43
year: '2020'
...
---
_id: '7960'
abstract:
- lang: eng
text: Let A={A1,…,An} be a family of sets in the plane. For 0≤i2b be integers. We prove that if each k-wise or (k+1)-wise intersection
of sets from A has at most b path-connected components, which all are open, then
fk+1=0 implies fk≤cfk−1 for some positive constant c depending only on b and k.
These results also extend to two-dimensional compact surfaces.
acknowledgement: "We are very grateful to Pavel Paták for many helpful discussions
and remarks. We also thank the referees for helpful comments, which greatly improved
the presentation.\r\nThe project was supported by ERC Advanced Grant 320924. GK
was also partially supported by NSF grant DMS1300120. The research stay of ZP at
IST Austria is funded by the project CZ.02.2.69/0.0/0.0/17_050/0008466 Improvement
of internationalization in the field of research and development at Charles University,
through the support of quality projects MSCA-IF."
article_processing_charge: No
article_type: original
author:
- first_name: Gil
full_name: Kalai, Gil
last_name: Kalai
- first_name: Zuzana
full_name: Patakova, Zuzana
id: 48B57058-F248-11E8-B48F-1D18A9856A87
last_name: Patakova
orcid: 0000-0002-3975-1683
citation:
ama: Kalai G, Patakova Z. Intersection patterns of planar sets. Discrete and
Computational Geometry. 2020;64:304-323. doi:10.1007/s00454-020-00205-z
apa: Kalai, G., & Patakova, Z. (2020). Intersection patterns of planar sets.
Discrete and Computational Geometry. Springer Nature. https://doi.org/10.1007/s00454-020-00205-z
chicago: Kalai, Gil, and Zuzana Patakova. “Intersection Patterns of Planar Sets.”
Discrete and Computational Geometry. Springer Nature, 2020. https://doi.org/10.1007/s00454-020-00205-z.
ieee: G. Kalai and Z. Patakova, “Intersection patterns of planar sets,” Discrete
and Computational Geometry, vol. 64. Springer Nature, pp. 304–323, 2020.
ista: Kalai G, Patakova Z. 2020. Intersection patterns of planar sets. Discrete
and Computational Geometry. 64, 304–323.
mla: Kalai, Gil, and Zuzana Patakova. “Intersection Patterns of Planar Sets.” Discrete
and Computational Geometry, vol. 64, Springer Nature, 2020, pp. 304–23, doi:10.1007/s00454-020-00205-z.
short: G. Kalai, Z. Patakova, Discrete and Computational Geometry 64 (2020) 304–323.
date_created: 2020-06-14T22:00:50Z
date_published: 2020-09-01T00:00:00Z
date_updated: 2023-08-21T08:26:34Z
day: '01'
department:
- _id: UlWa
doi: 10.1007/s00454-020-00205-z
external_id:
arxiv:
- '1907.00885'
isi:
- '000537329400001'
intvolume: ' 64'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1907.00885
month: '09'
oa: 1
oa_version: Preprint
page: 304-323
publication: Discrete and Computational Geometry
publication_identifier:
eissn:
- '14320444'
issn:
- '01795376'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Intersection patterns of planar sets
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 64
year: '2020'
...
---
_id: '7962'
abstract:
- lang: eng
text: 'A string graph is the intersection graph of a family of continuous arcs in
the plane. The intersection graph of a family of plane convex sets is a string
graph, but not all string graphs can be obtained in this way. We prove the following
structure theorem conjectured by Janson and Uzzell: The vertex set of almost all
string graphs on n vertices can be partitioned into five cliques such that some
pair of them is not connected by any edge (n→∞). We also show that every graph
with the above property is an intersection graph of plane convex sets. As a corollary,
we obtain that almost all string graphs on n vertices are intersection graphs
of plane convex sets.'
article_processing_charge: No
article_type: original
author:
- first_name: János
full_name: Pach, János
id: E62E3130-B088-11EA-B919-BF823C25FEA4
last_name: Pach
- first_name: Bruce
full_name: Reed, Bruce
last_name: Reed
- first_name: Yelena
full_name: Yuditsky, Yelena
last_name: Yuditsky
citation:
ama: Pach J, Reed B, Yuditsky Y. Almost all string graphs are intersection graphs
of plane convex sets. Discrete and Computational Geometry. 2020;63(4):888-917.
doi:10.1007/s00454-020-00213-z
apa: Pach, J., Reed, B., & Yuditsky, Y. (2020). Almost all string graphs are
intersection graphs of plane convex sets. Discrete and Computational Geometry.
Springer Nature. https://doi.org/10.1007/s00454-020-00213-z
chicago: Pach, János, Bruce Reed, and Yelena Yuditsky. “Almost All String Graphs
Are Intersection Graphs of Plane Convex Sets.” Discrete and Computational Geometry.
Springer Nature, 2020. https://doi.org/10.1007/s00454-020-00213-z.
ieee: J. Pach, B. Reed, and Y. Yuditsky, “Almost all string graphs are intersection
graphs of plane convex sets,” Discrete and Computational Geometry, vol.
63, no. 4. Springer Nature, pp. 888–917, 2020.
ista: Pach J, Reed B, Yuditsky Y. 2020. Almost all string graphs are intersection
graphs of plane convex sets. Discrete and Computational Geometry. 63(4), 888–917.
mla: Pach, János, et al. “Almost All String Graphs Are Intersection Graphs of Plane
Convex Sets.” Discrete and Computational Geometry, vol. 63, no. 4, Springer
Nature, 2020, pp. 888–917, doi:10.1007/s00454-020-00213-z.
short: J. Pach, B. Reed, Y. Yuditsky, Discrete and Computational Geometry 63 (2020)
888–917.
date_created: 2020-06-14T22:00:51Z
date_published: 2020-06-05T00:00:00Z
date_updated: 2023-08-21T08:49:18Z
day: '05'
department:
- _id: HeEd
doi: 10.1007/s00454-020-00213-z
external_id:
arxiv:
- '1803.06710'
isi:
- '000538229000001'
intvolume: ' 63'
isi: 1
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1803.06710
month: '06'
oa: 1
oa_version: Preprint
page: 888-917
project:
- _id: 268116B8-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00342
name: The Wittgenstein Prize
publication: Discrete and Computational Geometry
publication_identifier:
eissn:
- '14320444'
issn:
- '01795376'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Almost all string graphs are intersection graphs of plane convex sets
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 63
year: '2020'
...
---
_id: '7999'
abstract:
- lang: eng
text: 'Linking epigenetic marks to clinical outcomes improves insight into molecular
processes, disease prediction, and therapeutic target identification. Here, a
statistical approach is presented to infer the epigenetic architecture of complex
disease, determine the variation captured by epigenetic effects, and estimate
phenotype-epigenetic probe associations jointly. Implicitly adjusting for probe
correlations, data structure (cell-count or relatedness), and single-nucleotide
polymorphism (SNP) marker effects, improves association estimates and in 9,448
individuals, 75.7% (95% CI 71.70–79.3) of body mass index (BMI) variation and
45.6% (95% CI 37.3–51.9) of cigarette consumption variation was captured by whole
blood methylation array data. Pathway-linked probes of blood cholesterol, lipid
transport and sterol metabolism for BMI, and xenobiotic stimuli response for smoking,
showed >1.5 times larger associations with >95% posterior inclusion probability.
Prediction accuracy improved by 28.7% for BMI and 10.2% for smoking over a LASSO
model, with age-, and tissue-specificity, implying associations are a phenotypic
consequence rather than causal. '
article_number: '2865'
article_processing_charge: No
article_type: original
author:
- first_name: D
full_name: Trejo Banos, D
last_name: Trejo Banos
- first_name: DL
full_name: McCartney, DL
last_name: McCartney
- first_name: M
full_name: Patxot, M
last_name: Patxot
- first_name: L
full_name: Anchieri, L
last_name: Anchieri
- first_name: T
full_name: Battram, T
last_name: Battram
- first_name: C
full_name: Christiansen, C
last_name: Christiansen
- first_name: R
full_name: Costeira, R
last_name: Costeira
- first_name: RM
full_name: Walker, RM
last_name: Walker
- first_name: SW
full_name: Morris, SW
last_name: Morris
- first_name: A
full_name: Campbell, A
last_name: Campbell
- first_name: Q
full_name: Zhang, Q
last_name: Zhang
- first_name: DJ
full_name: Porteous, DJ
last_name: Porteous
- first_name: AF
full_name: McRae, AF
last_name: McRae
- first_name: NR
full_name: Wray, NR
last_name: Wray
- first_name: PM
full_name: Visscher, PM
last_name: Visscher
- first_name: CS
full_name: Haley, CS
last_name: Haley
- first_name: KL
full_name: Evans, KL
last_name: Evans
- first_name: IJ
full_name: Deary, IJ
last_name: Deary
- first_name: AM
full_name: McIntosh, AM
last_name: McIntosh
- first_name: G
full_name: Hemani, G
last_name: Hemani
- first_name: JT
full_name: Bell, JT
last_name: Bell
- first_name: RE
full_name: Marioni, RE
last_name: Marioni
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
citation:
ama: Trejo Banos D, McCartney D, Patxot M, et al. Bayesian reassessment of the epigenetic
architecture of complex traits. Nature Communications. 2020;11. doi:10.1038/s41467-020-16520-1
apa: Trejo Banos, D., McCartney, D., Patxot, M., Anchieri, L., Battram, T., Christiansen,
C., … Robinson, M. R. (2020). Bayesian reassessment of the epigenetic architecture
of complex traits. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-020-16520-1
chicago: Trejo Banos, D, DL McCartney, M Patxot, L Anchieri, T Battram, C Christiansen,
R Costeira, et al. “Bayesian Reassessment of the Epigenetic Architecture of Complex
Traits.” Nature Communications. Springer Nature, 2020. https://doi.org/10.1038/s41467-020-16520-1.
ieee: D. Trejo Banos et al., “Bayesian reassessment of the epigenetic architecture
of complex traits,” Nature Communications, vol. 11. Springer Nature, 2020.
ista: Trejo Banos D, McCartney D, Patxot M, Anchieri L, Battram T, Christiansen
C, Costeira R, Walker R, Morris S, Campbell A, Zhang Q, Porteous D, McRae A, Wray
N, Visscher P, Haley C, Evans K, Deary I, McIntosh A, Hemani G, Bell J, Marioni
R, Robinson MR. 2020. Bayesian reassessment of the epigenetic architecture of
complex traits. Nature Communications. 11, 2865.
mla: Trejo Banos, D., et al. “Bayesian Reassessment of the Epigenetic Architecture
of Complex Traits.” Nature Communications, vol. 11, 2865, Springer Nature,
2020, doi:10.1038/s41467-020-16520-1.
short: D. Trejo Banos, D. McCartney, M. Patxot, L. Anchieri, T. Battram, C. Christiansen,
R. Costeira, R. Walker, S. Morris, A. Campbell, Q. Zhang, D. Porteous, A. McRae,
N. Wray, P. Visscher, C. Haley, K. Evans, I. Deary, A. McIntosh, G. Hemani, J.
Bell, R. Marioni, M.R. Robinson, Nature Communications 11 (2020).
date_created: 2020-06-22T11:18:25Z
date_published: 2020-06-08T00:00:00Z
date_updated: 2023-08-22T07:13:09Z
day: '08'
ddc:
- '570'
department:
- _id: MaRo
doi: 10.1038/s41467-020-16520-1
external_id:
isi:
- '000541702400004'
pmid:
- '32513961'
file:
- access_level: open_access
checksum: 4c96babd4cfb0d153334f6c598c0bacb
content_type: application/pdf
creator: dernst
date_created: 2020-06-22T11:24:32Z
date_updated: 2020-07-14T12:48:07Z
file_id: '8000'
file_name: 2020_NatureComm_Bayesian.pdf
file_size: 1475657
relation: main_file
file_date_updated: 2020-07-14T12:48:07Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
pmid: 1
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: erratum
url: https://doi.org/10.1038/s41467-020-19099-9
scopus_import: '1'
status: public
title: Bayesian reassessment of the epigenetic architecture of complex traits
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 11
year: '2020'
...
---
_id: '7995'
abstract:
- lang: eng
text: When divergent populations are connected by gene flow, the establishment of
complete reproductive isolation usually requires the joint action of multiple
barrier effects. One example where multiple barrier effects are coupled consists
of a single trait that is under divergent natural selection and also mediates
assortative mating. Such multiple‐effect traits can strongly reduce gene flow.
However, there are few cases where patterns of assortative mating have been described
quantitatively and their impact on gene flow has been determined. Two ecotypes
of the coastal marine snail, Littorina saxatilis , occur in North Atlantic rocky‐shore
habitats dominated by either crab predation or wave action. There is evidence
for divergent natural selection acting on size, and size‐assortative mating has
previously been documented. Here, we analyze the mating pattern in L. saxatilis
with respect to size in intensively sampled transects across boundaries between
the habitats. We show that the mating pattern is mostly conserved between ecotypes
and that it generates both assortment and directional sexual selection for small
male size. Using simulations, we show that the mating pattern can contribute to
reproductive isolation between ecotypes but the barrier to gene flow is likely
strengthened more by sexual selection than by assortment.
acknowledgement: We are very grateful to I. Sencic, L. Brettell, A.‐L. Liabot, J.
Galindo, M. Ravinet, and A. Butlin for their help with field sampling and mating
experiments. This work was funded by the Natural Environment Research Council, European
Research Council and Swedish Research Council VR and we are also very grateful for
the support of the Linnaeus Centre for Marine Evolutionary Biology at the University
of Gothenburg. The simulations were performed on resources at Chalmers Centre for
Computational Science and Engineering (C3SE) provided by the Swedish National Infrastructure
for Computing (SNIC). AMW was funded by the European Union's Horizon 2020 research
and innovation program under Marie Skłodowska‐Curie grant agreement no. 797747.
article_processing_charge: No
article_type: original
author:
- first_name: Samuel
full_name: Perini, Samuel
last_name: Perini
- 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: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
citation:
ama: Perini S, Rafajlović M, Westram AM, Johannesson K, Butlin RK. Assortative mating,
sexual selection, and their consequences for gene flow in Littorina. Evolution.
2020;74(7):1482-1497. doi:10.1111/evo.14027
apa: Perini, S., Rafajlović, M., Westram, A. M., Johannesson, K., & Butlin,
R. K. (2020). Assortative mating, sexual selection, and their consequences for
gene flow in Littorina. Evolution. Wiley. https://doi.org/10.1111/evo.14027
chicago: Perini, Samuel, Marina Rafajlović, Anja M Westram, Kerstin Johannesson,
and Roger K. Butlin. “Assortative Mating, Sexual Selection, and Their Consequences
for Gene Flow in Littorina.” Evolution. Wiley, 2020. https://doi.org/10.1111/evo.14027.
ieee: S. Perini, M. Rafajlović, A. M. Westram, K. Johannesson, and R. K. Butlin,
“Assortative mating, sexual selection, and their consequences for gene flow in
Littorina,” Evolution, vol. 74, no. 7. Wiley, pp. 1482–1497, 2020.
ista: Perini S, Rafajlović M, Westram AM, Johannesson K, Butlin RK. 2020. Assortative
mating, sexual selection, and their consequences for gene flow in Littorina. Evolution.
74(7), 1482–1497.
mla: Perini, Samuel, et al. “Assortative Mating, Sexual Selection, and Their Consequences
for Gene Flow in Littorina.” Evolution, vol. 74, no. 7, Wiley, 2020, pp.
1482–97, doi:10.1111/evo.14027.
short: S. Perini, M. Rafajlović, A.M. Westram, K. Johannesson, R.K. Butlin, Evolution
74 (2020) 1482–1497.
date_created: 2020-06-22T09:14:21Z
date_published: 2020-07-01T00:00:00Z
date_updated: 2023-08-22T07:13:38Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/evo.14027
ec_funded: 1
external_id:
isi:
- '000539780800001'
file:
- access_level: open_access
checksum: 56235bf1e2a9e25f96196bb13b6b754d
content_type: application/pdf
creator: dernst
date_created: 2020-11-25T10:49:48Z
date_updated: 2020-11-25T10:49:48Z
file_id: '8808'
file_name: 2020_Evolution_Perini.pdf
file_size: 1080810
relation: main_file
success: 1
file_date_updated: 2020-11-25T10:49:48Z
has_accepted_license: '1'
intvolume: ' 74'
isi: 1
issue: '7'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 1482-1497
project:
- _id: 265B41B8-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '797747'
name: Theoretical and empirical approaches to understanding Parallel Adaptation
publication: Evolution
publication_identifier:
eissn:
- '15585646'
issn:
- '00143820'
publication_status: published
publisher: Wiley
quality_controlled: '1'
related_material:
record:
- id: '8809'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Assortative mating, sexual selection, and their consequences for gene flow
in Littorina
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 74
year: '2020'
...
---
_id: '8809'
abstract:
- lang: eng
text: When divergent populations are connected by gene flow, the establishment of
complete reproductive isolation usually requires the joint action of multiple
barrier effects. One example where multiple barrier effects are coupled consists
of a single trait that is under divergent natural selection and also mediates
assortative mating. Such multiple-effect traits can strongly reduce gene flow.
However, there are few cases where patterns of assortative mating have been described
quantitatively and their impact on gene flow has been determined. Two ecotypes
of the coastal marine snail, Littorina saxatilis, occur in North Atlantic rocky-shore
habitats dominated by either crab predation or wave action. There is evidence
for divergent natural selection acting on size, and size-assortative mating has
previously been documented. Here, we analyze the mating pattern in L. saxatilis
with respect to size in intensively-sampled transects across boundaries between
the habitats. We show that the mating pattern is mostly conserved between ecotypes
and that it generates both assortment and directional sexual selection for small
male size. Using simulations, we show that the mating pattern can contribute to
reproductive isolation between ecotypes but the barrier to gene flow is likely
strengthened more by sexual selection than by assortment.
article_processing_charge: No
author:
- first_name: Samuel
full_name: Perini, Samuel
last_name: Perini
- first_name: Marina
full_name: Rafajlovic, Marina
last_name: Rafajlovic
- 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: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Roger
full_name: Butlin, Roger
last_name: Butlin
citation:
ama: 'Perini S, Rafajlovic M, Westram AM, Johannesson K, Butlin R. Data from: Assortative
mating, sexual selection and their consequences for gene flow in Littorina. 2020.
doi:10.5061/dryad.qrfj6q5cn'
apa: 'Perini, S., Rafajlovic, M., Westram, A. M., Johannesson, K., & Butlin,
R. (2020). Data from: Assortative mating, sexual selection and their consequences
for gene flow in Littorina. Dryad. https://doi.org/10.5061/dryad.qrfj6q5cn'
chicago: 'Perini, Samuel, Marina Rafajlovic, Anja M Westram, Kerstin Johannesson,
and Roger Butlin. “Data from: Assortative Mating, Sexual Selection and Their Consequences
for Gene Flow in Littorina.” Dryad, 2020. https://doi.org/10.5061/dryad.qrfj6q5cn.'
ieee: 'S. Perini, M. Rafajlovic, A. M. Westram, K. Johannesson, and R. Butlin, “Data
from: Assortative mating, sexual selection and their consequences for gene flow
in Littorina.” Dryad, 2020.'
ista: 'Perini S, Rafajlovic M, Westram AM, Johannesson K, Butlin R. 2020. Data from:
Assortative mating, sexual selection and their consequences for gene flow in Littorina,
Dryad, 10.5061/dryad.qrfj6q5cn.'
mla: 'Perini, Samuel, et al. Data from: Assortative Mating, Sexual Selection
and Their Consequences for Gene Flow in Littorina. Dryad, 2020, doi:10.5061/dryad.qrfj6q5cn.'
short: S. Perini, M. Rafajlovic, A.M. Westram, K. Johannesson, R. Butlin, (2020).
date_created: 2020-11-25T11:07:25Z
date_published: 2020-07-01T00:00:00Z
date_updated: 2023-08-22T07:13:37Z
day: '01'
department:
- _id: NiBa
doi: 10.5061/dryad.qrfj6q5cn
has_accepted_license: '1'
license: https://creativecommons.org/publicdomain/zero/1.0/
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.qrfj6q5cn
month: '07'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '7995'
relation: used_in_publication
status: public
status: public
title: 'Data from: Assortative mating, sexual selection and their consequences for
gene flow in Littorina'
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2020'
...
---
_id: '8001'
abstract:
- lang: eng
text: Post-tetanic potentiation (PTP) is an attractive candidate mechanism for hippocampus-dependent
short-term memory. Although PTP has a uniquely large magnitude at hippocampal
mossy fiber-CA3 pyramidal neuron synapses, it is unclear whether it can be induced
by natural activity and whether its lifetime is sufficient to support short-term
memory. We combined in vivo recordings from granule cells (GCs), in vitro paired
recordings from mossy fiber terminals and postsynaptic CA3 neurons, and “flash
and freeze” electron microscopy. PTP was induced at single synapses and showed
a low induction threshold adapted to sparse GC activity in vivo. PTP was mainly
generated by enlargement of the readily releasable pool of synaptic vesicles,
allowing multiplicative interaction with other plasticity forms. PTP was associated
with an increase in the docked vesicle pool, suggesting formation of structural
“pool engrams.” Absence of presynaptic activity extended the lifetime of the potentiation,
enabling prolonged information storage in the hippocampal network.
acknowledged_ssus:
- _id: SSU
acknowledgement: This project received funding from the European Research Council
(ERC) under the European Union Horizon 2020 Research and Innovation Program (grant
agreement 692692 to P.J.) and the Fond zur Förderung der Wissenschaftlichen Forschung
( Z 312-B27 , Wittgenstein award to P.J. and V 739-B27 to C.B.-M.). We thank Drs.
Jozsef Csicsvari, Jose Guzman, Erwin Neher, and Ryuichi Shigemoto for commenting
on earlier versions of the manuscript. We are grateful to Walter Kaufmann, Daniel
Gütl, and Vanessa Zheden for EM training; Alois Schlögl for programming; Florian
Marr for excellent technical assistance and cell reconstruction; Christina Altmutter
for technical help; Eleftheria Kralli-Beller for manuscript editing; Taija Makinen
for providing the Prox1-CreERT2 mouse line; and the Scientific Service Units of
IST Austria for support.
article_processing_charge: No
article_type: original
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: Carolina
full_name: Borges Merjane, Carolina
id: 4305C450-F248-11E8-B48F-1D18A9856A87
last_name: Borges Merjane
orcid: 0000-0003-0005-401X
- first_name: Xiaomin
full_name: Zhang, Xiaomin
id: 423EC9C2-F248-11E8-B48F-1D18A9856A87
last_name: Zhang
- 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, Borges Merjane C, Zhang X, Jonas PM. Short-term plasticity at hippocampal
mossy fiber synapses is induced by natural activity patterns and associated with
vesicle pool engram formation. Neuron. 2020;107(3):509-521. doi:10.1016/j.neuron.2020.05.013
apa: Vandael, D. H., Borges Merjane, C., Zhang, X., & Jonas, P. M. (2020). Short-term
plasticity at hippocampal mossy fiber synapses is induced by natural activity
patterns and associated with vesicle pool engram formation. Neuron. Elsevier.
https://doi.org/10.1016/j.neuron.2020.05.013
chicago: Vandael, David H, Carolina Borges Merjane, Xiaomin Zhang, and Peter M Jonas.
“Short-Term Plasticity at Hippocampal Mossy Fiber Synapses Is Induced by Natural
Activity Patterns and Associated with Vesicle Pool Engram Formation.” Neuron.
Elsevier, 2020. https://doi.org/10.1016/j.neuron.2020.05.013.
ieee: D. H. Vandael, C. Borges Merjane, X. Zhang, and P. M. Jonas, “Short-term plasticity
at hippocampal mossy fiber synapses is induced by natural activity patterns and
associated with vesicle pool engram formation,” Neuron, vol. 107, no. 3.
Elsevier, pp. 509–521, 2020.
ista: Vandael DH, Borges Merjane C, Zhang X, Jonas PM. 2020. Short-term plasticity
at hippocampal mossy fiber synapses is induced by natural activity patterns and
associated with vesicle pool engram formation. Neuron. 107(3), 509–521.
mla: Vandael, David H., et al. “Short-Term Plasticity at Hippocampal Mossy Fiber
Synapses Is Induced by Natural Activity Patterns and Associated with Vesicle Pool
Engram Formation.” Neuron, vol. 107, no. 3, Elsevier, 2020, pp. 509–21,
doi:10.1016/j.neuron.2020.05.013.
short: D.H. Vandael, C. Borges Merjane, X. Zhang, P.M. Jonas, Neuron 107 (2020)
509–521.
date_created: 2020-06-22T13:29:05Z
date_published: 2020-08-05T00:00:00Z
date_updated: 2023-08-22T07:45:25Z
day: '05'
ddc:
- '570'
department:
- _id: PeJo
doi: 10.1016/j.neuron.2020.05.013
ec_funded: 1
external_id:
isi:
- '000556135600004'
pmid:
- '32492366'
file:
- access_level: open_access
checksum: 4030b2be0c9625d54694a1e9fb00305e
content_type: application/pdf
creator: dernst
date_created: 2020-11-25T11:23:02Z
date_updated: 2020-11-25T11:23:02Z
file_id: '8811'
file_name: 2020_Neuron_Vandael.pdf
file_size: 4390833
relation: main_file
success: 1
file_date_updated: 2020-11-25T11:23:02Z
has_accepted_license: '1'
intvolume: ' 107'
isi: 1
issue: '3'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 509-521
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: 2696E7FE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: V00739
name: Structural plasticity at mossy fiber-CA3 synapses
publication: Neuron
publication_identifier:
eissn:
- '10974199'
issn:
- 0896-6273
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/possible-physical-trace-of-short-term-memory-found/
scopus_import: '1'
status: public
title: Short-term plasticity at hippocampal mossy fiber synapses is induced by natural
activity patterns and associated with vesicle pool engram formation
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 107
year: '2020'
...
---
_id: '8038'
abstract:
- lang: eng
text: Microelectromechanical systems and integrated photonics provide the basis
for many reliable and compact circuit elements in modern communication systems.
Electro-opto-mechanical devices are currently one of the leading approaches to
realize ultra-sensitive, low-loss transducers for an emerging quantum information
technology. Here we present an on-chip microwave frequency converter based on
a planar aluminum on silicon nitride platform that is compatible with slot-mode
coupled photonic crystal cavities. We show efficient frequency conversion between
two propagating microwave modes mediated by the radiation pressure interaction
with a metalized dielectric nanobeam oscillator. We achieve bidirectional coherent
conversion with a total device efficiency of up to ~60%, a dynamic range of 2
× 10^9 photons/s and an instantaneous bandwidth of up to 1.7 kHz. A high fidelity
quantum state transfer would be possible if the drive dependent output noise of
currently ~14 photons s^−1 Hz^−1 is further reduced. Such a silicon nitride based
transducer is in situ reconfigurable and could be used for on-chip classical and
quantum signal routing and filtering, both for microwave and hybrid microwave-optical
applications.
article_number: '034011'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Johannes M
full_name: Fink, Johannes M
id: 4B591CBA-F248-11E8-B48F-1D18A9856A87
last_name: Fink
orcid: 0000-0001-8112-028X
- first_name: M.
full_name: Kalaee, M.
last_name: Kalaee
- first_name: R.
full_name: Norte, R.
last_name: Norte
- first_name: A.
full_name: Pitanti, A.
last_name: Pitanti
- first_name: O.
full_name: Painter, O.
last_name: Painter
citation:
ama: Fink JM, Kalaee M, Norte R, Pitanti A, Painter O. Efficient microwave frequency
conversion mediated by a photonics compatible silicon nitride nanobeam oscillator.
Quantum Science and Technology. 2020;5(3). doi:10.1088/2058-9565/ab8dce
apa: Fink, J. M., Kalaee, M., Norte, R., Pitanti, A., & Painter, O. (2020).
Efficient microwave frequency conversion mediated by a photonics compatible silicon
nitride nanobeam oscillator. Quantum Science and Technology. IOP Publishing.
https://doi.org/10.1088/2058-9565/ab8dce
chicago: Fink, Johannes M, M. Kalaee, R. Norte, A. Pitanti, and O. Painter. “Efficient
Microwave Frequency Conversion Mediated by a Photonics Compatible Silicon Nitride
Nanobeam Oscillator.” Quantum Science and Technology. IOP Publishing, 2020.
https://doi.org/10.1088/2058-9565/ab8dce.
ieee: J. M. Fink, M. Kalaee, R. Norte, A. Pitanti, and O. Painter, “Efficient microwave
frequency conversion mediated by a photonics compatible silicon nitride nanobeam
oscillator,” Quantum Science and Technology, vol. 5, no. 3. IOP Publishing,
2020.
ista: Fink JM, Kalaee M, Norte R, Pitanti A, Painter O. 2020. Efficient microwave
frequency conversion mediated by a photonics compatible silicon nitride nanobeam
oscillator. Quantum Science and Technology. 5(3), 034011.
mla: Fink, Johannes M., et al. “Efficient Microwave Frequency Conversion Mediated
by a Photonics Compatible Silicon Nitride Nanobeam Oscillator.” Quantum Science
and Technology, vol. 5, no. 3, 034011, IOP Publishing, 2020, doi:10.1088/2058-9565/ab8dce.
short: J.M. Fink, M. Kalaee, R. Norte, A. Pitanti, O. Painter, Quantum Science and
Technology 5 (2020).
date_created: 2020-06-29T07:59:35Z
date_published: 2020-05-25T00:00:00Z
date_updated: 2023-08-22T07:49:01Z
day: '25'
ddc:
- '530'
department:
- _id: JoFi
doi: 10.1088/2058-9565/ab8dce
ec_funded: 1
external_id:
isi:
- '000539300800001'
file:
- access_level: open_access
checksum: 8f25f05053f511f892ae8fa93f341e61
content_type: application/pdf
creator: cziletti
date_created: 2020-06-30T10:29:10Z
date_updated: 2020-07-14T12:48:08Z
file_id: '8072'
file_name: 2020_QuantumSciTechnol_Fink.pdf
file_size: 2600967
relation: main_file
file_date_updated: 2020-07-14T12:48:08Z
has_accepted_license: '1'
intvolume: ' 5'
isi: 1
issue: '3'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
project:
- _id: 26336814-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '758053'
name: A Fiber Optic Transceiver for Superconducting Qubits
- _id: 26927A52-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: F07105
name: Integrating superconducting quantum circuits
- _id: 257EB838-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '732894'
name: Hybrid Optomechanical Technologies
- _id: 2622978C-B435-11E9-9278-68D0E5697425
name: Hybrid Semiconductor - Superconductor Quantum Devices
publication: Quantum Science and Technology
publication_identifier:
eissn:
- '20589565'
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Efficient microwave frequency conversion mediated by a photonics compatible
silicon nitride nanobeam oscillator
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 5
year: '2020'
...
---
_id: '8036'
abstract:
- lang: eng
text: When tiny soft ferromagnetic particles are placed along a liquid interface
and exposed to a vertical magnetic field, the balance between capillary attraction
and magnetic repulsion leads to self-organization into well-defined patterns.
Here, we demonstrate experimentally that precessing magnetic fields induce metachronal
waves on the periphery of these assemblies, similar to the ones observed in ciliates
and some arthropods. The outermost layer of particles behaves like an array of
cilia or legs whose sequential movement causes a net and controllable locomotion.
This bioinspired many-particle swimming strategy is effective even at low Reynolds
number, using only spatially uniform fields to generate the waves.
article_number: '112'
article_processing_charge: No
article_type: original
author:
- first_name: Ylona
full_name: Collard, Ylona
last_name: Collard
- first_name: Galien M
full_name: Grosjean, Galien M
id: 0C5FDA4A-9CF6-11E9-8939-FF05E6697425
last_name: Grosjean
orcid: 0000-0001-5154-417X
- first_name: Nicolas
full_name: Vandewalle, Nicolas
last_name: Vandewalle
citation:
ama: Collard Y, Grosjean GM, Vandewalle N. Magnetically powered metachronal waves
induce locomotion in self-assemblies. Communications Physics. 2020;3. doi:10.1038/s42005-020-0380-9
apa: Collard, Y., Grosjean, G. M., & Vandewalle, N. (2020). Magnetically powered
metachronal waves induce locomotion in self-assemblies. Communications Physics.
Springer Nature. https://doi.org/10.1038/s42005-020-0380-9
chicago: Collard, Ylona, Galien M Grosjean, and Nicolas Vandewalle. “Magnetically
Powered Metachronal Waves Induce Locomotion in Self-Assemblies.” Communications
Physics. Springer Nature, 2020. https://doi.org/10.1038/s42005-020-0380-9.
ieee: Y. Collard, G. M. Grosjean, and N. Vandewalle, “Magnetically powered metachronal
waves induce locomotion in self-assemblies,” Communications Physics, vol.
3. Springer Nature, 2020.
ista: Collard Y, Grosjean GM, Vandewalle N. 2020. Magnetically powered metachronal
waves induce locomotion in self-assemblies. Communications Physics. 3, 112.
mla: Collard, Ylona, et al. “Magnetically Powered Metachronal Waves Induce Locomotion
in Self-Assemblies.” Communications Physics, vol. 3, 112, Springer Nature,
2020, doi:10.1038/s42005-020-0380-9.
short: Y. Collard, G.M. Grosjean, N. Vandewalle, Communications Physics 3 (2020).
date_created: 2020-06-29T07:59:35Z
date_published: 2020-06-19T00:00:00Z
date_updated: 2023-08-22T07:47:30Z
day: '19'
ddc:
- '530'
department:
- _id: ScWa
doi: 10.1038/s42005-020-0380-9
ec_funded: 1
external_id:
isi:
- '000543328000002'
file:
- access_level: open_access
checksum: ed984f7a393f19140b5279a54a3336ad
content_type: application/pdf
creator: cziletti
date_created: 2020-06-29T13:21:24Z
date_updated: 2020-07-14T12:48:08Z
file_id: '8045'
file_name: 2020_CommunicationsPhysics_Collard.pdf
file_size: 1907821
relation: main_file
file_date_updated: 2020-07-14T12:48:08Z
has_accepted_license: '1'
intvolume: ' 3'
isi: 1
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Communications Physics
publication_identifier:
eissn:
- '23993650'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Magnetically powered metachronal waves induce locomotion in self-assemblies
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 3
year: '2020'
...
---
_id: '8043'
abstract:
- lang: eng
text: With decreasing Reynolds number, Re, turbulence in channel flow becomes spatio-temporally
intermittent and self-organises into solitary stripes oblique to the mean flow
direction. We report here the existence of localised nonlinear travelling wave
solutions of the Navier–Stokes equations possessing this obliqueness property.
Such solutions are identified numerically using edge tracking coupled with arclength
continuation. All solutions emerge in saddle-node bifurcations at values of Re
lower than the non-localised solutions. Relative periodic orbit solutions bifurcating
from branches of travelling waves have also been computed. A complete parametric
study is performed, including their stability, the investigation of their large-scale
flow, and the robustness to changes of the numerical domain.
acknowledgement: The authors thank S. Zammert and B. Budanur for useful discussions.
J. F. Gibson is gratefully acknowledged for the development and the maintenance
of the code Channelflow. Y.D. would like to thank P. Schlatter and D. S. Henningson
for an early collaboration on a similar topic in the case of plane Couette flow
during the years 2008–2013.
article_number: A7
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Chaitanya S
full_name: Paranjape, Chaitanya S
id: 3D85B7C4-F248-11E8-B48F-1D18A9856A87
last_name: Paranjape
- first_name: Yohann
full_name: Duguet, Yohann
last_name: Duguet
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Paranjape CS, Duguet Y, Hof B. Oblique stripe solutions of channel flow. Journal
of Fluid Mechanics. 2020;897. doi:10.1017/jfm.2020.322
apa: Paranjape, C. S., Duguet, Y., & Hof, B. (2020). Oblique stripe solutions
of channel flow. Journal of Fluid Mechanics. Cambridge University Press.
https://doi.org/10.1017/jfm.2020.322
chicago: Paranjape, Chaitanya S, Yohann Duguet, and Björn Hof. “Oblique Stripe Solutions
of Channel Flow.” Journal of Fluid Mechanics. Cambridge University Press,
2020. https://doi.org/10.1017/jfm.2020.322.
ieee: C. S. Paranjape, Y. Duguet, and B. Hof, “Oblique stripe solutions of channel
flow,” Journal of Fluid Mechanics, vol. 897. Cambridge University Press,
2020.
ista: Paranjape CS, Duguet Y, Hof B. 2020. Oblique stripe solutions of channel flow.
Journal of Fluid Mechanics. 897, A7.
mla: Paranjape, Chaitanya S., et al. “Oblique Stripe Solutions of Channel Flow.”
Journal of Fluid Mechanics, vol. 897, A7, Cambridge University Press, 2020,
doi:10.1017/jfm.2020.322.
short: C.S. Paranjape, Y. Duguet, B. Hof, Journal of Fluid Mechanics 897 (2020).
date_created: 2020-06-29T07:59:35Z
date_published: 2020-08-25T00:00:00Z
date_updated: 2023-08-22T07:48:02Z
day: '25'
ddc:
- '530'
department:
- _id: BjHo
doi: 10.1017/jfm.2020.322
external_id:
isi:
- '000539132300001'
file:
- access_level: open_access
checksum: 3f487bf6d9286787096306eaa18702e8
content_type: application/pdf
creator: cziletti
date_created: 2020-06-30T08:37:37Z
date_updated: 2020-07-14T12:48:08Z
file_id: '8070'
file_name: 2020_JournalOfFluidMech_Paranjape.pdf
file_size: 767873
relation: main_file
file_date_updated: 2020-07-14T12:48:08Z
has_accepted_license: '1'
intvolume: ' 897'
isi: 1
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-sa/4.0/
month: '08'
oa: 1
oa_version: Published Version
publication: Journal of Fluid Mechanics
publication_identifier:
eissn:
- '14697645'
issn:
- '00221120'
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Oblique stripe solutions of channel flow
tmp:
image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 897
year: '2020'
...
---
_id: '9326'
abstract:
- lang: eng
text: The mitochondrial respiratory chain, formed by five protein complexes, utilizes
energy from catabolic processes to synthesize ATP. Complex I, the first and the
largest protein complex of the chain, harvests electrons from NADH to reduce quinone,
while pumping protons across the mitochondrial membrane. Detailed knowledge of
the working principle of such coupled charge-transfer processes remains, however,
fragmentary due to bottlenecks in understanding redox-driven conformational transitions
and their interplay with the hydrated proton pathways. Complex I from Thermus
thermophilus encases 16 subunits with nine iron–sulfur clusters, reduced by electrons
from NADH. Here, employing the latest crystal structure of T. thermophilus complex
I, we have used microsecond-scale molecular dynamics simulations to study the
chemo-mechanical coupling between redox changes of the iron–sulfur clusters and
conformational transitions across complex I. First, we identify the redox switches
within complex I, which allosterically couple the dynamics of the quinone binding
pocket to the site of NADH reduction. Second, our free-energy calculations reveal
that the affinity of the quinone, specifically menaquinone, for the binding-site
is higher than that of its reduced, menaquinol forma design essential for menaquinol
release. Remarkably, the barriers to diffusive menaquinone dynamics are lesser
than that of the more ubiquitous ubiquinone, and the naphthoquinone headgroup
of the former furnishes stronger binding interactions with the pocket, favoring
menaquinone for charge transport in T. thermophilus. Our computations are consistent
with experimentally validated mutations and hierarchize the key residues into
three functional classes, identifying new mutation targets. Third, long-range
hydrogen-bond networks connecting the quinone-binding site to the transmembrane
subunits are found to be responsible for proton pumping. Put together, the simulations
reveal the molecular design principles linking redox reactions to quinone turnover
to proton translocation in complex I.
article_processing_charge: No
author:
- first_name: Chitrak
full_name: Gupta, Chitrak
last_name: Gupta
- first_name: Umesh
full_name: Khaniya, Umesh
last_name: Khaniya
- first_name: Chun
full_name: Chan, Chun
last_name: Chan
- first_name: Francois
full_name: Dehez, Francois
last_name: Dehez
- first_name: Mrinal
full_name: Shekhar, Mrinal
last_name: Shekhar
- first_name: M. R.
full_name: Gunner, M. R.
last_name: Gunner
- first_name: Leonid A
full_name: Sazanov, Leonid A
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
- first_name: Christophe
full_name: Chipot, Christophe
last_name: Chipot
- first_name: Abhishek
full_name: Singharoy, Abhishek
last_name: Singharoy
citation:
ama: Gupta C, Khaniya U, Chan C, et al. Charge transfer and chemo-mechanical coupling
in respiratory complex I. 2020. doi:10.1021/jacs.9b13450.s002
apa: Gupta, C., Khaniya, U., Chan, C., Dehez, F., Shekhar, M., Gunner, M. R., …
Singharoy, A. (2020). Charge transfer and chemo-mechanical coupling in respiratory
complex I. American Chemical Society. https://doi.org/10.1021/jacs.9b13450.s002
chicago: Gupta, Chitrak, Umesh Khaniya, Chun Chan, Francois Dehez, Mrinal Shekhar,
M. R. Gunner, Leonid A Sazanov, Christophe Chipot, and Abhishek Singharoy. “Charge
Transfer and Chemo-Mechanical Coupling in Respiratory Complex I.” American Chemical
Society, 2020. https://doi.org/10.1021/jacs.9b13450.s002.
ieee: C. Gupta et al., “Charge transfer and chemo-mechanical coupling in
respiratory complex I.” American Chemical Society, 2020.
ista: Gupta C, Khaniya U, Chan C, Dehez F, Shekhar M, Gunner MR, Sazanov LA, Chipot
C, Singharoy A. 2020. Charge transfer and chemo-mechanical coupling in respiratory
complex I, American Chemical Society, 10.1021/jacs.9b13450.s002.
mla: Gupta, Chitrak, et al. Charge Transfer and Chemo-Mechanical Coupling in
Respiratory Complex I. American Chemical Society, 2020, doi:10.1021/jacs.9b13450.s002.
short: C. Gupta, U. Khaniya, C. Chan, F. Dehez, M. Shekhar, M.R. Gunner, L.A. Sazanov,
C. Chipot, A. Singharoy, (2020).
date_created: 2021-04-14T12:05:20Z
date_published: 2020-05-20T00:00:00Z
date_updated: 2023-08-22T07:49:37Z
day: '20'
department:
- _id: LeSa
doi: 10.1021/jacs.9b13450.s002
license: https://creativecommons.org/licenses/by-nc/4.0/
main_file_link:
- open_access: '1'
month: '05'
oa: 1
oa_version: Published Version
publisher: American Chemical Society
related_material:
record:
- id: '8040'
relation: used_in_publication
status: public
status: public
title: Charge transfer and chemo-mechanical coupling in respiratory complex I
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '8042'
abstract:
- lang: eng
text: We consider systems of N bosons in a box of volume one, interacting through
a repulsive two-body potential of the form κN3β−1V(Nβx). For all 0<β<1, and for
sufficiently small coupling constant κ>0, we establish the validity of Bogolyubov
theory, identifying the ground state energy and the low-lying excitation spectrum
up to errors that vanish in the limit of large N.
article_processing_charge: No
article_type: original
author:
- first_name: Chiara
full_name: Boccato, Chiara
id: 342E7E22-F248-11E8-B48F-1D18A9856A87
last_name: Boccato
- first_name: Christian
full_name: Brennecke, Christian
last_name: Brennecke
- first_name: Serena
full_name: Cenatiempo, Serena
last_name: Cenatiempo
- first_name: Benjamin
full_name: Schlein, Benjamin
last_name: Schlein
citation:
ama: Boccato C, Brennecke C, Cenatiempo S, Schlein B. The excitation spectrum of
Bose gases interacting through singular potentials. Journal of the European
Mathematical Society. 2020;22(7):2331-2403. doi:10.4171/JEMS/966
apa: Boccato, C., Brennecke, C., Cenatiempo, S., & Schlein, B. (2020). The excitation
spectrum of Bose gases interacting through singular potentials. Journal of
the European Mathematical Society. European Mathematical Society. https://doi.org/10.4171/JEMS/966
chicago: Boccato, Chiara, Christian Brennecke, Serena Cenatiempo, and Benjamin Schlein.
“The Excitation Spectrum of Bose Gases Interacting through Singular Potentials.”
Journal of the European Mathematical Society. European Mathematical Society,
2020. https://doi.org/10.4171/JEMS/966.
ieee: C. Boccato, C. Brennecke, S. Cenatiempo, and B. Schlein, “The excitation spectrum
of Bose gases interacting through singular potentials,” Journal of the European
Mathematical Society, vol. 22, no. 7. European Mathematical Society, pp. 2331–2403,
2020.
ista: Boccato C, Brennecke C, Cenatiempo S, Schlein B. 2020. The excitation spectrum
of Bose gases interacting through singular potentials. Journal of the European
Mathematical Society. 22(7), 2331–2403.
mla: Boccato, Chiara, et al. “The Excitation Spectrum of Bose Gases Interacting
through Singular Potentials.” Journal of the European Mathematical Society,
vol. 22, no. 7, European Mathematical Society, 2020, pp. 2331–403, doi:10.4171/JEMS/966.
short: C. Boccato, C. Brennecke, S. Cenatiempo, B. Schlein, Journal of the European
Mathematical Society 22 (2020) 2331–2403.
date_created: 2020-06-29T07:59:35Z
date_published: 2020-07-01T00:00:00Z
date_updated: 2023-08-22T07:47:04Z
day: '01'
department:
- _id: RoSe
doi: 10.4171/JEMS/966
external_id:
arxiv:
- '1704.04819'
isi:
- '000548174700006'
intvolume: ' 22'
isi: 1
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1704.04819
month: '07'
oa: 1
oa_version: Preprint
page: 2331-2403
publication: Journal of the European Mathematical Society
publication_identifier:
issn:
- '14359855'
publication_status: published
publisher: European Mathematical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: The excitation spectrum of Bose gases interacting through singular potentials
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 22
year: '2020'
...
---
_id: '8093'
abstract:
- lang: eng
text: "Background: The activation of the EGFR/Ras-signalling pathway in tumour cells
induces a distinct chemokine repertoire, which in turn modulates the tumour microenvironment.\r\nMethods:
The effects of EGFR/Ras on the expression and translation of CCL20 were analysed
in a large set of epithelial cancer cell lines and tumour tissues by RT-qPCR and
ELISA in vitro. CCL20 production was verified by immunohistochemistry in different
tumour tissues and correlated with clinical data. The effects of CCL20 on endothelial
cell migration and tumour-associated vascularisation were comprehensively analysed
with chemotaxis assays in vitro and in CCR6-deficient mice in vivo.\r\nResults:
Tumours facilitate progression by the EGFR/Ras-induced production of CCL20. Expression
of the chemokine CCL20 in tumours correlates with advanced tumour stage, increased
lymph node metastasis and decreased survival in patients. Microvascular endothelial
cells abundantly express the specific CCL20 receptor CCR6. CCR6 signalling in
endothelial cells induces angiogenesis. CCR6-deficient mice show significantly
decreased tumour growth and tumour-associated vascularisation. The observed phenotype
is dependent on CCR6 deficiency in stromal cells but not within the immune system.\r\nConclusion:
We propose that the chemokine axis CCL20–CCR6 represents a novel and promising
target to interfere with the tumour microenvironment, and opens an innovative
multimodal strategy for cancer therapy."
acknowledgement: "The authors would like to thank A. van Lierop for technical assistance.
In addition, we thank C. Dullin, J. Missbach-Güntner and S. Greco for advice and
assistance with fpVCT imaging. Furthermore, the authors would like to thank H. K.
Horst for advice on performing matrigel plug assays. This study has also been partially
presented in A. Schorr’s doctoral thesis and the funding report of the SPP 1190
‘The tumor-vessel interface’ of the ‘Deutsche Forschungsgemeinschaft’ (DFG).\r\nThis
project was funded by the SPP 1190 “The tumor-vessel interface” and HO 2092/8-1
of the ‘Deutsche Forschungsgemeinschaft’ (DFG) to B. Homey. In addition, it was
supported by grants from the Austrian Science Fund (FWF, W1212 to N. Amberg and
J. Klufa and I4300-B to T. Bauer), the WWTF project LS16-025 and the European Research
Council (ERC) Advanced grant (ERC-2015-AdG TNT-Tumors 694883) to M. Sibilia."
article_processing_charge: No
article_type: original
author:
- first_name: Andreas
full_name: Hippe, Andreas
last_name: Hippe
- first_name: Stephan Alexander
full_name: Braun, Stephan Alexander
last_name: Braun
- first_name: Péter
full_name: Oláh, Péter
last_name: Oláh
- first_name: Peter Arne
full_name: Gerber, Peter Arne
last_name: Gerber
- first_name: Anne
full_name: Schorr, Anne
last_name: Schorr
- first_name: Stephan
full_name: Seeliger, Stephan
last_name: Seeliger
- first_name: Stephanie
full_name: Holtz, Stephanie
last_name: Holtz
- first_name: Katharina
full_name: Jannasch, Katharina
last_name: Jannasch
- first_name: Andor
full_name: Pivarcsi, Andor
last_name: Pivarcsi
- first_name: Bettina
full_name: Buhren, Bettina
last_name: Buhren
- first_name: Holger
full_name: Schrumpf, Holger
last_name: Schrumpf
- first_name: Andreas
full_name: Kislat, Andreas
last_name: Kislat
- first_name: Erich
full_name: Bünemann, Erich
last_name: Bünemann
- first_name: Martin
full_name: Steinhoff, Martin
last_name: Steinhoff
- first_name: Jens
full_name: Fischer, Jens
last_name: Fischer
- first_name: Sérgio A.
full_name: Lira, Sérgio A.
last_name: Lira
- first_name: Petra
full_name: Boukamp, Petra
last_name: Boukamp
- first_name: Peter
full_name: Hevezi, Peter
last_name: Hevezi
- first_name: Nikolas Hendrik
full_name: Stoecklein, Nikolas Hendrik
last_name: Stoecklein
- first_name: Thomas
full_name: Hoffmann, Thomas
last_name: Hoffmann
- first_name: Frauke
full_name: Alves, Frauke
last_name: Alves
- first_name: Jonathan
full_name: Sleeman, Jonathan
last_name: Sleeman
- first_name: Thomas
full_name: Bauer, Thomas
last_name: Bauer
- first_name: Jörg
full_name: Klufa, Jörg
last_name: Klufa
- first_name: Nicole
full_name: Amberg, Nicole
id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87
last_name: Amberg
orcid: 0000-0002-3183-8207
- first_name: Maria
full_name: Sibilia, Maria
last_name: Sibilia
- first_name: Albert
full_name: Zlotnik, Albert
last_name: Zlotnik
- first_name: Anja
full_name: Müller-Homey, Anja
last_name: Müller-Homey
- first_name: Bernhard
full_name: Homey, Bernhard
last_name: Homey
citation:
ama: Hippe A, Braun SA, Oláh P, et al. EGFR/Ras-induced CCL20 production modulates
the tumour microenvironment. British Journal of Cancer. 2020;123:942-954.
doi:10.1038/s41416-020-0943-2
apa: Hippe, A., Braun, S. A., Oláh, P., Gerber, P. A., Schorr, A., Seeliger, S.,
… Homey, B. (2020). EGFR/Ras-induced CCL20 production modulates the tumour microenvironment.
British Journal of Cancer. Springer Nature. https://doi.org/10.1038/s41416-020-0943-2
chicago: Hippe, Andreas, Stephan Alexander Braun, Péter Oláh, Peter Arne Gerber,
Anne Schorr, Stephan Seeliger, Stephanie Holtz, et al. “EGFR/Ras-Induced CCL20
Production Modulates the Tumour Microenvironment.” British Journal of Cancer.
Springer Nature, 2020. https://doi.org/10.1038/s41416-020-0943-2.
ieee: A. Hippe et al., “EGFR/Ras-induced CCL20 production modulates the tumour
microenvironment,” British Journal of Cancer, vol. 123. Springer Nature,
pp. 942–954, 2020.
ista: Hippe A, Braun SA, Oláh P, Gerber PA, Schorr A, Seeliger S, Holtz S, Jannasch
K, Pivarcsi A, Buhren B, Schrumpf H, Kislat A, Bünemann E, Steinhoff M, Fischer
J, Lira SA, Boukamp P, Hevezi P, Stoecklein NH, Hoffmann T, Alves F, Sleeman J,
Bauer T, Klufa J, Amberg N, Sibilia M, Zlotnik A, Müller-Homey A, Homey B. 2020.
EGFR/Ras-induced CCL20 production modulates the tumour microenvironment. British
Journal of Cancer. 123, 942–954.
mla: Hippe, Andreas, et al. “EGFR/Ras-Induced CCL20 Production Modulates the Tumour
Microenvironment.” British Journal of Cancer, vol. 123, Springer Nature,
2020, pp. 942–54, doi:10.1038/s41416-020-0943-2.
short: A. Hippe, S.A. Braun, P. Oláh, P.A. Gerber, A. Schorr, S. Seeliger, S. Holtz,
K. Jannasch, A. Pivarcsi, B. Buhren, H. Schrumpf, A. Kislat, E. Bünemann, M. Steinhoff,
J. Fischer, S.A. Lira, P. Boukamp, P. Hevezi, N.H. Stoecklein, T. Hoffmann, F.
Alves, J. Sleeman, T. Bauer, J. Klufa, N. Amberg, M. Sibilia, A. Zlotnik, A. Müller-Homey,
B. Homey, British Journal of Cancer 123 (2020) 942–954.
date_created: 2020-07-05T22:00:46Z
date_published: 2020-09-15T00:00:00Z
date_updated: 2023-08-22T07:51:12Z
day: '15'
ddc:
- '610'
department:
- _id: SiHi
doi: 10.1038/s41416-020-0943-2
external_id:
isi:
- '000544152500001'
pmid:
- '32601464'
file:
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checksum: 05a8e65d49c3f5b8e37ac4afe68287e2
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creator: cchlebak
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isi: 1
language:
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month: '09'
oa: 1
oa_version: Published Version
page: 942-954
pmid: 1
publication: British Journal of Cancer
publication_identifier:
eissn:
- 1532-1827
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publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: erratum
url: https://doi.org/10.1038/s41416-021-01563-y
record:
- id: '10170'
relation: later_version
status: deleted
scopus_import: '1'
status: public
title: EGFR/Ras-induced CCL20 production modulates the tumour microenvironment
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 123
year: '2020'
...
---
_id: '8091'
abstract:
- lang: eng
text: In the setting of the fractional quantum Hall effect we study the effects
of strong, repulsive two-body interaction potentials of short range. We prove
that Haldane’s pseudo-potential operators, including their pre-factors, emerge
as mathematically rigorous limits of such interactions when the range of the potential
tends to zero while its strength tends to infinity. In a common approach the interaction
potential is expanded in angular momentum eigenstates in the lowest Landau level,
which amounts to taking the pre-factors to be the moments of the potential. Such
a procedure is not appropriate for very strong interactions, however, in particular
not in the case of hard spheres. We derive the formulas valid in the short-range
case, which involve the scattering lengths of the interaction potential in different
angular momentum channels rather than its moments. Our results hold for bosons
and fermions alike and generalize previous results in [6], which apply to bosons
in the lowest angular momentum channel. Our main theorem asserts the convergence
in a norm-resolvent sense of the Hamiltonian on the whole Hilbert space, after
appropriate energy scalings, to Hamiltonians with contact interactions in the
lowest Landau level.
acknowledgement: "Open access funding provided by Institute of Science and Technology
(IST Austria).\r\nThe work of R.S. was supported by the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation programme
(Grant Agreement No 694227). J.Y. gratefully acknowledges hospitality at the LPMMC
Grenoble and valuable discussions with Alessandro Olgiati and Nicolas Rougerie. "
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
- first_name: Jakob
full_name: Yngvason, Jakob
last_name: Yngvason
citation:
ama: Seiringer R, Yngvason J. Emergence of Haldane pseudo-potentials in systems
with short-range interactions. Journal of Statistical Physics. 2020;181:448-464.
doi:10.1007/s10955-020-02586-0
apa: Seiringer, R., & Yngvason, J. (2020). Emergence of Haldane pseudo-potentials
in systems with short-range interactions. Journal of Statistical Physics.
Springer. https://doi.org/10.1007/s10955-020-02586-0
chicago: Seiringer, Robert, and Jakob Yngvason. “Emergence of Haldane Pseudo-Potentials
in Systems with Short-Range Interactions.” Journal of Statistical Physics.
Springer, 2020. https://doi.org/10.1007/s10955-020-02586-0.
ieee: R. Seiringer and J. Yngvason, “Emergence of Haldane pseudo-potentials in systems
with short-range interactions,” Journal of Statistical Physics, vol. 181.
Springer, pp. 448–464, 2020.
ista: Seiringer R, Yngvason J. 2020. Emergence of Haldane pseudo-potentials in systems
with short-range interactions. Journal of Statistical Physics. 181, 448–464.
mla: Seiringer, Robert, and Jakob Yngvason. “Emergence of Haldane Pseudo-Potentials
in Systems with Short-Range Interactions.” Journal of Statistical Physics,
vol. 181, Springer, 2020, pp. 448–64, doi:10.1007/s10955-020-02586-0.
short: R. Seiringer, J. Yngvason, Journal of Statistical Physics 181 (2020) 448–464.
date_created: 2020-07-05T22:00:46Z
date_published: 2020-10-01T00:00:00Z
date_updated: 2023-08-22T07:51:47Z
day: '01'
ddc:
- '530'
department:
- _id: RoSe
doi: 10.1007/s10955-020-02586-0
ec_funded: 1
external_id:
arxiv:
- '2001.07144'
isi:
- '000543030000002'
file:
- access_level: open_access
checksum: 5cbeef52caf18d0d952f17fed7b5545a
content_type: application/pdf
creator: dernst
date_created: 2020-11-25T15:05:04Z
date_updated: 2020-11-25T15:05:04Z
file_id: '8812'
file_name: 2020_JourStatPhysics_Seiringer.pdf
file_size: 404778
relation: main_file
success: 1
file_date_updated: 2020-11-25T15:05:04Z
has_accepted_license: '1'
intvolume: ' 181'
isi: 1
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 448-464
project:
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
publication: Journal of Statistical Physics
publication_identifier:
eissn:
- '15729613'
issn:
- '00224715'
publication_status: published
publisher: Springer
quality_controlled: '1'
scopus_import: '1'
status: public
title: Emergence of Haldane pseudo-potentials in systems with short-range interactions
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 181
year: '2020'
...
---
_id: '8077'
abstract:
- lang: eng
text: The projection methods with vanilla inertial extrapolation step for variational
inequalities have been of interest to many authors recently due to the improved
convergence speed contributed by the presence of inertial extrapolation step.
However, it is discovered that these projection methods with inertial steps lose
the Fejér monotonicity of the iterates with respect to the solution, which is
being enjoyed by their corresponding non-inertial projection methods for variational
inequalities. This lack of Fejér monotonicity makes projection methods with vanilla
inertial extrapolation step for variational inequalities not to converge faster
than their corresponding non-inertial projection methods at times. Also, it has
recently been proved that the projection methods with vanilla inertial extrapolation
step may provide convergence rates that are worse than the classical projected
gradient methods for strongly convex functions. In this paper, we introduce projection
methods with alternated inertial extrapolation step for solving variational inequalities.
We show that the sequence of iterates generated by our methods converges weakly
to a solution of the variational inequality under some appropriate conditions.
The Fejér monotonicity of even subsequence is recovered in these methods and linear
rate of convergence is obtained. The numerical implementations of our methods
compared with some other inertial projection methods show that our method is more
efficient and outperforms some of these inertial projection methods.
acknowledgement: The authors are grateful to the two anonymous referees for their
insightful comments and suggestions which have improved the earlier version of the
manuscript greatly. The first author has received funding from the European Research
Council (ERC) under the European Union Seventh Framework Programme (FP7 - 2007-2013)
(Grant agreement No. 616160).
article_processing_charge: No
article_type: original
author:
- first_name: Yekini
full_name: Shehu, Yekini
id: 3FC7CB58-F248-11E8-B48F-1D18A9856A87
last_name: Shehu
orcid: 0000-0001-9224-7139
- first_name: Olaniyi S.
full_name: Iyiola, Olaniyi S.
last_name: Iyiola
citation:
ama: 'Shehu Y, Iyiola OS. Projection methods with alternating inertial steps for
variational inequalities: Weak and linear convergence. Applied Numerical Mathematics.
2020;157:315-337. doi:10.1016/j.apnum.2020.06.009'
apa: 'Shehu, Y., & Iyiola, O. S. (2020). Projection methods with alternating
inertial steps for variational inequalities: Weak and linear convergence. Applied
Numerical Mathematics. Elsevier. https://doi.org/10.1016/j.apnum.2020.06.009'
chicago: 'Shehu, Yekini, and Olaniyi S. Iyiola. “Projection Methods with Alternating
Inertial Steps for Variational Inequalities: Weak and Linear Convergence.” Applied
Numerical Mathematics. Elsevier, 2020. https://doi.org/10.1016/j.apnum.2020.06.009.'
ieee: 'Y. Shehu and O. S. Iyiola, “Projection methods with alternating inertial
steps for variational inequalities: Weak and linear convergence,” Applied Numerical
Mathematics, vol. 157. Elsevier, pp. 315–337, 2020.'
ista: 'Shehu Y, Iyiola OS. 2020. Projection methods with alternating inertial steps
for variational inequalities: Weak and linear convergence. Applied Numerical Mathematics.
157, 315–337.'
mla: 'Shehu, Yekini, and Olaniyi S. Iyiola. “Projection Methods with Alternating
Inertial Steps for Variational Inequalities: Weak and Linear Convergence.” Applied
Numerical Mathematics, vol. 157, Elsevier, 2020, pp. 315–37, doi:10.1016/j.apnum.2020.06.009.'
short: Y. Shehu, O.S. Iyiola, Applied Numerical Mathematics 157 (2020) 315–337.
date_created: 2020-07-02T09:02:33Z
date_published: 2020-11-01T00:00:00Z
date_updated: 2023-08-22T07:50:43Z
day: '01'
ddc:
- '510'
department:
- _id: VlKo
doi: 10.1016/j.apnum.2020.06.009
ec_funded: 1
external_id:
isi:
- '000564648400018'
file:
- access_level: open_access
checksum: 87d81324a62c82baa925c009dfcb0200
content_type: application/pdf
creator: dernst
date_created: 2020-07-02T09:08:59Z
date_updated: 2020-07-14T12:48:09Z
file_id: '8078'
file_name: 2020_AppliedNumericalMath_Shehu.pdf
file_size: 2874203
relation: main_file
file_date_updated: 2020-07-14T12:48:09Z
has_accepted_license: '1'
intvolume: ' 157'
isi: 1
language:
- iso: eng
month: '11'
oa: 1
oa_version: Submitted Version
page: 315-337
project:
- _id: 25FBA906-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '616160'
name: 'Discrete Optimization in Computer Vision: Theory and Practice'
publication: Applied Numerical Mathematics
publication_identifier:
issn:
- 0168-9274
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Projection methods with alternating inertial steps for variational inequalities:
Weak and linear convergence'
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 157
year: '2020'
...