---
_id: '9308'
acknowledgement: This research was carried out with the support of the Russian Foundation
for Basic Research(grant no. 19-01-00169)
article_processing_charge: No
article_type: original
author:
- first_name: Sergey
full_name: Avvakumov, Sergey
id: 3827DAC8-F248-11E8-B48F-1D18A9856A87
last_name: Avvakumov
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
- first_name: Isaac
full_name: Mabillard, Isaac
id: 32BF9DAA-F248-11E8-B48F-1D18A9856A87
last_name: Mabillard
- first_name: A. B.
full_name: Skopenkov, A. B.
last_name: Skopenkov
citation:
ama: Avvakumov S, Wagner U, Mabillard I, Skopenkov AB. Eliminating higher-multiplicity
intersections, III. Codimension 2. Russian Mathematical Surveys. 2020;75(6):1156-1158.
doi:10.1070/RM9943
apa: Avvakumov, S., Wagner, U., Mabillard, I., & Skopenkov, A. B. (2020). Eliminating
higher-multiplicity intersections, III. Codimension 2. Russian Mathematical
Surveys. IOP Publishing. https://doi.org/10.1070/RM9943
chicago: Avvakumov, Sergey, Uli Wagner, Isaac Mabillard, and A. B. Skopenkov. “Eliminating
Higher-Multiplicity Intersections, III. Codimension 2.” Russian Mathematical
Surveys. IOP Publishing, 2020. https://doi.org/10.1070/RM9943.
ieee: S. Avvakumov, U. Wagner, I. Mabillard, and A. B. Skopenkov, “Eliminating higher-multiplicity
intersections, III. Codimension 2,” Russian Mathematical Surveys, vol.
75, no. 6. IOP Publishing, pp. 1156–1158, 2020.
ista: Avvakumov S, Wagner U, Mabillard I, Skopenkov AB. 2020. Eliminating higher-multiplicity
intersections, III. Codimension 2. Russian Mathematical Surveys. 75(6), 1156–1158.
mla: Avvakumov, Sergey, et al. “Eliminating Higher-Multiplicity Intersections, III.
Codimension 2.” Russian Mathematical Surveys, vol. 75, no. 6, IOP Publishing,
2020, pp. 1156–58, doi:10.1070/RM9943.
short: S. Avvakumov, U. Wagner, I. Mabillard, A.B. Skopenkov, Russian Mathematical
Surveys 75 (2020) 1156–1158.
date_created: 2021-04-04T22:01:22Z
date_published: 2020-12-01T00:00:00Z
date_updated: 2023-08-14T11:43:54Z
day: '01'
department:
- _id: UlWa
doi: 10.1070/RM9943
external_id:
arxiv:
- '1511.03501'
isi:
- '000625983100001'
intvolume: ' 75'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1511.03501
month: '12'
oa: 1
oa_version: Preprint
page: 1156-1158
publication: Russian Mathematical Surveys
publication_identifier:
issn:
- 0036-0279
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
related_material:
record:
- id: '8183'
relation: earlier_version
status: public
- id: '10220'
relation: later_version
status: public
scopus_import: '1'
status: public
title: Eliminating higher-multiplicity intersections, III. Codimension 2
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 75
year: '2020'
...
---
_id: '6358'
abstract:
- lang: eng
text: We study dynamical optimal transport metrics between density matricesassociated
to symmetric Dirichlet forms on finite-dimensional C∗-algebras. Our settingcovers arbitrary skew-derivations and it provides a unified framework that simultaneously generalizes recently constructed transport metrics for Markov chains, Lindblad equations, and the Fermi Ornstein–Uhlenbeck semigroup. We develop a non-nommutative
differential calculus that allows us to obtain non-commutative Ricci curvature bounds, logarithmic Sobolev inequalities, transport-entropy inequalities, andspectral
gap estimates.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Eric A.
full_name: Carlen, Eric A.
last_name: Carlen
- first_name: Jan
full_name: Maas, Jan
id: 4C5696CE-F248-11E8-B48F-1D18A9856A87
last_name: Maas
orcid: 0000-0002-0845-1338
citation:
ama: Carlen EA, Maas J. Non-commutative calculus, optimal transport and functional
inequalities in dissipative quantum systems. Journal of Statistical Physics.
2020;178(2):319-378. doi:10.1007/s10955-019-02434-w
apa: Carlen, E. A., & Maas, J. (2020). Non-commutative calculus, optimal transport
and functional inequalities in dissipative quantum systems. Journal of Statistical
Physics. Springer Nature. https://doi.org/10.1007/s10955-019-02434-w
chicago: Carlen, Eric A., and Jan Maas. “Non-Commutative Calculus, Optimal Transport
and Functional Inequalities in Dissipative Quantum Systems.” Journal of Statistical
Physics. Springer Nature, 2020. https://doi.org/10.1007/s10955-019-02434-w.
ieee: E. A. Carlen and J. Maas, “Non-commutative calculus, optimal transport and
functional inequalities in dissipative quantum systems,” Journal of Statistical
Physics, vol. 178, no. 2. Springer Nature, pp. 319–378, 2020.
ista: Carlen EA, Maas J. 2020. Non-commutative calculus, optimal transport and functional
inequalities in dissipative quantum systems. Journal of Statistical Physics.
178(2), 319–378.
mla: Carlen, Eric A., and Jan Maas. “Non-Commutative Calculus, Optimal Transport
and Functional Inequalities in Dissipative Quantum Systems.” Journal of Statistical
Physics, vol. 178, no. 2, Springer Nature, 2020, pp. 319–78, doi:10.1007/s10955-019-02434-w.
short: E.A. Carlen, J. Maas, Journal of Statistical Physics 178 (2020) 319–378.
date_created: 2019-04-30T07:34:18Z
date_published: 2020-01-01T00:00:00Z
date_updated: 2023-08-17T13:49:40Z
day: '01'
ddc:
- '500'
department:
- _id: JaMa
doi: 10.1007/s10955-019-02434-w
ec_funded: 1
external_id:
arxiv:
- '1811.04572'
isi:
- '000498933300001'
file:
- access_level: open_access
checksum: 7b04befbdc0d4982c0ee945d25d19872
content_type: application/pdf
creator: dernst
date_created: 2019-12-23T12:03:09Z
date_updated: 2020-07-14T12:47:28Z
file_id: '7209'
file_name: 2019_JourStatistPhysics_Carlen.pdf
file_size: 905538
relation: main_file
file_date_updated: 2020-07-14T12:47:28Z
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intvolume: ' 178'
isi: 1
issue: '2'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 319-378
project:
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
- _id: 256E75B8-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '716117'
name: Optimal Transport and Stochastic Dynamics
- _id: 260482E2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: ' F06504'
name: Taming Complexity in Partial Di erential Systems
publication: Journal of Statistical Physics
publication_identifier:
eissn:
- '15729613'
issn:
- '00224715'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: erratum
url: https://doi.org/10.1007/s10955-020-02671-4
scopus_import: '1'
status: public
title: Non-commutative calculus, optimal transport and functional inequalities in
dissipative quantum systems
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 178
year: '2020'
...
---
_id: '74'
abstract:
- lang: eng
text: "We study the Gromov waist in the sense of t-neighborhoods for measures in
the Euclidean space, motivated by the famous theorem of Gromov about
\ the waist of radially symmetric Gaussian measures. In particular, it turns
our possible to extend Gromov’s original result to the case of not necessarily
\ radially symmetric Gaussian measure. We also provide examples of measures
having no t-neighborhood waist property, including a rather wide class\r\nof compactly
supported radially symmetric measures and their maps into the Euclidean space
of dimension at least 2.\r\nWe use a simpler form of Gromov’s pancake argument
\ to produce some estimates of t-neighborhoods of (weighted) volume-critical
submanifolds in the spirit of the waist theorems, including neighborhoods of algebraic
manifolds in the complex projective space. In the appendix of this paper we provide
for reader’s convenience a more detailed explanation of the Caffarelli theorem
that we use to handle not necessarily radially symmetric Gaussian\r\nmeasures."
article_processing_charge: No
author:
- first_name: Arseniy
full_name: Akopyan, Arseniy
id: 430D2C90-F248-11E8-B48F-1D18A9856A87
last_name: Akopyan
orcid: 0000-0002-2548-617X
- first_name: Roman
full_name: Karasev, Roman
last_name: Karasev
citation:
ama: 'Akopyan A, Karasev R. Gromov’s waist of non-radial Gaussian measures and radial
non-Gaussian measures. In: Klartag B, Milman E, eds. Geometric Aspects of Functional
Analysis. Vol 2256. LNM. Springer Nature; 2020:1-27. doi:10.1007/978-3-030-36020-7_1'
apa: Akopyan, A., & Karasev, R. (2020). Gromov’s waist of non-radial Gaussian
measures and radial non-Gaussian measures. In B. Klartag & E. Milman (Eds.),
Geometric Aspects of Functional Analysis (Vol. 2256, pp. 1–27). Springer
Nature. https://doi.org/10.1007/978-3-030-36020-7_1
chicago: Akopyan, Arseniy, and Roman Karasev. “Gromov’s Waist of Non-Radial Gaussian
Measures and Radial Non-Gaussian Measures.” In Geometric Aspects of Functional
Analysis, edited by Bo’az Klartag and Emanuel Milman, 2256:1–27. LNM. Springer
Nature, 2020. https://doi.org/10.1007/978-3-030-36020-7_1.
ieee: A. Akopyan and R. Karasev, “Gromov’s waist of non-radial Gaussian measures
and radial non-Gaussian measures,” in Geometric Aspects of Functional Analysis,
vol. 2256, B. Klartag and E. Milman, Eds. Springer Nature, 2020, pp. 1–27.
ista: 'Akopyan A, Karasev R. 2020.Gromov’s waist of non-radial Gaussian measures
and radial non-Gaussian measures. In: Geometric Aspects of Functional Analysis.
vol. 2256, 1–27.'
mla: Akopyan, Arseniy, and Roman Karasev. “Gromov’s Waist of Non-Radial Gaussian
Measures and Radial Non-Gaussian Measures.” Geometric Aspects of Functional
Analysis, edited by Bo’az Klartag and Emanuel Milman, vol. 2256, Springer
Nature, 2020, pp. 1–27, doi:10.1007/978-3-030-36020-7_1.
short: A. Akopyan, R. Karasev, in:, B. Klartag, E. Milman (Eds.), Geometric Aspects
of Functional Analysis, Springer Nature, 2020, pp. 1–27.
date_created: 2018-12-11T11:44:29Z
date_published: 2020-06-21T00:00:00Z
date_updated: 2023-08-17T13:48:31Z
day: '21'
department:
- _id: HeEd
- _id: JaMa
doi: 10.1007/978-3-030-36020-7_1
ec_funded: 1
editor:
- first_name: Bo'az
full_name: Klartag, Bo'az
last_name: Klartag
- first_name: Emanuel
full_name: Milman, Emanuel
last_name: Milman
external_id:
arxiv:
- '1808.07350'
isi:
- '000557689300003'
intvolume: ' 2256'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1808.07350
month: '06'
oa: 1
oa_version: Preprint
page: 1-27
project:
- _id: 256E75B8-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '716117'
name: Optimal Transport and Stochastic Dynamics
publication: Geometric Aspects of Functional Analysis
publication_identifier:
eisbn:
- '9783030360207'
eissn:
- '16179692'
isbn:
- '9783030360191'
issn:
- '00758434'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
series_title: LNM
status: public
title: Gromov's waist of non-radial Gaussian measures and radial non-Gaussian measures
type: book_chapter
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 2256
year: '2020'
...
---
_id: '177'
abstract:
- lang: eng
text: We develop a geometric version of the circle method and use it to compute
the compactly supported cohomology of the space of rational curves through a point
on a smooth affine hypersurface of sufficiently low degree.
article_processing_charge: No
article_type: original
author:
- first_name: Timothy D
full_name: Browning, Timothy D
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
- first_name: Will
full_name: Sawin, Will
last_name: Sawin
citation:
ama: Browning TD, Sawin W. A geometric version of the circle method. Annals of
Mathematics. 2020;191(3):893-948. doi:10.4007/annals.2020.191.3.4
apa: Browning, T. D., & Sawin, W. (2020). A geometric version of the circle
method. Annals of Mathematics. Princeton University. https://doi.org/10.4007/annals.2020.191.3.4
chicago: Browning, Timothy D, and Will Sawin. “A Geometric Version of the Circle
Method.” Annals of Mathematics. Princeton University, 2020. https://doi.org/10.4007/annals.2020.191.3.4.
ieee: T. D. Browning and W. Sawin, “A geometric version of the circle method,” Annals
of Mathematics, vol. 191, no. 3. Princeton University, pp. 893–948, 2020.
ista: Browning TD, Sawin W. 2020. A geometric version of the circle method. Annals
of Mathematics. 191(3), 893–948.
mla: Browning, Timothy D., and Will Sawin. “A Geometric Version of the Circle Method.”
Annals of Mathematics, vol. 191, no. 3, Princeton University, 2020, pp.
893–948, doi:10.4007/annals.2020.191.3.4.
short: T.D. Browning, W. Sawin, Annals of Mathematics 191 (2020) 893–948.
date_created: 2018-12-11T11:45:02Z
date_published: 2020-05-01T00:00:00Z
date_updated: 2023-08-17T07:12:37Z
day: '01'
department:
- _id: TiBr
doi: 10.4007/annals.2020.191.3.4
external_id:
arxiv:
- '1711.10451'
isi:
- '000526986300004'
intvolume: ' 191'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1711.10451
month: '05'
oa: 1
oa_version: Preprint
page: 893-948
publication: Annals of Mathematics
publication_status: published
publisher: Princeton University
publist_id: '7744'
quality_controlled: '1'
status: public
title: A geometric version of the circle method
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 191
year: '2020'
...
---
_id: '6649'
abstract:
- lang: eng
text: "While Hartree–Fock theory is well established as a fundamental approximation
for interacting fermions, it has been unclear how to describe corrections to it
due to many-body correlations. In this paper we start from the Hartree–Fock state
given by plane waves and introduce collective particle–hole pair excitations.
These pairs can be approximately described by a bosonic quadratic Hamiltonian.
We use Bogoliubov theory to construct a trial state yielding a rigorous Gell-Mann–Brueckner–type
upper bound to the ground state energy. Our result justifies the random-phase
approximation in the mean-field scaling regime, for repulsive, regular interaction
potentials.\r\n"
article_processing_charge: No
article_type: original
author:
- first_name: Niels P
full_name: Benedikter, Niels P
id: 3DE6C32A-F248-11E8-B48F-1D18A9856A87
last_name: Benedikter
orcid: 0000-0002-1071-6091
- first_name: Phan Thành
full_name: Nam, Phan Thành
last_name: Nam
- first_name: Marcello
full_name: Porta, Marcello
last_name: Porta
- first_name: Benjamin
full_name: Schlein, Benjamin
last_name: Schlein
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Benedikter NP, Nam PT, Porta M, Schlein B, Seiringer R. Optimal upper bound
for the correlation energy of a Fermi gas in the mean-field regime. Communications
in Mathematical Physics. 2020;374:2097–2150. doi:10.1007/s00220-019-03505-5
apa: Benedikter, N. P., Nam, P. T., Porta, M., Schlein, B., & Seiringer, R.
(2020). Optimal upper bound for the correlation energy of a Fermi gas in the mean-field
regime. Communications in Mathematical Physics. Springer Nature. https://doi.org/10.1007/s00220-019-03505-5
chicago: Benedikter, Niels P, Phan Thành Nam, Marcello Porta, Benjamin Schlein,
and Robert Seiringer. “Optimal Upper Bound for the Correlation Energy of a Fermi
Gas in the Mean-Field Regime.” Communications in Mathematical Physics.
Springer Nature, 2020. https://doi.org/10.1007/s00220-019-03505-5.
ieee: N. P. Benedikter, P. T. Nam, M. Porta, B. Schlein, and R. Seiringer, “Optimal
upper bound for the correlation energy of a Fermi gas in the mean-field regime,”
Communications in Mathematical Physics, vol. 374. Springer Nature, pp.
2097–2150, 2020.
ista: Benedikter NP, Nam PT, Porta M, Schlein B, Seiringer R. 2020. Optimal upper
bound for the correlation energy of a Fermi gas in the mean-field regime. Communications
in Mathematical Physics. 374, 2097–2150.
mla: Benedikter, Niels P., et al. “Optimal Upper Bound for the Correlation Energy
of a Fermi Gas in the Mean-Field Regime.” Communications in Mathematical Physics,
vol. 374, Springer Nature, 2020, pp. 2097–2150, doi:10.1007/s00220-019-03505-5.
short: N.P. Benedikter, P.T. Nam, M. Porta, B. Schlein, R. Seiringer, Communications
in Mathematical Physics 374 (2020) 2097–2150.
date_created: 2019-07-18T13:30:04Z
date_published: 2020-03-01T00:00:00Z
date_updated: 2023-08-17T13:51:50Z
day: '01'
ddc:
- '530'
department:
- _id: RoSe
doi: 10.1007/s00220-019-03505-5
ec_funded: 1
external_id:
arxiv:
- '1809.01902'
isi:
- '000527910700019'
file:
- access_level: open_access
checksum: f9dd6dd615a698f1d3636c4a092fed23
content_type: application/pdf
creator: dernst
date_created: 2019-07-24T07:19:10Z
date_updated: 2020-07-14T12:47:35Z
file_id: '6668'
file_name: 2019_CommMathPhysics_Benedikter.pdf
file_size: 853289
relation: main_file
file_date_updated: 2020-07-14T12:47:35Z
has_accepted_license: '1'
intvolume: ' 374'
isi: 1
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 2097–2150
project:
- _id: 3AC91DDA-15DF-11EA-824D-93A3E7B544D1
call_identifier: FWF
name: FWF Open Access Fund
- _id: 25C878CE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27533_N27
name: Structure of the Excitation Spectrum for Many-Body Quantum Systems
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
publication: Communications in Mathematical Physics
publication_identifier:
eissn:
- 1432-0916
issn:
- 0010-3616
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Optimal upper bound for the correlation energy of a Fermi gas in the mean-field
regime
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: 374
year: '2020'
...
---
_id: '6796'
abstract:
- lang: eng
text: Nearby grid cells have been observed to express a remarkable degree of long-rangeorder,
which is often idealized as extending potentially to infinity. Yet their strict
peri-odic firing and ensemble coherence are theoretically possible only in flat
environments, much unlike the burrows which rodents usually live in. Are the symmetrical,
coherent grid maps inferred in the lab relevant to chart their way in their natural
habitat? We consider spheres as simple models of curved environments and waiting
for the appropriate experiments to be performed, we use our adaptation model to
predict what grid maps would emerge in a network with the same type of recurrent
connections, which on the plane produce coherence among the units. We find that
on the sphere such connections distort the maps that single grid units would express
on their own, and aggregate them into clusters. When remapping to a different
spherical environment, units in each cluster maintain only partial coherence,
similar to what is observed in disordered materials, such as spin glasses.
article_processing_charge: No
article_type: original
author:
- first_name: Federico
full_name: Stella, Federico
id: 39AF1E74-F248-11E8-B48F-1D18A9856A87
last_name: Stella
orcid: 0000-0001-9439-3148
- first_name: Eugenio
full_name: Urdapilleta, Eugenio
last_name: Urdapilleta
- first_name: Yifan
full_name: Luo, Yifan
last_name: Luo
- first_name: Alessandro
full_name: Treves, Alessandro
last_name: Treves
citation:
ama: Stella F, Urdapilleta E, Luo Y, Treves A. Partial coherence and frustration
in self-organizing spherical grids. Hippocampus. 2020;30(4):302-313. doi:10.1002/hipo.23144
apa: Stella, F., Urdapilleta, E., Luo, Y., & Treves, A. (2020). Partial coherence
and frustration in self-organizing spherical grids. Hippocampus. Wiley.
https://doi.org/10.1002/hipo.23144
chicago: Stella, Federico, Eugenio Urdapilleta, Yifan Luo, and Alessandro Treves.
“Partial Coherence and Frustration in Self-Organizing Spherical Grids.” Hippocampus.
Wiley, 2020. https://doi.org/10.1002/hipo.23144.
ieee: F. Stella, E. Urdapilleta, Y. Luo, and A. Treves, “Partial coherence and frustration
in self-organizing spherical grids,” Hippocampus, vol. 30, no. 4. Wiley,
pp. 302–313, 2020.
ista: Stella F, Urdapilleta E, Luo Y, Treves A. 2020. Partial coherence and frustration
in self-organizing spherical grids. Hippocampus. 30(4), 302–313.
mla: Stella, Federico, et al. “Partial Coherence and Frustration in Self-Organizing
Spherical Grids.” Hippocampus, vol. 30, no. 4, Wiley, 2020, pp. 302–13,
doi:10.1002/hipo.23144.
short: F. Stella, E. Urdapilleta, Y. Luo, A. Treves, Hippocampus 30 (2020) 302–313.
date_created: 2019-08-11T21:59:24Z
date_published: 2020-04-01T00:00:00Z
date_updated: 2023-08-17T13:53:14Z
day: '01'
ddc:
- '570'
department:
- _id: JoCs
doi: 10.1002/hipo.23144
external_id:
isi:
- '000477299600001'
pmid:
- '31339190'
file:
- access_level: open_access
checksum: 7b54d22bfbfc0d1188a9ea24d985bfb2
content_type: application/pdf
creator: dernst
date_created: 2019-08-12T07:53:33Z
date_updated: 2020-07-14T12:47:40Z
file_id: '6800'
file_name: 2019_Hippocampus_Stella.pdf
file_size: 2370658
relation: main_file
file_date_updated: 2020-07-14T12:47:40Z
has_accepted_license: '1'
intvolume: ' 30'
isi: 1
issue: '4'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 302-313
pmid: 1
publication: Hippocampus
publication_identifier:
eissn:
- '10981063'
issn:
- '10509631'
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Partial coherence and frustration in self-organizing spherical grids
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: 30
year: '2020'
...
---
_id: '6761'
abstract:
- lang: eng
text: In resource allocation games, selfish players share resources that are needed
in order to fulfill their objectives. The cost of using a resource depends on
the load on it. In the traditional setting, the players make their choices concurrently
and in one-shot. That is, a strategy for a player is a subset of the resources.
We introduce and study dynamic resource allocation games. In this setting, the
game proceeds in phases. In each phase each player chooses one resource. A scheduler
dictates the order in which the players proceed in a phase, possibly scheduling
several players to proceed concurrently. The game ends when each player has collected
a set of resources that fulfills his objective. The cost for each player then
depends on this set as well as on the load on the resources in it – we consider
both congestion and cost-sharing games. We argue that the dynamic setting is the
suitable setting for many applications in practice. We study the stability of
dynamic resource allocation games, where the appropriate notion of stability is
that of subgame perfect equilibrium, study the inefficiency incurred due to selfish
behavior, and also study problems that are particular to the dynamic setting,
like constraints on the order in which resources can be chosen or the problem
of finding a scheduler that achieves stability.
article_processing_charge: No
article_type: original
author:
- first_name: Guy
full_name: Avni, Guy
id: 463C8BC2-F248-11E8-B48F-1D18A9856A87
last_name: Avni
orcid: 0000-0001-5588-8287
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Orna
full_name: Kupferman, Orna
last_name: Kupferman
citation:
ama: Avni G, Henzinger TA, Kupferman O. Dynamic resource allocation games. Theoretical
Computer Science. 2020;807:42-55. doi:10.1016/j.tcs.2019.06.031
apa: Avni, G., Henzinger, T. A., & Kupferman, O. (2020). Dynamic resource allocation
games. Theoretical Computer Science. Elsevier. https://doi.org/10.1016/j.tcs.2019.06.031
chicago: Avni, Guy, Thomas A Henzinger, and Orna Kupferman. “Dynamic Resource Allocation
Games.” Theoretical Computer Science. Elsevier, 2020. https://doi.org/10.1016/j.tcs.2019.06.031.
ieee: G. Avni, T. A. Henzinger, and O. Kupferman, “Dynamic resource allocation games,”
Theoretical Computer Science, vol. 807. Elsevier, pp. 42–55, 2020.
ista: Avni G, Henzinger TA, Kupferman O. 2020. Dynamic resource allocation games.
Theoretical Computer Science. 807, 42–55.
mla: Avni, Guy, et al. “Dynamic Resource Allocation Games.” Theoretical Computer
Science, vol. 807, Elsevier, 2020, pp. 42–55, doi:10.1016/j.tcs.2019.06.031.
short: G. Avni, T.A. Henzinger, O. Kupferman, Theoretical Computer Science 807 (2020)
42–55.
date_created: 2019-08-04T21:59:20Z
date_published: 2020-02-06T00:00:00Z
date_updated: 2023-08-17T13:52:49Z
day: '06'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1016/j.tcs.2019.06.031
external_id:
isi:
- '000512219400004'
file:
- access_level: open_access
checksum: e86635417f45eb2cd75778f91382f737
content_type: application/pdf
creator: dernst
date_created: 2020-10-09T06:31:22Z
date_updated: 2020-10-09T06:31:22Z
file_id: '8639'
file_name: 2020_TheoreticalCS_Avni.pdf
file_size: 1413001
relation: main_file
success: 1
file_date_updated: 2020-10-09T06:31:22Z
has_accepted_license: '1'
intvolume: ' 807'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Submitted Version
page: 42-55
project:
- _id: 25F2ACDE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11402-N23
name: Rigorous Systems Engineering
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: The Wittgenstein Prize
- _id: 264B3912-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02369
name: Formal Methods meets Algorithmic Game Theory
publication: Theoretical Computer Science
publication_identifier:
issn:
- '03043975'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '1341'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Dynamic resource allocation games
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 807
year: '2020'
...
---
_id: '6593'
abstract:
- lang: eng
text: 'We consider the monotone variational inequality problem in a Hilbert space
and describe a projection-type method with inertial terms under the following
properties: (a) The method generates a strongly convergent iteration sequence;
(b) The method requires, at each iteration, only one projection onto the feasible
set and two evaluations of the operator; (c) The method is designed for variational
inequality for which the underline operator is monotone and uniformly continuous;
(d) The method includes an inertial term. The latter is also shown to speed up
the convergence in our numerical results. A comparison with some related methods
is given and indicates that the new method is promising.'
acknowledgement: The research of this author is supported by the ERC grant at the
IST.
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: Xiao-Huan
full_name: Li, Xiao-Huan
last_name: Li
- first_name: Qiao-Li
full_name: Dong, Qiao-Li
last_name: Dong
citation:
ama: Shehu Y, Li X-H, Dong Q-L. An efficient projection-type method for monotone
variational inequalities in Hilbert spaces. Numerical Algorithms. 2020;84:365-388.
doi:10.1007/s11075-019-00758-y
apa: Shehu, Y., Li, X.-H., & Dong, Q.-L. (2020). An efficient projection-type
method for monotone variational inequalities in Hilbert spaces. Numerical Algorithms.
Springer Nature. https://doi.org/10.1007/s11075-019-00758-y
chicago: Shehu, Yekini, Xiao-Huan Li, and Qiao-Li Dong. “An Efficient Projection-Type
Method for Monotone Variational Inequalities in Hilbert Spaces.” Numerical
Algorithms. Springer Nature, 2020. https://doi.org/10.1007/s11075-019-00758-y.
ieee: Y. Shehu, X.-H. Li, and Q.-L. Dong, “An efficient projection-type method for
monotone variational inequalities in Hilbert spaces,” Numerical Algorithms,
vol. 84. Springer Nature, pp. 365–388, 2020.
ista: Shehu Y, Li X-H, Dong Q-L. 2020. An efficient projection-type method for monotone
variational inequalities in Hilbert spaces. Numerical Algorithms. 84, 365–388.
mla: Shehu, Yekini, et al. “An Efficient Projection-Type Method for Monotone Variational
Inequalities in Hilbert Spaces.” Numerical Algorithms, vol. 84, Springer
Nature, 2020, pp. 365–88, doi:10.1007/s11075-019-00758-y.
short: Y. Shehu, X.-H. Li, Q.-L. Dong, Numerical Algorithms 84 (2020) 365–388.
date_created: 2019-06-27T20:09:33Z
date_published: 2020-05-01T00:00:00Z
date_updated: 2023-08-17T13:51:18Z
day: '01'
ddc:
- '000'
department:
- _id: VlKo
doi: 10.1007/s11075-019-00758-y
ec_funded: 1
external_id:
isi:
- '000528979000015'
file:
- access_level: open_access
checksum: bb1a1eb3ebb2df380863d0db594673ba
content_type: application/pdf
creator: kschuh
date_created: 2019-10-01T13:14:10Z
date_updated: 2020-07-14T12:47:34Z
file_id: '6927'
file_name: ExtragradientMethodPaper.pdf
file_size: 359654
relation: main_file
file_date_updated: 2020-07-14T12:47:34Z
has_accepted_license: '1'
intvolume: ' 84'
isi: 1
language:
- iso: eng
month: '05'
oa: 1
oa_version: Submitted Version
page: 365-388
project:
- _id: 25FBA906-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '616160'
name: 'Discrete Optimization in Computer Vision: Theory and Practice'
publication: Numerical Algorithms
publication_identifier:
eissn:
- 1572-9265
issn:
- 1017-1398
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: An efficient projection-type method for monotone variational inequalities in
Hilbert spaces
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 84
year: '2020'
...
---
_id: '6808'
abstract:
- lang: eng
text: Super-resolution fluorescence microscopy has become an important catalyst
for discovery in the life sciences. In STimulated Emission Depletion (STED) microscopy,
a pattern of light drives fluorophores from a signal-emitting on-state to a non-signalling
off-state. Only emitters residing in a sub-diffraction volume around an intensity
minimum are allowed to fluoresce, rendering them distinguishable from the nearby,
but dark fluorophores. STED routinely achieves resolution in the few tens of nanometers
range in biological samples and is suitable for live imaging. Here, we review
the working principle of STED and provide general guidelines for successful STED
imaging. The strive for ever higher resolution comes at the cost of increased
light burden. We discuss techniques to reduce light exposure and mitigate its
detrimental effects on the specimen. These include specialized illumination strategies
as well as protecting fluorophores from photobleaching mediated by high-intensity
STED light. This opens up the prospect of volumetric imaging in living cells and
tissues with diffraction-unlimited resolution in all three spatial dimensions.
article_processing_charge: No
article_type: original
author:
- first_name: Wiebke
full_name: Jahr, Wiebke
id: 425C1CE8-F248-11E8-B48F-1D18A9856A87
last_name: Jahr
- first_name: Philipp
full_name: Velicky, Philipp
id: 39BDC62C-F248-11E8-B48F-1D18A9856A87
last_name: Velicky
orcid: 0000-0002-2340-7431
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
citation:
ama: Jahr W, Velicky P, Danzl JG. Strategies to maximize performance in STimulated
Emission Depletion (STED) nanoscopy of biological specimens. Methods. 2020;174(3):27-41.
doi:10.1016/j.ymeth.2019.07.019
apa: Jahr, W., Velicky, P., & Danzl, J. G. (2020). Strategies to maximize performance
in STimulated Emission Depletion (STED) nanoscopy of biological specimens. Methods.
Elsevier. https://doi.org/10.1016/j.ymeth.2019.07.019
chicago: Jahr, Wiebke, Philipp Velicky, and Johann G Danzl. “Strategies to Maximize
Performance in STimulated Emission Depletion (STED) Nanoscopy of Biological Specimens.”
Methods. Elsevier, 2020. https://doi.org/10.1016/j.ymeth.2019.07.019.
ieee: W. Jahr, P. Velicky, and J. G. Danzl, “Strategies to maximize performance
in STimulated Emission Depletion (STED) nanoscopy of biological specimens,” Methods,
vol. 174, no. 3. Elsevier, pp. 27–41, 2020.
ista: Jahr W, Velicky P, Danzl JG. 2020. Strategies to maximize performance in STimulated
Emission Depletion (STED) nanoscopy of biological specimens. Methods. 174(3),
27–41.
mla: Jahr, Wiebke, et al. “Strategies to Maximize Performance in STimulated Emission
Depletion (STED) Nanoscopy of Biological Specimens.” Methods, vol. 174,
no. 3, Elsevier, 2020, pp. 27–41, doi:10.1016/j.ymeth.2019.07.019.
short: W. Jahr, P. Velicky, J.G. Danzl, Methods 174 (2020) 27–41.
date_created: 2019-08-12T16:36:32Z
date_published: 2020-03-01T00:00:00Z
date_updated: 2023-08-17T13:59:57Z
day: '01'
department:
- _id: JoDa
doi: 10.1016/j.ymeth.2019.07.019
external_id:
isi:
- '000525860400005'
pmid:
- '31344404'
intvolume: ' 174'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7100895/
month: '03'
oa: 1
oa_version: Submitted Version
page: 27-41
pmid: 1
project:
- _id: 265CB4D0-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03600
name: Optical control of synaptic function via adhesion molecules
- _id: 2668BFA0-B435-11E9-9278-68D0E5697425
grant_number: LT00057
name: High-speed 3D-nanoscopy to study the role of adhesion during 3D cell migration
publication: Methods
publication_identifier:
issn:
- 1046-2023
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Strategies to maximize performance in STimulated Emission Depletion (STED)
nanoscopy of biological specimens
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 174
year: '2020'
...
---
_id: '6563'
abstract:
- lang: eng
text: "This paper presents two algorithms. The first decides the existence of a
pointed homotopy between given simplicial maps \U0001D453,\U0001D454:\U0001D44B→\U0001D44C,
and the second computes the group [\U0001D6F4\U0001D44B,\U0001D44C]∗ of pointed
homotopy classes of maps from a suspension; in both cases, the target Y is assumed
simply connected. More generally, these algorithms work relative to \U0001D434⊆\U0001D44B."
article_processing_charge: No
article_type: original
author:
- first_name: Marek
full_name: Filakovský, Marek
id: 3E8AF77E-F248-11E8-B48F-1D18A9856A87
last_name: Filakovský
- first_name: Lukas
full_name: Vokřínek, Lukas
last_name: Vokřínek
citation:
ama: Filakovský M, Vokřínek L. Are two given maps homotopic? An algorithmic viewpoint.
Foundations of Computational Mathematics. 2020;20:311-330. doi:10.1007/s10208-019-09419-x
apa: Filakovský, M., & Vokřínek, L. (2020). Are two given maps homotopic? An
algorithmic viewpoint. Foundations of Computational Mathematics. Springer
Nature. https://doi.org/10.1007/s10208-019-09419-x
chicago: Filakovský, Marek, and Lukas Vokřínek. “Are Two given Maps Homotopic? An
Algorithmic Viewpoint.” Foundations of Computational Mathematics. Springer
Nature, 2020. https://doi.org/10.1007/s10208-019-09419-x.
ieee: M. Filakovský and L. Vokřínek, “Are two given maps homotopic? An algorithmic
viewpoint,” Foundations of Computational Mathematics, vol. 20. Springer
Nature, pp. 311–330, 2020.
ista: Filakovský M, Vokřínek L. 2020. Are two given maps homotopic? An algorithmic
viewpoint. Foundations of Computational Mathematics. 20, 311–330.
mla: Filakovský, Marek, and Lukas Vokřínek. “Are Two given Maps Homotopic? An Algorithmic
Viewpoint.” Foundations of Computational Mathematics, vol. 20, Springer
Nature, 2020, pp. 311–30, doi:10.1007/s10208-019-09419-x.
short: M. Filakovský, L. Vokřínek, Foundations of Computational Mathematics 20 (2020)
311–330.
date_created: 2019-06-16T21:59:14Z
date_published: 2020-04-01T00:00:00Z
date_updated: 2023-08-17T13:50:44Z
day: '01'
department:
- _id: UlWa
doi: 10.1007/s10208-019-09419-x
external_id:
arxiv:
- '1312.2337'
isi:
- '000522437400004'
intvolume: ' 20'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1312.2337
month: '04'
oa: 1
oa_version: Preprint
page: 311-330
project:
- _id: 26611F5C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P31312
name: Algorithms for Embeddings and Homotopy Theory
publication: Foundations of Computational Mathematics
publication_identifier:
eissn:
- '16153383'
issn:
- '16153375'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Are two given maps homotopic? An algorithmic viewpoint
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 20
year: '2020'
...
---
_id: '6952'
abstract:
- lang: eng
text: 'We present a unified framework tackling two problems: class-specific 3D reconstruction
from a single image, and generation of new 3D shape samples. These tasks have
received considerable attention recently; however, most existing approaches rely
on 3D supervision, annotation of 2D images with keypoints or poses, and/or training
with multiple views of each object instance. Our framework is very general: it
can be trained in similar settings to existing approaches, while also supporting
weaker supervision. Importantly, it can be trained purely from 2D images, without
pose annotations, and with only a single view per instance. We employ meshes as
an output representation, instead of voxels used in most prior work. This allows
us to reason over lighting parameters and exploit shading information during training,
which previous 2D-supervised methods cannot. Thus, our method can learn to generate
and reconstruct concave object classes. We evaluate our approach in various settings,
showing that: (i) it learns to disentangle shape from pose and lighting; (ii)
using shading in the loss improves performance compared to just silhouettes; (iii)
when using a standard single white light, our model outperforms state-of-the-art
2D-supervised methods, both with and without pose supervision, thanks to exploiting
shading cues; (iv) performance improves further when using multiple coloured lights,
even approaching that of state-of-the-art 3D-supervised methods; (v) shapes produced
by our model capture smooth surfaces and fine details better than voxel-based
approaches; and (vi) our approach supports concave classes such as bathtubs and
sofas, which methods based on silhouettes cannot learn.'
acknowledgement: Open access funding provided by Institute of Science and Technology
(IST Austria).
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Paul M
full_name: Henderson, Paul M
id: 13C09E74-18D9-11E9-8878-32CFE5697425
last_name: Henderson
orcid: 0000-0002-5198-7445
- first_name: Vittorio
full_name: Ferrari, Vittorio
last_name: Ferrari
citation:
ama: Henderson PM, Ferrari V. Learning single-image 3D reconstruction by generative
modelling of shape, pose and shading. International Journal of Computer Vision.
2020;128:835-854. doi:10.1007/s11263-019-01219-8
apa: Henderson, P. M., & Ferrari, V. (2020). Learning single-image 3D reconstruction
by generative modelling of shape, pose and shading. International Journal of
Computer Vision. Springer Nature. https://doi.org/10.1007/s11263-019-01219-8
chicago: Henderson, Paul M, and Vittorio Ferrari. “Learning Single-Image 3D Reconstruction
by Generative Modelling of Shape, Pose and Shading.” International Journal
of Computer Vision. Springer Nature, 2020. https://doi.org/10.1007/s11263-019-01219-8.
ieee: P. M. Henderson and V. Ferrari, “Learning single-image 3D reconstruction by
generative modelling of shape, pose and shading,” International Journal of
Computer Vision, vol. 128. Springer Nature, pp. 835–854, 2020.
ista: Henderson PM, Ferrari V. 2020. Learning single-image 3D reconstruction by
generative modelling of shape, pose and shading. International Journal of Computer
Vision. 128, 835–854.
mla: Henderson, Paul M., and Vittorio Ferrari. “Learning Single-Image 3D Reconstruction
by Generative Modelling of Shape, Pose and Shading.” International Journal
of Computer Vision, vol. 128, Springer Nature, 2020, pp. 835–54, doi:10.1007/s11263-019-01219-8.
short: P.M. Henderson, V. Ferrari, International Journal of Computer Vision 128
(2020) 835–854.
date_created: 2019-10-17T13:38:20Z
date_published: 2020-04-01T00:00:00Z
date_updated: 2023-08-17T14:01:16Z
day: '01'
ddc:
- '004'
department:
- _id: ChLa
doi: 10.1007/s11263-019-01219-8
external_id:
arxiv:
- '1901.06447'
isi:
- '000491042100002'
file:
- access_level: open_access
checksum: a0f05dd4f5f64e4f713d8d9d4b5b1e3f
content_type: application/pdf
creator: dernst
date_created: 2019-10-25T10:28:29Z
date_updated: 2020-07-14T12:47:46Z
file_id: '6973'
file_name: 2019_CompVision_Henderson.pdf
file_size: 2243134
relation: main_file
file_date_updated: 2020-07-14T12:47:46Z
has_accepted_license: '1'
intvolume: ' 128'
isi: 1
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 835-854
project:
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: International Journal of Computer Vision
publication_identifier:
eissn:
- 1573-1405
issn:
- 0920-5691
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Learning single-image 3D reconstruction by generative modelling of shape, pose
and shading
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: 128
year: '2020'
...
---
_id: '7033'
abstract:
- lang: eng
text: Removal of the Bax gene from mice completely protects the somas of retinal
ganglion cells (RGCs) from apoptosis following optic nerve injury. This makes
BAX a promising therapeutic target to prevent neurodegeneration. In this study,
Bax+/− mice were used to test the hypothesis that lowering the quantity of BAX
in RGCs would delay apoptosis following optic nerve injury. RGCs were damaged
by performing optic nerve crush (ONC) and then immunostaining for phospho-cJUN,
and quantitative PCR were used to monitor the status of the BAX activation mechanism
in the months following injury. The apoptotic susceptibility of injured cells
was directly tested by virally introducing GFP-BAX into Bax−/− RGCs after injury.
The competency of quiescent RGCs to reactivate their BAX activation mechanism
was tested by intravitreal injection of the JNK pathway agonist, anisomycin. Twenty-four
weeks after ONC, Bax+/− mice had significantly less cell loss in their RGC layer
than Bax+/+ mice 3 weeks after ONC. Bax+/− and Bax+/+ RGCs exhibited similar patterns
of nuclear phospho-cJUN accumulation immediately after ONC, which persisted in
Bax+/− RGCs for up to 7 weeks before abating. The transcriptional activation of
BAX-activating genes was similar in Bax+/− and Bax+/+ RGCs following ONC. Intriguingly,
cells deactivated their BAX activation mechanism between 7 and 12 weeks after
crush. Introduction of GFP-BAX into Bax−/− cells at 4 weeks after ONC showed that
these cells had a nearly normal capacity to activate this protein, but this capacity
was lost 8 weeks after crush. Collectively, these data suggest that 8–12 weeks
after crush, damaged cells no longer displayed increased susceptibility to BAX
activation relative to their naïve counterparts. In this same timeframe, retinal
glial activation and the signaling of the pro-apoptotic JNK pathway also abated.
Quiescent RGCs did not show a timely reactivation of their JNK pathway following
intravitreal injection with anisomycin. These findings demonstrate that lowering
the quantity of BAX in RGCs is neuroprotective after acute injury. Damaged RGCs
enter a quiescent state months after injury and are no longer responsive to an
apoptotic stimulus. Quiescent RGCs will require rejuvenation to reacquire functionality.
acknowledgement: This work was supported by National Eye Institute grants R01 EY012223
(RWN), R01 EY030123 (RWN), T32 EY027721 (Department of Ophthalmology and Visual
Sciences, University of Wisconsin-Madison), and a Vision Science Core grant P30
EY016665 (Department of Ophthalmology and Visual Sciences, University of Wisconsin-Madison),
an unrestricted funding grant from Research to Prevent Blindness (Department of
Ophthalmology and Visual Sciences, University of Wisconsin-Madison), the Frederick
A. Davis Endowment (RWN), and the Mr. and Mrs. George Taylor Foundation (RWN).
article_processing_charge: No
article_type: original
author:
- first_name: RJ
full_name: Donahue, RJ
last_name: Donahue
- first_name: Margaret E
full_name: Maes, Margaret E
id: 3838F452-F248-11E8-B48F-1D18A9856A87
last_name: Maes
orcid: 0000-0001-9642-1085
- first_name: JA
full_name: Grosser, JA
last_name: Grosser
- first_name: RW
full_name: Nickells, RW
last_name: Nickells
citation:
ama: Donahue R, Maes ME, Grosser J, Nickells R. BAX-depleted retinal ganglion cells
survive and become quiescent following optic nerve damage. Molecular Neurobiology.
2020;57(2):1070–1084. doi:10.1007/s12035-019-01783-7
apa: Donahue, R., Maes, M. E., Grosser, J., & Nickells, R. (2020). BAX-depleted
retinal ganglion cells survive and become quiescent following optic nerve damage.
Molecular Neurobiology. Springer Nature. https://doi.org/10.1007/s12035-019-01783-7
chicago: Donahue, RJ, Margaret E Maes, JA Grosser, and RW Nickells. “BAX-Depleted
Retinal Ganglion Cells Survive and Become Quiescent Following Optic Nerve Damage.”
Molecular Neurobiology. Springer Nature, 2020. https://doi.org/10.1007/s12035-019-01783-7.
ieee: R. Donahue, M. E. Maes, J. Grosser, and R. Nickells, “BAX-depleted retinal
ganglion cells survive and become quiescent following optic nerve damage,” Molecular
Neurobiology, vol. 57, no. 2. Springer Nature, pp. 1070–1084, 2020.
ista: Donahue R, Maes ME, Grosser J, Nickells R. 2020. BAX-depleted retinal ganglion
cells survive and become quiescent following optic nerve damage. Molecular Neurobiology.
57(2), 1070–1084.
mla: Donahue, RJ, et al. “BAX-Depleted Retinal Ganglion Cells Survive and Become
Quiescent Following Optic Nerve Damage.” Molecular Neurobiology, vol. 57,
no. 2, Springer Nature, 2020, pp. 1070–1084, doi:10.1007/s12035-019-01783-7.
short: R. Donahue, M.E. Maes, J. Grosser, R. Nickells, Molecular Neurobiology 57
(2020) 1070–1084.
date_created: 2019-11-18T14:18:39Z
date_published: 2020-02-01T00:00:00Z
date_updated: 2023-08-17T14:05:48Z
day: '01'
department:
- _id: SaSi
doi: 10.1007/s12035-019-01783-7
external_id:
isi:
- '000493754200001'
pmid:
- '31673950'
intvolume: ' 57'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7035206/
month: '02'
oa: 1
oa_version: Submitted Version
page: 1070–1084
pmid: 1
publication: Molecular Neurobiology
publication_identifier:
eissn:
- 1559-1182
issn:
- 0893-7648
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: BAX-depleted retinal ganglion cells survive and become quiescent following
optic nerve damage
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 57
year: '2020'
...
---
_id: '6997'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Yuzhou
full_name: Zhang, Yuzhou
id: 3B6137F2-F248-11E8-B48F-1D18A9856A87
last_name: Zhang
orcid: 0000-0003-2627-6956
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Zhang Y, Friml J. Auxin guides roots to avoid obstacles during gravitropic
growth. New Phytologist. 2020;225(3):1049-1052. doi:10.1111/nph.16203
apa: Zhang, Y., & Friml, J. (2020). Auxin guides roots to avoid obstacles during
gravitropic growth. New Phytologist. Wiley. https://doi.org/10.1111/nph.16203
chicago: Zhang, Yuzhou, and Jiří Friml. “Auxin Guides Roots to Avoid Obstacles during
Gravitropic Growth.” New Phytologist. Wiley, 2020. https://doi.org/10.1111/nph.16203.
ieee: Y. Zhang and J. Friml, “Auxin guides roots to avoid obstacles during gravitropic
growth,” New Phytologist, vol. 225, no. 3. Wiley, pp. 1049–1052, 2020.
ista: Zhang Y, Friml J. 2020. Auxin guides roots to avoid obstacles during gravitropic
growth. New Phytologist. 225(3), 1049–1052.
mla: Zhang, Yuzhou, and Jiří Friml. “Auxin Guides Roots to Avoid Obstacles during
Gravitropic Growth.” New Phytologist, vol. 225, no. 3, Wiley, 2020, pp.
1049–52, doi:10.1111/nph.16203.
short: Y. Zhang, J. Friml, New Phytologist 225 (2020) 1049–1052.
date_created: 2019-11-12T11:41:32Z
date_published: 2020-02-01T00:00:00Z
date_updated: 2023-08-17T14:01:49Z
day: '01'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1111/nph.16203
ec_funded: 1
external_id:
isi:
- '000489638800001'
pmid:
- '31603260'
file:
- access_level: open_access
checksum: cd42ffdb381fd52812b9583d4d407139
content_type: application/pdf
creator: dernst
date_created: 2020-11-18T16:42:48Z
date_updated: 2020-11-18T16:42:48Z
file_id: '8772'
file_name: 2020_NewPhytologist_Zhang.pdf
file_size: 717345
relation: main_file
success: 1
file_date_updated: 2020-11-18T16:42:48Z
has_accepted_license: '1'
intvolume: ' 225'
isi: 1
issue: '3'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 1049-1052
pmid: 1
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
- _id: 26538374-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03630
name: Molecular mechanisms of endocytic cargo recognition in plants
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: New Phytologist
publication_identifier:
eissn:
- 1469-8137
issn:
- 0028-646x
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Auxin guides roots to avoid obstacles during gravitropic growth
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: 225
year: '2020'
...
---
_id: '7004'
abstract:
- lang: eng
text: We define an action of the (double of) Cohomological Hall algebra of Kontsevich
and Soibelman on the cohomology of the moduli space of spiked instantons of Nekrasov.
We identify this action with the one of the affine Yangian of gl(1). Based on
that we derive the vertex algebra at the corner Wr1,r2,r3 of Gaiotto and Rapčák.
We conjecture that our approach works for a big class of Calabi–Yau categories,
including those associated with toric Calabi–Yau 3-folds.
article_processing_charge: No
article_type: original
author:
- first_name: Miroslav
full_name: Rapcak, Miroslav
last_name: Rapcak
- first_name: Yan
full_name: Soibelman, Yan
last_name: Soibelman
- first_name: Yaping
full_name: Yang, Yaping
last_name: Yang
- first_name: Gufang
full_name: Zhao, Gufang
id: 2BC2AC5E-F248-11E8-B48F-1D18A9856A87
last_name: Zhao
citation:
ama: Rapcak M, Soibelman Y, Yang Y, Zhao G. Cohomological Hall algebras, vertex
algebras and instantons. Communications in Mathematical Physics. 2020;376:1803-1873.
doi:10.1007/s00220-019-03575-5
apa: Rapcak, M., Soibelman, Y., Yang, Y., & Zhao, G. (2020). Cohomological Hall
algebras, vertex algebras and instantons. Communications in Mathematical Physics.
Springer Nature. https://doi.org/10.1007/s00220-019-03575-5
chicago: Rapcak, Miroslav, Yan Soibelman, Yaping Yang, and Gufang Zhao. “Cohomological
Hall Algebras, Vertex Algebras and Instantons.” Communications in Mathematical
Physics. Springer Nature, 2020. https://doi.org/10.1007/s00220-019-03575-5.
ieee: M. Rapcak, Y. Soibelman, Y. Yang, and G. Zhao, “Cohomological Hall algebras,
vertex algebras and instantons,” Communications in Mathematical Physics,
vol. 376. Springer Nature, pp. 1803–1873, 2020.
ista: Rapcak M, Soibelman Y, Yang Y, Zhao G. 2020. Cohomological Hall algebras,
vertex algebras and instantons. Communications in Mathematical Physics. 376, 1803–1873.
mla: Rapcak, Miroslav, et al. “Cohomological Hall Algebras, Vertex Algebras and
Instantons.” Communications in Mathematical Physics, vol. 376, Springer
Nature, 2020, pp. 1803–73, doi:10.1007/s00220-019-03575-5.
short: M. Rapcak, Y. Soibelman, Y. Yang, G. Zhao, Communications in Mathematical
Physics 376 (2020) 1803–1873.
date_created: 2019-11-12T14:01:27Z
date_published: 2020-06-01T00:00:00Z
date_updated: 2023-08-17T14:02:59Z
day: '01'
department:
- _id: TaHa
doi: 10.1007/s00220-019-03575-5
ec_funded: 1
external_id:
arxiv:
- '1810.10402'
isi:
- '000536255500004'
intvolume: ' 376'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1810.10402
month: '06'
oa: 1
oa_version: Preprint
page: 1803-1873
project:
- _id: 25E549F4-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '320593'
name: Arithmetic and physics of Higgs moduli spaces
publication: Communications in Mathematical Physics
publication_identifier:
eissn:
- 1432-0916
issn:
- 0010-3616
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Cohomological Hall algebras, vertex algebras and instantons
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 376
year: '2020'
...
---
_id: '7204'
abstract:
- lang: eng
text: Plant root architecture dynamically adapts to various environmental conditions,
such as salt‐containing soil. The phytohormone abscisic acid (ABA) is involved
among others also in these developmental adaptations, but the underlying molecular
mechanism remains elusive. Here, a novel branch of the ABA signaling pathway in
Arabidopsis involving PYR/PYL/RCAR (abbreviated as PYLs) receptor‐protein phosphatase
2A (PP2A) complex that acts in parallel to the canonical PYLs‐protein phosphatase
2C (PP2C) mechanism is identified. The PYLs‐PP2A signaling modulates root gravitropism
and lateral root formation through regulating phytohormone auxin transport. In
optimal conditions, PYLs ABA receptor interacts with the catalytic subunits of
PP2A, increasing their phosphatase activity and thus counteracting PINOID (PID)
kinase‐mediated phosphorylation of PIN‐FORMED (PIN) auxin transporters. By contrast,
in salt and osmotic stress conditions, ABA binds to PYLs, inhibiting the PP2A
activity, which leads to increased PIN phosphorylation and consequently modulated
directional auxin transport leading to adapted root architecture. This work reveals
an adaptive mechanism that may flexibly adjust plant root growth to withstand
saline and osmotic stresses. It occurs via the cross‐talk between the stress hormone
ABA and the versatile developmental regulator auxin.
article_number: '1901455'
article_processing_charge: No
article_type: original
author:
- first_name: Yang
full_name: Li, Yang
last_name: Li
- first_name: Yaping
full_name: Wang, Yaping
last_name: Wang
- first_name: Shutang
full_name: Tan, Shutang
id: 2DE75584-F248-11E8-B48F-1D18A9856A87
last_name: Tan
orcid: 0000-0002-0471-8285
- first_name: Zhen
full_name: Li, Zhen
last_name: Li
- first_name: Zhi
full_name: Yuan, Zhi
last_name: Yuan
- first_name: Matous
full_name: Glanc, Matous
id: 1AE1EA24-02D0-11E9-9BAA-DAF4881429F2
last_name: Glanc
orcid: 0000-0003-0619-7783
- first_name: David
full_name: Domjan, David
id: C684CD7A-257E-11EA-9B6F-D8588B4F947F
last_name: Domjan
orcid: 0000-0003-2267-106X
- first_name: Kai
full_name: Wang, Kai
last_name: Wang
- first_name: Wei
full_name: Xuan, Wei
last_name: Xuan
- first_name: Yan
full_name: Guo, Yan
last_name: Guo
- first_name: Zhizhong
full_name: Gong, Zhizhong
last_name: Gong
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Jing
full_name: Zhang, Jing
last_name: Zhang
citation:
ama: Li Y, Wang Y, Tan S, et al. Root growth adaptation is mediated by PYLs ABA
receptor-PP2A protein phosphatase complex. Advanced Science. 2020;7(3).
doi:10.1002/advs.201901455
apa: Li, Y., Wang, Y., Tan, S., Li, Z., Yuan, Z., Glanc, M., … Zhang, J. (2020).
Root growth adaptation is mediated by PYLs ABA receptor-PP2A protein phosphatase
complex. Advanced Science. Wiley. https://doi.org/10.1002/advs.201901455
chicago: Li, Yang, Yaping Wang, Shutang Tan, Zhen Li, Zhi Yuan, Matous Glanc, David
Domjan, et al. “Root Growth Adaptation Is Mediated by PYLs ABA Receptor-PP2A Protein
Phosphatase Complex.” Advanced Science. Wiley, 2020. https://doi.org/10.1002/advs.201901455.
ieee: Y. Li et al., “Root growth adaptation is mediated by PYLs ABA receptor-PP2A
protein phosphatase complex,” Advanced Science, vol. 7, no. 3. Wiley, 2020.
ista: Li Y, Wang Y, Tan S, Li Z, Yuan Z, Glanc M, Domjan D, Wang K, Xuan W, Guo
Y, Gong Z, Friml J, Zhang J. 2020. Root growth adaptation is mediated by PYLs
ABA receptor-PP2A protein phosphatase complex. Advanced Science. 7(3), 1901455.
mla: Li, Yang, et al. “Root Growth Adaptation Is Mediated by PYLs ABA Receptor-PP2A
Protein Phosphatase Complex.” Advanced Science, vol. 7, no. 3, 1901455,
Wiley, 2020, doi:10.1002/advs.201901455.
short: Y. Li, Y. Wang, S. Tan, Z. Li, Z. Yuan, M. Glanc, D. Domjan, K. Wang, W.
Xuan, Y. Guo, Z. Gong, J. Friml, J. Zhang, Advanced Science 7 (2020).
date_created: 2019-12-22T23:00:43Z
date_published: 2020-02-05T00:00:00Z
date_updated: 2023-08-17T14:13:17Z
day: '05'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1002/advs.201901455
external_id:
isi:
- '000501912800001'
pmid:
- '32042554'
file:
- access_level: open_access
checksum: 016eeab5860860af038e2da95ffe75c3
content_type: application/pdf
creator: dernst
date_created: 2020-02-24T14:29:54Z
date_updated: 2020-07-14T12:47:53Z
file_id: '7519'
file_name: 2020_AdvScience_Li.pdf
file_size: 3586924
relation: main_file
file_date_updated: 2020-07-14T12:47:53Z
has_accepted_license: '1'
intvolume: ' 7'
isi: 1
issue: '3'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
publication: Advanced Science
publication_identifier:
eissn:
- 2198-3844
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Root growth adaptation is mediated by PYLs ABA receptor-PP2A protein phosphatase
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: 7
year: '2020'
...
---
_id: '7166'
abstract:
- lang: eng
text: In the living cell, we encounter a large variety of motile processes such
as organelle transport and cytoskeleton remodeling. These processes are driven
by motor proteins that generate force by transducing chemical free energy into
mechanical work. In many cases, the molecular motors work in teams to collectively
generate larger forces. Recent optical trapping experiments on small teams of
cytoskeletal motors indicated that the collectively generated force increases
with the size of the motor team but that this increase depends on the motor type
and on whether the motors are studied in vitro or in vivo. Here, we use the theory
of stochastic processes to describe the motion of N motors in a stationary optical
trap and to compute the N-dependence of the collectively generated forces. We
consider six distinct motor types, two kinesins, two dyneins, and two myosins.
We show that the force increases always linearly with N but with a prefactor that
depends on the performance of the single motor. Surprisingly, this prefactor increases
for weaker motors with a lower stall force. This counter-intuitive behavior reflects
the increased probability with which stronger motors detach from the filament
during strain generation. Our theoretical results are in quantitative agreement
with experimental data on small teams of kinesin-1 motors.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Mehmet C
full_name: Ucar, Mehmet C
id: 50B2A802-6007-11E9-A42B-EB23E6697425
last_name: Ucar
orcid: 0000-0003-0506-4217
- first_name: Reinhard
full_name: Lipowsky, Reinhard
last_name: Lipowsky
citation:
ama: Ucar MC, Lipowsky R. Collective force generation by molecular motors is determined
by strain-induced unbinding. Nano Letters. 2020;20(1):669-676. doi:10.1021/acs.nanolett.9b04445
apa: Ucar, M. C., & Lipowsky, R. (2020). Collective force generation by molecular
motors is determined by strain-induced unbinding. Nano Letters. American
Chemical Society. https://doi.org/10.1021/acs.nanolett.9b04445
chicago: Ucar, Mehmet C, and Reinhard Lipowsky. “Collective Force Generation by
Molecular Motors Is Determined by Strain-Induced Unbinding.” Nano Letters.
American Chemical Society, 2020. https://doi.org/10.1021/acs.nanolett.9b04445.
ieee: M. C. Ucar and R. Lipowsky, “Collective force generation by molecular motors
is determined by strain-induced unbinding,” Nano Letters, vol. 20, no.
1. American Chemical Society, pp. 669–676, 2020.
ista: Ucar MC, Lipowsky R. 2020. Collective force generation by molecular motors
is determined by strain-induced unbinding. Nano Letters. 20(1), 669–676.
mla: Ucar, Mehmet C., and Reinhard Lipowsky. “Collective Force Generation by Molecular
Motors Is Determined by Strain-Induced Unbinding.” Nano Letters, vol. 20,
no. 1, American Chemical Society, 2020, pp. 669–76, doi:10.1021/acs.nanolett.9b04445.
short: M.C. Ucar, R. Lipowsky, Nano Letters 20 (2020) 669–676.
date_created: 2019-12-10T15:36:05Z
date_published: 2020-01-08T00:00:00Z
date_updated: 2023-08-17T14:07:52Z
day: '08'
department:
- _id: EdHa
doi: 10.1021/acs.nanolett.9b04445
external_id:
isi:
- '000507151600087'
pmid:
- '31797672'
intvolume: ' 20'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1021/acs.nanolett.9b04445
month: '01'
oa: 1
oa_version: Published Version
page: 669-676
pmid: 1
publication: Nano Letters
publication_identifier:
eissn:
- 1530-6992
issn:
- 1530-6984
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
related_material:
record:
- id: '9726'
relation: research_data
status: public
- id: '9885'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Collective force generation by molecular motors is determined by strain-induced
unbinding
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 20
year: '2020'
...
---
_id: '7234'
abstract:
- lang: eng
text: T lymphocytes utilize amoeboid migration to navigate effectively within complex
microenvironments. The precise rearrangement of the actin cytoskeleton required
for cellular forward propulsion is mediated by actin regulators, including the
actin‐related protein 2/3 (Arp2/3) complex, a macromolecular machine that nucleates
branched actin filaments at the leading edge. The consequences of modulating Arp2/3
activity on the biophysical properties of the actomyosin cortex and downstream
T cell function are incompletely understood. We report that even a moderate decrease
of Arp3 levels in T cells profoundly affects actin cortex integrity. Reduction
in total F‐actin content leads to reduced cortical tension and disrupted lamellipodia
formation. Instead, in Arp3‐knockdown cells, the motility mode is dominated by
blebbing migration characterized by transient, balloon‐like protrusions at the
leading edge. Although this migration mode seems to be compatible with interstitial
migration in three‐dimensional environments, diminished locomotion kinetics and
impaired cytotoxicity interfere with optimal T cell function. These findings define
the importance of finely tuned, Arp2/3‐dependent mechanophysical membrane integrity
in cytotoxic effector T lymphocyte activities.
article_processing_charge: No
article_type: original
author:
- first_name: Peyman
full_name: Obeidy, Peyman
last_name: Obeidy
- first_name: Lining A.
full_name: Ju, Lining A.
last_name: Ju
- first_name: Stefan H.
full_name: Oehlers, Stefan H.
last_name: Oehlers
- first_name: Nursafwana S.
full_name: Zulkhernain, Nursafwana S.
last_name: Zulkhernain
- first_name: Quintin
full_name: Lee, Quintin
last_name: Lee
- first_name: Jorge L.
full_name: Galeano Niño, Jorge L.
last_name: Galeano Niño
- first_name: Rain Y.Q.
full_name: Kwan, Rain Y.Q.
last_name: Kwan
- first_name: Shweta
full_name: Tikoo, Shweta
last_name: Tikoo
- first_name: Lois L.
full_name: Cavanagh, Lois L.
last_name: Cavanagh
- first_name: Paulus
full_name: Mrass, Paulus
last_name: Mrass
- first_name: Adam J.L.
full_name: Cook, Adam J.L.
last_name: Cook
- first_name: Shaun P.
full_name: Jackson, Shaun P.
last_name: Jackson
- first_name: Maté
full_name: Biro, Maté
last_name: Biro
- first_name: Ben
full_name: Roediger, Ben
last_name: Roediger
- 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: Wolfgang
full_name: Weninger, Wolfgang
last_name: Weninger
citation:
ama: Obeidy P, Ju LA, Oehlers SH, et al. Partial loss of actin nucleator actin-related
protein 2/3 activity triggers blebbing in primary T lymphocytes. Immunology
and Cell Biology. 2020;98(2):93-113. doi:10.1111/imcb.12304
apa: Obeidy, P., Ju, L. A., Oehlers, S. H., Zulkhernain, N. S., Lee, Q., Galeano
Niño, J. L., … Weninger, W. (2020). Partial loss of actin nucleator actin-related
protein 2/3 activity triggers blebbing in primary T lymphocytes. Immunology
and Cell Biology. Wiley. https://doi.org/10.1111/imcb.12304
chicago: Obeidy, Peyman, Lining A. Ju, Stefan H. Oehlers, Nursafwana S. Zulkhernain,
Quintin Lee, Jorge L. Galeano Niño, Rain Y.Q. Kwan, et al. “Partial Loss of Actin
Nucleator Actin-Related Protein 2/3 Activity Triggers Blebbing in Primary T Lymphocytes.”
Immunology and Cell Biology. Wiley, 2020. https://doi.org/10.1111/imcb.12304.
ieee: P. Obeidy et al., “Partial loss of actin nucleator actin-related protein
2/3 activity triggers blebbing in primary T lymphocytes,” Immunology and Cell
Biology, vol. 98, no. 2. Wiley, pp. 93–113, 2020.
ista: Obeidy P, Ju LA, Oehlers SH, Zulkhernain NS, Lee Q, Galeano Niño JL, Kwan
RYQ, Tikoo S, Cavanagh LL, Mrass P, Cook AJL, Jackson SP, Biro M, Roediger B,
Sixt MK, Weninger W. 2020. Partial loss of actin nucleator actin-related protein
2/3 activity triggers blebbing in primary T lymphocytes. Immunology and Cell Biology.
98(2), 93–113.
mla: Obeidy, Peyman, et al. “Partial Loss of Actin Nucleator Actin-Related Protein
2/3 Activity Triggers Blebbing in Primary T Lymphocytes.” Immunology and Cell
Biology, vol. 98, no. 2, Wiley, 2020, pp. 93–113, doi:10.1111/imcb.12304.
short: P. Obeidy, L.A. Ju, S.H. Oehlers, N.S. Zulkhernain, Q. Lee, J.L. Galeano
Niño, R.Y.Q. Kwan, S. Tikoo, L.L. Cavanagh, P. Mrass, A.J.L. Cook, S.P. Jackson,
M. Biro, B. Roediger, M.K. Sixt, W. Weninger, Immunology and Cell Biology 98 (2020)
93–113.
date_created: 2020-01-05T23:00:48Z
date_published: 2020-02-01T00:00:00Z
date_updated: 2023-08-17T14:21:12Z
day: '01'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.1111/imcb.12304
external_id:
isi:
- '000503885600001'
pmid:
- '31698518'
file:
- access_level: open_access
checksum: c389477b4b52172ef76afff8a06c6775
content_type: application/pdf
creator: dernst
date_created: 2020-11-19T11:22:33Z
date_updated: 2020-11-19T11:22:33Z
file_id: '8775'
file_name: 2020_ImmunologyCellBio_Obeidy.pdf
file_size: 8569945
relation: main_file
success: 1
file_date_updated: 2020-11-19T11:22:33Z
has_accepted_license: '1'
intvolume: ' 98'
isi: 1
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 93-113
pmid: 1
publication: Immunology and Cell Biology
publication_identifier:
eissn:
- '14401711'
issn:
- '08189641'
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Partial loss of actin nucleator actin-related protein 2/3 activity triggers
blebbing in primary T lymphocytes
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: 98
year: '2020'
...
---
_id: '7253'
abstract:
- lang: eng
text: The cyclin-dependent kinase inhibitor p57KIP2 is encoded by the imprinted
Cdkn1c locus, exhibits maternal expression, and is essential for cerebral cortex
development. How Cdkn1c regulates corticogenesis is however not clear. To this
end we employ Mosaic Analysis with Double Markers (MADM) technology to genetically
dissect Cdkn1c gene function in corticogenesis at single cell resolution. We find
that the previously described growth-inhibitory Cdkn1c function is a non-cell-autonomous
one, acting on the whole organism. In contrast we reveal a growth-promoting cell-autonomous
Cdkn1c function which at the mechanistic level mediates radial glial progenitor
cell and nascent projection neuron survival. Strikingly, the growth-promoting
function of Cdkn1c is highly dosage sensitive but not subject to genomic imprinting.
Collectively, our results suggest that the Cdkn1c locus regulates cortical development
through distinct cell-autonomous and non-cell-autonomous mechanisms. More generally,
our study highlights the importance to probe the relative contributions of cell
intrinsic gene function and tissue-wide mechanisms to the overall phenotype.
acknowledged_ssus:
- _id: PreCl
article_number: '195'
article_processing_charge: No
article_type: original
author:
- first_name: Susanne
full_name: Laukoter, Susanne
id: 2D6B7A9A-F248-11E8-B48F-1D18A9856A87
last_name: Laukoter
orcid: 0000-0002-7903-3010
- first_name: Robert J
full_name: Beattie, Robert J
id: 2E26DF60-F248-11E8-B48F-1D18A9856A87
last_name: Beattie
orcid: 0000-0002-8483-8753
- first_name: Florian
full_name: Pauler, Florian
id: 48EA0138-F248-11E8-B48F-1D18A9856A87
last_name: Pauler
orcid: 0000-0002-7462-0048
- first_name: Nicole
full_name: Amberg, Nicole
id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87
last_name: Amberg
orcid: 0000-0002-3183-8207
- first_name: Keiichi I.
full_name: Nakayama, Keiichi I.
last_name: Nakayama
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
citation:
ama: Laukoter S, Beattie RJ, Pauler F, Amberg N, Nakayama KI, Hippenmeyer S. Imprinted
Cdkn1c genomic locus cell-autonomously promotes cell survival in cerebral cortex
development. Nature Communications. 2020;11. doi:10.1038/s41467-019-14077-2
apa: Laukoter, S., Beattie, R. J., Pauler, F., Amberg, N., Nakayama, K. I., &
Hippenmeyer, S. (2020). Imprinted Cdkn1c genomic locus cell-autonomously promotes
cell survival in cerebral cortex development. Nature Communications. Springer
Nature. https://doi.org/10.1038/s41467-019-14077-2
chicago: Laukoter, Susanne, Robert J Beattie, Florian Pauler, Nicole Amberg, Keiichi
I. Nakayama, and Simon Hippenmeyer. “Imprinted Cdkn1c Genomic Locus Cell-Autonomously
Promotes Cell Survival in Cerebral Cortex Development.” Nature Communications.
Springer Nature, 2020. https://doi.org/10.1038/s41467-019-14077-2.
ieee: S. Laukoter, R. J. Beattie, F. Pauler, N. Amberg, K. I. Nakayama, and S. Hippenmeyer,
“Imprinted Cdkn1c genomic locus cell-autonomously promotes cell survival in cerebral
cortex development,” Nature Communications, vol. 11. Springer Nature, 2020.
ista: Laukoter S, Beattie RJ, Pauler F, Amberg N, Nakayama KI, Hippenmeyer S. 2020.
Imprinted Cdkn1c genomic locus cell-autonomously promotes cell survival in cerebral
cortex development. Nature Communications. 11, 195.
mla: Laukoter, Susanne, et al. “Imprinted Cdkn1c Genomic Locus Cell-Autonomously
Promotes Cell Survival in Cerebral Cortex Development.” Nature Communications,
vol. 11, 195, Springer Nature, 2020, doi:10.1038/s41467-019-14077-2.
short: S. Laukoter, R.J. Beattie, F. Pauler, N. Amberg, K.I. Nakayama, S. Hippenmeyer,
Nature Communications 11 (2020).
date_created: 2020-01-11T10:42:48Z
date_published: 2020-01-10T00:00:00Z
date_updated: 2023-08-17T14:23:41Z
day: '10'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.1038/s41467-019-14077-2
ec_funded: 1
external_id:
isi:
- '000551459000005'
file:
- access_level: open_access
checksum: ebf1ed522f4e0be8d94c939c1806a709
content_type: application/pdf
creator: dernst
date_created: 2020-01-13T07:42:31Z
date_updated: 2020-07-14T12:47:54Z
file_id: '7261'
file_name: 2020_NatureComm_Laukoter.pdf
file_size: 8063333
relation: main_file
file_date_updated: 2020-07-14T12:47:54Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 268F8446-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: T0101031
name: Role of Eed in neural stem cell lineage progression
- _id: 264E56E2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02416
name: Molecular Mechanisms Regulating Gliogenesis in the Cerebral Cortex
- _id: 260018B0-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '725780'
name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
- _id: 25D92700-B435-11E9-9278-68D0E5697425
grant_number: LS13-002
name: Mapping Cell-Type Specificity of the Genomic Imprintome in the Brain
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/new-function-for-potential-tumour-suppressor-in-brain-development/
scopus_import: '1'
status: public
title: Imprinted Cdkn1c genomic locus cell-autonomously promotes cell survival in
cerebral cortex 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: 11
year: '2020'
...
---
_id: '7339'
abstract:
- lang: eng
text: Cytoskeletal filaments such as microtubules (MTs) and filamentous actin (F-actin)
dynamically support cell structure and functions. In central presynaptic terminals,
F-actin is expressed along the release edge and reportedly plays diverse functional
roles, but whether axonal MTs extend deep into terminals and play any physiological
role remains controversial. At the calyx of Held in rats of either sex, confocal
and high-resolution microscopy revealed that MTs enter deep into presynaptic terminal
swellings and partially colocalize with a subset of synaptic vesicles (SVs). Electrophysiological
analysis demonstrated that depolymerization of MTs specifically prolonged the
slow-recovery time component of EPSCs from short-term depression induced by a
train of high-frequency stimulation, whereas depolymerization of F-actin specifically
prolonged the fast-recovery component. In simultaneous presynaptic and postsynaptic
action potential recordings, depolymerization of MTs or F-actin significantly
impaired the fidelity of high-frequency neurotransmission. We conclude that MTs
and F-actin differentially contribute to slow and fast SV replenishment, thereby
maintaining high-frequency neurotransmission.
article_processing_charge: No
article_type: original
author:
- first_name: Lashmi
full_name: Piriya Ananda Babu, Lashmi
last_name: Piriya Ananda Babu
- 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: Laurent
full_name: Guillaud, Laurent
last_name: Guillaud
- first_name: Tomoyuki
full_name: Takahashi, Tomoyuki
last_name: Takahashi
citation:
ama: Piriya Ananda Babu L, Wang HY, Eguchi K, Guillaud L, Takahashi T. Microtubule
and actin differentially regulate synaptic vesicle cycling to maintain high-frequency
neurotransmission. Journal of neuroscience. 2020;40(1):131-142. doi:10.1523/JNEUROSCI.1571-19.2019
apa: Piriya Ananda Babu, L., Wang, H. Y., Eguchi, K., Guillaud, L., & Takahashi,
T. (2020). Microtubule and actin differentially regulate synaptic vesicle cycling
to maintain high-frequency neurotransmission. Journal of Neuroscience.
Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.1571-19.2019
chicago: Piriya Ananda Babu, Lashmi, Han Ying Wang, Kohgaku Eguchi, Laurent Guillaud,
and Tomoyuki Takahashi. “Microtubule and Actin Differentially Regulate Synaptic
Vesicle Cycling to Maintain High-Frequency Neurotransmission.” Journal of Neuroscience.
Society for Neuroscience, 2020. https://doi.org/10.1523/JNEUROSCI.1571-19.2019.
ieee: L. Piriya Ananda Babu, H. Y. Wang, K. Eguchi, L. Guillaud, and T. Takahashi,
“Microtubule and actin differentially regulate synaptic vesicle cycling to maintain
high-frequency neurotransmission,” Journal of neuroscience, vol. 40, no.
1. Society for Neuroscience, pp. 131–142, 2020.
ista: Piriya Ananda Babu L, Wang HY, Eguchi K, Guillaud L, Takahashi T. 2020. Microtubule
and actin differentially regulate synaptic vesicle cycling to maintain high-frequency
neurotransmission. Journal of neuroscience. 40(1), 131–142.
mla: Piriya Ananda Babu, Lashmi, et al. “Microtubule and Actin Differentially Regulate
Synaptic Vesicle Cycling to Maintain High-Frequency Neurotransmission.” Journal
of Neuroscience, vol. 40, no. 1, Society for Neuroscience, 2020, pp. 131–42,
doi:10.1523/JNEUROSCI.1571-19.2019.
short: L. Piriya Ananda Babu, H.Y. Wang, K. Eguchi, L. Guillaud, T. Takahashi, Journal
of Neuroscience 40 (2020) 131–142.
date_created: 2020-01-19T23:00:38Z
date_published: 2020-01-02T00:00:00Z
date_updated: 2023-08-17T14:25:23Z
day: '02'
ddc:
- '570'
department:
- _id: RySh
doi: 10.1523/JNEUROSCI.1571-19.2019
external_id:
isi:
- '000505167600013'
pmid:
- '31767677'
file:
- access_level: open_access
checksum: 92f5e8a47f454fc131fb94cd7f106e60
content_type: application/pdf
creator: dernst
date_created: 2020-01-20T14:44:10Z
date_updated: 2020-07-14T12:47:56Z
file_id: '7345'
file_name: 2020_JourNeuroscience_Piriya.pdf
file_size: 4460781
relation: main_file
file_date_updated: 2020-07-14T12:47:56Z
has_accepted_license: '1'
intvolume: ' 40'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 131-142
pmid: 1
publication: Journal of neuroscience
publication_identifier:
eissn:
- '15292401'
publication_status: published
publisher: Society for Neuroscience
quality_controlled: '1'
scopus_import: '1'
status: public
title: Microtubule and actin differentially regulate synaptic vesicle cycling to maintain
high-frequency neurotransmission
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: '7350'
abstract:
- lang: eng
text: The ability to sense environmental temperature and to coordinate growth and
development accordingly, is critical to the reproductive success of plants. Flowering
time is regulated at the level of gene expression by a complex network of factors
that integrate environmental and developmental cues. One of the main players,
involved in modulating flowering time in response to changes in ambient temperature
is FLOWERING LOCUS M (FLM). FLM transcripts can undergo extensive alternative
splicing producing multiple variants, of which FLM-β and FLM-δ are the most representative.
While FLM-β codes for the flowering repressor FLM protein, translation of FLM-δ
has the opposite effect on flowering. Here we show that the cyclin-dependent kinase
G2 (CDKG2), together with its cognate cyclin, CYCLYN L1 (CYCL1) affects the alternative
splicing of FLM, balancing the levels of FLM-β and FLM-δ across the ambient temperature
range. In the absence of the CDKG2/CYCL1 complex, FLM-β expression is reduced
while FLM-δ is increased in a temperature dependent manner and these changes are
associated with an early flowering phenotype in the cdkg2 mutant lines. In addition,
we found that transcript variants retaining the full FLM intron 1 are sequestered
in the cell nucleus. Strikingly, FLM intron 1 splicing is also regulated by CDKG2/CYCL1.
Our results provide evidence that temperature and CDKs regulate the alternative
splicing of FLM, contributing to flowering time definition.
article_number: '1680'
article_processing_charge: No
article_type: original
author:
- first_name: Candida
full_name: Nibau, Candida
last_name: Nibau
- first_name: Marçal
full_name: Gallemi, Marçal
id: 460C6802-F248-11E8-B48F-1D18A9856A87
last_name: Gallemi
orcid: 0000-0003-4675-6893
- first_name: Despoina
full_name: Dadarou, Despoina
last_name: Dadarou
- first_name: John H.
full_name: Doonan, John H.
last_name: Doonan
- first_name: Nicola
full_name: Cavallari, Nicola
id: 457160E6-F248-11E8-B48F-1D18A9856A87
last_name: Cavallari
citation:
ama: Nibau C, Gallemi M, Dadarou D, Doonan JH, Cavallari N. Thermo-sensitive alternative
splicing of FLOWERING LOCUS M is modulated by cyclin-dependent kinase G2. Frontiers
in Plant Science. 2020;10. doi:10.3389/fpls.2019.01680
apa: Nibau, C., Gallemi, M., Dadarou, D., Doonan, J. H., & Cavallari, N. (2020).
Thermo-sensitive alternative splicing of FLOWERING LOCUS M is modulated by cyclin-dependent
kinase G2. Frontiers in Plant Science. Frontiers Media. https://doi.org/10.3389/fpls.2019.01680
chicago: Nibau, Candida, Marçal Gallemi, Despoina Dadarou, John H. Doonan, and Nicola
Cavallari. “Thermo-Sensitive Alternative Splicing of FLOWERING LOCUS M Is Modulated
by Cyclin-Dependent Kinase G2.” Frontiers in Plant Science. Frontiers Media,
2020. https://doi.org/10.3389/fpls.2019.01680.
ieee: C. Nibau, M. Gallemi, D. Dadarou, J. H. Doonan, and N. Cavallari, “Thermo-sensitive
alternative splicing of FLOWERING LOCUS M is modulated by cyclin-dependent kinase
G2,” Frontiers in Plant Science, vol. 10. Frontiers Media, 2020.
ista: Nibau C, Gallemi M, Dadarou D, Doonan JH, Cavallari N. 2020. Thermo-sensitive
alternative splicing of FLOWERING LOCUS M is modulated by cyclin-dependent kinase
G2. Frontiers in Plant Science. 10, 1680.
mla: Nibau, Candida, et al. “Thermo-Sensitive Alternative Splicing of FLOWERING
LOCUS M Is Modulated by Cyclin-Dependent Kinase G2.” Frontiers in Plant Science,
vol. 10, 1680, Frontiers Media, 2020, doi:10.3389/fpls.2019.01680.
short: C. Nibau, M. Gallemi, D. Dadarou, J.H. Doonan, N. Cavallari, Frontiers in
Plant Science 10 (2020).
date_created: 2020-01-22T15:23:57Z
date_published: 2020-01-22T00:00:00Z
date_updated: 2023-08-17T14:21:45Z
day: '22'
ddc:
- '580'
department:
- _id: EvBe
doi: 10.3389/fpls.2019.01680
external_id:
isi:
- '000511376000001'
file:
- access_level: open_access
checksum: d1f92e60a713fbd15097ce895e5c7ccb
content_type: application/pdf
creator: dernst
date_created: 2020-01-27T09:07:02Z
date_updated: 2020-07-14T12:47:56Z
file_id: '7366'
file_name: 2020_FrontiersPlantScience_Nibau.pdf
file_size: 1951438
relation: main_file
file_date_updated: 2020-07-14T12:47:56Z
has_accepted_license: '1'
intvolume: ' 10'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: Frontiers in Plant Science
publication_identifier:
issn:
- 1664-462X
publication_status: published
publisher: Frontiers Media
quality_controlled: '1'
scopus_import: '1'
status: public
title: Thermo-sensitive alternative splicing of FLOWERING LOCUS M is modulated by
cyclin-dependent kinase G2
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'
...