---
_id: '5828'
abstract:
- lang: eng
text: Hippocampus is needed for both spatial working and reference memories. Here,
using a radial eight-arm maze, we examined how the combined demand on these memories
influenced CA1 place cell assemblies while reference memories were partially updated.
This was contrasted with control tasks requiring only working memory or the update
of reference memory. Reference memory update led to the reward-directed place
field shifts at newly rewarded arms and to the gradual strengthening of firing
in passes between newly rewarded arms but not between those passes that included
a familiar-rewarded arm. At the maze center, transient network synchronization
periods preferentially replayed trajectories of the next chosen arm in reference
memory tasks but the previously visited arm in the working memory task. Hence,
reference memory demand was uniquely associated with a gradual, goal novelty-related
reorganization of place cell assemblies and with trajectory replay that reflected
the animal's decision of which arm to visit next.
article_processing_charge: No
article_type: original
author:
- first_name: Haibing
full_name: Xu, Haibing
id: 310349D0-F248-11E8-B48F-1D18A9856A87
last_name: Xu
- first_name: Peter
full_name: Baracskay, Peter
id: 361CC00E-F248-11E8-B48F-1D18A9856A87
last_name: Baracskay
- 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: Xu H, Baracskay P, O’Neill J, Csicsvari JL. Assembly responses of hippocampal
CA1 place cells predict learned behavior in goal-directed spatial tasks on the
radial eight-arm maze. Neuron. 2019;101(1):119-132.e4. doi:10.1016/j.neuron.2018.11.015
apa: Xu, H., Baracskay, P., O’Neill, J., & Csicsvari, J. L. (2019). Assembly
responses of hippocampal CA1 place cells predict learned behavior in goal-directed
spatial tasks on the radial eight-arm maze. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2018.11.015
chicago: Xu, Haibing, Peter Baracskay, Joseph O’Neill, and Jozsef L Csicsvari. “Assembly
Responses of Hippocampal CA1 Place Cells Predict Learned Behavior in Goal-Directed
Spatial Tasks on the Radial Eight-Arm Maze.” Neuron. Elsevier, 2019. https://doi.org/10.1016/j.neuron.2018.11.015.
ieee: H. Xu, P. Baracskay, J. O’Neill, and J. L. Csicsvari, “Assembly responses
of hippocampal CA1 place cells predict learned behavior in goal-directed spatial
tasks on the radial eight-arm maze,” Neuron, vol. 101, no. 1. Elsevier,
p. 119–132.e4, 2019.
ista: Xu H, Baracskay P, O’Neill J, Csicsvari JL. 2019. Assembly responses of hippocampal
CA1 place cells predict learned behavior in goal-directed spatial tasks on the
radial eight-arm maze. Neuron. 101(1), 119–132.e4.
mla: Xu, Haibing, et al. “Assembly Responses of Hippocampal CA1 Place Cells Predict
Learned Behavior in Goal-Directed Spatial Tasks on the Radial Eight-Arm Maze.”
Neuron, vol. 101, no. 1, Elsevier, 2019, p. 119–132.e4, doi:10.1016/j.neuron.2018.11.015.
short: H. Xu, P. Baracskay, J. O’Neill, J.L. Csicsvari, Neuron 101 (2019) 119–132.e4.
date_created: 2019-01-13T22:59:10Z
date_published: 2019-01-02T00:00:00Z
date_updated: 2023-09-07T12:06:37Z
day: '02'
department:
- _id: JoCs
doi: 10.1016/j.neuron.2018.11.015
ec_funded: 1
external_id:
isi:
- '000454791500014'
intvolume: ' 101'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.doi.org/10.1016/j.neuron.2018.11.015
month: '01'
oa: 1
oa_version: Published Version
page: 119-132.e4
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:
issn:
- '10974199'
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/reading-rats-minds/
record:
- id: '837'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Assembly responses of hippocampal CA1 place cells predict learned behavior
in goal-directed spatial tasks on the radial eight-arm maze
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 101
year: '2019'
...
---
_id: '5856'
abstract:
- lang: eng
text: We give a bound on the ground-state energy of a system of N non-interacting
fermions in a three-dimensional cubic box interacting with an impurity particle
via point interactions. We show that the change in energy compared to the system
in the absence of the impurity is bounded in terms of the gas density and the
scattering length of the interaction, independently of N. Our bound holds as long
as the ratio of the mass of the impurity to the one of the gas particles is larger
than a critical value m∗ ∗≈ 0.36 , which is the same regime for which we recently
showed stability of the system.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Thomas
full_name: Moser, Thomas
id: 2B5FC9A4-F248-11E8-B48F-1D18A9856A87
last_name: Moser
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Moser T, Seiringer R. Energy contribution of a point-interacting impurity in
a Fermi gas. Annales Henri Poincare. 2019;20(4):1325–1365. doi:10.1007/s00023-018-00757-0
apa: Moser, T., & Seiringer, R. (2019). Energy contribution of a point-interacting
impurity in a Fermi gas. Annales Henri Poincare. Springer. https://doi.org/10.1007/s00023-018-00757-0
chicago: Moser, Thomas, and Robert Seiringer. “Energy Contribution of a Point-Interacting
Impurity in a Fermi Gas.” Annales Henri Poincare. Springer, 2019. https://doi.org/10.1007/s00023-018-00757-0.
ieee: T. Moser and R. Seiringer, “Energy contribution of a point-interacting impurity
in a Fermi gas,” Annales Henri Poincare, vol. 20, no. 4. Springer, pp.
1325–1365, 2019.
ista: Moser T, Seiringer R. 2019. Energy contribution of a point-interacting impurity
in a Fermi gas. Annales Henri Poincare. 20(4), 1325–1365.
mla: Moser, Thomas, and Robert Seiringer. “Energy Contribution of a Point-Interacting
Impurity in a Fermi Gas.” Annales Henri Poincare, vol. 20, no. 4, Springer,
2019, pp. 1325–1365, doi:10.1007/s00023-018-00757-0.
short: T. Moser, R. Seiringer, Annales Henri Poincare 20 (2019) 1325–1365.
date_created: 2019-01-20T22:59:17Z
date_published: 2019-04-01T00:00:00Z
date_updated: 2023-09-07T12:37:42Z
day: '01'
ddc:
- '530'
department:
- _id: RoSe
doi: 10.1007/s00023-018-00757-0
ec_funded: 1
external_id:
arxiv:
- '1807.00739'
isi:
- '000462444300008'
file:
- access_level: open_access
checksum: 255e42f957a8e2b10aad2499c750a8d6
content_type: application/pdf
creator: dernst
date_created: 2019-01-28T15:27:17Z
date_updated: 2020-07-14T12:47:12Z
file_id: '5894'
file_name: 2019_Annales_Moser.pdf
file_size: 859846
relation: main_file
file_date_updated: 2020-07-14T12:47:12Z
has_accepted_license: '1'
intvolume: ' 20'
isi: 1
issue: '4'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '04'
oa: 1
oa_version: Published Version
page: 1325–1365
project:
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
- _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: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Annales Henri Poincare
publication_identifier:
issn:
- '14240637'
publication_status: published
publisher: Springer
quality_controlled: '1'
related_material:
record:
- id: '52'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Energy contribution of a point-interacting impurity in a Fermi gas
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 20
year: '2019'
...
---
_id: '6957'
abstract:
- lang: eng
text: "In many shear flows like pipe flow, plane Couette flow, plane Poiseuille
flow, etc. turbulence emerges subcritically. Here, when subjected to strong enough
perturbations, the flow becomes turbulent in spite of the laminar base flow being
linearly stable. The nature of this instability has puzzled the scientific community
for decades. At onset, turbulence appears in localized patches and flows are spatio-temporally
intermittent. In pipe flow the localized turbulent structures are referred to
as puffs and in planar flows like plane Couette and channel flow, patches arise
in the form of localized oblique bands. In this thesis, we study the onset of
turbulence in channel flow in direct numerical simulations from a dynamical system
theory perspective, as well as by performing experiments in a large aspect ratio
channel.\r\n\r\nThe aim of the experimental work is to determine the critical
Reynolds number where turbulence first becomes sustained. Recently, the onset
of turbulence has been described in analogy to absorbing state phase transition
(i.e. directed percolation). In particular, it has been shown that the critical
point can be estimated from the competition between spreading and decay processes.
Here, by performing experiments, we identify the mechanisms underlying turbulence
proliferation in channel flow and find the critical Reynolds number, above which
turbulence becomes sustained. Above the critical point, the continuous growth
at the tip of the stripes outweighs the stochastic shedding of turbulent patches
at the tail and the stripes expand. For growing stripes, the probability to decay
decreases while the probability of stripe splitting increases. Consequently, and
unlike for the puffs in pipe flow, neither of these two processes is time-independent
i.e. memoryless. Coupling between stripe expansion and creation of new stripes
via splitting leads to a significantly lower critical point ($Re_c=670+/-10$)
than most earlier studies suggest. \r\n\r\nWhile the above approach sheds light
on how turbulence first becomes sustained, it provides no insight into the origin
of the stripes themselves. In the numerical part of the thesis we investigate
how turbulent stripes form from invariant solutions of the Navier-Stokes equations.
The origin of these turbulent stripes can be identified by applying concepts from
the dynamical system theory. In doing so, we identify the exact coherent structures
underlying stripes and their bifurcations and how they give rise to the turbulent
attractor in phase space. We first report a family of localized nonlinear traveling
wave solutions of the Navier-Stokes equations in channel flow. These solutions
show structural similarities with turbulent stripes in experiments like obliqueness,
quasi-streamwise streaks and vortices, etc. A parametric study of these traveling
wave solution is performed, with parameters like Reynolds number, stripe tilt
angle and domain size, including the stability of the solutions. These solutions
emerge through saddle-node bifurcations and form a phase space skeleton for the
turbulent stripes observed in the experiments. The lower branches of these TW
solutions at different tilt angles undergo Hopf bifurcation and new solutions
branches of relative periodic orbits emerge. These RPO solutions do not belong
to the same family and therefore the routes to chaos for different angles are
different. \r\n\r\nIn shear flows, turbulence at onset is transient in nature.
\ Consequently,turbulence can not be tracked to lower Reynolds numbers, where
the dynamics may simplify. Before this happens, turbulence becomes short-lived
and laminarizes. In the last part of the thesis, we show that using numerical
simulations we can continue turbulent stripes in channel flow past the 'relaminarization
barrier' all the way to their origin. Here, turbulent stripe dynamics simplifies
and the fluctuations are no longer stochastic and the stripe settles down to a
relative periodic orbit. This relative periodic orbit originates from the aforementioned
traveling wave solutions. Starting from the relative periodic orbit, a small increase
in speed i.e. Reynolds number gives rise to chaos and the attractor dimension
sharply increases in contrast to the classical transition scenario where the instabilities
affect the flow globally and give rise to much more gradual route to turbulence."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Chaitanya S
full_name: Paranjape, Chaitanya S
id: 3D85B7C4-F248-11E8-B48F-1D18A9856A87
last_name: Paranjape
citation:
ama: Paranjape CS. Onset of turbulence in plane Poiseuille flow. 2019. doi:10.15479/AT:ISTA:6957
apa: Paranjape, C. S. (2019). Onset of turbulence in plane Poiseuille flow.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:6957
chicago: Paranjape, Chaitanya S. “Onset of Turbulence in Plane Poiseuille Flow.”
Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:6957.
ieee: C. S. Paranjape, “Onset of turbulence in plane Poiseuille flow,” Institute
of Science and Technology Austria, 2019.
ista: Paranjape CS. 2019. Onset of turbulence in plane Poiseuille flow. Institute
of Science and Technology Austria.
mla: Paranjape, Chaitanya S. Onset of Turbulence in Plane Poiseuille Flow.
Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:6957.
short: C.S. Paranjape, Onset of Turbulence in Plane Poiseuille Flow, Institute of
Science and Technology Austria, 2019.
date_created: 2019-10-22T12:08:43Z
date_published: 2019-10-24T00:00:00Z
date_updated: 2023-09-07T12:53:25Z
day: '24'
ddc:
- '532'
degree_awarded: PhD
department:
- _id: BjHo
doi: 10.15479/AT:ISTA:6957
file:
- access_level: closed
checksum: 7ba298ba0ce7e1d11691af6b8eaf0a0a
content_type: application/zip
creator: cparanjape
date_created: 2019-10-23T09:54:43Z
date_updated: 2020-07-14T12:47:46Z
file_id: '6962'
file_name: Chaitanya_Paranjape_source_files_tex_figures.zip
file_size: 45828099
relation: source_file
- access_level: open_access
checksum: 642697618314e31ac31392da7909c2d9
content_type: application/pdf
creator: cparanjape
date_created: 2019-10-23T10:37:09Z
date_updated: 2020-07-14T12:47:46Z
file_id: '6963'
file_name: Chaitanya_Paranjape_Thesis.pdf
file_size: 19504197
relation: main_file
file_date_updated: 2020-07-14T12:47:46Z
has_accepted_license: '1'
keyword:
- Instabilities
- Turbulence
- Nonlinear dynamics
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: '138'
publication_identifier:
eissn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
status: public
supervisor:
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
title: Onset of turbulence in plane Poiseuille flow
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '6182'
abstract:
- lang: eng
text: "We consider large random matrices with a general slowly decaying correlation
among its entries. We prove universality of the local eigenvalue statistics and
optimal local laws for the resolvent away from the spectral edges, generalizing
the recent result of Ajanki et al. [‘Stability of the matrix Dyson equation and
random matrices with correlations’, Probab. Theory Related Fields 173(1–2) (2019),
293–373] to allow slow correlation decay and arbitrary expectation. The main novel
tool is\r\na systematic diagrammatic control of a multivariate cumulant expansion."
article_number: e8
article_processing_charge: No
article_type: original
author:
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Torben H
full_name: Krüger, Torben H
id: 3020C786-F248-11E8-B48F-1D18A9856A87
last_name: Krüger
orcid: 0000-0002-4821-3297
- first_name: Dominik J
full_name: Schröder, Dominik J
id: 408ED176-F248-11E8-B48F-1D18A9856A87
last_name: Schröder
orcid: 0000-0002-2904-1856
citation:
ama: Erdös L, Krüger TH, Schröder DJ. Random matrices with slow correlation decay.
Forum of Mathematics, Sigma. 2019;7. doi:10.1017/fms.2019.2
apa: Erdös, L., Krüger, T. H., & Schröder, D. J. (2019). Random matrices with
slow correlation decay. Forum of Mathematics, Sigma. Cambridge University
Press. https://doi.org/10.1017/fms.2019.2
chicago: Erdös, László, Torben H Krüger, and Dominik J Schröder. “Random Matrices
with Slow Correlation Decay.” Forum of Mathematics, Sigma. Cambridge University
Press, 2019. https://doi.org/10.1017/fms.2019.2.
ieee: L. Erdös, T. H. Krüger, and D. J. Schröder, “Random matrices with slow correlation
decay,” Forum of Mathematics, Sigma, vol. 7. Cambridge University Press,
2019.
ista: Erdös L, Krüger TH, Schröder DJ. 2019. Random matrices with slow correlation
decay. Forum of Mathematics, Sigma. 7, e8.
mla: Erdös, László, et al. “Random Matrices with Slow Correlation Decay.” Forum
of Mathematics, Sigma, vol. 7, e8, Cambridge University Press, 2019, doi:10.1017/fms.2019.2.
short: L. Erdös, T.H. Krüger, D.J. Schröder, Forum of Mathematics, Sigma 7 (2019).
date_created: 2019-03-28T09:05:23Z
date_published: 2019-03-26T00:00:00Z
date_updated: 2023-09-07T12:54:12Z
day: '26'
ddc:
- '510'
department:
- _id: LaEr
doi: 10.1017/fms.2019.2
ec_funded: 1
external_id:
arxiv:
- '1705.10661'
isi:
- '000488847100001'
file:
- access_level: open_access
checksum: 933a472568221c73b2c3ce8c87bf6d15
content_type: application/pdf
creator: dernst
date_created: 2019-09-17T14:24:13Z
date_updated: 2020-07-14T12:47:22Z
file_id: '6883'
file_name: 2019_Forum_Erdoes.pdf
file_size: 1520344
relation: main_file
file_date_updated: 2020-07-14T12:47:22Z
has_accepted_license: '1'
intvolume: ' 7'
isi: 1
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication: Forum of Mathematics, Sigma
publication_identifier:
eissn:
- '20505094'
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
related_material:
record:
- id: '6179'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Random matrices with slow correlation decay
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: '2019'
...
---
_id: '6186'
abstract:
- lang: eng
text: "We prove that the local eigenvalue statistics of real symmetric Wigner-type\r\nmatrices
near the cusp points of the eigenvalue density are universal. Together\r\nwith
the companion paper [arXiv:1809.03971], which proves the same result for\r\nthe
complex Hermitian symmetry class, this completes the last remaining case of\r\nthe
Wigner-Dyson-Mehta universality conjecture after bulk and edge\r\nuniversalities
have been established in the last years. We extend the recent\r\nDyson Brownian
motion analysis at the edge [arXiv:1712.03881] to the cusp\r\nregime using the
optimal local law from [arXiv:1809.03971] and the accurate\r\nlocal shape analysis
of the density from [arXiv:1506.05095, arXiv:1804.07752].\r\nWe also present a
PDE-based method to improve the estimate on eigenvalue\r\nrigidity via the maximum
principle of the heat flow related to the Dyson\r\nBrownian motion."
article_processing_charge: No
article_type: original
author:
- first_name: Giorgio
full_name: Cipolloni, Giorgio
id: 42198EFA-F248-11E8-B48F-1D18A9856A87
last_name: Cipolloni
orcid: 0000-0002-4901-7992
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Torben H
full_name: Krüger, Torben H
id: 3020C786-F248-11E8-B48F-1D18A9856A87
last_name: Krüger
orcid: 0000-0002-4821-3297
- first_name: Dominik J
full_name: Schröder, Dominik J
id: 408ED176-F248-11E8-B48F-1D18A9856A87
last_name: Schröder
orcid: 0000-0002-2904-1856
citation:
ama: 'Cipolloni G, Erdös L, Krüger TH, Schröder DJ. Cusp universality for random
matrices, II: The real symmetric case. Pure and Applied Analysis . 2019;1(4):615–707.
doi:10.2140/paa.2019.1.615'
apa: 'Cipolloni, G., Erdös, L., Krüger, T. H., & Schröder, D. J. (2019). Cusp
universality for random matrices, II: The real symmetric case. Pure and Applied
Analysis . MSP. https://doi.org/10.2140/paa.2019.1.615'
chicago: 'Cipolloni, Giorgio, László Erdös, Torben H Krüger, and Dominik J Schröder.
“Cusp Universality for Random Matrices, II: The Real Symmetric Case.” Pure
and Applied Analysis . MSP, 2019. https://doi.org/10.2140/paa.2019.1.615.'
ieee: 'G. Cipolloni, L. Erdös, T. H. Krüger, and D. J. Schröder, “Cusp universality
for random matrices, II: The real symmetric case,” Pure and Applied Analysis
, vol. 1, no. 4. MSP, pp. 615–707, 2019.'
ista: 'Cipolloni G, Erdös L, Krüger TH, Schröder DJ. 2019. Cusp universality for
random matrices, II: The real symmetric case. Pure and Applied Analysis . 1(4),
615–707.'
mla: 'Cipolloni, Giorgio, et al. “Cusp Universality for Random Matrices, II: The
Real Symmetric Case.” Pure and Applied Analysis , vol. 1, no. 4, MSP, 2019,
pp. 615–707, doi:10.2140/paa.2019.1.615.'
short: G. Cipolloni, L. Erdös, T.H. Krüger, D.J. Schröder, Pure and Applied Analysis 1
(2019) 615–707.
date_created: 2019-03-28T10:21:17Z
date_published: 2019-10-12T00:00:00Z
date_updated: 2023-09-07T12:54:12Z
day: '12'
department:
- _id: LaEr
doi: 10.2140/paa.2019.1.615
ec_funded: 1
external_id:
arxiv:
- '1811.04055'
intvolume: ' 1'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1811.04055
month: '10'
oa: 1
oa_version: Preprint
page: 615–707
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication: 'Pure and Applied Analysis '
publication_identifier:
eissn:
- 2578-5885
issn:
- 2578-5893
publication_status: published
publisher: MSP
quality_controlled: '1'
related_material:
record:
- id: '6179'
relation: dissertation_contains
status: public
status: public
title: 'Cusp universality for random matrices, II: The real symmetric case'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 1
year: '2019'
...
---
_id: '6900'
abstract:
- lang: eng
text: Across diverse biological systems—ranging from neural networks to intracellular
signaling and genetic regulatory networks—the information about changes in the
environment is frequently encoded in the full temporal dynamics of the network
nodes. A pressing data-analysis challenge has thus been to efficiently estimate
the amount of information that these dynamics convey from experimental data. Here
we develop and evaluate decoding-based estimation methods to lower bound the mutual
information about a finite set of inputs, encoded in single-cell high-dimensional
time series data. For biological reaction networks governed by the chemical Master
equation, we derive model-based information approximations and analytical upper
bounds, against which we benchmark our proposed model-free decoding estimators.
In contrast to the frequently-used k-nearest-neighbor estimator, decoding-based
estimators robustly extract a large fraction of the available information from
high-dimensional trajectories with a realistic number of data samples. We apply
these estimators to previously published data on Erk and Ca2+ signaling in mammalian
cells and to yeast stress-response, and find that substantial amount of information
about environmental state can be encoded by non-trivial response statistics even
in stationary signals. We argue that these single-cell, decoding-based information
estimates, rather than the commonly-used tests for significant differences between
selected population response statistics, provide a proper and unbiased measure
for the performance of biological signaling networks.
article_processing_charge: No
author:
- first_name: Sarah A
full_name: Cepeda Humerez, Sarah A
id: 3DEE19A4-F248-11E8-B48F-1D18A9856A87
last_name: Cepeda Humerez
- first_name: Jakob
full_name: Ruess, Jakob
last_name: Ruess
orcid: 0000-0003-1615-3282
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
citation:
ama: Cepeda Humerez SA, Ruess J, Tkačik G. Estimating information in time-varying
signals. PLoS computational biology. 2019;15(9):e1007290. doi:10.1371/journal.pcbi.1007290
apa: Cepeda Humerez, S. A., Ruess, J., & Tkačik, G. (2019). Estimating information
in time-varying signals. PLoS Computational Biology. Public Library of
Science. https://doi.org/10.1371/journal.pcbi.1007290
chicago: Cepeda Humerez, Sarah A, Jakob Ruess, and Gašper Tkačik. “Estimating Information
in Time-Varying Signals.” PLoS Computational Biology. Public Library of
Science, 2019. https://doi.org/10.1371/journal.pcbi.1007290.
ieee: S. A. Cepeda Humerez, J. Ruess, and G. Tkačik, “Estimating information in
time-varying signals,” PLoS computational biology, vol. 15, no. 9. Public
Library of Science, p. e1007290, 2019.
ista: Cepeda Humerez SA, Ruess J, Tkačik G. 2019. Estimating information in time-varying
signals. PLoS computational biology. 15(9), e1007290.
mla: Cepeda Humerez, Sarah A., et al. “Estimating Information in Time-Varying Signals.”
PLoS Computational Biology, vol. 15, no. 9, Public Library of Science,
2019, p. e1007290, doi:10.1371/journal.pcbi.1007290.
short: S.A. Cepeda Humerez, J. Ruess, G. Tkačik, PLoS Computational Biology 15 (2019)
e1007290.
date_created: 2019-09-22T22:00:37Z
date_published: 2019-09-03T00:00:00Z
date_updated: 2023-09-07T12:55:21Z
day: '03'
ddc:
- '570'
department:
- _id: GaTk
doi: 10.1371/journal.pcbi.1007290
external_id:
isi:
- '000489741800021'
pmid:
- '31479447'
file:
- access_level: open_access
checksum: 81bdce1361c9aa8395d6fa635fb6ab47
content_type: application/pdf
creator: kschuh
date_created: 2019-10-01T10:53:45Z
date_updated: 2020-07-14T12:47:44Z
file_id: '6925'
file_name: 2019_PLoS_Cepeda-Humerez.pdf
file_size: 3081855
relation: main_file
file_date_updated: 2020-07-14T12:47:44Z
has_accepted_license: '1'
intvolume: ' 15'
isi: 1
issue: '9'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: e1007290
pmid: 1
project:
- _id: 254E9036-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28844-B27
name: Biophysics of information processing in gene regulation
publication: PLoS computational biology
publication_identifier:
eissn:
- '15537358'
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
related_material:
record:
- id: '6473'
relation: part_of_dissertation
status: public
scopus_import: '1'
status: public
title: Estimating information in time-varying signals
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: 15
year: '2019'
...
---
_id: '6377'
abstract:
- lang: eng
text: Clathrin-mediated endocytosis (CME) is a highly conserved and essential cellular
process in eukaryotic cells, but its dynamic and vital nature makes it challenging
to study using classical genetics tools. In contrast, although small molecules
can acutely and reversibly perturb CME, the few chemical CME inhibitors that have
been applied to plants are either ineffective or show undesirable side effects.
Here, we identify the previously described endosidin9 (ES9) as an inhibitor of
clathrin heavy chain (CHC) function in both Arabidopsis and human cells through
affinity-based target isolation, in vitro binding studies and X-ray crystallography.
Moreover, we present a chemically improved ES9 analog, ES9-17, which lacks the
undesirable side effects of ES9 while retaining the ability to target CHC. ES9
and ES9-17 have expanded the chemical toolbox used to probe CHC function, and
present chemical scaffolds for further design of more specific and potent CHC
inhibitors across different systems.
article_processing_charge: No
article_type: original
author:
- first_name: Wim
full_name: Dejonghe, Wim
last_name: Dejonghe
- first_name: Isha
full_name: Sharma, Isha
last_name: Sharma
- first_name: Bram
full_name: Denoo, Bram
last_name: Denoo
- first_name: Steven
full_name: De Munck, Steven
last_name: De Munck
- first_name: Qing
full_name: Lu, Qing
last_name: Lu
- first_name: Kiril
full_name: Mishev, Kiril
last_name: Mishev
- first_name: Haydar
full_name: Bulut, Haydar
last_name: Bulut
- first_name: Evelien
full_name: Mylle, Evelien
last_name: Mylle
- first_name: Riet
full_name: De Rycke, Riet
last_name: De Rycke
- first_name: Mina K
full_name: Vasileva, Mina K
id: 3407EB18-F248-11E8-B48F-1D18A9856A87
last_name: Vasileva
- first_name: Daniel V.
full_name: Savatin, Daniel V.
last_name: Savatin
- first_name: Wim
full_name: Nerinckx, Wim
last_name: Nerinckx
- first_name: An
full_name: Staes, An
last_name: Staes
- first_name: Andrzej
full_name: Drozdzecki, Andrzej
last_name: Drozdzecki
- first_name: Dominique
full_name: Audenaert, Dominique
last_name: Audenaert
- first_name: Klaas
full_name: Yperman, Klaas
last_name: Yperman
- first_name: Annemieke
full_name: Madder, Annemieke
last_name: Madder
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Daniël
full_name: Van Damme, Daniël
last_name: Van Damme
- first_name: Kris
full_name: Gevaert, Kris
last_name: Gevaert
- first_name: Volker
full_name: Haucke, Volker
last_name: Haucke
- first_name: Savvas N.
full_name: Savvides, Savvas N.
last_name: Savvides
- first_name: Johan
full_name: Winne, Johan
last_name: Winne
- first_name: Eugenia
full_name: Russinova, Eugenia
last_name: Russinova
citation:
ama: Dejonghe W, Sharma I, Denoo B, et al. Disruption of endocytosis through chemical
inhibition of clathrin heavy chain function. Nature Chemical Biology. 2019;15(6):641–649.
doi:10.1038/s41589-019-0262-1
apa: Dejonghe, W., Sharma, I., Denoo, B., De Munck, S., Lu, Q., Mishev, K., … Russinova,
E. (2019). Disruption of endocytosis through chemical inhibition of clathrin heavy
chain function. Nature Chemical Biology. Springer Nature. https://doi.org/10.1038/s41589-019-0262-1
chicago: Dejonghe, Wim, Isha Sharma, Bram Denoo, Steven De Munck, Qing Lu, Kiril
Mishev, Haydar Bulut, et al. “Disruption of Endocytosis through Chemical Inhibition
of Clathrin Heavy Chain Function.” Nature Chemical Biology. Springer Nature,
2019. https://doi.org/10.1038/s41589-019-0262-1.
ieee: W. Dejonghe et al., “Disruption of endocytosis through chemical inhibition
of clathrin heavy chain function,” Nature Chemical Biology, vol. 15, no.
6. Springer Nature, pp. 641–649, 2019.
ista: Dejonghe W, Sharma I, Denoo B, De Munck S, Lu Q, Mishev K, Bulut H, Mylle
E, De Rycke R, Vasileva MK, Savatin DV, Nerinckx W, Staes A, Drozdzecki A, Audenaert
D, Yperman K, Madder A, Friml J, Van Damme D, Gevaert K, Haucke V, Savvides SN,
Winne J, Russinova E. 2019. Disruption of endocytosis through chemical inhibition
of clathrin heavy chain function. Nature Chemical Biology. 15(6), 641–649.
mla: Dejonghe, Wim, et al. “Disruption of Endocytosis through Chemical Inhibition
of Clathrin Heavy Chain Function.” Nature Chemical Biology, vol. 15, no.
6, Springer Nature, 2019, pp. 641–649, doi:10.1038/s41589-019-0262-1.
short: W. Dejonghe, I. Sharma, B. Denoo, S. De Munck, Q. Lu, K. Mishev, H. Bulut,
E. Mylle, R. De Rycke, M.K. Vasileva, D.V. Savatin, W. Nerinckx, A. Staes, A.
Drozdzecki, D. Audenaert, K. Yperman, A. Madder, J. Friml, D. Van Damme, K. Gevaert,
V. Haucke, S.N. Savvides, J. Winne, E. Russinova, Nature Chemical Biology 15 (2019)
641–649.
date_created: 2019-05-05T21:59:11Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2023-09-07T12:54:35Z
day: '01'
department:
- _id: JiFr
doi: 10.1038/s41589-019-0262-1
external_id:
isi:
- '000468195600018'
intvolume: ' 15'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
oa_version: None
page: 641–649
publication: Nature Chemical Biology
publication_identifier:
eissn:
- '15524469'
issn:
- '15524450'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '7172'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Disruption of endocytosis through chemical inhibition of clathrin heavy chain
function
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 15
year: '2019'
...
---
_id: '7186'
abstract:
- lang: eng
text: "Tissue morphogenesis in developmental or physiological processes is regulated
by molecular\r\nand mechanical signals. While the molecular signaling cascades
are increasingly well\r\ndescribed, the mechanical signals affecting tissue shape
changes have only recently been\r\nstudied in greater detail. To gain more insight
into the mechanochemical and biophysical\r\nbasis of an epithelial spreading process
(epiboly) in early zebrafish development, we studied\r\ncell-cell junction formation
and actomyosin network dynamics at the boundary between\r\nsurface layer epithelial
cells (EVL) and the yolk syncytial layer (YSL). During zebrafish epiboly,\r\nthe
cell mass sitting on top of the yolk cell spreads to engulf the yolk cell by the
end of\r\ngastrulation. It has been previously shown that an actomyosin ring residing
within the YSL\r\npulls on the EVL tissue through a cable-constriction and a flow-friction
motor, thereby\r\ndragging the tissue vegetal wards. Pulling forces are likely
transmitted from the YSL\r\nactomyosin ring to EVL cells; however, the nature
and formation of the junctional structure\r\nmediating this process has not been
well described so far. Therefore, our main aim was to\r\ndetermine the nature,
dynamics and potential function of the EVL-YSL junction during this\r\nepithelial
tissue spreading. Specifically, we show that the EVL-YSL junction is a\r\nmechanosensitive
structure, predominantly made of tight junction (TJ) proteins. The process\r\nof
TJ mechanosensation depends on the retrograde flow of non-junctional, phase-separated\r\nZonula
Occludens-1 (ZO-1) protein clusters towards the EVL-YSL boundary. Interestingly,
we\r\ncould demonstrate that ZO-1 is present in a non-junctional pool on the surface
of the yolk\r\ncell, and ZO-1 undergoes a phase separation process that likely
renders the protein\r\nresponsive to flows. These flows are directed towards the
junction and mediate proper\r\ntension-dependent recruitment of ZO-1. Upon reaching
the EVL-YSL junction ZO-1 gets\r\nincorporated into the junctional pool mediated
through its direct actin-binding domain.\r\nWhen the non-junctional pool and/or
ZO-1 direct actin binding is absent, TJs fail in their\r\nproper mechanosensitive
responses resulting in slower tissue spreading. We could further\r\ndemonstrate
that depletion of ZO proteins within the YSL results in diminished actomyosin\r\nring
formation. This suggests that a mechanochemical feedback loop is at work during\r\nzebrafish
epiboly: ZO proteins help in proper actomyosin ring formation and actomyosin\r\ncontractility
and flows positively influence ZO-1 junctional recruitment. Finally, such a\r\nmesoscale
polarization process mediated through the flow of phase-separated protein\r\nclusters
might have implications for other processes such as immunological synapse\r\nformation,
C. elegans zygote polarization and wound healing."
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
- _id: EM-Fac
- _id: SSU
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Cornelia
full_name: Schwayer, Cornelia
id: 3436488C-F248-11E8-B48F-1D18A9856A87
last_name: Schwayer
orcid: 0000-0001-5130-2226
citation:
ama: Schwayer C. Mechanosensation of tight junctions depends on ZO-1 phase separation
and flow. 2019. doi:10.15479/AT:ISTA:7186
apa: Schwayer, C. (2019). Mechanosensation of tight junctions depends on ZO-1
phase separation and flow. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7186
chicago: Schwayer, Cornelia. “Mechanosensation of Tight Junctions Depends on ZO-1
Phase Separation and Flow.” Institute of Science and Technology Austria, 2019.
https://doi.org/10.15479/AT:ISTA:7186.
ieee: C. Schwayer, “Mechanosensation of tight junctions depends on ZO-1 phase separation
and flow,” Institute of Science and Technology Austria, 2019.
ista: Schwayer C. 2019. Mechanosensation of tight junctions depends on ZO-1 phase
separation and flow. Institute of Science and Technology Austria.
mla: Schwayer, Cornelia. Mechanosensation of Tight Junctions Depends on ZO-1
Phase Separation and Flow. Institute of Science and Technology Austria, 2019,
doi:10.15479/AT:ISTA:7186.
short: C. Schwayer, Mechanosensation of Tight Junctions Depends on ZO-1 Phase Separation
and Flow, Institute of Science and Technology Austria, 2019.
date_created: 2019-12-16T14:26:14Z
date_published: 2019-12-16T00:00:00Z
date_updated: 2023-09-07T12:56:42Z
day: '16'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: CaHe
doi: 10.15479/AT:ISTA:7186
file:
- access_level: closed
checksum: 585583c1c875c5d9525703a539668a7c
content_type: application/zip
creator: cschwayer
date_created: 2019-12-19T15:18:11Z
date_updated: 2020-07-14T12:47:52Z
file_id: '7194'
file_name: DocumentSourceFiles.zip
file_size: 19431292
relation: source_file
- access_level: open_access
checksum: 9b9b24351514948d27cec659e632e2cd
content_type: application/pdf
creator: cschwayer
date_created: 2019-12-19T15:19:21Z
date_updated: 2020-07-14T12:47:52Z
file_id: '7195'
file_name: Thesis_CS_final.pdf
file_size: 19226428
relation: main_file
file_date_updated: 2020-07-14T12:47:52Z
has_accepted_license: '1'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: '107'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '1096'
relation: dissertation_contains
status: public
- id: '7001'
relation: part_of_dissertation
status: public
status: public
supervisor:
- 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
title: Mechanosensation of tight junctions depends on ZO-1 phase separation and flow
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '6681'
abstract:
- lang: eng
text: "The first part of the thesis considers the computational aspects of the homotopy
groups πd(X) of a topological space X. It is well known that there is no algorithm
to decide whether the fundamental group π1(X) of a given finite simplicial complex
X is trivial. On the other hand, there are several algorithms that, given a finite
simplicial complex X that is simply connected (i.e., with π1(X) trivial), compute
the higher homotopy group πd(X) for any given d ≥ 2.\r\nHowever, these algorithms
come with a caveat: They compute the isomorphism type of πd(X), d ≥ 2 as an abstract
finitely generated abelian group given by generators and relations, but they work
with very implicit representations of the elements of πd(X). We present an algorithm
that, given a simply connected space X, computes πd(X) and represents its elements
as simplicial maps from suitable triangulations of the d-sphere Sd to X. For fixed
d, the algorithm runs in time exponential in size(X), the number of simplices
of X. Moreover, we prove that this is optimal: For every fixed d ≥ 2,\r\nwe construct
a family of simply connected spaces X such that for any simplicial map representing
a generator of πd(X), the size of the triangulation of S d on which the map is
defined, is exponential in size(X).\r\nIn the second part of the thesis, we prove
that the following question is algorithmically undecidable for d < ⌊3(k+1)/2⌋,
k ≥ 5 and (k, d) ̸= (5, 7), which covers essentially everything outside the meta-stable
range: Given a finite simplicial complex K of dimension k, decide whether there
exists a piecewise-linear (i.e., linear on an arbitrarily fine subdivision of
K) embedding f : K ↪→ Rd of K into a d-dimensional Euclidean space."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Stephan Y
full_name: Zhechev, Stephan Y
id: 3AA52972-F248-11E8-B48F-1D18A9856A87
last_name: Zhechev
citation:
ama: Zhechev SY. Algorithmic aspects of homotopy theory and embeddability. 2019.
doi:10.15479/AT:ISTA:6681
apa: Zhechev, S. Y. (2019). Algorithmic aspects of homotopy theory and embeddability.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:6681
chicago: Zhechev, Stephan Y. “Algorithmic Aspects of Homotopy Theory and Embeddability.”
Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:6681.
ieee: S. Y. Zhechev, “Algorithmic aspects of homotopy theory and embeddability,”
Institute of Science and Technology Austria, 2019.
ista: Zhechev SY. 2019. Algorithmic aspects of homotopy theory and embeddability.
Institute of Science and Technology Austria.
mla: Zhechev, Stephan Y. Algorithmic Aspects of Homotopy Theory and Embeddability.
Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:6681.
short: S.Y. Zhechev, Algorithmic Aspects of Homotopy Theory and Embeddability, Institute
of Science and Technology Austria, 2019.
date_created: 2019-07-26T11:14:34Z
date_published: 2019-08-08T00:00:00Z
date_updated: 2023-09-07T13:10:36Z
day: '08'
ddc:
- '514'
degree_awarded: PhD
department:
- _id: UlWa
doi: 10.15479/AT:ISTA:6681
file:
- access_level: open_access
checksum: 3231e7cbfca3b5687366f84f0a57a0c0
content_type: application/pdf
creator: szhechev
date_created: 2019-08-07T13:02:50Z
date_updated: 2020-07-14T12:47:37Z
file_id: '6771'
file_name: Stephan_Zhechev_thesis.pdf
file_size: 1464227
relation: main_file
- access_level: closed
checksum: 85d65eb27b4377a9e332ee37a70f08b6
content_type: application/octet-stream
creator: szhechev
date_created: 2019-08-07T13:03:22Z
date_updated: 2020-07-14T12:47:37Z
file_id: '6772'
file_name: Stephan_Zhechev_thesis.tex
file_size: 303988
relation: source_file
- access_level: closed
checksum: 86b374d264ca2dd53e712728e253ee75
content_type: application/zip
creator: szhechev
date_created: 2019-08-07T13:03:34Z
date_updated: 2020-07-14T12:47:37Z
file_id: '6773'
file_name: supplementary_material.zip
file_size: 1087004
relation: supplementary_material
file_date_updated: 2020-07-14T12:47:37Z
has_accepted_license: '1'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: '104'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '6774'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
title: Algorithmic aspects of homotopy theory and embeddability
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '8182'
abstract:
- lang: eng
text: "Suppose that $n\\neq p^k$ and $n\\neq 2p^k$ for all $k$ and all primes $p$.
We prove that for any Hausdorff compactum $X$ with a free action of the symmetric
group $\\mathfrak S_n$ there exists an $\\mathfrak S_n$-equivariant map $X \\to\r\n{\\mathbb
R}^n$ whose image avoids the diagonal $\\{(x,x\\dots,x)\\in {\\mathbb R}^n|x\\in
{\\mathbb R}\\}$.\r\n Previously, the special cases of this statement for certain
$X$ were usually proved using the equivartiant obstruction theory. Such calculations
are difficult and may become infeasible past the first (primary) obstruction.
We\r\ntake a different approach which allows us to prove the vanishing of all
obstructions simultaneously. The essential step in the proof is classifying the
possible degrees of $\\mathfrak S_n$-equivariant maps from the boundary\r\n$\\partial\\Delta^{n-1}$
of $(n-1)$-simplex to itself. Existence of equivariant maps between spaces is
important for many questions arising from discrete mathematics and geometry, such
as Kneser's conjecture, the Square Peg conjecture, the Splitting Necklace problem,
and the Topological Tverberg conjecture, etc. We demonstrate the utility of our
result applying it to one such question, a specific instance of envy-free division
problem."
article_number: '1910.12628'
article_processing_charge: No
author:
- first_name: Sergey
full_name: Avvakumov, Sergey
id: 3827DAC8-F248-11E8-B48F-1D18A9856A87
last_name: Avvakumov
- first_name: Sergey
full_name: Kudrya, Sergey
id: ecf01965-d252-11ea-95a5-8ada5f6c6a67
last_name: Kudrya
citation:
ama: Avvakumov S, Kudrya S. Vanishing of all equivariant obstructions and the mapping
degree. arXiv.
apa: Avvakumov, S., & Kudrya, S. (n.d.). Vanishing of all equivariant obstructions
and the mapping degree. arXiv. arXiv.
chicago: Avvakumov, Sergey, and Sergey Kudrya. “Vanishing of All Equivariant Obstructions
and the Mapping Degree.” ArXiv. arXiv, n.d.
ieee: S. Avvakumov and S. Kudrya, “Vanishing of all equivariant obstructions and
the mapping degree,” arXiv. arXiv.
ista: Avvakumov S, Kudrya S. Vanishing of all equivariant obstructions and the mapping
degree. arXiv, 1910.12628.
mla: Avvakumov, Sergey, and Sergey Kudrya. “Vanishing of All Equivariant Obstructions
and the Mapping Degree.” ArXiv, 1910.12628, arXiv.
short: S. Avvakumov, S. Kudrya, ArXiv (n.d.).
date_created: 2020-07-30T10:45:08Z
date_published: 2019-10-28T00:00:00Z
date_updated: 2023-09-07T13:12:17Z
day: '28'
department:
- _id: UlWa
external_id:
arxiv:
- '1910.12628'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1910.12628
month: '10'
oa: 1
oa_version: Preprint
project:
- _id: 26611F5C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P31312
name: Algorithms for Embeddings and Homotopy Theory
publication: arXiv
publication_status: submitted
publisher: arXiv
related_material:
record:
- id: '11446'
relation: later_version
status: public
- id: '8156'
relation: dissertation_contains
status: public
status: public
title: Vanishing of all equivariant obstructions and the mapping degree
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2019'
...
---
_id: '8185'
abstract:
- lang: eng
text: "In this paper we study envy-free division problems. The classical approach
to some of such problems, used by David Gale, reduces to considering continuous
maps of a simplex to itself and finding sufficient conditions when this map hits
the center of the simplex. The mere continuity is not sufficient for such a conclusion,
the usual assumption (for example, in the Knaster--Kuratowski--Mazurkiewicz and
the Gale theorem) is a certain boundary condition.\r\n We follow Erel Segal-Halevi,
Fr\\'ed\\'eric Meunier, and Shira Zerbib, and replace the boundary condition by
another assumption, which has the economic meaning of possibility for a player
to prefer an empty part in the segment\r\npartition problem. We solve the problem
positively when $n$, the number of players that divide the segment, is a prime
power, and we provide counterexamples for every $n$ which is not a prime power.
We also provide counterexamples relevant to a wider class of fair or envy-free
partition problems when $n$ is odd and not a prime power."
article_number: '1907.11183'
article_processing_charge: No
author:
- first_name: Sergey
full_name: Avvakumov, Sergey
id: 3827DAC8-F248-11E8-B48F-1D18A9856A87
last_name: Avvakumov
- first_name: Roman
full_name: Karasev, Roman
last_name: Karasev
citation:
ama: Avvakumov S, Karasev R. Envy-free division using mapping degree. arXiv.
doi:10.48550/arXiv.1907.11183
apa: Avvakumov, S., & Karasev, R. (n.d.). Envy-free division using mapping degree.
arXiv. https://doi.org/10.48550/arXiv.1907.11183
chicago: Avvakumov, Sergey, and Roman Karasev. “Envy-Free Division Using Mapping
Degree.” ArXiv, n.d. https://doi.org/10.48550/arXiv.1907.11183.
ieee: S. Avvakumov and R. Karasev, “Envy-free division using mapping degree,” arXiv.
.
ista: Avvakumov S, Karasev R. Envy-free division using mapping degree. arXiv, 1907.11183.
mla: Avvakumov, Sergey, and Roman Karasev. “Envy-Free Division Using Mapping Degree.”
ArXiv, 1907.11183, doi:10.48550/arXiv.1907.11183.
short: S. Avvakumov, R. Karasev, ArXiv (n.d.).
date_created: 2020-07-30T10:45:51Z
date_published: 2019-07-25T00:00:00Z
date_updated: 2023-09-07T13:12:17Z
day: '25'
department:
- _id: UlWa
doi: 10.48550/arXiv.1907.11183
external_id:
arxiv:
- '1907.11183'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1907.11183
month: '07'
oa: 1
oa_version: Preprint
project:
- _id: 26611F5C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P31312
name: Algorithms for Embeddings and Homotopy Theory
publication: arXiv
publication_status: submitted
related_material:
link:
- relation: later_version
url: https://doi.org/10.1112/mtk.12059
record:
- id: '8156'
relation: dissertation_contains
status: public
status: public
title: Envy-free division using mapping degree
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2019'
...
---
_id: '7524'
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 $\\rho$
and inverse temperature $\\beta$ differs from the one of the non-interacting system
by the correction term $4 \\pi \\rho^2 |\\ln a^2 \\rho|^{-1} (2 - [1 - \\beta_{\\mathrm{c}}/\\beta]_+^2)$.
Here $a$ is the scattering length of the interaction potential, $[\\cdot]_+ =
\\max\\{ 0, \\cdot \\}$ and $\\beta_{\\mathrm{c}}$ is the inverse Berezinskii--Kosterlitz--Thouless
critical temperature for superfluidity. The result is valid in the dilute limit\r\n$a^2\\rho
\\ll 1$ and if $\\beta \\rho \\gtrsim 1$."
article_processing_charge: No
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. arXiv:191003372.
apa: Deuchert, A., Mayer, S., & Seiringer, R. (n.d.). The free energy of the
two-dimensional dilute Bose gas. I. Lower bound. arXiv:1910.03372. ArXiv.
chicago: Deuchert, Andreas, Simon Mayer, and Robert Seiringer. “The Free Energy
of the Two-Dimensional Dilute Bose Gas. I. Lower Bound.” ArXiv:1910.03372.
ArXiv, n.d.
ieee: A. Deuchert, S. Mayer, and R. Seiringer, “The free energy of the two-dimensional
dilute Bose gas. I. Lower bound,” arXiv:1910.03372. ArXiv.
ista: Deuchert A, Mayer S, Seiringer R. The free energy of the two-dimensional dilute
Bose gas. I. Lower bound. arXiv:1910.03372, .
mla: Deuchert, Andreas, et al. “The Free Energy of the Two-Dimensional Dilute Bose
Gas. I. Lower Bound.” ArXiv:1910.03372, ArXiv.
short: A. Deuchert, S. Mayer, R. Seiringer, ArXiv:1910.03372 (n.d.).
date_created: 2020-02-26T08:46:40Z
date_published: 2019-10-08T00:00:00Z
date_updated: 2023-09-07T13:12:41Z
day: '08'
department:
- _id: RoSe
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1910.03372
month: '10'
oa: 1
oa_version: Preprint
page: '61'
project:
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
publication: arXiv:1910.03372
publication_status: draft
publisher: ArXiv
related_material:
record:
- id: '7790'
relation: later_version
status: public
- id: '7514'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: The free energy of the two-dimensional dilute Bose gas. I. Lower bound
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2019'
...
---
_id: '6608'
abstract:
- lang: eng
text: We use the canonical bases produced by the tri-partition algorithm in (Edelsbrunner
and Ölsböck, 2018) to open and close holes in a polyhedral complex, K. In a concrete
application, we consider the Delaunay mosaic of a finite set, we let K be an Alpha
complex, and we use the persistence diagram of the distance function to guide
the hole opening and closing operations. The dependences between the holes define
a partial order on the cells in K that characterizes what can and what cannot
be constructed using the operations. The relations in this partial order reveal
structural information about the underlying filtration of complexes beyond what
is expressed by the persistence diagram.
article_processing_charge: No
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. Holes and dependences in an ordered complex. Computer
Aided Geometric Design. 2019;73:1-15. doi:10.1016/j.cagd.2019.06.003
apa: Edelsbrunner, H., & Ölsböck, K. (2019). Holes and dependences in an ordered
complex. Computer Aided Geometric Design. Elsevier. https://doi.org/10.1016/j.cagd.2019.06.003
chicago: Edelsbrunner, Herbert, and Katharina Ölsböck. “Holes and Dependences in
an Ordered Complex.” Computer Aided Geometric Design. Elsevier, 2019. https://doi.org/10.1016/j.cagd.2019.06.003.
ieee: H. Edelsbrunner and K. Ölsböck, “Holes and dependences in an ordered complex,”
Computer Aided Geometric Design, vol. 73. Elsevier, pp. 1–15, 2019.
ista: Edelsbrunner H, Ölsböck K. 2019. Holes and dependences in an ordered complex.
Computer Aided Geometric Design. 73, 1–15.
mla: Edelsbrunner, Herbert, and Katharina Ölsböck. “Holes and Dependences in an
Ordered Complex.” Computer Aided Geometric Design, vol. 73, Elsevier, 2019,
pp. 1–15, doi:10.1016/j.cagd.2019.06.003.
short: H. Edelsbrunner, K. Ölsböck, Computer Aided Geometric Design 73 (2019) 1–15.
date_created: 2019-07-07T21:59:20Z
date_published: 2019-08-01T00:00:00Z
date_updated: 2023-09-07T13:15:29Z
day: '01'
ddc:
- '000'
department:
- _id: HeEd
doi: 10.1016/j.cagd.2019.06.003
ec_funded: 1
external_id:
isi:
- '000485207800001'
file:
- access_level: open_access
checksum: 7c99be505dc7533257d42eb1830cef04
content_type: application/pdf
creator: kschuh
date_created: 2019-07-08T15:24:26Z
date_updated: 2020-07-14T12:47:34Z
file_id: '6624'
file_name: Elsevier_2019_Edelsbrunner.pdf
file_size: 2665013
relation: main_file
file_date_updated: 2020-07-14T12:47:34Z
has_accepted_license: '1'
intvolume: ' 73'
isi: 1
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '08'
oa: 1
oa_version: Published Version
page: 1-15
project:
- _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: Computer Aided Geometric Design
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '7460'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Holes and dependences in an ordered complex
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: 73
year: '2019'
...
---
_id: '6677'
abstract:
- lang: eng
text: "The Fiat-Shamir heuristic transforms a public-coin interactive proof into
a non-interactive argument, by replacing the verifier with a cryptographic hash
function that is applied to the protocol’s transcript. Constructing hash functions
for which this transformation is sound is a central and long-standing open question
in cryptography.\r\n\r\nWe show that solving the END−OF−METERED−LINE problem is
no easier than breaking the soundness of the Fiat-Shamir transformation when applied
to the sumcheck protocol. In particular, if the transformed protocol is sound,
then any hard problem in #P gives rise to a hard distribution in the class CLS,
which is contained in PPAD. Our result opens up the possibility of sampling moderately-sized
games for which it is hard to find a Nash equilibrium, by reducing the inversion
of appropriately chosen one-way functions to #SAT.\r\n\r\nOur main technical contribution
is a stateful incrementally verifiable procedure that, given a SAT instance over
n variables, counts the number of satisfying assignments. This is accomplished
via an exponential sequence of small steps, each computable in time poly(n). Incremental
verifiability means that each intermediate state includes a sumcheck-based proof
of its correctness, and the proof can be updated and verified in time poly(n)."
article_processing_charge: No
author:
- first_name: Arka Rai
full_name: Choudhuri, Arka Rai
last_name: Choudhuri
- first_name: Pavel
full_name: Hubáček, Pavel
last_name: Hubáček
- first_name: Chethan
full_name: Kamath Hosdurg, Chethan
id: 4BD3F30E-F248-11E8-B48F-1D18A9856A87
last_name: Kamath Hosdurg
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
- first_name: Alon
full_name: Rosen, Alon
last_name: Rosen
- first_name: Guy N.
full_name: Rothblum, Guy N.
last_name: Rothblum
citation:
ama: 'Choudhuri AR, Hubáček P, Kamath Hosdurg C, Pietrzak KZ, Rosen A, Rothblum
GN. Finding a Nash equilibrium is no easier than breaking Fiat-Shamir. In: Proceedings
of the 51st Annual ACM SIGACT Symposium on Theory of Computing - STOC 2019.
ACM Press; 2019:1103-1114. doi:10.1145/3313276.3316400'
apa: 'Choudhuri, A. R., Hubáček, P., Kamath Hosdurg, C., Pietrzak, K. Z., Rosen,
A., & Rothblum, G. N. (2019). Finding a Nash equilibrium is no easier than
breaking Fiat-Shamir. In Proceedings of the 51st Annual ACM SIGACT Symposium
on Theory of Computing - STOC 2019 (pp. 1103–1114). Phoenix, AZ, United States:
ACM Press. https://doi.org/10.1145/3313276.3316400'
chicago: Choudhuri, Arka Rai, Pavel Hubáček, Chethan Kamath Hosdurg, Krzysztof Z
Pietrzak, Alon Rosen, and Guy N. Rothblum. “Finding a Nash Equilibrium Is No Easier
than Breaking Fiat-Shamir.” In Proceedings of the 51st Annual ACM SIGACT Symposium
on Theory of Computing - STOC 2019, 1103–14. ACM Press, 2019. https://doi.org/10.1145/3313276.3316400.
ieee: A. R. Choudhuri, P. Hubáček, C. Kamath Hosdurg, K. Z. Pietrzak, A. Rosen,
and G. N. Rothblum, “Finding a Nash equilibrium is no easier than breaking Fiat-Shamir,”
in Proceedings of the 51st Annual ACM SIGACT Symposium on Theory of Computing
- STOC 2019, Phoenix, AZ, United States, 2019, pp. 1103–1114.
ista: 'Choudhuri AR, Hubáček P, Kamath Hosdurg C, Pietrzak KZ, Rosen A, Rothblum
GN. 2019. Finding a Nash equilibrium is no easier than breaking Fiat-Shamir. Proceedings
of the 51st Annual ACM SIGACT Symposium on Theory of Computing - STOC 2019. STOC:
Symposium on Theory of Computing, 1103–1114.'
mla: Choudhuri, Arka Rai, et al. “Finding a Nash Equilibrium Is No Easier than Breaking
Fiat-Shamir.” Proceedings of the 51st Annual ACM SIGACT Symposium on Theory
of Computing - STOC 2019, ACM Press, 2019, pp. 1103–14, doi:10.1145/3313276.3316400.
short: A.R. Choudhuri, P. Hubáček, C. Kamath Hosdurg, K.Z. Pietrzak, A. Rosen, G.N.
Rothblum, in:, Proceedings of the 51st Annual ACM SIGACT Symposium on Theory of
Computing - STOC 2019, ACM Press, 2019, pp. 1103–1114.
conference:
end_date: 2019-06-26
location: Phoenix, AZ, United States
name: 'STOC: Symposium on Theory of Computing'
start_date: 2019-06-23
date_created: 2019-07-24T09:20:53Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2023-09-07T13:15:55Z
day: '01'
department:
- _id: KrPi
doi: 10.1145/3313276.3316400
ec_funded: 1
external_id:
isi:
- '000523199100100'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2019/549
month: '06'
oa: 1
oa_version: Preprint
page: 1103-1114
project:
- _id: 258AA5B2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '682815'
name: Teaching Old Crypto New Tricks
publication: Proceedings of the 51st Annual ACM SIGACT Symposium on Theory of Computing -
STOC 2019
publication_identifier:
isbn:
- '9781450367059'
publication_status: published
publisher: ACM Press
quality_controlled: '1'
related_material:
record:
- id: '7896'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Finding a Nash equilibrium is no easier than breaking Fiat-Shamir
type: conference
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
year: '2019'
...
---
_id: '5986'
abstract:
- lang: eng
text: "Given a triangulation of a point set in the plane, a flip deletes an edge
e whose removal leaves a convex quadrilateral, and replaces e by the opposite
diagonal of the quadrilateral. It is well known that any triangulation of a point
set can be reconfigured to any other triangulation by some sequence of flips.
We explore this question in the setting where each edge of a triangulation has
a label, and a flip transfers the label of the removed edge to the new edge. It
is not true that every labelled triangulation of a point set can be reconfigured
to every other labelled triangulation via a sequence of flips, but we characterize
when this is possible. There is an obvious necessary condition: for each label
l, if edge e has label l in the first triangulation and edge f has label l in
the second triangulation, then there must be some sequence of flips that moves
label l from e to f, ignoring all other labels. Bose, Lubiw, Pathak and Verdonschot
formulated the Orbit Conjecture, which states that this necessary condition is
also sufficient, i.e. that all labels can be simultaneously mapped to their destination
if and only if each label individually can be mapped to its destination. We prove
this conjecture. Furthermore, we give a polynomial-time algorithm (with \U0001D442(\U0001D45B8)
being a crude bound on the run-time) to find a sequence of flips to reconfigure
one labelled triangulation to another, if such a sequence exists, and we prove
an upper bound of \U0001D442(\U0001D45B7) on the length of the flip sequence.
Our proof uses the topological result that the sets of pairwise non-crossing edges
on a planar point set form a simplicial complex that is homeomorphic to a high-dimensional
ball (this follows from a result of Orden and Santos; we give a different proof
based on a shelling argument). The dual cell complex of this simplicial ball,
called the flip complex, has the usual flip graph as its 1-skeleton. We use properties
of the 2-skeleton of the flip complex to prove the Orbit Conjecture."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Anna
full_name: Lubiw, Anna
last_name: Lubiw
- first_name: Zuzana
full_name: Masárová, Zuzana
id: 45CFE238-F248-11E8-B48F-1D18A9856A87
last_name: Masárová
orcid: 0000-0002-6660-1322
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: Lubiw A, Masárová Z, Wagner U. A proof of the orbit conjecture for flipping
edge-labelled triangulations. Discrete & Computational Geometry. 2019;61(4):880-898.
doi:10.1007/s00454-018-0035-8
apa: Lubiw, A., Masárová, Z., & Wagner, U. (2019). A proof of the orbit conjecture
for flipping edge-labelled triangulations. Discrete & Computational Geometry.
Springer Nature. https://doi.org/10.1007/s00454-018-0035-8
chicago: Lubiw, Anna, Zuzana Masárová, and Uli Wagner. “A Proof of the Orbit Conjecture
for Flipping Edge-Labelled Triangulations.” Discrete & Computational Geometry.
Springer Nature, 2019. https://doi.org/10.1007/s00454-018-0035-8.
ieee: A. Lubiw, Z. Masárová, and U. Wagner, “A proof of the orbit conjecture for
flipping edge-labelled triangulations,” Discrete & Computational Geometry,
vol. 61, no. 4. Springer Nature, pp. 880–898, 2019.
ista: Lubiw A, Masárová Z, Wagner U. 2019. A proof of the orbit conjecture for flipping
edge-labelled triangulations. Discrete & Computational Geometry. 61(4), 880–898.
mla: Lubiw, Anna, et al. “A Proof of the Orbit Conjecture for Flipping Edge-Labelled
Triangulations.” Discrete & Computational Geometry, vol. 61, no. 4,
Springer Nature, 2019, pp. 880–98, doi:10.1007/s00454-018-0035-8.
short: A. Lubiw, Z. Masárová, U. Wagner, Discrete & Computational Geometry 61
(2019) 880–898.
date_created: 2019-02-14T11:54:08Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2023-09-07T13:17:36Z
day: '01'
ddc:
- '000'
department:
- _id: UlWa
doi: 10.1007/s00454-018-0035-8
external_id:
arxiv:
- '1710.02741'
isi:
- '000466130000009'
file:
- access_level: open_access
checksum: e1bff88f1d77001b53b78c485ce048d7
content_type: application/pdf
creator: dernst
date_created: 2019-02-14T11:57:22Z
date_updated: 2020-07-14T12:47:14Z
file_id: '5988'
file_name: 2018_DiscreteGeometry_Lubiw.pdf
file_size: 556276
relation: main_file
file_date_updated: 2020-07-14T12:47:14Z
has_accepted_license: '1'
intvolume: ' 61'
isi: 1
issue: '4'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 880-898
project:
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Discrete & Computational Geometry
publication_identifier:
eissn:
- 1432-0444
issn:
- 0179-5376
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '683'
relation: earlier_version
status: public
- id: '7944'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: A proof of the orbit conjecture for flipping edge-labelled triangulations
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 61
year: '2019'
...
---
_id: '5886'
abstract:
- lang: eng
text: Problems involving quantum impurities, in which one or a few particles are
interacting with a macroscopic environment, represent a pervasive paradigm, spanning
across atomic, molecular, and condensed-matter physics. In this paper we introduce
new variational approaches to quantum impurities and apply them to the Fröhlich
polaron–a quasiparticle formed out of an electron (or other point-like impurity)
in a polar medium, and to the angulon–a quasiparticle formed out of a rotating
molecule in a bosonic bath. We benchmark these approaches against established
theories, evaluating their accuracy as a function of the impurity-bath coupling.
article_processing_charge: No
author:
- first_name: Xiang
full_name: Li, Xiang
id: 4B7E523C-F248-11E8-B48F-1D18A9856A87
last_name: Li
- first_name: Giacomo
full_name: Bighin, Giacomo
id: 4CA96FD4-F248-11E8-B48F-1D18A9856A87
last_name: Bighin
orcid: 0000-0001-8823-9777
- first_name: Enderalp
full_name: Yakaboylu, Enderalp
id: 38CB71F6-F248-11E8-B48F-1D18A9856A87
last_name: Yakaboylu
orcid: 0000-0001-5973-0874
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
citation:
ama: 'Li X, Bighin G, Yakaboylu E, Lemeshko M. Variational approaches to quantum
impurities: from the Fröhlich polaron to the angulon. Molecular Physics.
2019. doi:10.1080/00268976.2019.1567852'
apa: 'Li, X., Bighin, G., Yakaboylu, E., & Lemeshko, M. (2019). Variational
approaches to quantum impurities: from the Fröhlich polaron to the angulon. Molecular
Physics. Taylor and Francis. https://doi.org/10.1080/00268976.2019.1567852'
chicago: 'Li, Xiang, Giacomo Bighin, Enderalp Yakaboylu, and Mikhail Lemeshko. “Variational
Approaches to Quantum Impurities: From the Fröhlich Polaron to the Angulon.” Molecular
Physics. Taylor and Francis, 2019. https://doi.org/10.1080/00268976.2019.1567852.'
ieee: 'X. Li, G. Bighin, E. Yakaboylu, and M. Lemeshko, “Variational approaches
to quantum impurities: from the Fröhlich polaron to the angulon,” Molecular
Physics. Taylor and Francis, 2019.'
ista: 'Li X, Bighin G, Yakaboylu E, Lemeshko M. 2019. Variational approaches to
quantum impurities: from the Fröhlich polaron to the angulon. Molecular Physics.'
mla: 'Li, Xiang, et al. “Variational Approaches to Quantum Impurities: From the
Fröhlich Polaron to the Angulon.” Molecular Physics, Taylor and Francis,
2019, doi:10.1080/00268976.2019.1567852.'
short: X. Li, G. Bighin, E. Yakaboylu, M. Lemeshko, Molecular Physics (2019).
date_created: 2019-01-27T22:59:10Z
date_published: 2019-01-18T00:00:00Z
date_updated: 2023-09-07T13:16:42Z
day: '18'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.1080/00268976.2019.1567852
ec_funded: 1
external_id:
isi:
- '000474641400008'
file:
- access_level: open_access
checksum: 178964744b636a6f036372f4f090a657
content_type: application/pdf
creator: dernst
date_created: 2019-01-29T08:32:57Z
date_updated: 2020-07-14T12:47:13Z
file_id: '5896'
file_name: 2019_MolecularPhysics_Li.pdf
file_size: 1309966
relation: main_file
file_date_updated: 2020-07-14T12:47:13Z
has_accepted_license: '1'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
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: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Molecular Physics
publication_identifier:
issn:
- '00268976'
publication_status: published
publisher: Taylor and Francis
quality_controlled: '1'
related_material:
record:
- id: '8958'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: 'Variational approaches to quantum impurities: from the Fröhlich polaron to
the angulon'
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
year: '2019'
...
---
_id: '6556'
abstract:
- lang: eng
text: 'Motivated by fixed-parameter tractable (FPT) problems in computational topology,
we consider the treewidth tw(M) of a compact, connected 3-manifold M, defined
to be the minimum treewidth of the face pairing graph of any triangulation T of
M. In this setting the relationship between the topology of a 3-manifold and its
treewidth is of particular interest. First, as a corollary of work of Jaco and
Rubinstein, we prove that for any closed, orientable 3-manifold M the treewidth
tw(M) is at most 4g(M)-2, where g(M) denotes Heegaard genus of M. In combination
with our earlier work with Wagner, this yields that for non-Haken manifolds the
Heegaard genus and the treewidth are within a constant factor. Second, we characterize
all 3-manifolds of treewidth one: These are precisely the lens spaces and a single
other Seifert fibered space. Furthermore, we show that all remaining orientable
Seifert fibered spaces over the 2-sphere or a non-orientable surface have treewidth
two. In particular, for every spherical 3-manifold we exhibit a triangulation
of treewidth at most two. Our results further validate the parameter of treewidth
(and other related parameters such as cutwidth or congestion) to be useful for
topological computing, and also shed more light on the scope of existing FPT-algorithms
in the field.'
alternative_title:
- LIPIcs
article_processing_charge: No
author:
- first_name: Kristóf
full_name: Huszár, Kristóf
id: 33C26278-F248-11E8-B48F-1D18A9856A87
last_name: Huszár
orcid: 0000-0002-5445-5057
- first_name: Jonathan
full_name: Spreer, Jonathan
last_name: Spreer
citation:
ama: 'Huszár K, Spreer J. 3-manifold triangulations with small treewidth. In: 35th
International Symposium on Computational Geometry. Vol 129. Schloss Dagstuhl
- Leibniz-Zentrum für Informatik; 2019:44:1-44:20. doi:10.4230/LIPIcs.SoCG.2019.44'
apa: 'Huszár, K., & Spreer, J. (2019). 3-manifold triangulations with small
treewidth. In 35th International Symposium on Computational Geometry (Vol.
129, p. 44:1-44:20). Portland, Oregon, United States: Schloss Dagstuhl - Leibniz-Zentrum
für Informatik. https://doi.org/10.4230/LIPIcs.SoCG.2019.44'
chicago: Huszár, Kristóf, and Jonathan Spreer. “3-Manifold Triangulations with Small
Treewidth.” In 35th International Symposium on Computational Geometry,
129:44:1-44:20. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2019. https://doi.org/10.4230/LIPIcs.SoCG.2019.44.
ieee: K. Huszár and J. Spreer, “3-manifold triangulations with small treewidth,”
in 35th International Symposium on Computational Geometry, Portland, Oregon,
United States, 2019, vol. 129, p. 44:1-44:20.
ista: 'Huszár K, Spreer J. 2019. 3-manifold triangulations with small treewidth.
35th International Symposium on Computational Geometry. SoCG: Symposium on Computational
Geometry, LIPIcs, vol. 129, 44:1-44:20.'
mla: Huszár, Kristóf, and Jonathan Spreer. “3-Manifold Triangulations with Small
Treewidth.” 35th International Symposium on Computational Geometry, vol.
129, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2019, p. 44:1-44:20, doi:10.4230/LIPIcs.SoCG.2019.44.
short: K. Huszár, J. Spreer, in:, 35th International Symposium on Computational
Geometry, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2019, p. 44:1-44:20.
conference:
end_date: 2019-06-21
location: Portland, Oregon, United States
name: 'SoCG: Symposium on Computational Geometry'
start_date: 2019-06-18
date_created: 2019-06-11T20:09:57Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2023-09-07T13:18:26Z
day: '01'
ddc:
- '516'
department:
- _id: UlWa
doi: 10.4230/LIPIcs.SoCG.2019.44
external_id:
arxiv:
- '1812.05528'
file:
- access_level: open_access
checksum: 29d18c435368468aa85823dabb157e43
content_type: application/pdf
creator: kschuh
date_created: 2019-06-12T06:45:33Z
date_updated: 2020-07-14T12:47:33Z
file_id: '6557'
file_name: 2019_LIPIcs-Huszar.pdf
file_size: 905885
relation: main_file
file_date_updated: 2020-07-14T12:47:33Z
has_accepted_license: '1'
intvolume: ' 129'
keyword:
- computational 3-manifold topology
- fixed-parameter tractability
- layered triangulations
- structural graph theory
- treewidth
- cutwidth
- Heegaard genus
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 44:1-44:20
publication: 35th International Symposium on Computational Geometry
publication_identifier:
isbn:
- 978-3-95977-104-7
issn:
- 1868-8969
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
related_material:
record:
- id: '8032'
relation: part_of_dissertation
status: public
scopus_import: '1'
status: public
title: 3-manifold triangulations with small treewidth
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 129
year: '2019'
...
---
_id: '7093'
abstract:
- lang: eng
text: "In graph theory, as well as in 3-manifold topology, there exist several width-type
parameters to describe how \"simple\" or \"thin\" a given graph or 3-manifold
is. These parameters, such as pathwidth or treewidth for graphs, or the concept
of thin position for 3-manifolds, play an important role when studying algorithmic
problems; in particular, there is a variety of problems in computational 3-manifold
topology - some of them known to be computationally hard in general - that become
solvable in polynomial time as soon as the dual graph of the input triangulation
has bounded treewidth.\r\nIn view of these algorithmic results, it is natural
to ask whether every 3-manifold admits a triangulation of bounded treewidth. We
show that this is not the case, i.e., that there exists an infinite family of
closed 3-manifolds not admitting triangulations of bounded pathwidth or treewidth
(the latter implies the former, but we present two separate proofs).\r\nWe derive
these results from work of Agol, of Scharlemann and Thompson, and of Scharlemann,
Schultens and Saito by exhibiting explicit connections between the topology of
a 3-manifold M on the one hand and width-type parameters of the dual graphs of
triangulations of M on the other hand, answering a question that had been raised
repeatedly by researchers in computational 3-manifold topology. In particular,
we show that if a closed, orientable, irreducible, non-Haken 3-manifold M has
a triangulation of treewidth (resp. pathwidth) k then the Heegaard genus of M
is at most 18(k+1) (resp. 4(3k+1))."
article_processing_charge: No
article_type: original
author:
- first_name: Kristóf
full_name: Huszár, Kristóf
id: 33C26278-F248-11E8-B48F-1D18A9856A87
last_name: Huszár
orcid: 0000-0002-5445-5057
- first_name: Jonathan
full_name: Spreer, Jonathan
last_name: Spreer
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: Huszár K, Spreer J, Wagner U. On the treewidth of triangulated 3-manifolds.
Journal of Computational Geometry. 2019;10(2):70–98. doi:10.20382/JOGC.V10I2A5
apa: Huszár, K., Spreer, J., & Wagner, U. (2019). On the treewidth of triangulated
3-manifolds. Journal of Computational Geometry. Computational Geometry
Laborartoy. https://doi.org/10.20382/JOGC.V10I2A5
chicago: Huszár, Kristóf, Jonathan Spreer, and Uli Wagner. “On the Treewidth of
Triangulated 3-Manifolds.” Journal of Computational Geometry. Computational
Geometry Laborartoy, 2019. https://doi.org/10.20382/JOGC.V10I2A5.
ieee: K. Huszár, J. Spreer, and U. Wagner, “On the treewidth of triangulated 3-manifolds,”
Journal of Computational Geometry, vol. 10, no. 2. Computational Geometry
Laborartoy, pp. 70–98, 2019.
ista: Huszár K, Spreer J, Wagner U. 2019. On the treewidth of triangulated 3-manifolds.
Journal of Computational Geometry. 10(2), 70–98.
mla: Huszár, Kristóf, et al. “On the Treewidth of Triangulated 3-Manifolds.” Journal
of Computational Geometry, vol. 10, no. 2, Computational Geometry Laborartoy,
2019, pp. 70–98, doi:10.20382/JOGC.V10I2A5.
short: K. Huszár, J. Spreer, U. Wagner, Journal of Computational Geometry 10 (2019)
70–98.
date_created: 2019-11-23T12:14:09Z
date_published: 2019-11-01T00:00:00Z
date_updated: 2023-09-07T13:18:26Z
day: '01'
ddc:
- '514'
department:
- _id: UlWa
doi: 10.20382/JOGC.V10I2A5
external_id:
arxiv:
- '1712.00434'
file:
- access_level: open_access
checksum: c872d590d38d538404782bca20c4c3f5
content_type: application/pdf
creator: khuszar
date_created: 2019-11-23T12:35:16Z
date_updated: 2020-07-14T12:47:49Z
file_id: '7094'
file_name: 479-1917-1-PB.pdf
file_size: 857590
relation: main_file
file_date_updated: 2020-07-14T12:47:49Z
has_accepted_license: '1'
intvolume: ' 10'
issue: '2'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 70–98
publication: Journal of Computational Geometry
publication_identifier:
issn:
- 1920-180X
publication_status: published
publisher: Computational Geometry Laborartoy
quality_controlled: '1'
related_material:
record:
- id: '285'
relation: earlier_version
status: public
- id: '8032'
relation: part_of_dissertation
status: public
status: public
title: On the treewidth of triangulated 3-manifolds
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 10
year: '2019'
...
---
_id: '7197'
abstract:
- lang: eng
text: During bacterial cell division, the tubulin-homolog FtsZ forms a ring-like
structure at the center of the cell. This Z-ring not only organizes the division
machinery, but treadmilling of FtsZ filaments was also found to play a key role
in distributing proteins at the division site. What regulates the architecture,
dynamics and stability of the Z-ring is currently unknown, but FtsZ-associated
proteins are known to play an important role. Here, using an in vitro reconstitution
approach, we studied how the well-conserved protein ZapA affects FtsZ treadmilling
and filament organization into large-scale patterns. Using high-resolution fluorescence
microscopy and quantitative image analysis, we found that ZapA cooperatively increases
the spatial order of the filament network, but binds only transiently to FtsZ
filaments and has no effect on filament length and treadmilling velocity. Together,
our data provides a model for how FtsZ-associated proteins can increase the precision
and stability of the bacterial cell division machinery in a switch-like manner.
acknowledged_ssus:
- _id: LifeSc
- _id: Bio
article_number: '5744'
article_processing_charge: No
article_type: original
author:
- first_name: Paulo R
full_name: Dos Santos Caldas, Paulo R
id: 38FCDB4C-F248-11E8-B48F-1D18A9856A87
last_name: Dos Santos Caldas
orcid: 0000-0001-6730-4461
- first_name: Maria D
full_name: Lopez Pelegrin, Maria D
id: 319AA9CE-F248-11E8-B48F-1D18A9856A87
last_name: Lopez Pelegrin
- first_name: Daniel J. G.
full_name: Pearce, Daniel J. G.
last_name: Pearce
- first_name: Nazmi B
full_name: Budanur, Nazmi B
id: 3EA1010E-F248-11E8-B48F-1D18A9856A87
last_name: Budanur
orcid: 0000-0003-0423-5010
- first_name: Jan
full_name: Brugués, Jan
last_name: Brugués
- first_name: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
citation:
ama: Dos Santos Caldas PR, Lopez Pelegrin MD, Pearce DJG, Budanur NB, Brugués J,
Loose M. Cooperative ordering of treadmilling filaments in cytoskeletal networks
of FtsZ and its crosslinker ZapA. Nature Communications. 2019;10. doi:10.1038/s41467-019-13702-4
apa: Dos Santos Caldas, P. R., Lopez Pelegrin, M. D., Pearce, D. J. G., Budanur,
N. B., Brugués, J., & Loose, M. (2019). Cooperative ordering of treadmilling
filaments in cytoskeletal networks of FtsZ and its crosslinker ZapA. Nature
Communications. Springer Nature. https://doi.org/10.1038/s41467-019-13702-4
chicago: Dos Santos Caldas, Paulo R, Maria D Lopez Pelegrin, Daniel J. G. Pearce,
Nazmi B Budanur, Jan Brugués, and Martin Loose. “Cooperative Ordering of Treadmilling
Filaments in Cytoskeletal Networks of FtsZ and Its Crosslinker ZapA.” Nature
Communications. Springer Nature, 2019. https://doi.org/10.1038/s41467-019-13702-4.
ieee: P. R. Dos Santos Caldas, M. D. Lopez Pelegrin, D. J. G. Pearce, N. B. Budanur,
J. Brugués, and M. Loose, “Cooperative ordering of treadmilling filaments in cytoskeletal
networks of FtsZ and its crosslinker ZapA,” Nature Communications, vol.
10. Springer Nature, 2019.
ista: Dos Santos Caldas PR, Lopez Pelegrin MD, Pearce DJG, Budanur NB, Brugués J,
Loose M. 2019. Cooperative ordering of treadmilling filaments in cytoskeletal
networks of FtsZ and its crosslinker ZapA. Nature Communications. 10, 5744.
mla: Dos Santos Caldas, Paulo R., et al. “Cooperative Ordering of Treadmilling Filaments
in Cytoskeletal Networks of FtsZ and Its Crosslinker ZapA.” Nature Communications,
vol. 10, 5744, Springer Nature, 2019, doi:10.1038/s41467-019-13702-4.
short: P.R. Dos Santos Caldas, M.D. Lopez Pelegrin, D.J.G. Pearce, N.B. Budanur,
J. Brugués, M. Loose, Nature Communications 10 (2019).
date_created: 2019-12-20T12:22:57Z
date_published: 2019-12-17T00:00:00Z
date_updated: 2023-09-07T13:18:51Z
day: '17'
ddc:
- '570'
department:
- _id: MaLo
- _id: BjHo
doi: 10.1038/s41467-019-13702-4
ec_funded: 1
external_id:
isi:
- '000503009300001'
file:
- access_level: open_access
checksum: a1b44b427ba341383197790d0e8789fa
content_type: application/pdf
creator: dernst
date_created: 2019-12-23T07:34:56Z
date_updated: 2020-07-14T12:47:53Z
file_id: '7208'
file_name: 2019_NatureComm_Caldas.pdf
file_size: 8488733
relation: main_file
file_date_updated: 2020-07-14T12:47:53Z
has_accepted_license: '1'
intvolume: ' 10'
isi: 1
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
project:
- _id: 2595697A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '679239'
name: Self-Organization of the Bacterial Cell
- _id: 260D98C8-B435-11E9-9278-68D0E5697425
name: Reconstitution of Bacterial Cell Division Using Purified Components
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '8358'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Cooperative ordering of treadmilling filaments in cytoskeletal networks of
FtsZ and its crosslinker ZapA
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 10
year: '2019'
...
---
_id: '7210'
abstract:
- lang: eng
text: The rate of biological evolution depends on the fixation probability and on
the fixation time of new mutants. Intensive research has focused on identifying
population structures that augment the fixation probability of advantageous mutants.
But these amplifiers of natural selection typically increase fixation time. Here
we study population structures that achieve a tradeoff between fixation probability
and time. First, we show that no amplifiers can have an asymptotically lower absorption
time than the well-mixed population. Then we design population structures that
substantially augment the fixation probability with just a minor increase in fixation
time. Finally, we show that those structures enable higher effective rate of evolution
than the well-mixed population provided that the rate of generating advantageous
mutants is relatively low. Our work sheds light on how population structure affects
the rate of evolution. Moreover, our structures could be useful for lab-based,
medical, or industrial applications of evolutionary optimization.
article_number: '138'
article_processing_charge: No
article_type: original
author:
- first_name: Josef
full_name: Tkadlec, Josef
id: 3F24CCC8-F248-11E8-B48F-1D18A9856A87
last_name: Tkadlec
orcid: 0000-0002-1097-9684
- first_name: Andreas
full_name: Pavlogiannis, Andreas
id: 49704004-F248-11E8-B48F-1D18A9856A87
last_name: Pavlogiannis
orcid: 0000-0002-8943-0722
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Martin A.
full_name: Nowak, Martin A.
last_name: Nowak
citation:
ama: Tkadlec J, Pavlogiannis A, Chatterjee K, Nowak MA. Population structure determines
the tradeoff between fixation probability and fixation time. Communications
Biology. 2019;2. doi:10.1038/s42003-019-0373-y
apa: Tkadlec, J., Pavlogiannis, A., Chatterjee, K., & Nowak, M. A. (2019). Population
structure determines the tradeoff between fixation probability and fixation time.
Communications Biology. Springer Nature. https://doi.org/10.1038/s42003-019-0373-y
chicago: Tkadlec, Josef, Andreas Pavlogiannis, Krishnendu Chatterjee, and Martin
A. Nowak. “Population Structure Determines the Tradeoff between Fixation Probability
and Fixation Time.” Communications Biology. Springer Nature, 2019. https://doi.org/10.1038/s42003-019-0373-y.
ieee: J. Tkadlec, A. Pavlogiannis, K. Chatterjee, and M. A. Nowak, “Population structure
determines the tradeoff between fixation probability and fixation time,” Communications
Biology, vol. 2. Springer Nature, 2019.
ista: Tkadlec J, Pavlogiannis A, Chatterjee K, Nowak MA. 2019. Population structure
determines the tradeoff between fixation probability and fixation time. Communications
Biology. 2, 138.
mla: Tkadlec, Josef, et al. “Population Structure Determines the Tradeoff between
Fixation Probability and Fixation Time.” Communications Biology, vol. 2,
138, Springer Nature, 2019, doi:10.1038/s42003-019-0373-y.
short: J. Tkadlec, A. Pavlogiannis, K. Chatterjee, M.A. Nowak, Communications Biology
2 (2019).
date_created: 2019-12-23T13:36:50Z
date_published: 2019-04-23T00:00:00Z
date_updated: 2023-09-07T13:19:22Z
day: '23'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1038/s42003-019-0373-y
ec_funded: 1
external_id:
isi:
- '000465425700006'
pmid:
- '31044163'
file:
- access_level: open_access
checksum: d1a69bfe73767e4246f0a38e4e1554dd
content_type: application/pdf
creator: dernst
date_created: 2019-12-23T13:39:30Z
date_updated: 2020-07-14T12:47:53Z
file_id: '7211'
file_name: 2019_CommBio_Tkadlec.pdf
file_size: 1670274
relation: main_file
file_date_updated: 2020-07-14T12:47:53Z
has_accepted_license: '1'
intvolume: ' 2'
isi: 1
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
publication: Communications Biology
publication_identifier:
issn:
- 2399-3642
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '7196'
relation: part_of_dissertation
status: public
scopus_import: '1'
status: public
title: Population structure determines the tradeoff between fixation probability and
fixation time
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 2
year: '2019'
...
---
_id: '10190'
abstract:
- lang: eng
text: 'The verification of concurrent programs remains an open challenge, as thread
interaction has to be accounted for, which leads to state-space explosion. Stateless
model checking battles this problem by exploring traces rather than states of
the program. As there are exponentially many traces, dynamic partial-order reduction
(DPOR) techniques are used to partition the trace space into equivalence classes,
and explore a few representatives from each class. The standard equivalence that
underlies most DPOR techniques is the happens-before equivalence, however recent
works have spawned a vivid interest towards coarser equivalences. The efficiency
of such approaches is a product of two parameters: (i) the size of the partitioning
induced by the equivalence, and (ii) the time spent by the exploration algorithm
in each class of the partitioning. In this work, we present a new equivalence,
called value-happens-before and show that it has two appealing features. First,
value-happens-before is always at least as coarse as the happens-before equivalence,
and can be even exponentially coarser. Second, the value-happens-before partitioning
is efficiently explorable when the number of threads is bounded. We present an
algorithm called value-centric DPOR (VCDPOR), which explores the underlying partitioning
using polynomial time per class. Finally, we perform an experimental evaluation
of VCDPOR on various benchmarks, and compare it against other state-of-the-art
approaches. Our results show that value-happens-before typically induces a significant
reduction in the size of the underlying partitioning, which leads to a considerable
reduction in the running time for exploring the whole partitioning.'
acknowledgement: "The authors would also like to thank anonymous referees for their
valuable comments and helpful suggestions. This work is supported by the Austrian
Science Fund (FWF) NFN grants S11407-N23 (RiSE/SHiNE) and S11402-N23 (RiSE/SHiNE),
by the Vienna Science and Technology Fund (WWTF) Project ICT15-003, and by the Austrian
Science Fund (FWF) Schrodinger grant J-4220.\r\n"
article_number: '124'
article_processing_charge: No
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Andreas
full_name: Pavlogiannis, Andreas
id: 49704004-F248-11E8-B48F-1D18A9856A87
last_name: Pavlogiannis
orcid: 0000-0002-8943-0722
- first_name: Viktor
full_name: Toman, Viktor
id: 3AF3DA7C-F248-11E8-B48F-1D18A9856A87
last_name: Toman
orcid: 0000-0001-9036-063X
citation:
ama: 'Chatterjee K, Pavlogiannis A, Toman V. Value-centric dynamic partial order
reduction. In: Proceedings of the 34th ACM International Conference on Object-Oriented
Programming, Systems, Languages, and Applications. Vol 3. ACM; 2019. doi:10.1145/3360550'
apa: 'Chatterjee, K., Pavlogiannis, A., & Toman, V. (2019). Value-centric dynamic
partial order reduction. In Proceedings of the 34th ACM International Conference
on Object-Oriented Programming, Systems, Languages, and Applications (Vol.
3). Athens, Greece: ACM. https://doi.org/10.1145/3360550'
chicago: Chatterjee, Krishnendu, Andreas Pavlogiannis, and Viktor Toman. “Value-Centric
Dynamic Partial Order Reduction.” In Proceedings of the 34th ACM International
Conference on Object-Oriented Programming, Systems, Languages, and Applications,
Vol. 3. ACM, 2019. https://doi.org/10.1145/3360550.
ieee: K. Chatterjee, A. Pavlogiannis, and V. Toman, “Value-centric dynamic partial
order reduction,” in Proceedings of the 34th ACM International Conference on
Object-Oriented Programming, Systems, Languages, and Applications, Athens,
Greece, 2019, vol. 3.
ista: 'Chatterjee K, Pavlogiannis A, Toman V. 2019. Value-centric dynamic partial
order reduction. Proceedings of the 34th ACM International Conference on Object-Oriented
Programming, Systems, Languages, and Applications. OOPSLA: Object-oriented Programming,
Systems, Languages and Applications vol. 3, 124.'
mla: Chatterjee, Krishnendu, et al. “Value-Centric Dynamic Partial Order Reduction.”
Proceedings of the 34th ACM International Conference on Object-Oriented Programming,
Systems, Languages, and Applications, vol. 3, 124, ACM, 2019, doi:10.1145/3360550.
short: K. Chatterjee, A. Pavlogiannis, V. Toman, in:, Proceedings of the 34th ACM
International Conference on Object-Oriented Programming, Systems, Languages, and
Applications, ACM, 2019.
conference:
end_date: 2019-10-25
location: Athens, Greece
name: 'OOPSLA: Object-oriented Programming, Systems, Languages and Applications'
start_date: 2019-10-23
date_created: 2021-10-27T14:57:06Z
date_published: 2019-10-10T00:00:00Z
date_updated: 2023-09-07T13:30:27Z
day: '10'
ddc:
- '000'
department:
- _id: GradSch
- _id: KrCh
doi: 10.1145/3360550
external_id:
arxiv:
- '1909.00989'
file:
- access_level: open_access
checksum: 2149979c46964c4d117af06ccb6c0834
content_type: application/pdf
creator: cchlebak
date_created: 2021-11-12T11:41:56Z
date_updated: 2021-11-12T11:41:56Z
file_id: '10278'
file_name: 2019_ACM_Chatterjee.pdf
file_size: 570829
relation: main_file
success: 1
file_date_updated: 2021-11-12T11:41:56Z
has_accepted_license: '1'
intvolume: ' 3'
keyword:
- safety
- risk
- reliability and quality
- software
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://dl.acm.org/doi/10.1145/3360550
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 25892FC0-B435-11E9-9278-68D0E5697425
grant_number: ICT15-003
name: Efficient Algorithms for Computer Aided Verification
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 25F5A88A-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11402-N23
name: Moderne Concurrency Paradigms
publication: Proceedings of the 34th ACM International Conference on Object-Oriented
Programming, Systems, Languages, and Applications
publication_identifier:
eissn:
- 2475-1421
publication_status: published
publisher: ACM
quality_controlled: '1'
related_material:
record:
- id: '10199'
relation: dissertation_contains
status: public
status: public
title: Value-centric dynamic partial order reduction
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 3
year: '2019'
...
---
_id: '6673'
abstract:
- lang: eng
text: Several classic problems in graph processing and computational geometry are
solved via incremental algorithms, which split computation into a series of small
tasks acting on shared state, which gets updated progressively. While the sequential
variant of such algorithms usually specifies a fixed (but sometimes random) order
in which the tasks should be performed, a standard approach to parallelizing such
algorithms is to relax this constraint to allow for out-of-order parallel execution.
This is the case for parallel implementations of Dijkstra's single-source shortest-paths
(SSSP) algorithm, and for parallel Delaunay mesh triangulation. While many software
frameworks parallelize incremental computation in this way, it is still not well
understood whether this relaxed ordering approach can still provide any complexity
guarantees. In this paper, we address this problem, and analyze the efficiency
guarantees provided by a range of incremental algorithms when parallelized via
relaxed schedulers. We show that, for algorithms such as Delaunay mesh triangulation
and sorting by insertion, schedulers with a maximum relaxation factor of k in
terms of the maximum priority inversion allowed will introduce a maximum amount
of wasted work of O(łog n poly(k)), where n is the number of tasks to be executed.
For SSSP, we show that the additional work is O(poly(k), dmax / wmin), where dmax
is the maximum distance between two nodes, and wmin is the minimum such distance.
In practical settings where n >> k, this suggests that the overheads of relaxation
will be outweighed by the improved scalability of the relaxed scheduler. On the
negative side, we provide lower bounds showing that certain algorithms will inherently
incur a non-trivial amount of wasted work due to scheduler relaxation, even for
relatively benign relaxed schedulers.
article_processing_charge: No
author:
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
- first_name: Giorgi
full_name: Nadiradze, Giorgi
id: 3279A00C-F248-11E8-B48F-1D18A9856A87
last_name: Nadiradze
orcid: 0000-0001-5634-0731
- first_name: Nikita
full_name: Koval, Nikita
id: 2F4DB10C-F248-11E8-B48F-1D18A9856A87
last_name: Koval
citation:
ama: 'Alistarh D-A, Nadiradze G, Koval N. Efficiency guarantees for parallel incremental
algorithms under relaxed schedulers. In: 31st ACM Symposium on Parallelism
in Algorithms and Architectures. ACM Press; 2019:145-154. doi:10.1145/3323165.3323201'
apa: 'Alistarh, D.-A., Nadiradze, G., & Koval, N. (2019). Efficiency guarantees
for parallel incremental algorithms under relaxed schedulers. In 31st ACM Symposium
on Parallelism in Algorithms and Architectures (pp. 145–154). Phoenix, AZ,
United States: ACM Press. https://doi.org/10.1145/3323165.3323201'
chicago: Alistarh, Dan-Adrian, Giorgi Nadiradze, and Nikita Koval. “Efficiency Guarantees
for Parallel Incremental Algorithms under Relaxed Schedulers.” In 31st ACM
Symposium on Parallelism in Algorithms and Architectures, 145–54. ACM Press,
2019. https://doi.org/10.1145/3323165.3323201.
ieee: D.-A. Alistarh, G. Nadiradze, and N. Koval, “Efficiency guarantees for parallel
incremental algorithms under relaxed schedulers,” in 31st ACM Symposium on
Parallelism in Algorithms and Architectures, Phoenix, AZ, United States, 2019,
pp. 145–154.
ista: 'Alistarh D-A, Nadiradze G, Koval N. 2019. Efficiency guarantees for parallel
incremental algorithms under relaxed schedulers. 31st ACM Symposium on Parallelism
in Algorithms and Architectures. SPAA: Symposium on Parallelism in Algorithms
and Architectures, 145–154.'
mla: Alistarh, Dan-Adrian, et al. “Efficiency Guarantees for Parallel Incremental
Algorithms under Relaxed Schedulers.” 31st ACM Symposium on Parallelism in
Algorithms and Architectures, ACM Press, 2019, pp. 145–54, doi:10.1145/3323165.3323201.
short: D.-A. Alistarh, G. Nadiradze, N. Koval, in:, 31st ACM Symposium on Parallelism
in Algorithms and Architectures, ACM Press, 2019, pp. 145–154.
conference:
end_date: 2019-06-24
location: Phoenix, AZ, United States
name: 'SPAA: Symposium on Parallelism in Algorithms and Architectures'
start_date: 2019-06-22
date_created: 2019-07-24T08:59:36Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2023-09-07T13:31:39Z
day: '01'
department:
- _id: DaAl
doi: 10.1145/3323165.3323201
ec_funded: 1
external_id:
arxiv:
- '2003.09363'
isi:
- '000507618500018'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2003.09363
month: '06'
oa: 1
oa_version: Preprint
page: 145-154
project:
- _id: 268A44D6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '805223'
name: Elastic Coordination for Scalable Machine Learning
publication: 31st ACM Symposium on Parallelism in Algorithms and Architectures
publication_identifier:
isbn:
- '9781450361842'
publication_status: published
publisher: ACM Press
quality_controlled: '1'
related_material:
record:
- id: '10429'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Efficiency guarantees for parallel incremental algorithms under relaxed schedulers
type: conference
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
year: '2019'
...
---
_id: '7398'
abstract:
- lang: eng
text: 'Transporters of the solute carrier 6 (SLC6) family translocate their cognate
substrate together with Na+ and Cl−. Detailed kinetic models exist for the transporters
of GABA (GAT1/SLC6A1) and the monoamines dopamine (DAT/SLC6A3) and serotonin (SERT/SLC6A4).
Here, we posited that the transport cycle of individual SLC6 transporters reflects
the physiological requirements they operate under. We tested this hypothesis by
analyzing the transport cycle of glycine transporter 1 (GlyT1/SLC6A9) and glycine
transporter 2 (GlyT2/SLC6A5). GlyT2 is the only SLC6 family member known to translocate
glycine, Na+, and Cl− in a 1:3:1 stoichiometry. We analyzed partial reactions
in real time by electrophysiological recordings. Contrary to monoamine transporters,
both GlyTs were found to have a high transport capacity driven by rapid return
of the empty transporter after release of Cl− on the intracellular side. Rapid
cycling of both GlyTs was further supported by highly cooperative binding of cosubstrate
ions and substrate such that their forward transport mode was maintained even
under conditions of elevated intracellular Na+ or Cl−. The most important differences
in the transport cycle of GlyT1 and GlyT2 arose from the kinetics of charge movement
and the resulting voltage-dependent rate-limiting reactions: the kinetics of GlyT1
were governed by transition of the substrate-bound transporter from outward- to
inward-facing conformations, whereas the kinetics of GlyT2 were governed by Na+
binding (or a related conformational change). Kinetic modeling showed that the
kinetics of GlyT1 are ideally suited for supplying the extracellular glycine levels
required for NMDA receptor activation.'
article_processing_charge: No
article_type: original
author:
- first_name: Fatma Asli
full_name: Erdem, Fatma Asli
last_name: Erdem
- first_name: Marija
full_name: Ilic, Marija
last_name: Ilic
- first_name: Peter
full_name: Koppensteiner, Peter
id: 3B8B25A8-F248-11E8-B48F-1D18A9856A87
last_name: Koppensteiner
orcid: 0000-0002-3509-1948
- first_name: Jakub
full_name: Gołacki, Jakub
last_name: Gołacki
- first_name: Gert
full_name: Lubec, Gert
last_name: Lubec
- first_name: Michael
full_name: Freissmuth, Michael
last_name: Freissmuth
- first_name: Walter
full_name: Sandtner, Walter
last_name: Sandtner
citation:
ama: Erdem FA, Ilic M, Koppensteiner P, et al. A comparison of the transport kinetics
of glycine transporter 1 and glycine transporter 2. The Journal of General
Physiology. 2019;151(8):1035-1050. doi:10.1085/jgp.201912318
apa: Erdem, F. A., Ilic, M., Koppensteiner, P., Gołacki, J., Lubec, G., Freissmuth,
M., & Sandtner, W. (2019). A comparison of the transport kinetics of glycine
transporter 1 and glycine transporter 2. The Journal of General Physiology.
Rockefeller University Press. https://doi.org/10.1085/jgp.201912318
chicago: Erdem, Fatma Asli, Marija Ilic, Peter Koppensteiner, Jakub Gołacki, Gert
Lubec, Michael Freissmuth, and Walter Sandtner. “A Comparison of the Transport
Kinetics of Glycine Transporter 1 and Glycine Transporter 2.” The Journal of
General Physiology. Rockefeller University Press, 2019. https://doi.org/10.1085/jgp.201912318.
ieee: F. A. Erdem et al., “A comparison of the transport kinetics of glycine
transporter 1 and glycine transporter 2,” The Journal of General Physiology,
vol. 151, no. 8. Rockefeller University Press, pp. 1035–1050, 2019.
ista: Erdem FA, Ilic M, Koppensteiner P, Gołacki J, Lubec G, Freissmuth M, Sandtner
W. 2019. A comparison of the transport kinetics of glycine transporter 1 and glycine
transporter 2. The Journal of General Physiology. 151(8), 1035–1050.
mla: Erdem, Fatma Asli, et al. “A Comparison of the Transport Kinetics of Glycine
Transporter 1 and Glycine Transporter 2.” The Journal of General Physiology,
vol. 151, no. 8, Rockefeller University Press, 2019, pp. 1035–50, doi:10.1085/jgp.201912318.
short: F.A. Erdem, M. Ilic, P. Koppensteiner, J. Gołacki, G. Lubec, M. Freissmuth,
W. Sandtner, The Journal of General Physiology 151 (2019) 1035–1050.
date_created: 2020-01-29T16:06:29Z
date_published: 2019-07-03T00:00:00Z
date_updated: 2023-09-07T14:52:23Z
day: '03'
ddc:
- '570'
department:
- _id: RySh
doi: 10.1085/jgp.201912318
external_id:
isi:
- '000478792500008'
pmid:
- '31270129'
file:
- access_level: open_access
checksum: 5706b4ccd74ee3e50bf7ecb2a203df71
content_type: application/pdf
creator: dernst
date_created: 2020-02-05T07:20:32Z
date_updated: 2020-07-14T12:47:57Z
file_id: '7450'
file_name: 2019_JGP_Erdem.pdf
file_size: 2641297
relation: main_file
file_date_updated: 2020-07-14T12:47:57Z
has_accepted_license: '1'
intvolume: ' 151'
isi: 1
issue: '8'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-sa/4.0/
month: '07'
oa: 1
oa_version: Published Version
page: 1035-1050
pmid: 1
publication: The Journal of General Physiology
publication_identifier:
eissn:
- 1540-7748
issn:
- 0022-1295
publication_status: published
publisher: Rockefeller University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: A comparison of the transport kinetics of glycine transporter 1 and glycine
transporter 2
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 151
year: '2019'
...
---
_id: '7395'
abstract:
- lang: eng
text: The mitochondrial electron transport chain complexes are organized into supercomplexes
(SCs) of defined stoichiometry, which have been proposed to regulate electron
flux via substrate channeling. We demonstrate that CoQ trapping in the isolated
SC I+III2 limits complex (C)I turnover, arguing against channeling. The SC structure,
resolved at up to 3.8 Å in four distinct states, suggests that CoQ oxidation may
be rate limiting because of unequal access of CoQ to the active sites of CIII2.
CI shows a transition between “closed” and “open” conformations, accompanied by
the striking rotation of a key transmembrane helix. Furthermore, the state of
CI affects the conformational flexibility within CIII2, demonstrating crosstalk
between the enzymes. CoQ was identified at only three of the four binding sites
in CIII2, suggesting that interaction with CI disrupts CIII2 symmetry in a functionally
relevant manner. Together, these observations indicate a more nuanced functional
role for the SCs.
article_processing_charge: No
article_type: original
author:
- first_name: James A
full_name: Letts, James A
id: 322DA418-F248-11E8-B48F-1D18A9856A87
last_name: Letts
orcid: 0000-0002-9864-3586
- first_name: Karol
full_name: Fiedorczuk, Karol
id: 5BFF67CE-02D1-11E9-B11A-A5A4D7DFFFD0
last_name: Fiedorczuk
- first_name: Gianluca
full_name: Degliesposti, Gianluca
last_name: Degliesposti
- first_name: Mark
full_name: Skehel, Mark
last_name: Skehel
- first_name: Leonid A
full_name: Sazanov, Leonid A
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
citation:
ama: Letts JA, Fiedorczuk K, Degliesposti G, Skehel M, Sazanov LA. Structures of
respiratory supercomplex I+III2 reveal functional and conformational crosstalk.
Molecular Cell. 2019;75(6):1131-1146.e6. doi:10.1016/j.molcel.2019.07.022
apa: Letts, J. A., Fiedorczuk, K., Degliesposti, G., Skehel, M., & Sazanov,
L. A. (2019). Structures of respiratory supercomplex I+III2 reveal functional
and conformational crosstalk. Molecular Cell. Cell Press. https://doi.org/10.1016/j.molcel.2019.07.022
chicago: Letts, James A, Karol Fiedorczuk, Gianluca Degliesposti, Mark Skehel, and
Leonid A Sazanov. “Structures of Respiratory Supercomplex I+III2 Reveal Functional
and Conformational Crosstalk.” Molecular Cell. Cell Press, 2019. https://doi.org/10.1016/j.molcel.2019.07.022.
ieee: J. A. Letts, K. Fiedorczuk, G. Degliesposti, M. Skehel, and L. A. Sazanov,
“Structures of respiratory supercomplex I+III2 reveal functional and conformational
crosstalk,” Molecular Cell, vol. 75, no. 6. Cell Press, p. 1131–1146.e6,
2019.
ista: Letts JA, Fiedorczuk K, Degliesposti G, Skehel M, Sazanov LA. 2019. Structures
of respiratory supercomplex I+III2 reveal functional and conformational crosstalk.
Molecular Cell. 75(6), 1131–1146.e6.
mla: Letts, James A., et al. “Structures of Respiratory Supercomplex I+III2 Reveal
Functional and Conformational Crosstalk.” Molecular Cell, vol. 75, no.
6, Cell Press, 2019, p. 1131–1146.e6, doi:10.1016/j.molcel.2019.07.022.
short: J.A. Letts, K. Fiedorczuk, G. Degliesposti, M. Skehel, L.A. Sazanov, Molecular
Cell 75 (2019) 1131–1146.e6.
date_created: 2020-01-29T16:02:33Z
date_published: 2019-09-19T00:00:00Z
date_updated: 2023-09-07T14:53:06Z
day: '19'
ddc:
- '570'
department:
- _id: LeSa
doi: 10.1016/j.molcel.2019.07.022
ec_funded: 1
external_id:
isi:
- '000486614200006'
pmid:
- '31492636'
file:
- access_level: open_access
checksum: 5202f53a237d6650ece038fbf13bdcea
content_type: application/pdf
creator: dernst
date_created: 2020-02-04T10:37:28Z
date_updated: 2020-07-14T12:47:57Z
file_id: '7447'
file_name: 2019_MolecularCell_Letts.pdf
file_size: 9654895
relation: main_file
file_date_updated: 2020-07-14T12:47:57Z
has_accepted_license: '1'
intvolume: ' 75'
isi: 1
issue: '6'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 1131-1146.e6
pmid: 1
project:
- _id: 2590DB08-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '701309'
name: Atomic-Resolution Structures of Mitochondrial Respiratory Chain Supercomplexes
publication: Molecular Cell
publication_identifier:
issn:
- 1097-2765
publication_status: published
publisher: Cell Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Structures of respiratory supercomplex I+III2 reveal functional and conformational
crosstalk
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 75
year: '2019'
...
---
_id: '7405'
abstract:
- lang: eng
text: Biophysical modeling of neuronal networks helps to integrate and interpret
rapidly growing and disparate experimental datasets at multiple scales. The NetPyNE
tool (www.netpyne.org) provides both programmatic and graphical interfaces to
develop data-driven multiscale network models in NEURON. NetPyNE clearly separates
model parameters from implementation code. Users provide specifications at a high
level via a standardized declarative language, for example connectivity rules,
to create millions of cell-to-cell connections. NetPyNE then enables users to
generate the NEURON network, run efficiently parallelized simulations, optimize
and explore network parameters through automated batch runs, and use built-in
functions for visualization and analysis – connectivity matrices, voltage traces,
spike raster plots, local field potentials, and information theoretic measures.
NetPyNE also facilitates model sharing by exporting and importing standardized
formats (NeuroML and SONATA). NetPyNE is already being used to teach computational
neuroscience students and by modelers to investigate brain regions and phenomena.
article_number: e44494
article_processing_charge: No
article_type: original
author:
- first_name: Salvador
full_name: Dura-Bernal, Salvador
last_name: Dura-Bernal
- first_name: Benjamin
full_name: Suter, Benjamin
id: 4952F31E-F248-11E8-B48F-1D18A9856A87
last_name: Suter
orcid: 0000-0002-9885-6936
- first_name: Padraig
full_name: Gleeson, Padraig
last_name: Gleeson
- first_name: Matteo
full_name: Cantarelli, Matteo
last_name: Cantarelli
- first_name: Adrian
full_name: Quintana, Adrian
last_name: Quintana
- first_name: Facundo
full_name: Rodriguez, Facundo
last_name: Rodriguez
- first_name: David J
full_name: Kedziora, David J
last_name: Kedziora
- first_name: George L
full_name: Chadderdon, George L
last_name: Chadderdon
- first_name: Cliff C
full_name: Kerr, Cliff C
last_name: Kerr
- first_name: Samuel A
full_name: Neymotin, Samuel A
last_name: Neymotin
- first_name: Robert A
full_name: McDougal, Robert A
last_name: McDougal
- first_name: Michael
full_name: Hines, Michael
last_name: Hines
- first_name: Gordon MG
full_name: Shepherd, Gordon MG
last_name: Shepherd
- first_name: William W
full_name: Lytton, William W
last_name: Lytton
citation:
ama: Dura-Bernal S, Suter B, Gleeson P, et al. NetPyNE, a tool for data-driven multiscale
modeling of brain circuits. eLife. 2019;8. doi:10.7554/elife.44494
apa: Dura-Bernal, S., Suter, B., Gleeson, P., Cantarelli, M., Quintana, A., Rodriguez,
F., … Lytton, W. W. (2019). NetPyNE, a tool for data-driven multiscale modeling
of brain circuits. ELife. eLife Sciences Publications. https://doi.org/10.7554/elife.44494
chicago: Dura-Bernal, Salvador, Benjamin Suter, Padraig Gleeson, Matteo Cantarelli,
Adrian Quintana, Facundo Rodriguez, David J Kedziora, et al. “NetPyNE, a Tool
for Data-Driven Multiscale Modeling of Brain Circuits.” ELife. eLife Sciences
Publications, 2019. https://doi.org/10.7554/elife.44494.
ieee: S. Dura-Bernal et al., “NetPyNE, a tool for data-driven multiscale
modeling of brain circuits,” eLife, vol. 8. eLife Sciences Publications,
2019.
ista: Dura-Bernal S, Suter B, Gleeson P, Cantarelli M, Quintana A, Rodriguez F,
Kedziora DJ, Chadderdon GL, Kerr CC, Neymotin SA, McDougal RA, Hines M, Shepherd
GM, Lytton WW. 2019. NetPyNE, a tool for data-driven multiscale modeling of brain
circuits. eLife. 8, e44494.
mla: Dura-Bernal, Salvador, et al. “NetPyNE, a Tool for Data-Driven Multiscale Modeling
of Brain Circuits.” ELife, vol. 8, e44494, eLife Sciences Publications,
2019, doi:10.7554/elife.44494.
short: S. Dura-Bernal, B. Suter, P. Gleeson, M. Cantarelli, A. Quintana, F. Rodriguez,
D.J. Kedziora, G.L. Chadderdon, C.C. Kerr, S.A. Neymotin, R.A. McDougal, M. Hines,
G.M. Shepherd, W.W. Lytton, ELife 8 (2019).
date_created: 2020-01-30T09:08:01Z
date_published: 2019-05-31T00:00:00Z
date_updated: 2023-09-07T14:27:52Z
day: '31'
ddc:
- '570'
department:
- _id: PeJo
doi: 10.7554/elife.44494
external_id:
isi:
- '000468968400001'
pmid:
- '31025934'
file:
- access_level: open_access
checksum: 7014189c11c10a12feeeae37f054871d
content_type: application/pdf
creator: dernst
date_created: 2020-02-04T08:41:47Z
date_updated: 2020-07-14T12:47:57Z
file_id: '7444'
file_name: 2019_eLife_DuraBernal.pdf
file_size: 6182359
relation: main_file
file_date_updated: 2020-07-14T12:47:57Z
has_accepted_license: '1'
intvolume: ' 8'
isi: 1
language:
- iso: eng
month: '05'
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: NetPyNE, a tool for data-driven multiscale modeling of brain circuits
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 8
year: '2019'
...
---
_id: '7400'
abstract:
- lang: eng
text: 'Suppressed recombination allows divergence between homologous sex chromosomes
and the functionality of their genes. Here, we reveal patterns of the earliest
stages of sex-chromosome evolution in the diploid dioecious herb Mercurialis annua
on the basis of cytological analysis, de novo genome assembly and annotation,
genetic mapping, exome resequencing of natural populations, and transcriptome
analysis. The genome assembly contained 34,105 expressed genes, of which 10,076
were assigned to linkage groups. Genetic mapping and exome resequencing of individuals
across the species range both identified the largest linkage group, LG1, as the
sex chromosome. Although the sex chromosomes of M. annua are karyotypically homomorphic,
we estimate that about one-third of the Y chromosome, containing 568 transcripts
and spanning 22.3 cM in the corresponding female map, has ceased recombining.
Nevertheless, we found limited evidence for Y-chromosome degeneration in terms
of gene loss and pseudogenization, and most X- and Y-linked genes appear to have
diverged in the period subsequent to speciation between M. annua and its sister
species M. huetii, which shares the same sex-determining region. Taken together,
our results suggest that the M. annua Y chromosome has at least two evolutionary
strata: a small old stratum shared with M. huetii, and a more recent larger stratum
that is probably unique to M. annua and that stopped recombining ∼1 MYA. Patterns
of gene expression within the nonrecombining region are consistent with the idea
that sexually antagonistic selection may have played a role in favoring suppressed
recombination.'
article_processing_charge: No
article_type: original
author:
- first_name: Paris
full_name: Veltsos, Paris
last_name: Veltsos
- first_name: Kate E.
full_name: Ridout, Kate E.
last_name: Ridout
- first_name: Melissa A
full_name: Toups, Melissa A
id: 4E099E4E-F248-11E8-B48F-1D18A9856A87
last_name: Toups
orcid: 0000-0002-9752-7380
- first_name: Santiago C.
full_name: González-Martínez, Santiago C.
last_name: González-Martínez
- first_name: Aline
full_name: Muyle, Aline
last_name: Muyle
- first_name: Olivier
full_name: Emery, Olivier
last_name: Emery
- first_name: Pasi
full_name: Rastas, Pasi
last_name: Rastas
- first_name: Vojtech
full_name: Hudzieczek, Vojtech
last_name: Hudzieczek
- first_name: Roman
full_name: Hobza, Roman
last_name: Hobza
- first_name: Boris
full_name: Vyskot, Boris
last_name: Vyskot
- first_name: Gabriel A. B.
full_name: Marais, Gabriel A. B.
last_name: Marais
- first_name: Dmitry A.
full_name: Filatov, Dmitry A.
last_name: Filatov
- first_name: John R.
full_name: Pannell, John R.
last_name: Pannell
citation:
ama: Veltsos P, Ridout KE, Toups MA, et al. Early sex-chromosome evolution in the
diploid dioecious plant Mercurialis annua. Genetics. 2019;212(3):815-835.
doi:10.1534/genetics.119.302045
apa: Veltsos, P., Ridout, K. E., Toups, M. A., González-Martínez, S. C., Muyle,
A., Emery, O., … Pannell, J. R. (2019). Early sex-chromosome evolution in the
diploid dioecious plant Mercurialis annua. Genetics. Genetics Society of
America. https://doi.org/10.1534/genetics.119.302045
chicago: Veltsos, Paris, Kate E. Ridout, Melissa A Toups, Santiago C. González-Martínez,
Aline Muyle, Olivier Emery, Pasi Rastas, et al. “Early Sex-Chromosome Evolution
in the Diploid Dioecious Plant Mercurialis Annua.” Genetics. Genetics Society
of America, 2019. https://doi.org/10.1534/genetics.119.302045.
ieee: P. Veltsos et al., “Early sex-chromosome evolution in the diploid dioecious
plant Mercurialis annua,” Genetics, vol. 212, no. 3. Genetics Society of
America, pp. 815–835, 2019.
ista: Veltsos P, Ridout KE, Toups MA, González-Martínez SC, Muyle A, Emery O, Rastas
P, Hudzieczek V, Hobza R, Vyskot B, Marais GAB, Filatov DA, Pannell JR. 2019.
Early sex-chromosome evolution in the diploid dioecious plant Mercurialis annua.
Genetics. 212(3), 815–835.
mla: Veltsos, Paris, et al. “Early Sex-Chromosome Evolution in the Diploid Dioecious
Plant Mercurialis Annua.” Genetics, vol. 212, no. 3, Genetics Society of
America, 2019, pp. 815–35, doi:10.1534/genetics.119.302045.
short: P. Veltsos, K.E. Ridout, M.A. Toups, S.C. González-Martínez, A. Muyle, O.
Emery, P. Rastas, V. Hudzieczek, R. Hobza, B. Vyskot, G.A.B. Marais, D.A. Filatov,
J.R. Pannell, Genetics 212 (2019) 815–835.
date_created: 2020-01-29T16:15:44Z
date_published: 2019-07-01T00:00:00Z
date_updated: 2023-09-07T14:49:29Z
day: '01'
department:
- _id: BeVi
doi: 10.1534/genetics.119.302045
ec_funded: 1
external_id:
isi:
- '000474809300015'
pmid:
- '31113811'
intvolume: ' 212'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1534/genetics.119.302045
month: '07'
oa: 1
oa_version: Published Version
page: 815-835
pmid: 1
project:
- _id: 250BDE62-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715257'
name: Prevalence and Influence of Sexual Antagonism on Genome Evolution
publication: Genetics
publication_identifier:
eissn:
- 1943-2631
issn:
- 0016-6731
publication_status: published
publisher: Genetics Society of America
quality_controlled: '1'
scopus_import: '1'
status: public
title: Early sex-chromosome evolution in the diploid dioecious plant Mercurialis annua
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 212
year: '2019'
...
---
_id: '7404'
abstract:
- lang: eng
text: The formation of neuronal dendrite branches is fundamental for the wiring
and function of the nervous system. Indeed, dendrite branching enhances the coverage
of the neuron's receptive field and modulates the initial processing of incoming
stimuli. Complex dendrite patterns are achieved in vivo through a dynamic process
of de novo branch formation, branch extension and retraction. The first step towards
branch formation is the generation of a dynamic filopodium-like branchlet. The
mechanisms underlying the initiation of dendrite branchlets are therefore crucial
to the shaping of dendrites. Through in vivo time-lapse imaging of the subcellular
localization of actin during the process of branching of Drosophila larva sensory
neurons, combined with genetic analysis and electron tomography, we have identified
the Actin-related protein (Arp) 2/3 complex as the major actin nucleator involved
in the initiation of dendrite branchlet formation, under the control of the activator
WAVE and of the small GTPase Rac1. Transient recruitment of an Arp2/3 component
marks the site of branchlet initiation in vivo. These data position the activation
of Arp2/3 as an early hub for the initiation of branchlet formation.
article_number: dev171397
article_processing_charge: No
article_type: original
author:
- first_name: Tomke
full_name: Stürner, Tomke
last_name: Stürner
- first_name: Anastasia
full_name: Tatarnikova, Anastasia
last_name: Tatarnikova
- first_name: Jan
full_name: Müller, Jan
id: AD07FDB4-0F61-11EA-8158-C4CC64CEAA8D
last_name: Müller
- first_name: Barbara
full_name: Schaffran, Barbara
last_name: Schaffran
- first_name: Hermann
full_name: Cuntz, Hermann
last_name: Cuntz
- first_name: Yun
full_name: Zhang, Yun
last_name: Zhang
- first_name: Maria
full_name: Nemethova, Maria
id: 34E27F1C-F248-11E8-B48F-1D18A9856A87
last_name: Nemethova
- first_name: Sven
full_name: Bogdan, Sven
last_name: Bogdan
- first_name: Vic
full_name: Small, Vic
last_name: Small
- first_name: Gaia
full_name: Tavosanis, Gaia
last_name: Tavosanis
citation:
ama: Stürner T, Tatarnikova A, Müller J, et al. Transient localization of the Arp2/3
complex initiates neuronal dendrite branching in vivo. Development. 2019;146(7).
doi:10.1242/dev.171397
apa: Stürner, T., Tatarnikova, A., Müller, J., Schaffran, B., Cuntz, H., Zhang,
Y., … Tavosanis, G. (2019). Transient localization of the Arp2/3 complex initiates
neuronal dendrite branching in vivo. Development. The Company of Biologists.
https://doi.org/10.1242/dev.171397
chicago: Stürner, Tomke, Anastasia Tatarnikova, Jan Müller, Barbara Schaffran, Hermann
Cuntz, Yun Zhang, Maria Nemethova, Sven Bogdan, Vic Small, and Gaia Tavosanis.
“Transient Localization of the Arp2/3 Complex Initiates Neuronal Dendrite Branching
in Vivo.” Development. The Company of Biologists, 2019. https://doi.org/10.1242/dev.171397.
ieee: T. Stürner et al., “Transient localization of the Arp2/3 complex initiates
neuronal dendrite branching in vivo,” Development, vol. 146, no. 7. The
Company of Biologists, 2019.
ista: Stürner T, Tatarnikova A, Müller J, Schaffran B, Cuntz H, Zhang Y, Nemethova
M, Bogdan S, Small V, Tavosanis G. 2019. Transient localization of the Arp2/3
complex initiates neuronal dendrite branching in vivo. Development. 146(7), dev171397.
mla: Stürner, Tomke, et al. “Transient Localization of the Arp2/3 Complex Initiates
Neuronal Dendrite Branching in Vivo.” Development, vol. 146, no. 7, dev171397,
The Company of Biologists, 2019, doi:10.1242/dev.171397.
short: T. Stürner, A. Tatarnikova, J. Müller, B. Schaffran, H. Cuntz, Y. Zhang,
M. Nemethova, S. Bogdan, V. Small, G. Tavosanis, Development 146 (2019).
date_created: 2020-01-29T16:27:10Z
date_published: 2019-04-04T00:00:00Z
date_updated: 2023-09-07T14:47:00Z
day: '04'
department:
- _id: MiSi
doi: 10.1242/dev.171397
external_id:
isi:
- '000464583200006'
pmid:
- '30910826'
intvolume: ' 146'
isi: 1
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1242/dev.171397
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
publication: Development
publication_identifier:
eissn:
- 1477-9129
issn:
- 0950-1991
publication_status: published
publisher: The Company of Biologists
quality_controlled: '1'
scopus_import: '1'
status: public
title: Transient localization of the Arp2/3 complex initiates neuronal dendrite branching
in vivo
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 146
year: '2019'
...
---
_id: '7402'
abstract:
- lang: eng
text: Graph planning gives rise to fundamental algorithmic questions such as shortest
path, traveling salesman problem, etc. A classical problem in discrete planning
is to consider a weighted graph and construct a path that maximizes the sum of
weights for a given time horizon T. However, in many scenarios, the time horizon
is not fixed, but the stopping time is chosen according to some distribution such
that the expected stopping time is T. If the stopping time distribution is not
known, then to ensure robustness, the distribution is chosen by an adversary,
to represent the worst-case scenario. A stationary plan for every vertex always
chooses the same outgoing edge. For fixed horizon or fixed stopping-time distribution,
stationary plans are not sufficient for optimality. Quite surprisingly we show
that when an adversary chooses the stopping-time distribution with expected stopping
time T, then stationary plans are sufficient. While computing optimal stationary
plans for fixed horizon is NP-complete, we show that computing optimal stationary
plans under adversarial stopping-time distribution can be achieved in polynomial
time. Consequently, our polynomial-time algorithm for adversarial stopping time
also computes an optimal plan among all possible plans.
article_processing_charge: No
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Laurent
full_name: Doyen, Laurent
last_name: Doyen
citation:
ama: 'Chatterjee K, Doyen L. Graph planning with expected finite horizon. In: 34th
Annual ACM/IEEE Symposium on Logic in Computer Science. IEEE; 2019:1-13. doi:10.1109/lics.2019.8785706'
apa: 'Chatterjee, K., & Doyen, L. (2019). Graph planning with expected finite
horizon. In 34th Annual ACM/IEEE Symposium on Logic in Computer Science
(pp. 1–13). Vancouver, BC, Canada: IEEE. https://doi.org/10.1109/lics.2019.8785706'
chicago: Chatterjee, Krishnendu, and Laurent Doyen. “Graph Planning with Expected
Finite Horizon.” In 34th Annual ACM/IEEE Symposium on Logic in Computer Science,
1–13. IEEE, 2019. https://doi.org/10.1109/lics.2019.8785706.
ieee: K. Chatterjee and L. Doyen, “Graph planning with expected finite horizon,”
in 34th Annual ACM/IEEE Symposium on Logic in Computer Science, Vancouver,
BC, Canada, 2019, pp. 1–13.
ista: 'Chatterjee K, Doyen L. 2019. Graph planning with expected finite horizon.
34th Annual ACM/IEEE Symposium on Logic in Computer Science. LICS: Symposium on
Logic in Computer Science, 1–13.'
mla: Chatterjee, Krishnendu, and Laurent Doyen. “Graph Planning with Expected Finite
Horizon.” 34th Annual ACM/IEEE Symposium on Logic in Computer Science,
IEEE, 2019, pp. 1–13, doi:10.1109/lics.2019.8785706.
short: K. Chatterjee, L. Doyen, in:, 34th Annual ACM/IEEE Symposium on Logic in
Computer Science, IEEE, 2019, pp. 1–13.
conference:
end_date: 2019-06-27
location: Vancouver, BC, Canada
name: 'LICS: Symposium on Logic in Computer Science'
start_date: 2019-06-24
date_created: 2020-01-29T16:18:33Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2023-09-07T14:48:11Z
day: '01'
department:
- _id: KrCh
doi: 10.1109/lics.2019.8785706
external_id:
arxiv:
- '1802.03642'
isi:
- '000805002800001'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1802.03642
month: '06'
oa: 1
oa_version: Preprint
page: 1-13
publication: 34th Annual ACM/IEEE Symposium on Logic in Computer Science
publication_identifier:
isbn:
- '9781728136080'
publication_status: published
publisher: IEEE
quality_controlled: '1'
related_material:
record:
- id: '11402'
relation: later_version
status: public
scopus_import: '1'
status: public
title: Graph planning with expected finite horizon
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '7451'
abstract:
- lang: eng
text: We prove that the observable telegraph signal accompanying the bistability
in the photon-blockade-breakdown regime of the driven and lossy Jaynes–Cummings
model is the finite-size precursor of what in the thermodynamic limit is a genuine
first-order phase transition. We construct a finite-size scaling of the system
parameters to a well-defined thermodynamic limit, in which the system remains
the same microscopic system, but the telegraph signal becomes macroscopic both
in its timescale and intensity. The existence of such a finite-size scaling completes
and justifies the classification of the photon-blockade-breakdown effect as a
first-order dissipative quantum phase transition.
article_number: '150'
article_processing_charge: No
article_type: original
author:
- first_name: A.
full_name: Vukics, A.
last_name: Vukics
- first_name: A.
full_name: Dombi, A.
last_name: Dombi
- 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: P.
full_name: Domokos, P.
last_name: Domokos
citation:
ama: Vukics A, Dombi A, Fink JM, Domokos P. Finite-size scaling of the photon-blockade
breakdown dissipative quantum phase transition. Quantum. 2019;3. doi:10.22331/q-2019-06-03-150
apa: Vukics, A., Dombi, A., Fink, J. M., & Domokos, P. (2019). Finite-size scaling
of the photon-blockade breakdown dissipative quantum phase transition. Quantum.
Verein zur Förderung des Open Access Publizierens in den Quantenwissenschaften.
https://doi.org/10.22331/q-2019-06-03-150
chicago: Vukics, A., A. Dombi, Johannes M Fink, and P. Domokos. “Finite-Size Scaling
of the Photon-Blockade Breakdown Dissipative Quantum Phase Transition.” Quantum.
Verein zur Förderung des Open Access Publizierens in den Quantenwissenschaften,
2019. https://doi.org/10.22331/q-2019-06-03-150.
ieee: A. Vukics, A. Dombi, J. M. Fink, and P. Domokos, “Finite-size scaling of the
photon-blockade breakdown dissipative quantum phase transition,” Quantum,
vol. 3. Verein zur Förderung des Open Access Publizierens in den Quantenwissenschaften,
2019.
ista: Vukics A, Dombi A, Fink JM, Domokos P. 2019. Finite-size scaling of the photon-blockade
breakdown dissipative quantum phase transition. Quantum. 3, 150.
mla: Vukics, A., et al. “Finite-Size Scaling of the Photon-Blockade Breakdown Dissipative
Quantum Phase Transition.” Quantum, vol. 3, 150, Verein zur Förderung des
Open Access Publizierens in den Quantenwissenschaften, 2019, doi:10.22331/q-2019-06-03-150.
short: A. Vukics, A. Dombi, J.M. Fink, P. Domokos, Quantum 3 (2019).
date_created: 2020-02-05T09:57:57Z
date_published: 2019-06-03T00:00:00Z
date_updated: 2023-09-07T14:57:39Z
day: '03'
ddc:
- '530'
department:
- _id: JoFi
doi: 10.22331/q-2019-06-03-150
external_id:
arxiv:
- '1809.09737'
isi:
- '000469987500004'
file:
- access_level: open_access
checksum: 26b9ba8f0155d183f1ee55295934a17f
content_type: application/pdf
creator: dernst
date_created: 2020-02-11T09:25:23Z
date_updated: 2020-07-14T12:47:58Z
file_id: '7483'
file_name: 2019_Quantum_Vukics.pdf
file_size: 5805248
relation: main_file
file_date_updated: 2020-07-14T12:47:58Z
has_accepted_license: '1'
intvolume: ' 3'
isi: 1
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: Quantum
publication_identifier:
issn:
- 2521-327X
publication_status: published
publisher: Verein zur Förderung des Open Access Publizierens in den Quantenwissenschaften
quality_controlled: '1'
status: public
title: Finite-size scaling of the photon-blockade breakdown dissipative quantum phase
transition
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 3
year: '2019'
...
---
_id: '7468'
abstract:
- lang: eng
text: We present a new proximal bundle method for Maximum-A-Posteriori (MAP) inference
in structured energy minimization problems. The method optimizes a Lagrangean
relaxation of the original energy minimization problem using a multi plane block-coordinate
Frank-Wolfe method that takes advantage of the specific structure of the Lagrangean
decomposition. We show empirically that our method outperforms state-of-the-art
Lagrangean decomposition based algorithms on some challenging Markov Random Field,
multi-label discrete tomography and graph matching problems.
article_number: 11138-11147
article_processing_charge: No
author:
- first_name: Paul
full_name: Swoboda, Paul
id: 446560C6-F248-11E8-B48F-1D18A9856A87
last_name: Swoboda
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
citation:
ama: 'Swoboda P, Kolmogorov V. Map inference via block-coordinate Frank-Wolfe algorithm.
In: Proceedings of the IEEE Computer Society Conference on Computer Vision
and Pattern Recognition. Vol 2019-June. IEEE; 2019. doi:10.1109/CVPR.2019.01140'
apa: 'Swoboda, P., & Kolmogorov, V. (2019). Map inference via block-coordinate
Frank-Wolfe algorithm. In Proceedings of the IEEE Computer Society Conference
on Computer Vision and Pattern Recognition (Vol. 2019–June). Long Beach, CA,
United States: IEEE. https://doi.org/10.1109/CVPR.2019.01140'
chicago: Swoboda, Paul, and Vladimir Kolmogorov. “Map Inference via Block-Coordinate
Frank-Wolfe Algorithm.” In Proceedings of the IEEE Computer Society Conference
on Computer Vision and Pattern Recognition, Vol. 2019–June. IEEE, 2019. https://doi.org/10.1109/CVPR.2019.01140.
ieee: P. Swoboda and V. Kolmogorov, “Map inference via block-coordinate Frank-Wolfe
algorithm,” in Proceedings of the IEEE Computer Society Conference on Computer
Vision and Pattern Recognition, Long Beach, CA, United States, 2019, vol.
2019–June.
ista: 'Swoboda P, Kolmogorov V. 2019. Map inference via block-coordinate Frank-Wolfe
algorithm. Proceedings of the IEEE Computer Society Conference on Computer Vision
and Pattern Recognition. CVPR: Conference on Computer Vision and Pattern Recognition
vol. 2019–June, 11138–11147.'
mla: Swoboda, Paul, and Vladimir Kolmogorov. “Map Inference via Block-Coordinate
Frank-Wolfe Algorithm.” Proceedings of the IEEE Computer Society Conference
on Computer Vision and Pattern Recognition, vol. 2019–June, 11138–11147, IEEE,
2019, doi:10.1109/CVPR.2019.01140.
short: P. Swoboda, V. Kolmogorov, in:, Proceedings of the IEEE Computer Society
Conference on Computer Vision and Pattern Recognition, IEEE, 2019.
conference:
end_date: 2019-06-20
location: Long Beach, CA, United States
name: 'CVPR: Conference on Computer Vision and Pattern Recognition'
start_date: 2019-06-15
date_created: 2020-02-09T23:00:52Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2023-09-07T14:54:24Z
day: '01'
department:
- _id: VlKo
doi: 10.1109/CVPR.2019.01140
ec_funded: 1
external_id:
arxiv:
- '1806.05049'
isi:
- '000542649304076'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1806.05049
month: '06'
oa: 1
oa_version: Preprint
project:
- _id: 25FBA906-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '616160'
name: 'Discrete Optimization in Computer Vision: Theory and Practice'
publication: Proceedings of the IEEE Computer Society Conference on Computer Vision
and Pattern Recognition
publication_identifier:
isbn:
- '9781728132938'
issn:
- '10636919'
publication_status: published
publisher: IEEE
quality_controlled: '1'
scopus_import: '1'
status: public
title: Map inference via block-coordinate Frank-Wolfe algorithm
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 2019-June
year: '2019'
...
---
_id: '7415'
article_processing_charge: No
article_type: original
author:
- first_name: Jasmin
full_name: Morandell, Jasmin
id: 4739D480-F248-11E8-B48F-1D18A9856A87
last_name: Morandell
- first_name: Armel
full_name: Nicolas, Armel
id: 2A103192-F248-11E8-B48F-1D18A9856A87
last_name: Nicolas
- first_name: Lena A
full_name: Schwarz, Lena A
id: 29A8453C-F248-11E8-B48F-1D18A9856A87
last_name: Schwarz
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
citation:
ama: Morandell J, Nicolas A, Schwarz LA, Novarino G. S.16.05 Illuminating the role
of the e3 ubiquitin ligase cullin3 in brain development and autism. European
Neuropsychopharmacology. 2019;29(Supplement 6):S11-S12. doi:10.1016/j.euroneuro.2019.09.040
apa: Morandell, J., Nicolas, A., Schwarz, L. A., & Novarino, G. (2019). S.16.05
Illuminating the role of the e3 ubiquitin ligase cullin3 in brain development
and autism. European Neuropsychopharmacology. Elsevier. https://doi.org/10.1016/j.euroneuro.2019.09.040
chicago: Morandell, Jasmin, Armel Nicolas, Lena A Schwarz, and Gaia Novarino. “S.16.05
Illuminating the Role of the E3 Ubiquitin Ligase Cullin3 in Brain Development
and Autism.” European Neuropsychopharmacology. Elsevier, 2019. https://doi.org/10.1016/j.euroneuro.2019.09.040.
ieee: J. Morandell, A. Nicolas, L. A. Schwarz, and G. Novarino, “S.16.05 Illuminating
the role of the e3 ubiquitin ligase cullin3 in brain development and autism,”
European Neuropsychopharmacology, vol. 29, no. Supplement 6. Elsevier,
pp. S11–S12, 2019.
ista: Morandell J, Nicolas A, Schwarz LA, Novarino G. 2019. S.16.05 Illuminating
the role of the e3 ubiquitin ligase cullin3 in brain development and autism. European
Neuropsychopharmacology. 29(Supplement 6), S11–S12.
mla: Morandell, Jasmin, et al. “S.16.05 Illuminating the Role of the E3 Ubiquitin
Ligase Cullin3 in Brain Development and Autism.” European Neuropsychopharmacology,
vol. 29, no. Supplement 6, Elsevier, 2019, pp. S11–12, doi:10.1016/j.euroneuro.2019.09.040.
short: J. Morandell, A. Nicolas, L.A. Schwarz, G. Novarino, European Neuropsychopharmacology
29 (2019) S11–S12.
date_created: 2020-01-30T10:07:41Z
date_published: 2019-12-13T00:00:00Z
date_updated: 2023-09-07T14:56:17Z
day: '13'
department:
- _id: GaNo
- _id: LifeSc
doi: 10.1016/j.euroneuro.2019.09.040
external_id:
isi:
- '000502657500021'
intvolume: ' 29'
isi: 1
issue: Supplement 6
language:
- iso: eng
month: '12'
oa_version: None
page: S11-S12
publication: European Neuropsychopharmacology
publication_identifier:
issn:
- 0924-977X
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: S.16.05 Illuminating the role of the e3 ubiquitin ligase cullin3 in brain development
and autism
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 29
year: '2019'
...
---
_id: '7414'
article_processing_charge: No
article_type: original
author:
- first_name: Lisa
full_name: Knaus, Lisa
id: 3B2ABCF4-F248-11E8-B48F-1D18A9856A87
last_name: Knaus
- first_name: Dora-Clara
full_name: Tarlungeanu, Dora-Clara
id: 2ABCE612-F248-11E8-B48F-1D18A9856A87
last_name: Tarlungeanu
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
citation:
ama: Knaus L, Tarlungeanu D-C, Novarino G. S.16.03 A homozygous missense mutation
in SLC7A5 leads to autism spectrum disorder and microcephaly. European Neuropsychopharmacology.
2019;29(Supplement 6):S11. doi:10.1016/j.euroneuro.2019.09.039
apa: Knaus, L., Tarlungeanu, D.-C., & Novarino, G. (2019). S.16.03 A homozygous
missense mutation in SLC7A5 leads to autism spectrum disorder and microcephaly.
European Neuropsychopharmacology. Elsevier. https://doi.org/10.1016/j.euroneuro.2019.09.039
chicago: Knaus, Lisa, Dora-Clara Tarlungeanu, and Gaia Novarino. “S.16.03 A Homozygous
Missense Mutation in SLC7A5 Leads to Autism Spectrum Disorder and Microcephaly.”
European Neuropsychopharmacology. Elsevier, 2019. https://doi.org/10.1016/j.euroneuro.2019.09.039.
ieee: L. Knaus, D.-C. Tarlungeanu, and G. Novarino, “S.16.03 A homozygous missense
mutation in SLC7A5 leads to autism spectrum disorder and microcephaly,” European
Neuropsychopharmacology, vol. 29, no. Supplement 6. Elsevier, p. S11, 2019.
ista: Knaus L, Tarlungeanu D-C, Novarino G. 2019. S.16.03 A homozygous missense
mutation in SLC7A5 leads to autism spectrum disorder and microcephaly. European
Neuropsychopharmacology. 29(Supplement 6), S11.
mla: Knaus, Lisa, et al. “S.16.03 A Homozygous Missense Mutation in SLC7A5 Leads
to Autism Spectrum Disorder and Microcephaly.” European Neuropsychopharmacology,
vol. 29, no. Supplement 6, Elsevier, 2019, p. S11, doi:10.1016/j.euroneuro.2019.09.039.
short: L. Knaus, D.-C. Tarlungeanu, G. Novarino, European Neuropsychopharmacology
29 (2019) S11.
date_created: 2020-01-30T10:06:15Z
date_published: 2019-12-13T00:00:00Z
date_updated: 2023-09-07T14:55:23Z
day: '13'
department:
- _id: GaNo
doi: 10.1016/j.euroneuro.2019.09.039
external_id:
isi:
- '000502657500020'
intvolume: ' 29'
isi: 1
issue: Supplement 6
language:
- iso: eng
month: '12'
oa_version: None
page: S11
publication: European Neuropsychopharmacology
publication_identifier:
issn:
- 0924-977X
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: S.16.03 A homozygous missense mutation in SLC7A5 leads to autism spectrum disorder
and microcephaly
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 29
year: '2019'
...
---
_id: '7394'
article_processing_charge: No
article_type: letter_note
author:
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
- first_name: Yasin
full_name: Dagdas, Yasin
last_name: Dagdas
citation:
ama: 'Benková E, Dagdas Y. Editorial overview: Cell biology in the era of omics?
Current Opinion in Plant Biology. 2019;52(12):A1-A2. doi:10.1016/j.pbi.2019.11.002'
apa: 'Benková, E., & Dagdas, Y. (2019). Editorial overview: Cell biology in
the era of omics? Current Opinion in Plant Biology. Elsevier. https://doi.org/10.1016/j.pbi.2019.11.002'
chicago: 'Benková, Eva, and Yasin Dagdas. “Editorial Overview: Cell Biology in the
Era of Omics?” Current Opinion in Plant Biology. Elsevier, 2019. https://doi.org/10.1016/j.pbi.2019.11.002.'
ieee: 'E. Benková and Y. Dagdas, “Editorial overview: Cell biology in the era of
omics?,” Current Opinion in Plant Biology, vol. 52, no. 12. Elsevier, pp.
A1–A2, 2019.'
ista: 'Benková E, Dagdas Y. 2019. Editorial overview: Cell biology in the era of
omics? Current Opinion in Plant Biology. 52(12), A1–A2.'
mla: 'Benková, Eva, and Yasin Dagdas. “Editorial Overview: Cell Biology in the Era
of Omics?” Current Opinion in Plant Biology, vol. 52, no. 12, Elsevier,
2019, pp. A1–2, doi:10.1016/j.pbi.2019.11.002.'
short: E. Benková, Y. Dagdas, Current Opinion in Plant Biology 52 (2019) A1–A2.
date_created: 2020-01-29T16:00:07Z
date_published: 2019-12-01T00:00:00Z
date_updated: 2023-09-07T14:56:55Z
day: '01'
department:
- _id: EvBe
doi: 10.1016/j.pbi.2019.11.002
external_id:
isi:
- '000502890600001'
pmid:
- '31787165'
intvolume: ' 52'
isi: 1
issue: '12'
language:
- iso: eng
month: '12'
oa_version: None
page: A1-A2
pmid: 1
publication: Current Opinion in Plant Biology
publication_identifier:
issn:
- 1369-5266
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Editorial overview: Cell biology in the era of omics?'
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 52
year: '2019'
...
---
_id: '7479'
abstract:
- lang: eng
text: "Multi-exit architectures, in which a stack of processing layers is interleaved
with early output layers, allow the processing of a test example to stop early
and thus save computation time and/or energy. In this work, we propose a new
training procedure for multi-exit architectures based on the principle of knowledge
distillation. The method encourage searly exits to mimic later, more accurate
exits, by matching their output probabilities.\r\nExperiments on CIFAR100 and
\ ImageNet show that distillation-based training significantly improves the
accuracy of early exits while maintaining state-of-the-art accuracy for late
\ ones. The method is particularly beneficial when training data is limited
\ and it allows a straightforward extension to semi-supervised learning,i.e.
making use of unlabeled data at training time. Moreover, it takes only afew lines
to implement and incurs almost no computational overhead at training time, and
none at all at test time."
article_processing_charge: No
author:
- first_name: Phuong
full_name: Bui Thi Mai, Phuong
id: 3EC6EE64-F248-11E8-B48F-1D18A9856A87
last_name: Bui Thi Mai
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: 'Phuong M, Lampert C. Distillation-based training for multi-exit architectures.
In: IEEE International Conference on Computer Vision. Vol 2019-October.
IEEE; 2019:1355-1364. doi:10.1109/ICCV.2019.00144'
apa: 'Phuong, M., & Lampert, C. (2019). Distillation-based training for multi-exit
architectures. In IEEE International Conference on Computer Vision (Vol.
2019–October, pp. 1355–1364). Seoul, Korea: IEEE. https://doi.org/10.1109/ICCV.2019.00144'
chicago: Phuong, Mary, and Christoph Lampert. “Distillation-Based Training for Multi-Exit
Architectures.” In IEEE International Conference on Computer Vision, 2019–October:1355–64.
IEEE, 2019. https://doi.org/10.1109/ICCV.2019.00144.
ieee: M. Phuong and C. Lampert, “Distillation-based training for multi-exit architectures,”
in IEEE International Conference on Computer Vision, Seoul, Korea, 2019,
vol. 2019–October, pp. 1355–1364.
ista: 'Phuong M, Lampert C. 2019. Distillation-based training for multi-exit architectures.
IEEE International Conference on Computer Vision. ICCV: International Conference
on Computer Vision vol. 2019–October, 1355–1364.'
mla: Phuong, Mary, and Christoph Lampert. “Distillation-Based Training for Multi-Exit
Architectures.” IEEE International Conference on Computer Vision, vol.
2019–October, IEEE, 2019, pp. 1355–64, doi:10.1109/ICCV.2019.00144.
short: M. Phuong, C. Lampert, in:, IEEE International Conference on Computer Vision,
IEEE, 2019, pp. 1355–1364.
conference:
end_date: 2019-11-02
location: Seoul, Korea
name: 'ICCV: International Conference on Computer Vision'
start_date: 2019-10-27
date_created: 2020-02-11T09:06:57Z
date_published: 2019-10-01T00:00:00Z
date_updated: 2023-09-08T11:11:12Z
day: '01'
ddc:
- '000'
department:
- _id: ChLa
doi: 10.1109/ICCV.2019.00144
ec_funded: 1
external_id:
isi:
- '000531438101047'
file:
- access_level: open_access
checksum: 7b77fb5c2d27c4c37a7612ba46a66117
content_type: application/pdf
creator: bphuong
date_created: 2020-02-11T09:06:39Z
date_updated: 2020-07-14T12:47:59Z
file_id: '7480'
file_name: main.pdf
file_size: 735768
relation: main_file
file_date_updated: 2020-07-14T12:47:59Z
has_accepted_license: '1'
isi: 1
language:
- iso: eng
month: '10'
oa: 1
oa_version: Submitted Version
page: 1355-1364
project:
- _id: 2532554C-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '308036'
name: Lifelong Learning of Visual Scene Understanding
publication: IEEE International Conference on Computer Vision
publication_identifier:
isbn:
- '9781728148038'
issn:
- '15505499'
publication_status: published
publisher: IEEE
quality_controlled: '1'
related_material:
record:
- id: '9418'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Distillation-based training for multi-exit architectures
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 2019-October
year: '2019'
...
---
_id: '7542'
abstract:
- lang: eng
text: We present a novel class of convolutional neural networks (CNNs) for set functions,i.e.,
data indexed with the powerset of a finite set. The convolutions are derivedas
linear, shift-equivariant functions for various notions of shifts on set functions.The
framework is fundamentally different from graph convolutions based on theLaplacian,
as it provides not one but several basic shifts, one for each element inthe ground
set. Prototypical experiments with several set function classificationtasks on
synthetic datasets and on datasets derived from real-world hypergraphsdemonstrate
the potential of our new powerset CNNs.
article_processing_charge: No
author:
- first_name: Chris
full_name: Wendler, Chris
last_name: Wendler
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
- first_name: Markus
full_name: Püschel, Markus
last_name: Püschel
citation:
ama: 'Wendler C, Alistarh D-A, Püschel M. Powerset convolutional neural networks.
In: Vol 32. Neural Information Processing Systems Foundation; 2019:927-938.'
apa: 'Wendler, C., Alistarh, D.-A., & Püschel, M. (2019). Powerset convolutional
neural networks (Vol. 32, pp. 927–938). Presented at the NIPS: Conference on Neural
Information Processing Systems, Vancouver, Canada: Neural Information Processing
Systems Foundation.'
chicago: Wendler, Chris, Dan-Adrian Alistarh, and Markus Püschel. “Powerset Convolutional
Neural Networks,” 32:927–38. Neural Information Processing Systems Foundation,
2019.
ieee: 'C. Wendler, D.-A. Alistarh, and M. Püschel, “Powerset convolutional neural
networks,” presented at the NIPS: Conference on Neural Information Processing
Systems, Vancouver, Canada, 2019, vol. 32, pp. 927–938.'
ista: 'Wendler C, Alistarh D-A, Püschel M. 2019. Powerset convolutional neural networks.
NIPS: Conference on Neural Information Processing Systems vol. 32, 927–938.'
mla: Wendler, Chris, et al. Powerset Convolutional Neural Networks. Vol.
32, Neural Information Processing Systems Foundation, 2019, pp. 927–38.
short: C. Wendler, D.-A. Alistarh, M. Püschel, in:, Neural Information Processing
Systems Foundation, 2019, pp. 927–938.
conference:
end_date: 2019-12-14
location: Vancouver, Canada
name: 'NIPS: Conference on Neural Information Processing Systems'
start_date: 2019-12-08
date_created: 2020-02-28T10:03:24Z
date_published: 2019-12-01T00:00:00Z
date_updated: 2023-09-08T11:13:52Z
day: '01'
department:
- _id: DaAl
ec_funded: 1
external_id:
arxiv:
- '1909.02253'
isi:
- '000534424300084'
intvolume: ' 32'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://papers.nips.cc/paper/8379-powerset-convolutional-neural-networks
month: '12'
oa: 1
oa_version: Published Version
page: 927-938
project:
- _id: 268A44D6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '805223'
name: Elastic Coordination for Scalable Machine Learning
publication_identifier:
issn:
- 1049-5258
publication_status: published
publisher: Neural Information Processing Systems Foundation
quality_controlled: '1'
status: public
title: Powerset convolutional neural networks
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 32
year: '2019'
...
---
_id: '7513'
abstract:
- lang: eng
text: 'Social insects (i.e., ants, termites and the social bees and wasps) protect
their colonies from disease using a combination of individual immunity and collectively
performed defenses, termed social immunity. The first line of social immune defense
is sanitary care, which is performed by colony members to protect their pathogen-exposed
nestmates from developing an infection. If sanitary care fails and an infection
becomes established, a second line of social immune defense is deployed to stop
disease transmission within the colony and to protect the valuable queens, which
together with the males are the reproductive individuals of the colony. Insect
colonies are separated into these reproductive individuals and the sterile worker
force, forming a superorganismal reproductive unit reminiscent of the differentiated
germline and soma in a multicellular organism. Ultimately, the social immune response
preserves the germline of the superorganism insect colony and increases overall
fitness of the colony in case of disease. '
article_processing_charge: No
author:
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
- first_name: Megan
full_name: Kutzer, Megan
id: 29D0B332-F248-11E8-B48F-1D18A9856A87
last_name: Kutzer
orcid: 0000-0002-8696-6978
citation:
ama: 'Cremer S, Kutzer M. Social immunity. In: Choe J, ed. Encyclopedia of Animal
Behavior. 2nd ed. Elsevier; 2019:747-755. doi:10.1016/B978-0-12-809633-8.90721-0'
apa: Cremer, S., & Kutzer, M. (2019). Social immunity. In J. Choe (Ed.), Encyclopedia
of Animal Behavior (2nd ed., pp. 747–755). Elsevier. https://doi.org/10.1016/B978-0-12-809633-8.90721-0
chicago: Cremer, Sylvia, and Megan Kutzer. “Social Immunity.” In Encyclopedia
of Animal Behavior, edited by Jae Choe, 2nd ed., 747–55. Elsevier, 2019. https://doi.org/10.1016/B978-0-12-809633-8.90721-0.
ieee: S. Cremer and M. Kutzer, “Social immunity,” in Encyclopedia of Animal Behavior,
2nd ed., J. Choe, Ed. Elsevier, 2019, pp. 747–755.
ista: 'Cremer S, Kutzer M. 2019.Social immunity. In: Encyclopedia of Animal Behavior.
, 747–755.'
mla: Cremer, Sylvia, and Megan Kutzer. “Social Immunity.” Encyclopedia of Animal
Behavior, edited by Jae Choe, 2nd ed., Elsevier, 2019, pp. 747–55, doi:10.1016/B978-0-12-809633-8.90721-0.
short: S. Cremer, M. Kutzer, in:, J. Choe (Ed.), Encyclopedia of Animal Behavior,
2nd ed., Elsevier, 2019, pp. 747–755.
date_created: 2020-02-23T23:00:36Z
date_published: 2019-02-06T00:00:00Z
date_updated: 2023-09-08T11:12:04Z
day: '06'
department:
- _id: SyCr
doi: 10.1016/B978-0-12-809633-8.90721-0
edition: '2'
editor:
- first_name: Jae
full_name: Choe, Jae
last_name: Choe
external_id:
isi:
- '000248989500026'
isi: 1
language:
- iso: eng
month: '02'
oa_version: None
page: 747-755
publication: Encyclopedia of Animal Behavior
publication_identifier:
eisbn:
- '9780128132524'
isbn:
- '9780128132517'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Social immunity
type: book_chapter
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '9261'
abstract:
- lang: eng
text: 'Bending-active structures are able to efficiently produce complex curved
shapes starting from flat panels. The desired deformation of the panels derives
from the proper selection of their elastic properties. Optimized panels, called
FlexMaps, are designed such that, once they are bent and assembled, the resulting
static equilibrium configuration matches a desired input 3D shape. The FlexMaps
elastic properties are controlled by locally varying spiraling geometric mesostructures,
which are optimized in size and shape to match the global curvature (i.e., bending
requests) of the target shape. The design pipeline starts from a quad mesh representing
the input 3D shape, which defines the edge size and the total amount of spirals:
every quad will embed one spiral. Then, an optimization algorithm tunes the geometry
of the spirals by using a simplified pre-computed rod model. This rod model is
derived from a non-linear regression algorithm which approximates the non-linear
behavior of solid FEM spiral models subject to hundreds of load combinations.
This innovative pipeline has been applied to the project of a lightweight plywood
pavilion named FlexMaps Pavilion, which is a single-layer piecewise twisted arc
that fits a bounding box of 3.90x3.96x3.25 meters.'
article_processing_charge: No
author:
- first_name: Francesco
full_name: Laccone, Francesco
last_name: Laccone
- first_name: Luigi
full_name: Malomo, Luigi
last_name: Malomo
- first_name: Jesus
full_name: Perez Rodriguez, Jesus
id: 2DC83906-F248-11E8-B48F-1D18A9856A87
last_name: Perez Rodriguez
- first_name: Nico
full_name: Pietroni, Nico
last_name: Pietroni
- first_name: Federico
full_name: Ponchio, Federico
last_name: Ponchio
- first_name: Bernd
full_name: Bickel, Bernd
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Paolo
full_name: Cignoni, Paolo
last_name: Cignoni
citation:
ama: 'Laccone F, Malomo L, Perez Rodriguez J, et al. FlexMaps Pavilion: A twisted
arc made of mesostructured flat flexible panels. In: IASS Symposium 2019 -
60th Anniversary Symposium of the International Association for Shell and Spatial
Structures; Structural Membranes 2019 - 9th International Conference on Textile
Composites and Inflatable Structures, FORM and FORCE. International Center
for Numerical Methods in Engineering; 2019:509-515.'
apa: 'Laccone, F., Malomo, L., Perez Rodriguez, J., Pietroni, N., Ponchio, F., Bickel,
B., & Cignoni, P. (2019). FlexMaps Pavilion: A twisted arc made of mesostructured
flat flexible panels. In IASS Symposium 2019 - 60th Anniversary Symposium of
the International Association for Shell and Spatial Structures; Structural Membranes
2019 - 9th International Conference on Textile Composites and Inflatable Structures,
FORM and FORCE (pp. 509–515). Barcelona, Spain: International Center for Numerical
Methods in Engineering.'
chicago: 'Laccone, Francesco, Luigi Malomo, Jesus Perez Rodriguez, Nico Pietroni,
Federico Ponchio, Bernd Bickel, and Paolo Cignoni. “FlexMaps Pavilion: A Twisted
Arc Made of Mesostructured Flat Flexible Panels.” In IASS Symposium 2019 -
60th Anniversary Symposium of the International Association for Shell and Spatial
Structures; Structural Membranes 2019 - 9th International Conference on Textile
Composites and Inflatable Structures, FORM and FORCE, 509–15. International
Center for Numerical Methods in Engineering, 2019.'
ieee: 'F. Laccone et al., “FlexMaps Pavilion: A twisted arc made of mesostructured
flat flexible panels,” in IASS Symposium 2019 - 60th Anniversary Symposium
of the International Association for Shell and Spatial Structures; Structural
Membranes 2019 - 9th International Conference on Textile Composites and Inflatable
Structures, FORM and FORCE, Barcelona, Spain, 2019, pp. 509–515.'
ista: 'Laccone F, Malomo L, Perez Rodriguez J, Pietroni N, Ponchio F, Bickel B,
Cignoni P. 2019. FlexMaps Pavilion: A twisted arc made of mesostructured flat
flexible panels. IASS Symposium 2019 - 60th Anniversary Symposium of the International
Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th
International Conference on Textile Composites and Inflatable Structures, FORM
and FORCE. IASS: International Association for Shell and Spatial Structures, 509–515.'
mla: 'Laccone, Francesco, et al. “FlexMaps Pavilion: A Twisted Arc Made of Mesostructured
Flat Flexible Panels.” IASS Symposium 2019 - 60th Anniversary Symposium of
the International Association for Shell and Spatial Structures; Structural Membranes
2019 - 9th International Conference on Textile Composites and Inflatable Structures,
FORM and FORCE, International Center for Numerical Methods in Engineering,
2019, pp. 509–15.'
short: F. Laccone, L. Malomo, J. Perez Rodriguez, N. Pietroni, F. Ponchio, B. Bickel,
P. Cignoni, in:, IASS Symposium 2019 - 60th Anniversary Symposium of the International
Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th
International Conference on Textile Composites and Inflatable Structures, FORM
and FORCE, International Center for Numerical Methods in Engineering, 2019, pp.
509–515.
conference:
end_date: 2019-10-10
location: Barcelona, Spain
name: 'IASS: International Association for Shell and Spatial Structures'
start_date: 2019-10-07
date_created: 2021-03-21T23:01:21Z
date_published: 2019-10-10T00:00:00Z
date_updated: 2023-09-08T11:21:54Z
day: '10'
department:
- _id: BeBi
external_id:
isi:
- '000563497600059'
isi: 1
language:
- iso: eng
month: '10'
oa_version: None
page: 509-515
publication: IASS Symposium 2019 - 60th Anniversary Symposium of the International
Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th International
Conference on Textile Composites and Inflatable Structures, FORM and FORCE
publication_identifier:
isbn:
- '9788412110104'
issn:
- 2518-6582
publication_status: published
publisher: International Center for Numerical Methods in Engineering
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'FlexMaps Pavilion: A twisted arc made of mesostructured flat flexible panels'
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '7640'
abstract:
- lang: eng
text: We propose a new model for detecting visual relationships, such as "person
riding motorcycle" or "bottle on table". This task is an important step towards
comprehensive structured mage understanding, going beyond detecting individual
objects. Our main novelty is a Box Attention mechanism that allows to model pairwise
interactions between objects using standard object detection pipelines. The resulting
model is conceptually clean, expressive and relies on well-justified training
and prediction procedures. Moreover, unlike previously proposed approaches, our
model does not introduce any additional complex components or hyperparameters
on top of those already required by the underlying detection model. We conduct
an experimental evaluation on two datasets, V-COCO and Open Images, demonstrating
strong quantitative and qualitative results.
article_number: 1749-1753
article_processing_charge: No
author:
- first_name: Alexander
full_name: Kolesnikov, Alexander
id: 2D157DB6-F248-11E8-B48F-1D18A9856A87
last_name: Kolesnikov
- first_name: Alina
full_name: Kuznetsova, Alina
last_name: Kuznetsova
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
- first_name: Vittorio
full_name: Ferrari, Vittorio
last_name: Ferrari
citation:
ama: 'Kolesnikov A, Kuznetsova A, Lampert C, Ferrari V. Detecting visual relationships
using box attention. In: Proceedings of the 2019 International Conference on
Computer Vision Workshop. IEEE; 2019. doi:10.1109/ICCVW.2019.00217'
apa: 'Kolesnikov, A., Kuznetsova, A., Lampert, C., & Ferrari, V. (2019). Detecting
visual relationships using box attention. In Proceedings of the 2019 International
Conference on Computer Vision Workshop. Seoul, South Korea: IEEE. https://doi.org/10.1109/ICCVW.2019.00217'
chicago: Kolesnikov, Alexander, Alina Kuznetsova, Christoph Lampert, and Vittorio
Ferrari. “Detecting Visual Relationships Using Box Attention.” In Proceedings
of the 2019 International Conference on Computer Vision Workshop. IEEE, 2019.
https://doi.org/10.1109/ICCVW.2019.00217.
ieee: A. Kolesnikov, A. Kuznetsova, C. Lampert, and V. Ferrari, “Detecting visual
relationships using box attention,” in Proceedings of the 2019 International
Conference on Computer Vision Workshop, Seoul, South Korea, 2019.
ista: 'Kolesnikov A, Kuznetsova A, Lampert C, Ferrari V. 2019. Detecting visual
relationships using box attention. Proceedings of the 2019 International Conference
on Computer Vision Workshop. ICCVW: International Conference on Computer Vision
Workshop, 1749–1753.'
mla: Kolesnikov, Alexander, et al. “Detecting Visual Relationships Using Box Attention.”
Proceedings of the 2019 International Conference on Computer Vision Workshop,
1749–1753, IEEE, 2019, doi:10.1109/ICCVW.2019.00217.
short: A. Kolesnikov, A. Kuznetsova, C. Lampert, V. Ferrari, in:, Proceedings of
the 2019 International Conference on Computer Vision Workshop, IEEE, 2019.
conference:
end_date: 2019-10-28
location: Seoul, South Korea
name: 'ICCVW: International Conference on Computer Vision Workshop'
start_date: 2019-10-27
date_created: 2020-04-05T22:00:51Z
date_published: 2019-10-01T00:00:00Z
date_updated: 2023-09-08T11:18:37Z
day: '01'
department:
- _id: ChLa
doi: 10.1109/ICCVW.2019.00217
ec_funded: 1
external_id:
arxiv:
- '1807.02136'
isi:
- '000554591601098'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1807.02136
month: '10'
oa: 1
oa_version: Preprint
project:
- _id: 2532554C-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '308036'
name: Lifelong Learning of Visual Scene Understanding
publication: Proceedings of the 2019 International Conference on Computer Vision Workshop
publication_identifier:
isbn:
- '9781728150239'
publication_status: published
publisher: IEEE
quality_controlled: '1'
scopus_import: '1'
status: public
title: Detecting visual relationships using box attention
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '7639'
abstract:
- lang: eng
text: Deep neural networks (DNNs) have become increasingly important due to their
excellent empirical performance on a wide range of problems. However, regularization
is generally achieved by indirect means, largely due to the complex set of functions
defined by a network and the difficulty in measuring function complexity. There
exists no method in the literature for additive regularization based on a norm
of the function, as is classically considered in statistical learning theory.
In this work, we study the tractability of function norms for deep neural networks
with ReLU activations. We provide, to the best of our knowledge, the first proof
in the literature of the NP-hardness of computing function norms of DNNs of 3
or more layers. We also highlight a fundamental difference between shallow and
deep networks. In the light on these results, we propose a new regularization
strategy based on approximate function norms, and show its efficiency on a segmentation
task with a DNN.
article_number: 748-752
article_processing_charge: No
author:
- first_name: Amal
full_name: Rannen-Triki, Amal
last_name: Rannen-Triki
- first_name: Maxim
full_name: Berman, Maxim
last_name: Berman
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Matthew B.
full_name: Blaschko, Matthew B.
last_name: Blaschko
citation:
ama: 'Rannen-Triki A, Berman M, Kolmogorov V, Blaschko MB. Function norms for neural
networks. In: Proceedings of the 2019 International Conference on Computer
Vision Workshop. IEEE; 2019. doi:10.1109/ICCVW.2019.00097'
apa: 'Rannen-Triki, A., Berman, M., Kolmogorov, V., & Blaschko, M. B. (2019).
Function norms for neural networks. In Proceedings of the 2019 International
Conference on Computer Vision Workshop. Seoul, South Korea: IEEE. https://doi.org/10.1109/ICCVW.2019.00097'
chicago: Rannen-Triki, Amal, Maxim Berman, Vladimir Kolmogorov, and Matthew B. Blaschko.
“Function Norms for Neural Networks.” In Proceedings of the 2019 International
Conference on Computer Vision Workshop. IEEE, 2019. https://doi.org/10.1109/ICCVW.2019.00097.
ieee: A. Rannen-Triki, M. Berman, V. Kolmogorov, and M. B. Blaschko, “Function norms
for neural networks,” in Proceedings of the 2019 International Conference on
Computer Vision Workshop, Seoul, South Korea, 2019.
ista: 'Rannen-Triki A, Berman M, Kolmogorov V, Blaschko MB. 2019. Function norms
for neural networks. Proceedings of the 2019 International Conference on Computer
Vision Workshop. ICCVW: International Conference on Computer Vision Workshop,
748–752.'
mla: Rannen-Triki, Amal, et al. “Function Norms for Neural Networks.” Proceedings
of the 2019 International Conference on Computer Vision Workshop, 748–752,
IEEE, 2019, doi:10.1109/ICCVW.2019.00097.
short: A. Rannen-Triki, M. Berman, V. Kolmogorov, M.B. Blaschko, in:, Proceedings
of the 2019 International Conference on Computer Vision Workshop, IEEE, 2019.
conference:
end_date: 2019-10-28
location: Seoul, South Korea
name: 'ICCVW: International Conference on Computer Vision Workshop'
start_date: 2019-10-27
date_created: 2020-04-05T22:00:50Z
date_published: 2019-10-01T00:00:00Z
date_updated: 2023-09-08T11:19:12Z
day: '01'
department:
- _id: VlKo
doi: 10.1109/ICCVW.2019.00097
external_id:
isi:
- '000554591600090'
isi: 1
language:
- iso: eng
month: '10'
oa_version: None
publication: Proceedings of the 2019 International Conference on Computer Vision Workshop
publication_identifier:
isbn:
- '9781728150239'
publication_status: published
publisher: IEEE
quality_controlled: '1'
scopus_import: '1'
status: public
title: Function norms for neural networks
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '8281'
abstract:
- lang: eng
text: We review the history of population genetics, starting with its origins a
century ago from the synthesis between Mendel and Darwin's ideas, through to the
recent development of sophisticated schemes of inference from sequence data, based
on the coalescent. We explain the close relation between the coalescent and a
diffusion process, which we illustrate by their application to understand spatial
structure. We summarise the powerful methods available for analysis of multiple
loci, when linkage equilibrium can be assumed, and then discuss approaches to
the more challenging case, where associations between alleles require that we
follow genotype, rather than allele, frequencies. Though we can hardly cover the
whole of population genetics, we give an overview of the current state of the
subject, and future challenges to it.
article_processing_charge: No
author:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Alison
full_name: Etheridge, Alison
last_name: Etheridge
citation:
ama: 'Barton NH, Etheridge A. Mathematical models in population genetics. In: Balding
D, Moltke I, Marioni J, eds. Handbook of Statistical Genomics. 4th ed.
Wiley; 2019:115-144. doi:10.1002/9781119487845.ch4'
apa: Barton, N. H., & Etheridge, A. (2019). Mathematical models in population
genetics. In D. Balding, I. Moltke, & J. Marioni (Eds.), Handbook of statistical
genomics (4th ed., pp. 115–144). Wiley. https://doi.org/10.1002/9781119487845.ch4
chicago: Barton, Nicholas H, and Alison Etheridge. “Mathematical Models in Population
Genetics.” In Handbook of Statistical Genomics, edited by David Balding,
Ida Moltke, and John Marioni, 4th ed., 115–44. Wiley, 2019. https://doi.org/10.1002/9781119487845.ch4.
ieee: N. H. Barton and A. Etheridge, “Mathematical models in population genetics,”
in Handbook of statistical genomics, 4th ed., D. Balding, I. Moltke, and
J. Marioni, Eds. Wiley, 2019, pp. 115–144.
ista: 'Barton NH, Etheridge A. 2019.Mathematical models in population genetics.
In: Handbook of statistical genomics. , 115–144.'
mla: Barton, Nicholas H., and Alison Etheridge. “Mathematical Models in Population
Genetics.” Handbook of Statistical Genomics, edited by David Balding et
al., 4th ed., Wiley, 2019, pp. 115–44, doi:10.1002/9781119487845.ch4.
short: N.H. Barton, A. Etheridge, in:, D. Balding, I. Moltke, J. Marioni (Eds.),
Handbook of Statistical Genomics, 4th ed., Wiley, 2019, pp. 115–144.
date_created: 2020-08-21T04:25:39Z
date_published: 2019-07-29T00:00:00Z
date_updated: 2023-09-08T11:24:15Z
day: '29'
ddc:
- '576'
department:
- _id: NiBa
doi: 10.1002/9781119487845.ch4
edition: '4'
editor:
- first_name: David
full_name: Balding, David
last_name: Balding
- first_name: Ida
full_name: Moltke, Ida
last_name: Moltke
- first_name: John
full_name: Marioni, John
last_name: Marioni
external_id:
isi:
- '000261343000003'
isi: 1
language:
- iso: eng
month: '07'
oa_version: None
page: 115-144
publication: Handbook of statistical genomics
publication_identifier:
isbn:
- '9781119429142'
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Mathematical models in population genetics
type: book_chapter
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '8184'
abstract:
- lang: eng
text: "Denote by ∆N the N-dimensional simplex. A map f : ∆N → Rd is an almost r-embedding
if fσ1∩. . .∩fσr = ∅ whenever σ1, . . . , σr are pairwise disjoint faces. A counterexample
to the topological Tverberg conjecture asserts that if r is not a prime power
and d ≥ 2r + 1, then there is an almost r-embedding ∆(d+1)(r−1) → Rd. This was
improved by Blagojevi´c–Frick–Ziegler using a simple construction of higher-dimensional
counterexamples by taking k-fold join power of lower-dimensional ones. We improve
this further (for d large compared to r): If r is not a prime power and N := (d+
1)r−r l\r\nd + 2 r + 1 m−2, then there is an almost r-embedding ∆N → Rd. For the
r-fold van Kampen–Flores conjecture we also produce counterexamples which are
stronger than previously known. Our proof is based on generalizations of the Mabillard–Wagner
theorem on construction of almost r-embeddings from equivariant maps, and of the
Ozaydin theorem on existence of equivariant maps. "
acknowledgement: We would like to thank F. Frick for helpful discussions
article_number: '1908.08731'
article_processing_charge: No
author:
- first_name: Sergey
full_name: Avvakumov, Sergey
id: 3827DAC8-F248-11E8-B48F-1D18A9856A87
last_name: Avvakumov
- first_name: R.
full_name: Karasev, R.
last_name: Karasev
- first_name: A.
full_name: Skopenkov, A.
last_name: Skopenkov
citation:
ama: Avvakumov S, Karasev R, Skopenkov A. Stronger counterexamples to the topological
Tverberg conjecture. arXiv.
apa: Avvakumov, S., Karasev, R., & Skopenkov, A. (n.d.). Stronger counterexamples
to the topological Tverberg conjecture. arXiv. arXiv.
chicago: Avvakumov, Sergey, R. Karasev, and A. Skopenkov. “Stronger Counterexamples
to the Topological Tverberg Conjecture.” ArXiv. arXiv, n.d.
ieee: S. Avvakumov, R. Karasev, and A. Skopenkov, “Stronger counterexamples to the
topological Tverberg conjecture,” arXiv. arXiv.
ista: Avvakumov S, Karasev R, Skopenkov A. Stronger counterexamples to the topological
Tverberg conjecture. arXiv, 1908.08731.
mla: Avvakumov, Sergey, et al. “Stronger Counterexamples to the Topological Tverberg
Conjecture.” ArXiv, 1908.08731, arXiv.
short: S. Avvakumov, R. Karasev, A. Skopenkov, ArXiv (n.d.).
date_created: 2020-07-30T10:45:34Z
date_published: 2019-08-23T00:00:00Z
date_updated: 2023-09-08T11:20:02Z
day: '23'
department:
- _id: UlWa
external_id:
arxiv:
- '1908.08731'
isi:
- '000986519600004'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1908.08731
month: '08'
oa: 1
oa_version: Preprint
project:
- _id: 26611F5C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P31312
name: Algorithms for Embeddings and Homotopy Theory
publication: arXiv
publication_status: submitted
publisher: arXiv
related_material:
record:
- id: '8156'
relation: dissertation_contains
status: public
status: public
title: Stronger counterexamples to the topological Tverberg conjecture
type: preprint
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '6430'
abstract:
- lang: eng
text: "A proxy re-encryption (PRE) scheme is a public-key encryption scheme that
allows the holder of a key pk to derive a re-encryption key for any other key
\U0001D45D\U0001D458′. This re-encryption key lets anyone transform ciphertexts
under pk into ciphertexts under \U0001D45D\U0001D458′ without having to know the
underlying message, while transformations from \U0001D45D\U0001D458′ to pk should
not be possible (unidirectional). Security is defined in a multi-user setting
against an adversary that gets the users’ public keys and can ask for re-encryption
keys and can corrupt users by requesting their secret keys. Any ciphertext that
the adversary cannot trivially decrypt given the obtained secret and re-encryption
keys should be secure.\r\n\r\nAll existing security proofs for PRE only show selective
security, where the adversary must first declare the users it wants to corrupt.
This can be lifted to more meaningful adaptive security by guessing the set of
corrupted users among the n users, which loses a factor exponential in Open image
in new window , rendering the result meaningless already for moderate Open image
in new window .\r\n\r\nJafargholi et al. (CRYPTO’17) proposed a framework that
in some cases allows to give adaptive security proofs for schemes which were previously
only known to be selectively secure, while avoiding the exponential loss that
results from guessing the adaptive choices made by an adversary. We apply their
framework to PREs that satisfy some natural additional properties. Concretely,
we give a more fine-grained reduction for several unidirectional PREs, proving
adaptive security at a much smaller loss. The loss depends on the graph of users
whose edges represent the re-encryption keys queried by the adversary. For trees
and chains the loss is quasi-polynomial in the size and for general graphs it
is exponential in their depth and indegree (instead of their size as for previous
reductions). Fortunately, trees and low-depth graphs cover many, if not most,
interesting applications.\r\n\r\nOur results apply e.g. to the bilinear-map based
PRE schemes by Ateniese et al. (NDSS’05 and CT-RSA’09), Gentry’s FHE-based scheme
(STOC’09) and the LWE-based scheme by Chandran et al. (PKC’14)."
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Georg
full_name: Fuchsbauer, Georg
id: 46B4C3EE-F248-11E8-B48F-1D18A9856A87
last_name: Fuchsbauer
- first_name: Chethan
full_name: Kamath Hosdurg, Chethan
id: 4BD3F30E-F248-11E8-B48F-1D18A9856A87
last_name: Kamath Hosdurg
- first_name: Karen
full_name: Klein, Karen
id: 3E83A2F8-F248-11E8-B48F-1D18A9856A87
last_name: Klein
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
citation:
ama: 'Fuchsbauer G, Kamath Hosdurg C, Klein K, Pietrzak KZ. Adaptively secure proxy
re-encryption. In: Vol 11443. Springer Nature; 2019:317-346. doi:10.1007/978-3-030-17259-6_11'
apa: 'Fuchsbauer, G., Kamath Hosdurg, C., Klein, K., & Pietrzak, K. Z. (2019).
Adaptively secure proxy re-encryption (Vol. 11443, pp. 317–346). Presented at
the PKC: Public-Key Cryptograhy, Beijing, China: Springer Nature. https://doi.org/10.1007/978-3-030-17259-6_11'
chicago: Fuchsbauer, Georg, Chethan Kamath Hosdurg, Karen Klein, and Krzysztof Z
Pietrzak. “Adaptively Secure Proxy Re-Encryption,” 11443:317–46. Springer Nature,
2019. https://doi.org/10.1007/978-3-030-17259-6_11.
ieee: 'G. Fuchsbauer, C. Kamath Hosdurg, K. Klein, and K. Z. Pietrzak, “Adaptively
secure proxy re-encryption,” presented at the PKC: Public-Key Cryptograhy, Beijing,
China, 2019, vol. 11443, pp. 317–346.'
ista: 'Fuchsbauer G, Kamath Hosdurg C, Klein K, Pietrzak KZ. 2019. Adaptively secure
proxy re-encryption. PKC: Public-Key Cryptograhy, LNCS, vol. 11443, 317–346.'
mla: Fuchsbauer, Georg, et al. Adaptively Secure Proxy Re-Encryption. Vol.
11443, Springer Nature, 2019, pp. 317–46, doi:10.1007/978-3-030-17259-6_11.
short: G. Fuchsbauer, C. Kamath Hosdurg, K. Klein, K.Z. Pietrzak, in:, Springer
Nature, 2019, pp. 317–346.
conference:
end_date: 2019-04-17
location: Beijing, China
name: 'PKC: Public-Key Cryptograhy'
start_date: 2019-04-14
date_created: 2019-05-13T08:13:46Z
date_published: 2019-04-06T00:00:00Z
date_updated: 2023-09-08T11:33:20Z
day: '06'
department:
- _id: KrPi
doi: 10.1007/978-3-030-17259-6_11
ec_funded: 1
intvolume: ' 11443'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2018/426
month: '04'
oa: 1
oa_version: Preprint
page: 317-346
project:
- _id: 258AA5B2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '682815'
name: Teaching Old Crypto New Tricks
publication_identifier:
eissn:
- '16113349'
isbn:
- '9783030172589'
issn:
- '03029743'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '10035'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Adaptively secure proxy re-encryption
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 11443
year: '2019'
...
---
_id: '6069'
abstract:
- lang: eng
text: Electron transport in two-dimensional conducting materials such as graphene,
with dominant electron–electron interaction, exhibits unusual vortex flow that
leads to a nonlocal current-field relation (negative resistance), distinct from
the classical Ohm’s law. The transport behavior of these materials is best described
by low Reynolds number hydrodynamics, where the constitutive pressure–speed relation
is Stoke’s law. Here we report evidence of such vortices observed in a viscous
flow of Newtonian fluid in a microfluidic device consisting of a rectangular cavity—analogous
to the electronic system. We extend our experimental observations to elliptic
cavities of different eccentricities, and validate them by numerically solving
bi-harmonic equation obtained for the viscous flow with no-slip boundary conditions.
We verify the existence of a predicted threshold at which vortices appear. Strikingly,
we find that a two-dimensional theoretical model captures the essential features
of three-dimensional Stokes flow in experiments.
article_number: '937'
article_processing_charge: No
author:
- first_name: Jonathan
full_name: Mayzel, Jonathan
last_name: Mayzel
- first_name: Victor
full_name: Steinberg, Victor
last_name: Steinberg
- first_name: Atul
full_name: Varshney, Atul
id: 2A2006B2-F248-11E8-B48F-1D18A9856A87
last_name: Varshney
orcid: 0000-0002-3072-5999
citation:
ama: Mayzel J, Steinberg V, Varshney A. Stokes flow analogous to viscous electron
current in graphene. Nature Communications. 2019;10. doi:10.1038/s41467-019-08916-5
apa: Mayzel, J., Steinberg, V., & Varshney, A. (2019). Stokes flow analogous
to viscous electron current in graphene. Nature Communications. Springer
Nature. https://doi.org/10.1038/s41467-019-08916-5
chicago: Mayzel, Jonathan, Victor Steinberg, and Atul Varshney. “Stokes Flow Analogous
to Viscous Electron Current in Graphene.” Nature Communications. Springer
Nature, 2019. https://doi.org/10.1038/s41467-019-08916-5.
ieee: J. Mayzel, V. Steinberg, and A. Varshney, “Stokes flow analogous to viscous
electron current in graphene,” Nature Communications, vol. 10. Springer
Nature, 2019.
ista: Mayzel J, Steinberg V, Varshney A. 2019. Stokes flow analogous to viscous
electron current in graphene. Nature Communications. 10, 937.
mla: Mayzel, Jonathan, et al. “Stokes Flow Analogous to Viscous Electron Current
in Graphene.” Nature Communications, vol. 10, 937, Springer Nature, 2019,
doi:10.1038/s41467-019-08916-5.
short: J. Mayzel, V. Steinberg, A. Varshney, Nature Communications 10 (2019).
date_created: 2019-03-05T13:18:30Z
date_published: 2019-02-26T00:00:00Z
date_updated: 2023-09-08T11:39:02Z
day: '26'
ddc:
- '530'
- '532'
department:
- _id: BjHo
doi: 10.1038/s41467-019-08916-5
ec_funded: 1
external_id:
isi:
- '000459704600001'
file:
- access_level: open_access
checksum: 61192fc49e0d44907c2a4fe384e4b97f
content_type: application/pdf
creator: dernst
date_created: 2019-03-05T13:33:04Z
date_updated: 2020-07-14T12:47:18Z
file_id: '6070'
file_name: 2019_NatureComm_Mayzel.pdf
file_size: 2646391
relation: main_file
file_date_updated: 2020-07-14T12:47:18Z
has_accepted_license: '1'
intvolume: ' 10'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Stokes flow analogous to viscous electron current in graphene
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 10
year: '2019'
...
---
_id: '6014'
abstract:
- lang: eng
text: Speed of sound waves in gases and liquids are governed by the compressibility
of the medium. There exists another type of non-dispersive wave where the wave
speed depends on stress instead of elasticity of the medium. A well-known example
is the Alfven wave, which propagates through plasma permeated by a magnetic field
with the speed determined by magnetic tension. An elastic analogue of Alfven waves
has been predicted in a flow of dilute polymer solution where the elastic stress
of the stretching polymers determines the elastic wave speed. Here we present
quantitative evidence of elastic Alfven waves in elastic turbulence of a viscoelastic
creeping flow between two obstacles in channel flow. The key finding in the experimental
proof is a nonlinear dependence of the elastic wave speed cel on the Weissenberg
number Wi, which deviates from predictions based on a model of linear polymer
elasticity.
article_number: '652'
article_processing_charge: No
article_type: original
author:
- first_name: Atul
full_name: Varshney, Atul
id: 2A2006B2-F248-11E8-B48F-1D18A9856A87
last_name: Varshney
orcid: 0000-0002-3072-5999
- first_name: Victor
full_name: Steinberg, Victor
last_name: Steinberg
citation:
ama: Varshney A, Steinberg V. Elastic alfven waves in elastic turbulence. Nature
Communications. 2019;10. doi:10.1038/s41467-019-08551-0
apa: Varshney, A., & Steinberg, V. (2019). Elastic alfven waves in elastic turbulence.
Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-019-08551-0
chicago: Varshney, Atul, and Victor Steinberg. “Elastic Alfven Waves in Elastic
Turbulence.” Nature Communications. Springer Nature, 2019. https://doi.org/10.1038/s41467-019-08551-0.
ieee: A. Varshney and V. Steinberg, “Elastic alfven waves in elastic turbulence,”
Nature Communications, vol. 10. Springer Nature, 2019.
ista: Varshney A, Steinberg V. 2019. Elastic alfven waves in elastic turbulence.
Nature Communications. 10, 652.
mla: Varshney, Atul, and Victor Steinberg. “Elastic Alfven Waves in Elastic Turbulence.”
Nature Communications, vol. 10, 652, Springer Nature, 2019, doi:10.1038/s41467-019-08551-0.
short: A. Varshney, V. Steinberg, Nature Communications 10 (2019).
date_created: 2019-02-15T07:10:46Z
date_published: 2019-02-08T00:00:00Z
date_updated: 2023-09-08T11:39:54Z
day: '08'
ddc:
- '530'
department:
- _id: BjHo
doi: 10.1038/s41467-019-08551-0
ec_funded: 1
external_id:
arxiv:
- '1902.03763'
isi:
- '000458175300001'
file:
- access_level: open_access
checksum: d3acf07eaad95ec040d8e8565fc9ac37
content_type: application/pdf
creator: dernst
date_created: 2019-02-15T07:15:00Z
date_updated: 2020-07-14T12:47:17Z
file_id: '6015'
file_name: 2019_NatureComm_Varshney.pdf
file_size: 1331490
relation: main_file
file_date_updated: 2020-07-14T12:47:17Z
has_accepted_license: '1'
intvolume: ' 10'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Elastic alfven waves in elastic turbulence
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 10
year: '2019'
...
---
_id: '6451'
abstract:
- lang: eng
text: Epidermal growth factor receptor (EGFR) signaling controls skin development
and homeostasis inmice and humans, and its deficiency causes severe skin inflammation,
which might affect epidermalstem cell behavior. Here, we describe the inflammation-independent
effects of EGFR deficiency dur-ing skin morphogenesis and in adult hair follicle
stem cells. Expression and alternative splicing analysisof RNA sequencing data
from interfollicular epidermis and outer root sheath indicate that EGFR con-trols
genes involved in epidermal differentiation and also in centrosome function, DNA
damage, cellcycle, and apoptosis. Genetic experiments employingp53deletion in
EGFR-deficient epidermis revealthat EGFR signaling exhibitsp53-dependent functions
in proliferative epidermal compartments, aswell asp53-independent functions in
differentiated hair shaft keratinocytes. Loss of EGFR leads toabsence of LEF1
protein specifically in the innermost epithelial hair layers, resulting in disorganizationof
medulla cells. Thus, our results uncover important spatial and temporal features
of cell-autonomousEGFR functions in the epidermis.
article_processing_charge: No
author:
- first_name: Nicole
full_name: Amberg, Nicole
id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87
last_name: Amberg
orcid: 0000-0002-3183-8207
- first_name: Panagiota A.
full_name: Sotiropoulou, Panagiota A.
last_name: Sotiropoulou
- first_name: Gerwin
full_name: Heller, Gerwin
last_name: Heller
- first_name: Beate M.
full_name: Lichtenberger, Beate M.
last_name: Lichtenberger
- first_name: Martin
full_name: Holcmann, Martin
last_name: Holcmann
- first_name: Bahar
full_name: Camurdanoglu, Bahar
last_name: Camurdanoglu
- first_name: Temenuschka
full_name: Baykuscheva-Gentscheva, Temenuschka
last_name: Baykuscheva-Gentscheva
- first_name: Cedric
full_name: Blanpain, Cedric
last_name: Blanpain
- first_name: Maria
full_name: Sibilia, Maria
last_name: Sibilia
citation:
ama: Amberg N, Sotiropoulou PA, Heller G, et al. EGFR controls hair shaft differentiation
in a p53-independent manner. iScience. 2019;15:243-256. doi:10.1016/j.isci.2019.04.018
apa: Amberg, N., Sotiropoulou, P. A., Heller, G., Lichtenberger, B. M., Holcmann,
M., Camurdanoglu, B., … Sibilia, M. (2019). EGFR controls hair shaft differentiation
in a p53-independent manner. IScience. Elsevier. https://doi.org/10.1016/j.isci.2019.04.018
chicago: Amberg, Nicole, Panagiota A. Sotiropoulou, Gerwin Heller, Beate M. Lichtenberger,
Martin Holcmann, Bahar Camurdanoglu, Temenuschka Baykuscheva-Gentscheva, Cedric
Blanpain, and Maria Sibilia. “EGFR Controls Hair Shaft Differentiation in a P53-Independent
Manner.” IScience. Elsevier, 2019. https://doi.org/10.1016/j.isci.2019.04.018.
ieee: N. Amberg et al., “EGFR controls hair shaft differentiation in a p53-independent
manner,” iScience, vol. 15. Elsevier, pp. 243–256, 2019.
ista: Amberg N, Sotiropoulou PA, Heller G, Lichtenberger BM, Holcmann M, Camurdanoglu
B, Baykuscheva-Gentscheva T, Blanpain C, Sibilia M. 2019. EGFR controls hair shaft
differentiation in a p53-independent manner. iScience. 15, 243–256.
mla: Amberg, Nicole, et al. “EGFR Controls Hair Shaft Differentiation in a P53-Independent
Manner.” IScience, vol. 15, Elsevier, 2019, pp. 243–56, doi:10.1016/j.isci.2019.04.018.
short: N. Amberg, P.A. Sotiropoulou, G. Heller, B.M. Lichtenberger, M. Holcmann,
B. Camurdanoglu, T. Baykuscheva-Gentscheva, C. Blanpain, M. Sibilia, IScience
15 (2019) 243–256.
date_created: 2019-05-14T11:47:40Z
date_published: 2019-05-31T00:00:00Z
date_updated: 2023-09-08T11:38:04Z
day: '31'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.1016/j.isci.2019.04.018
external_id:
isi:
- '000470104600022'
file:
- access_level: open_access
checksum: a9ad2296726c9474ad5860c9c2f53622
content_type: application/pdf
creator: dernst
date_created: 2019-05-14T11:51:51Z
date_updated: 2020-07-14T12:47:30Z
file_id: '6452'
file_name: 2019_iScience_Amberg.pdf
file_size: 8365970
relation: main_file
file_date_updated: 2020-07-14T12:47:30Z
has_accepted_license: '1'
intvolume: ' 15'
isi: 1
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 243-256
publication: iScience
publication_identifier:
issn:
- 2589-0042
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: EGFR controls hair shaft differentiation in a p53-independent manner
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 15
year: '2019'
...
---
_id: '10879'
abstract:
- lang: eng
text: We study effects of a bounded and compactly supported perturbation on multidimensional
continuum random Schrödinger operators in the region of complete localisation.
Our main emphasis is on Anderson orthogonality for random Schrödinger operators.
Among others, we prove that Anderson orthogonality does occur for Fermi energies
in the region of complete localisation with a non-zero probability. This partially
confirms recent non-rigorous findings [V. Khemani et al., Nature Phys. 11 (2015),
560–565]. The spectral shift function plays an important role in our analysis
of Anderson orthogonality. We identify it with the index of the corresponding
pair of spectral projections and explore the consequences thereof. All our results
rely on the main technical estimate of this paper which guarantees separate exponential
decay of the disorder-averaged Schatten p-norm of χa(f(H)−f(Hτ))χb in a and b.
Here, Hτ is a perturbation of the random Schrödinger operator H, χa is the multiplication
operator corresponding to the indicator function of a unit cube centred about
a∈Rd, and f is in a suitable class of functions of bounded variation with distributional
derivative supported in the region of complete localisation for H.
acknowledgement: M.G. was supported by the DFG under grant GE 2871/1-1.
article_processing_charge: No
article_type: original
author:
- first_name: Adrian M
full_name: Dietlein, Adrian M
id: 317CB464-F248-11E8-B48F-1D18A9856A87
last_name: Dietlein
- first_name: Martin
full_name: Gebert, Martin
last_name: Gebert
- first_name: Peter
full_name: Müller, Peter
last_name: Müller
citation:
ama: Dietlein AM, Gebert M, Müller P. Perturbations of continuum random Schrödinger
operators with applications to Anderson orthogonality and the spectral shift function.
Journal of Spectral Theory. 2019;9(3):921-965. doi:10.4171/jst/267
apa: Dietlein, A. M., Gebert, M., & Müller, P. (2019). Perturbations of continuum
random Schrödinger operators with applications to Anderson orthogonality and the
spectral shift function. Journal of Spectral Theory. European Mathematical
Society Publishing House. https://doi.org/10.4171/jst/267
chicago: Dietlein, Adrian M, Martin Gebert, and Peter Müller. “Perturbations of
Continuum Random Schrödinger Operators with Applications to Anderson Orthogonality
and the Spectral Shift Function.” Journal of Spectral Theory. European
Mathematical Society Publishing House, 2019. https://doi.org/10.4171/jst/267.
ieee: A. M. Dietlein, M. Gebert, and P. Müller, “Perturbations of continuum random
Schrödinger operators with applications to Anderson orthogonality and the spectral
shift function,” Journal of Spectral Theory, vol. 9, no. 3. European Mathematical
Society Publishing House, pp. 921–965, 2019.
ista: Dietlein AM, Gebert M, Müller P. 2019. Perturbations of continuum random Schrödinger
operators with applications to Anderson orthogonality and the spectral shift function.
Journal of Spectral Theory. 9(3), 921–965.
mla: Dietlein, Adrian M., et al. “Perturbations of Continuum Random Schrödinger
Operators with Applications to Anderson Orthogonality and the Spectral Shift Function.”
Journal of Spectral Theory, vol. 9, no. 3, European Mathematical Society
Publishing House, 2019, pp. 921–65, doi:10.4171/jst/267.
short: A.M. Dietlein, M. Gebert, P. Müller, Journal of Spectral Theory 9 (2019)
921–965.
date_created: 2022-03-18T12:36:42Z
date_published: 2019-03-01T00:00:00Z
date_updated: 2023-09-08T11:35:31Z
day: '01'
department:
- _id: LaEr
doi: 10.4171/jst/267
external_id:
arxiv:
- '1701.02956'
isi:
- '000484709400006'
intvolume: ' 9'
isi: 1
issue: '3'
keyword:
- Random Schrödinger operators
- spectral shift function
- Anderson orthogonality
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1701.02956
month: '03'
oa: 1
oa_version: Preprint
page: 921-965
publication: Journal of Spectral Theory
publication_identifier:
issn:
- 1664-039X
publication_status: published
publisher: European Mathematical Society Publishing House
quality_controlled: '1'
scopus_import: '1'
status: public
title: Perturbations of continuum random Schrödinger operators with applications to
Anderson orthogonality and the spectral shift function
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 9
year: '2019'
...
---
_id: '10878'
abstract:
- lang: eng
text: Starting from a microscopic model for a system of neurons evolving in time
which individually follow a stochastic integrate-and-fire type model, we study
a mean-field limit of the system. Our model is described by a system of SDEs with
discontinuous coefficients for the action potential of each neuron and takes into
account the (random) spatial configuration of neurons allowing the interaction
to depend on it. In the limit as the number of particles tends to infinity, we
obtain a nonlinear Fokker-Planck type PDE in two variables, with derivatives only
with respect to one variable and discontinuous coefficients. We also study strong
well-posedness of the system of SDEs and prove the existence and uniqueness of
a weak measure-valued solution to the PDE, obtained as the limit of the laws of
the empirical measures for the system of particles.
acknowledgement: "The second author has been partially supported by INdAM through
the GNAMPA Research\r\nProject (2017) “Sistemi stocastici singolari: buona posizione
e problemi di controllo”. The third\r\nauthor was partly funded by the Austrian
Science Fund (FWF) project F 65."
article_processing_charge: No
article_type: original
author:
- first_name: Franco
full_name: Flandoli, Franco
last_name: Flandoli
- first_name: Enrico
full_name: Priola, Enrico
last_name: Priola
- first_name: Giovanni A
full_name: Zanco, Giovanni A
id: 47491882-F248-11E8-B48F-1D18A9856A87
last_name: Zanco
citation:
ama: Flandoli F, Priola E, Zanco GA. A mean-field model with discontinuous coefficients
for neurons with spatial interaction. Discrete and Continuous Dynamical Systems.
2019;39(6):3037-3067. doi:10.3934/dcds.2019126
apa: Flandoli, F., Priola, E., & Zanco, G. A. (2019). A mean-field model with
discontinuous coefficients for neurons with spatial interaction. Discrete and
Continuous Dynamical Systems. American Institute of Mathematical Sciences.
https://doi.org/10.3934/dcds.2019126
chicago: Flandoli, Franco, Enrico Priola, and Giovanni A Zanco. “A Mean-Field Model
with Discontinuous Coefficients for Neurons with Spatial Interaction.” Discrete
and Continuous Dynamical Systems. American Institute of Mathematical Sciences,
2019. https://doi.org/10.3934/dcds.2019126.
ieee: F. Flandoli, E. Priola, and G. A. Zanco, “A mean-field model with discontinuous
coefficients for neurons with spatial interaction,” Discrete and Continuous
Dynamical Systems, vol. 39, no. 6. American Institute of Mathematical Sciences,
pp. 3037–3067, 2019.
ista: Flandoli F, Priola E, Zanco GA. 2019. A mean-field model with discontinuous
coefficients for neurons with spatial interaction. Discrete and Continuous Dynamical
Systems. 39(6), 3037–3067.
mla: Flandoli, Franco, et al. “A Mean-Field Model with Discontinuous Coefficients
for Neurons with Spatial Interaction.” Discrete and Continuous Dynamical Systems,
vol. 39, no. 6, American Institute of Mathematical Sciences, 2019, pp. 3037–67,
doi:10.3934/dcds.2019126.
short: F. Flandoli, E. Priola, G.A. Zanco, Discrete and Continuous Dynamical Systems
39 (2019) 3037–3067.
date_created: 2022-03-18T12:33:34Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2023-09-08T11:34:45Z
day: '01'
department:
- _id: JaMa
doi: 10.3934/dcds.2019126
external_id:
arxiv:
- '1708.04156'
isi:
- '000459954800003'
intvolume: ' 39'
isi: 1
issue: '6'
keyword:
- Applied Mathematics
- Discrete Mathematics and Combinatorics
- Analysis
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1708.04156
month: '06'
oa: 1
oa_version: Preprint
page: 3037-3067
project:
- _id: fc31cba2-9c52-11eb-aca3-ff467d239cd2
grant_number: F6504
name: Taming Complexity in Partial Differential Systems
publication: Discrete and Continuous Dynamical Systems
publication_identifier:
issn:
- 1553-5231
publication_status: published
publisher: American Institute of Mathematical Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: A mean-field model with discontinuous coefficients for neurons with spatial
interaction
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 39
year: '2019'
...
---
_id: '6935'
abstract:
- lang: eng
text: "This paper investigates the power of preprocessing in the CONGEST model.
Schmid and Suomela (ACM HotSDN 2013) introduced the SUPPORTED CONGEST model to
study the application of distributed algorithms in Software-Defined Networks (SDNs).
In this paper, we show that a large class of lower bounds in the CONGEST model
still hold in the SUPPORTED model, highlighting the robustness of these bounds.
This also raises the question how much does\r\npreprocessing help in the CONGEST
model."
article_processing_charge: No
author:
- first_name: Klaus-Tycho
full_name: Foerster, Klaus-Tycho
last_name: Foerster
- first_name: Janne
full_name: Korhonen, Janne
id: C5402D42-15BC-11E9-A202-CA2BE6697425
last_name: Korhonen
- first_name: Joel
full_name: Rybicki, Joel
id: 334EFD2E-F248-11E8-B48F-1D18A9856A87
last_name: Rybicki
orcid: 0000-0002-6432-6646
- first_name: Stefan
full_name: Schmid, Stefan
last_name: Schmid
citation:
ama: 'Foerster K-T, Korhonen J, Rybicki J, Schmid S. Does preprocessing help under
congestion? In: Proceedings of the 2019 ACM Symposium on Principles of Distributed
Computing. ACM; 2019:259-261. doi:10.1145/3293611.3331581'
apa: 'Foerster, K.-T., Korhonen, J., Rybicki, J., & Schmid, S. (2019). Does
preprocessing help under congestion? In Proceedings of the 2019 ACM Symposium
on Principles of Distributed Computing (pp. 259–261). Toronto, ON, Canada:
ACM. https://doi.org/10.1145/3293611.3331581'
chicago: Foerster, Klaus-Tycho, Janne Korhonen, Joel Rybicki, and Stefan Schmid.
“Does Preprocessing Help under Congestion?” In Proceedings of the 2019 ACM
Symposium on Principles of Distributed Computing, 259–61. ACM, 2019. https://doi.org/10.1145/3293611.3331581.
ieee: K.-T. Foerster, J. Korhonen, J. Rybicki, and S. Schmid, “Does preprocessing
help under congestion?,” in Proceedings of the 2019 ACM Symposium on Principles
of Distributed Computing, Toronto, ON, Canada, 2019, pp. 259–261.
ista: 'Foerster K-T, Korhonen J, Rybicki J, Schmid S. 2019. Does preprocessing help
under congestion? Proceedings of the 2019 ACM Symposium on Principles of Distributed
Computing. PODC: Symposium on Principles of Distributed Computing, 259–261.'
mla: Foerster, Klaus-Tycho, et al. “Does Preprocessing Help under Congestion?” Proceedings
of the 2019 ACM Symposium on Principles of Distributed Computing, ACM, 2019,
pp. 259–61, doi:10.1145/3293611.3331581.
short: K.-T. Foerster, J. Korhonen, J. Rybicki, S. Schmid, in:, Proceedings of the
2019 ACM Symposium on Principles of Distributed Computing, ACM, 2019, pp. 259–261.
conference:
end_date: 2019-08-02
location: Toronto, ON, Canada
name: 'PODC: Symposium on Principles of Distributed Computing'
start_date: 2019-07-29
date_created: 2019-10-08T12:57:14Z
date_published: 2019-08-01T00:00:00Z
date_updated: 2023-09-08T11:37:22Z
day: '01'
department:
- _id: DaAl
doi: 10.1145/3293611.3331581
ec_funded: 1
external_id:
arxiv:
- '1905.03012'
isi:
- '000570442000037'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1905.03012
month: '08'
oa: 1
oa_version: Preprint
page: 259-261
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Proceedings of the 2019 ACM Symposium on Principles of Distributed Computing
publication_identifier:
isbn:
- '9781450362177'
publication_status: published
publisher: ACM
quality_controlled: '1'
scopus_import: '1'
status: public
title: Does preprocessing help under congestion?
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '138'
abstract:
- lang: eng
text: Autoregulation is the direct modulation of gene expression by the product
of the corresponding gene. Autoregulation of bacterial gene expression has been
mostly studied at the transcriptional level, when a protein acts as the cognate
transcriptional repressor. A recent study investigating dynamics of the bacterial
toxin–antitoxin MazEF system has shown how autoregulation at both the transcriptional
and post-transcriptional levels affects the heterogeneity of Escherichia coli
populations. Toxin–antitoxin systems hold a crucial but still elusive part in
bacterial response to stress. This perspective highlights how these modules can
also serve as a great model system for investigating basic concepts in gene regulation.
However, as the genomic background and environmental conditions substantially
influence toxin activation, it is important to study (auto)regulation of toxin–antitoxin
systems in well-defined setups as well as in conditions that resemble the environmental
niche.
article_processing_charge: Yes (via OA deal)
author:
- first_name: Nela
full_name: Nikolic, Nela
id: 42D9CABC-F248-11E8-B48F-1D18A9856A87
last_name: Nikolic
orcid: 0000-0001-9068-6090
citation:
ama: 'Nikolic N. Autoregulation of bacterial gene expression: lessons from the MazEF
toxin–antitoxin system. Current Genetics. 2019;65(1):133-138. doi:10.1007/s00294-018-0879-8'
apa: 'Nikolic, N. (2019). Autoregulation of bacterial gene expression: lessons from
the MazEF toxin–antitoxin system. Current Genetics. Springer. https://doi.org/10.1007/s00294-018-0879-8'
chicago: 'Nikolic, Nela. “Autoregulation of Bacterial Gene Expression: Lessons from
the MazEF Toxin–Antitoxin System.” Current Genetics. Springer, 2019. https://doi.org/10.1007/s00294-018-0879-8.'
ieee: 'N. Nikolic, “Autoregulation of bacterial gene expression: lessons from the
MazEF toxin–antitoxin system,” Current Genetics, vol. 65, no. 1. Springer,
pp. 133–138, 2019.'
ista: 'Nikolic N. 2019. Autoregulation of bacterial gene expression: lessons from
the MazEF toxin–antitoxin system. Current Genetics. 65(1), 133–138.'
mla: 'Nikolic, Nela. “Autoregulation of Bacterial Gene Expression: Lessons from
the MazEF Toxin–Antitoxin System.” Current Genetics, vol. 65, no. 1, Springer,
2019, pp. 133–38, doi:10.1007/s00294-018-0879-8.'
short: N. Nikolic, Current Genetics 65 (2019) 133–138.
date_created: 2018-12-11T11:44:50Z
date_published: 2019-02-01T00:00:00Z
date_updated: 2023-09-08T13:23:42Z
day: '01'
ddc:
- '570'
department:
- _id: CaGu
doi: 10.1007/s00294-018-0879-8
ec_funded: 1
external_id:
isi:
- '000456958800017'
file:
- access_level: open_access
checksum: 6779708b0b632a1a6ed28c56f5161142
content_type: application/pdf
creator: dernst
date_created: 2019-02-06T07:50:58Z
date_updated: 2020-07-14T12:44:47Z
file_id: '5930'
file_name: 2019_CurrentGenetics_Nikolic.pdf
file_size: 776399
relation: main_file
file_date_updated: 2020-07-14T12:44:47Z
has_accepted_license: '1'
intvolume: ' 65'
isi: 1
issue: '1'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 133-138
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Current Genetics
publication_status: published
publisher: Springer
publist_id: '7785'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Autoregulation of bacterial gene expression: lessons from the MazEF toxin–antitoxin
system'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 65
year: '2019'
...
---
_id: '151'
abstract:
- lang: eng
text: We construct planar bi-Sobolev mappings whose local volume distortion is bounded
from below by a given function f∈Lp with p>1. More precisely, for any 1<q<(p+1)/2
we construct W1,q-bi-Sobolev maps with identity boundary conditions; for f∈L∞,
we provide bi-Lipschitz maps. The basic building block of our construction are
bi-Lipschitz maps which stretch a given compact subset of the unit square by a
given factor while preserving the boundary. The construction of these stretching
maps relies on a slight strengthening of the celebrated covering result of Alberti,
Csörnyei, and Preiss for measurable planar sets in the case of compact sets. We
apply our result to a model functional in nonlinear elasticity, the integrand
of which features fast blowup as the Jacobian determinant of the deformation becomes
small. For such functionals, the derivation of the equilibrium equations for minimizers
requires an additional regularization of test functions, which our maps provide.
article_processing_charge: No
author:
- first_name: Julian L
full_name: Fischer, Julian L
id: 2C12A0B0-F248-11E8-B48F-1D18A9856A87
last_name: Fischer
orcid: 0000-0002-0479-558X
- first_name: Olivier
full_name: Kneuss, Olivier
last_name: Kneuss
citation:
ama: Fischer JL, Kneuss O. Bi-Sobolev solutions to the prescribed Jacobian inequality
in the plane with L p data and applications to nonlinear elasticity. Journal
of Differential Equations. 2019;266(1):257-311. doi:10.1016/j.jde.2018.07.045
apa: Fischer, J. L., & Kneuss, O. (2019). Bi-Sobolev solutions to the prescribed
Jacobian inequality in the plane with L p data and applications to nonlinear elasticity.
Journal of Differential Equations. Elsevier. https://doi.org/10.1016/j.jde.2018.07.045
chicago: Fischer, Julian L, and Olivier Kneuss. “Bi-Sobolev Solutions to the Prescribed
Jacobian Inequality in the Plane with L p Data and Applications to Nonlinear Elasticity.”
Journal of Differential Equations. Elsevier, 2019. https://doi.org/10.1016/j.jde.2018.07.045.
ieee: J. L. Fischer and O. Kneuss, “Bi-Sobolev solutions to the prescribed Jacobian
inequality in the plane with L p data and applications to nonlinear elasticity,”
Journal of Differential Equations, vol. 266, no. 1. Elsevier, pp. 257–311,
2019.
ista: Fischer JL, Kneuss O. 2019. Bi-Sobolev solutions to the prescribed Jacobian
inequality in the plane with L p data and applications to nonlinear elasticity.
Journal of Differential Equations. 266(1), 257–311.
mla: Fischer, Julian L., and Olivier Kneuss. “Bi-Sobolev Solutions to the Prescribed
Jacobian Inequality in the Plane with L p Data and Applications to Nonlinear Elasticity.”
Journal of Differential Equations, vol. 266, no. 1, Elsevier, 2019, pp.
257–311, doi:10.1016/j.jde.2018.07.045.
short: J.L. Fischer, O. Kneuss, Journal of Differential Equations 266 (2019) 257–311.
date_created: 2018-12-11T11:44:54Z
date_published: 2019-01-05T00:00:00Z
date_updated: 2023-09-08T13:25:35Z
day: '05'
department:
- _id: JuFi
doi: 10.1016/j.jde.2018.07.045
external_id:
arxiv:
- '1408.1587'
isi:
- '000449108500010'
intvolume: ' 266'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1408.1587
month: '01'
oa: 1
oa_version: Preprint
page: 257 - 311
publication: Journal of Differential Equations
publication_status: published
publisher: Elsevier
publist_id: '7770'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Bi-Sobolev solutions to the prescribed Jacobian inequality in the plane with
L p data and applications to nonlinear elasticity
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 266
year: '2019'
...