---
OA_place: publisher
OA_type: hybrid
_id: '19785'
abstract:
- lang: eng
text: 'We consider a family of totally asymmetric simple exclusion processes (TASEPs),
consisting of particles on a lattice that require binding by a “token” in various
physical configurations to advance over the lattice. Using a combination of theory
and simulations, we address the following questions: (i) How does token binding
kinetics affect the current-density relation on the lattice? (ii) How does this
current-density relation depend on the scarcity of tokens? (iii) How do tokens
propagate the effects of the locally imposed disorder (such as a slow site) over
the entire lattice? (iv) How does a shared pool of tokens couple concurrent TASEPs
running on multiple lattices? and (v) How do our results translate to TASEPs with
open boundaries that exchange particles with the reservoir? Since real particle
motion (including in biological systems that inspired the standard TASEP model,
e.g., protein synthesis or movement of molecular motors) is often catalyzed, regulated,
actuated, or otherwise mediated, the token-driven TASEP dynamics analyzed in this
paper should allow for a better understanding of real systems and enable a closer
match between TASEP theory and experimental observations.'
acknowledgement: B.K. thanks Stefano Elefante, Simon Rella, and Michal Hledík for
their help with the usage of the cluster. B.K. additionally thanks Călin Guet and
his group for help and advice. We thank M. Hennessey-Wesen and Luca Ciandrini for
constructive comments on the paper. We thank Ankita Gupta (Indian Institute of Technology)
for spotting a typographical error in Eq. (50) in the preprint version of this paper.
article_number: '054122'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Bor
full_name: Kavcic, Bor
id: 350F91D2-F248-11E8-B48F-1D18A9856A87
last_name: Kavcic
orcid: 0000-0001-6041-254X
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
citation:
ama: Kavcic B, Tkačik G. Token-driven totally asymmetric simple exclusion processes.
Physical Review E. 2025;111(5). doi:10.1103/physreve.111.054122
apa: Kavcic, B., & Tkačik, G. (2025). Token-driven totally asymmetric simple
exclusion processes. Physical Review E. American Physical Society. https://doi.org/10.1103/physreve.111.054122
chicago: Kavcic, Bor, and Gašper Tkačik. “Token-Driven Totally Asymmetric Simple
Exclusion Processes.” Physical Review E. American Physical Society, 2025.
https://doi.org/10.1103/physreve.111.054122.
ieee: B. Kavcic and G. Tkačik, “Token-driven totally asymmetric simple exclusion
processes,” Physical Review E, vol. 111, no. 5. American Physical Society,
2025.
ista: Kavcic B, Tkačik G. 2025. Token-driven totally asymmetric simple exclusion
processes. Physical Review E. 111(5), 054122.
mla: Kavcic, Bor, and Gašper Tkačik. “Token-Driven Totally Asymmetric Simple Exclusion
Processes.” Physical Review E, vol. 111, no. 5, 054122, American Physical
Society, 2025, doi:10.1103/physreve.111.054122.
short: B. Kavcic, G. Tkačik, Physical Review E 111 (2025).
corr_author: '1'
date_created: 2025-06-03T09:01:55Z
date_published: 2025-05-19T00:00:00Z
date_updated: 2025-09-30T12:44:55Z
day: '19'
ddc:
- '570'
department:
- _id: GaTk
doi: 10.1103/physreve.111.054122
external_id:
isi:
- '001496415600007'
file:
- access_level: open_access
checksum: e8851ccd7cd0525c08c7308710413e74
content_type: application/pdf
creator: dernst
date_created: 2025-06-03T09:18:20Z
date_updated: 2025-06-03T09:18:20Z
file_id: '19787'
file_name: 2025_PhysRevE_Kavcic.pdf
file_size: 2766143
relation: main_file
success: 1
file_date_updated: 2025-06-03T09:18:20Z
has_accepted_license: '1'
intvolume: ' 111'
isi: 1
issue: '5'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
related_material:
record:
- id: '19658'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Token-driven totally asymmetric simple exclusion processes
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 111
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20483'
abstract:
- lang: eng
text: A parallel plate capacitor containing an electrolytic solution is the simplest
model of a supercapacitor or electric double-layer capacitor. Using both analytical
and numerical techniques, we solve the Poisson-Nernst-Planck equations for such
a system, describing the mean-field charging dynamics of the capacitor, when a
constant potential difference is abruptly applied to its plates. Working at constant
total number of ions, we focus on the physical processes involved in the relaxation
and, whenever possible, give its functional shape and exact time constants. We
first review and study the case of a symmetric binary electrolyte, where we assume
the two ionic species to have the same charges and diffusivities. We then relax
these assumptions and present results for a generic strong (i.e fully dissociated)
binary electrolyte. At low electrolyte concentration, the relaxation is simple
to understand, as the dynamics of positive and negative ions appear decoupled.
At higher electrolyte concentration, we distinguish several regimes. In the linear
regime (low voltages), relaxation is multiexponential, it starts by the buildup
of the equilibrium charge profile and continues with neutral mass diffusion, and
the relevant timescales feature both the average and the Nernst-Hartley diffusion
coefficients. In the purely nonlinear regime (intermediate voltages), the initial
relaxation is slowed down exponentially due to increased capacitance, while bulk
effects become more and more evident. In the fully nonlinear regime (high voltages),
the dynamics of charge and mass are completely entangled and, asymptotically,
the relaxation is linear in time. We finally discuss nonideal behavior in real
capacitors and provide conditions for which mean-field is expected to hold.
acknowledgement: This work has received funding from the European Union's Horizon
2020 and Horizon Europe research and innovation programs under the Marie Skłodowska-Curie
Grants No. 674979-NANOTRANS (I.P., P.B.W., B.R., and E.T.), No. 101034413 (I.P.),
and No. 101119598-FLUXIONIC (M.D., B.R., and E.T.), as well as from the European
Research Council under Grant No. 863473 (B.R.). B.R. acknowledges financial support
from the French Agence Nationale de la Recherche (ANR) under Grant No. ANR-21-CE29-0021-02
(DIADEM). I.P. thanks Anđela Šarić for further support at ISTA.
article_number: '035417'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Ivan
full_name: Palaia, Ivan
id: 9c805cd2-4b75-11ec-a374-db6dd0ed57fa
last_name: Palaia
orcid: ' 0000-0002-8843-9485 '
- first_name: Adelchi J.
full_name: Asta, Adelchi J.
last_name: Asta
- first_name: Megh
full_name: Dutta, Megh
last_name: Dutta
- first_name: Patrick B.
full_name: Warren, Patrick B.
last_name: Warren
- first_name: Benjamin
full_name: Rotenberg, Benjamin
last_name: Rotenberg
- first_name: Emmanuel
full_name: Trizac, Emmanuel
last_name: Trizac
citation:
ama: 'Palaia I, Asta AJ, Dutta M, Warren PB, Rotenberg B, Trizac E. Poisson-Nernst-Planck
charging dynamics of an electric double-layer capacitor: Symmetric and asymmetric
binary electrolytes. Physical Review E. 2025;112(3). doi:10.1103/p4dg-snqf'
apa: 'Palaia, I., Asta, A. J., Dutta, M., Warren, P. B., Rotenberg, B., & Trizac,
E. (2025). Poisson-Nernst-Planck charging dynamics of an electric double-layer
capacitor: Symmetric and asymmetric binary electrolytes. Physical Review E.
American Physical Society. https://doi.org/10.1103/p4dg-snqf'
chicago: 'Palaia, Ivan, Adelchi J. Asta, Megh Dutta, Patrick B. Warren, Benjamin
Rotenberg, and Emmanuel Trizac. “Poisson-Nernst-Planck Charging Dynamics of an
Electric Double-Layer Capacitor: Symmetric and Asymmetric Binary Electrolytes.”
Physical Review E. American Physical Society, 2025. https://doi.org/10.1103/p4dg-snqf.'
ieee: 'I. Palaia, A. J. Asta, M. Dutta, P. B. Warren, B. Rotenberg, and E. Trizac,
“Poisson-Nernst-Planck charging dynamics of an electric double-layer capacitor:
Symmetric and asymmetric binary electrolytes,” Physical Review E, vol.
112, no. 3. American Physical Society, 2025.'
ista: 'Palaia I, Asta AJ, Dutta M, Warren PB, Rotenberg B, Trizac E. 2025. Poisson-Nernst-Planck
charging dynamics of an electric double-layer capacitor: Symmetric and asymmetric
binary electrolytes. Physical Review E. 112(3), 035417.'
mla: 'Palaia, Ivan, et al. “Poisson-Nernst-Planck Charging Dynamics of an Electric
Double-Layer Capacitor: Symmetric and Asymmetric Binary Electrolytes.” Physical
Review E, vol. 112, no. 3, 035417, American Physical Society, 2025, doi:10.1103/p4dg-snqf.'
short: I. Palaia, A.J. Asta, M. Dutta, P.B. Warren, B. Rotenberg, E. Trizac, Physical
Review E 112 (2025).
corr_author: '1'
date_created: 2025-10-16T13:15:16Z
date_published: 2025-09-29T00:00:00Z
date_updated: 2025-12-01T13:06:51Z
day: '29'
ddc:
- '530'
department:
- _id: AnSa
doi: 10.1103/p4dg-snqf
ec_funded: 1
external_id:
arxiv:
- '2303.07859'
isi:
- '001586173200001'
file:
- access_level: open_access
checksum: 658a9b1ce6b2edcf138b54c55a566f0e
content_type: application/pdf
creator: dernst
date_created: 2025-10-23T09:15:56Z
date_updated: 2025-10-23T09:15:56Z
file_id: '20521'
file_name: 2025_PhysReviewE_Palaia.pdf
file_size: 1211712
relation: main_file
success: 1
file_date_updated: 2025-10-23T09:15:56Z
has_accepted_license: '1'
intvolume: ' 112'
isi: 1
issue: '3'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Poisson-Nernst-Planck charging dynamics of an electric double-layer capacitor:
Symmetric and asymmetric binary electrolytes'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 112
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20847'
abstract:
- lang: eng
text: "We report on an experimental active matter system with motion restricted
to four cardinal directions. Our particles are magnetite-doped colloidal spheres
driven by the Quincke electrorotational instability. The absence of a magnetic
field (|\U0001D469|=0) leads to circular trajectories interspersed with short
spontaneous runs. Intermediate fields (|\U0001D469|≲20mT) linearize the motion
along the axis perpendicular to \U0001D469. At high magnetic fields, we observe
the surprising emergence of a second, distinct linearization along the axis parallel
to \U0001D469. With numerical simulations, we show that this behavior can be explained
by anisotropic magnetic susceptibility."
acknowledged_ssus:
- _id: M-Shop
- _id: NanoFab
- _id: ScienComp
- _id: LifeSc
acknowledgement: "This research was funded in whole or in part by the Austrian Science
Fund (FWF) [Grant DOI: 10.55776/ESP298]. This project has received funding from
the European Research Council (ERC) under the European Union’s Horizon 2020 research
and innovation programme (Grant\r\nAgreement No. 949120). This research was supported
by the Scientific Service Units of The Institute of Science and Technology Austria
(ISTA) through resources provided by the Miba Machine Shop, Nanofabrication Facility,
Scientific Computing Facility, and Lab Support Facility. We wish to acknowledge
the crucial contributions of Alexandre Morin in getting the project off the ground,
and Jack Merrin for creating the SU-8 deposition protocol used in the construction
of our\r\ncells. We also wish to thank Kimberley Modic and Hamza Nasir for their
work on single-particle characterization. "
article_number: '065418'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Eavan
full_name: Fitzgerald, Eavan
id: 2df8ab8f-080d-11ed-979a-bfe651ca3afa
last_name: Fitzgerald
- first_name: Cécile
full_name: Clavaud, Cécile
id: 5f654c5d-04a1-11eb-ab36-ba9ffec58bd8
last_name: Clavaud
orcid: 0000-0002-1843-3803
- first_name: Debasish
full_name: Das, Debasish
last_name: Das
- first_name: Isaac C
full_name: Lenton, Isaac C
id: a550210f-223c-11ec-8182-e2d45e817efb
last_name: Lenton
orcid: 0000-0002-5010-6984
- first_name: Scott R
full_name: Waitukaitis, Scott R
id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
last_name: Waitukaitis
orcid: 0000-0002-2299-3176
citation:
ama: 'Fitzgerald E, Clavaud C, Das D, Lenton IC, Waitukaitis SR. Rolling at right
angles: Magnetic anisotropy enables dual-anisotropic active matter. Physical
Review E. 2025;112(6). doi:10.1103/1ss8-31rb'
apa: 'Fitzgerald, E., Clavaud, C., Das, D., Lenton, I. C., & Waitukaitis, S.
R. (2025). Rolling at right angles: Magnetic anisotropy enables dual-anisotropic
active matter. Physical Review E. American Physical Society. https://doi.org/10.1103/1ss8-31rb'
chicago: 'Fitzgerald, Eavan, Cécile Clavaud, Debasish Das, Isaac C Lenton, and Scott
R Waitukaitis. “Rolling at Right Angles: Magnetic Anisotropy Enables Dual-Anisotropic
Active Matter.” Physical Review E. American Physical Society, 2025. https://doi.org/10.1103/1ss8-31rb.'
ieee: 'E. Fitzgerald, C. Clavaud, D. Das, I. C. Lenton, and S. R. Waitukaitis, “Rolling
at right angles: Magnetic anisotropy enables dual-anisotropic active matter,”
Physical Review E, vol. 112, no. 6. American Physical Society, 2025.'
ista: 'Fitzgerald E, Clavaud C, Das D, Lenton IC, Waitukaitis SR. 2025. Rolling
at right angles: Magnetic anisotropy enables dual-anisotropic active matter. Physical
Review E. 112(6), 065418.'
mla: 'Fitzgerald, Eavan, et al. “Rolling at Right Angles: Magnetic Anisotropy Enables
Dual-Anisotropic Active Matter.” Physical Review E, vol. 112, no. 6, 065418,
American Physical Society, 2025, doi:10.1103/1ss8-31rb.'
short: E. Fitzgerald, C. Clavaud, D. Das, I.C. Lenton, S.R. Waitukaitis, Physical
Review E 112 (2025).
corr_author: '1'
date_created: 2025-12-21T23:01:34Z
date_published: 2025-12-01T00:00:00Z
date_updated: 2025-12-29T11:19:34Z
day: '01'
ddc:
- '530'
department:
- _id: ScWa
doi: 10.1103/1ss8-31rb
ec_funded: 1
external_id:
arxiv:
- '2508.05643'
file:
- access_level: open_access
checksum: d593e933f976c3f3cde37ad66539d57d
content_type: application/pdf
creator: dernst
date_created: 2025-12-29T11:15:42Z
date_updated: 2025-12-29T11:15:42Z
file_id: '20862'
file_name: 2025_PhysReviewE_Fitzgerald.pdf
file_size: 2131491
relation: main_file
success: 1
file_date_updated: 2025-12-29T11:15:42Z
has_accepted_license: '1'
intvolume: ' 112'
issue: '6'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
project:
- _id: bd8eede5-d553-11ed-ba76-eaded0d13485
grant_number: E 298
name: 'MixQUIckR: Mixing with QUIncke Rollers'
- _id: 0aa60e99-070f-11eb-9043-a6de6bdc3afa
call_identifier: H2020
grant_number: '949120'
name: 'Tribocharge: a multi-scale approach to an enduring problem in physics'
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Rolling at right angles: Magnetic anisotropy enables dual-anisotropic active
matter'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 112
year: '2025'
...
---
_id: '17892'
abstract:
- lang: eng
text: "Enzyme-substrate kinetics form the basis of many biomolecular processes.
The interplay between substrate binding and substrate geometry can give rise to
long-range interactions between enzyme binding events. Here we study a general
model of enzyme-substrate kinetics with restricted long-range interactions described
by an exponent −\U0001D6FE. We employ a coherent-state path integral and renormalization
group approach to calculate the first moment and two-point correlation function
of the enzyme-binding profile. We show that starting from an empty substrate the
average occupancy follows a power law with an exponent 1/(1−\U0001D6FE) over time.
The correlation function decays algebraically with two distinct spatial regimes
characterized by exponents −\U0001D6FE on short distances and −(2/3)(2−\U0001D6FE)
on long distances. The crossover between both regimes scales inversely with the
average substrate occupancy. Our work allows associating experimental measurements
of bound enzyme locations with their binding kinetics and the spatial conformation
of the substrate."
acknowledgement: We thank F. Piazza, M. Henkel, and F. Jülicher for helpful feedback
and the entire Rulands group for fruitful discussions. We thank W. Reik, S. Clark,
T. Lohoff, and I. Kafetzopoulos for fruitful discussions about the biological aspects
of this work. This project has received funding from the European Research Council
(ERC) under the European Union's Horizon 2020 research and innovation program (Grant
No. 950349). This project has received funding from the European Union's Horizon
2020 research and innovation programme under the Marie Skłodowska-Curie Grant No.
101034413.
article_number: '024404'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Fabrizio
full_name: Olmeda, Fabrizio
id: 69dbf5fb-8a76-11ed-866b-fb486d8b5689
last_name: Olmeda
- first_name: Steffen
full_name: Rulands, Steffen
last_name: Rulands
citation:
ama: Olmeda F, Rulands S. Field theory of enzyme-substrate systems with restricted
long-range interactions. Physical Review E. 2024;110(2). doi:10.1103/PhysRevE.110.024404
apa: Olmeda, F., & Rulands, S. (2024). Field theory of enzyme-substrate systems
with restricted long-range interactions. Physical Review E. American Physical
Society. https://doi.org/10.1103/PhysRevE.110.024404
chicago: Olmeda, Fabrizio, and Steffen Rulands. “Field Theory of Enzyme-Substrate
Systems with Restricted Long-Range Interactions.” Physical Review E. American
Physical Society, 2024. https://doi.org/10.1103/PhysRevE.110.024404.
ieee: F. Olmeda and S. Rulands, “Field theory of enzyme-substrate systems with restricted
long-range interactions,” Physical Review E, vol. 110, no. 2. American
Physical Society, 2024.
ista: Olmeda F, Rulands S. 2024. Field theory of enzyme-substrate systems with restricted
long-range interactions. Physical Review E. 110(2), 024404.
mla: Olmeda, Fabrizio, and Steffen Rulands. “Field Theory of Enzyme-Substrate Systems
with Restricted Long-Range Interactions.” Physical Review E, vol. 110,
no. 2, 024404, American Physical Society, 2024, doi:10.1103/PhysRevE.110.024404.
short: F. Olmeda, S. Rulands, Physical Review E 110 (2024).
corr_author: '1'
date_created: 2024-09-08T22:01:12Z
date_published: 2024-08-01T00:00:00Z
date_updated: 2025-09-08T09:17:18Z
day: '01'
ddc:
- '530'
department:
- _id: EdHa
doi: 10.1103/PhysRevE.110.024404
ec_funded: 1
external_id:
isi:
- '001299670100004'
pmid:
- '39294986'
file:
- access_level: open_access
checksum: 67fc2cc8eee3155e5c3b7380307d8284
content_type: application/pdf
creator: dernst
date_created: 2024-09-11T05:59:36Z
date_updated: 2024-09-11T05:59:36Z
file_id: '18053'
file_name: 2024_PhysReviewE_Olmeda.pdf
file_size: 445696
relation: main_file
success: 1
file_date_updated: 2024-09-11T05:59:36Z
has_accepted_license: '1'
intvolume: ' 110'
isi: 1
issue: '2'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Field theory of enzyme-substrate systems with restricted long-range interactions
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 110
year: '2024'
...
---
OA_place: repository
OA_type: green
_id: '18704'
abstract:
- lang: eng
text: Clathrin-mediated endocytosis is the main pathway used by eukaryotic cells
to take up extracellular material, but the dominant physical mechanisms driving
this process are still elusive. Recently, several high-resolution imaging techniques
have been used on different cell lines to measure the geometrical properties of
clathrin-coated pits over their whole lifetime. Here, we first show that the combination
of all datasets with the recently introduced cooperative curvature model defines
a consensus pathway, which is characterized by a flat-to-curved transition at
finite area, followed by linear growth and subsequent saturation of curvature.
We then apply an energetic model for the composite of the plasma membrane and
clathrin coat to this consensus pathway to show that the dominant mechanism for
invagination could be coat stiffening, which might originate from cooperative
interactions between the different clathrin molecules and progressively drives
the system toward its intrinsic curvature. Our theory predicts that two length
scales determine the invagination pathway, namely the patch size at which the
flat-to-curved transition occurs and the final pit radius.
acknowledgement: We thank Markus Mund, Aline Tschanz, and Jonas Ries for helpful discussions
and a critical reading of the manuscript. We also kindly acknowledge Simon Scheuring
for providing the HS-AFM data for the analysis of clathrin coat invagination. We
thank the reviewers of previous versions of this manuscript for useful feedback
that helped us to improve this work. F.F. acknowledges financial support by the
NOMIS foundation. U.S.S. was supported by the Deutsche Forschungsgemeinschaft (DFG,
German Research Foundation) under Project No. 240245660 (SFB 1129). Moreover, he
is a member of the Interdisciplinary Center for Scientific Computing (IWR) at Heidelberg
and of the Max Planck School Matter to Life supported by the German Federal Ministry
of Education and Research (BMBF) in collaboration with the Max Planck Society.
article_number: '064403'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Felix F
full_name: Frey, Felix F
id: a0270b37-8f1a-11ec-95c7-8e710c59a4f3
last_name: Frey
orcid: 0000-0001-8501-6017
- first_name: Ulrich S.
full_name: Schwarz, Ulrich S.
last_name: Schwarz
citation:
ama: Frey FF, Schwarz US. Coat stiffening can explain invagination of clathrin-coated
membranes. Physical Review E. 2024;110(6). doi:10.1103/PhysRevE.110.064403
apa: Frey, F. F., & Schwarz, U. S. (2024). Coat stiffening can explain invagination
of clathrin-coated membranes. Physical Review E. American Physical Society.
https://doi.org/10.1103/PhysRevE.110.064403
chicago: Frey, Felix F, and Ulrich S. Schwarz. “Coat Stiffening Can Explain Invagination
of Clathrin-Coated Membranes.” Physical Review E. American Physical Society,
2024. https://doi.org/10.1103/PhysRevE.110.064403.
ieee: F. F. Frey and U. S. Schwarz, “Coat stiffening can explain invagination of
clathrin-coated membranes,” Physical Review E, vol. 110, no. 6. American
Physical Society, 2024.
ista: Frey FF, Schwarz US. 2024. Coat stiffening can explain invagination of clathrin-coated
membranes. Physical Review E. 110(6), 064403.
mla: Frey, Felix F., and Ulrich S. Schwarz. “Coat Stiffening Can Explain Invagination
of Clathrin-Coated Membranes.” Physical Review E, vol. 110, no. 6, 064403,
American Physical Society, 2024, doi:10.1103/PhysRevE.110.064403.
short: F.F. Frey, U.S. Schwarz, Physical Review E 110 (2024).
date_created: 2024-12-22T23:01:48Z
date_published: 2024-12-10T00:00:00Z
date_updated: 2025-09-09T11:56:34Z
day: '10'
department:
- _id: AnSa
doi: 10.1103/PhysRevE.110.064403
external_id:
arxiv:
- '2405.02820'
isi:
- '001379135100004'
pmid:
- '39916158'
intvolume: ' 110'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2405.02820
month: '12'
oa: 1
oa_version: Preprint
pmid: 1
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Coat stiffening can explain invagination of clathrin-coated membranes
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 110
year: '2024'
...
---
_id: '15322'
abstract:
- lang: eng
text: The tendency of materials to order in triboelectric series has prompted suggestions
that contact electrification might have a single, unified underlying description.
However, the possibility of “triboelectric cycles,” i.e., series that loop back
onto themselves, is seemingly at odds with such a coherent description. In this
work, we propose that if multiple charge carrying species are at play, both triboelectric
series and cycles are possible. We show how series arise naturally if only a single
charge carrier species is involved and if the driving mechanism is approach toward
thermodynamic equilibrium, and simultaneously, that cycles are forbidden under
such conditions. Suspecting multiple carriers might relax the situation, we affirm
this is the case by explicit construction of a cycle involving two carriers, and
then extend this to show how more complex cycles emerge. Our work highlights the
importance of series and cycles towards determining the underlying mechanism(s)
and carrier(s) in contact electrification.
article_number: L032108
article_processing_charge: No
article_type: letter_note
author:
- first_name: Juan Carlos A
full_name: Sobarzo Ponce, Juan Carlos A
id: 4B807D68-AE37-11E9-AC72-31CAE5697425
last_name: Sobarzo Ponce
- first_name: Scott R
full_name: Waitukaitis, Scott R
id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
last_name: Waitukaitis
orcid: 0000-0002-2299-3176
citation:
ama: Sobarzo Ponce JCA, Waitukaitis SR. Multiple charge carrier species as a possible
cause for triboelectric cycles. Physical Review E. 2024;109(3). doi:10.1103/PhysRevE.109.L032108
apa: Sobarzo Ponce, J. C. A., & Waitukaitis, S. R. (2024). Multiple charge carrier
species as a possible cause for triboelectric cycles. Physical Review E.
American Physical Society. https://doi.org/10.1103/PhysRevE.109.L032108
chicago: Sobarzo Ponce, Juan Carlos A, and Scott R Waitukaitis. “Multiple Charge
Carrier Species as a Possible Cause for Triboelectric Cycles.” Physical Review
E. American Physical Society, 2024. https://doi.org/10.1103/PhysRevE.109.L032108.
ieee: J. C. A. Sobarzo Ponce and S. R. Waitukaitis, “Multiple charge carrier species
as a possible cause for triboelectric cycles,” Physical Review E, vol.
109, no. 3. American Physical Society, 2024.
ista: Sobarzo Ponce JCA, Waitukaitis SR. 2024. Multiple charge carrier species as
a possible cause for triboelectric cycles. Physical Review E. 109(3), L032108.
mla: Sobarzo Ponce, Juan Carlos A., and Scott R. Waitukaitis. “Multiple Charge Carrier
Species as a Possible Cause for Triboelectric Cycles.” Physical Review E,
vol. 109, no. 3, L032108, American Physical Society, 2024, doi:10.1103/PhysRevE.109.L032108.
short: J.C.A. Sobarzo Ponce, S.R. Waitukaitis, Physical Review E 109 (2024).
corr_author: '1'
date_created: 2024-04-14T22:01:03Z
date_published: 2024-03-29T00:00:00Z
date_updated: 2026-04-07T11:50:54Z
day: '29'
department:
- _id: ScWa
doi: 10.1103/PhysRevE.109.L032108
external_id:
isi:
- '001199745200004'
pmid:
- '38632754'
intvolume: ' 109'
isi: 1
issue: '3'
language:
- iso: eng
month: '03'
oa_version: None
pmid: 1
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
related_material:
record:
- id: '20203'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Multiple charge carrier species as a possible cause for triboelectric cycles
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 109
year: '2024'
...
---
_id: '12545'
abstract:
- lang: eng
text: We study active surface wetting using a minimal model of bacteria that takes
into account the intrinsic motility diversity of living matter. A mixture of “fast”
and “slow” self-propelled Brownian particles is considered in the presence of
a wall. The evolution of the wetting layer thickness shows an overshoot before
stationarity and its composition evolves in two stages, equilibrating after a
slow elimination of excess particles. Nonmonotonic evolutions are shown to arise
from delayed avalanches towards the dilute phase combined with the emergence of
a transient particle front.
acknowledgement: 'MR-V and RS are supported by Fondecyt Grant No. 1220536 and ANID
– Millennium Science Initiative Program – NCN19 170D, Chile. PdC is supported by
grant #2021/10139-2, Sao Paulo Research Foundation (FAPESP), Brazil.'
article_number: '014608'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Mauricio Nicolas
full_name: Rojas Vega, Mauricio Nicolas
id: 441e7207-f91f-11ec-b67c-9e6fe3d8fd6d
last_name: Rojas Vega
- first_name: Pablo
full_name: De Castro, Pablo
last_name: De Castro
- first_name: Rodrigo
full_name: Soto, Rodrigo
last_name: Soto
citation:
ama: Rojas Vega MN, De Castro P, Soto R. Wetting dynamics by mixtures of fast and
slow self-propelled particles. Physical Review E. 2023;107(1). doi:10.1103/PhysRevE.107.014608
apa: Rojas Vega, M. N., De Castro, P., & Soto, R. (2023). Wetting dynamics by
mixtures of fast and slow self-propelled particles. Physical Review E.
American Physical Society. https://doi.org/10.1103/PhysRevE.107.014608
chicago: Rojas Vega, Mauricio Nicolas, Pablo De Castro, and Rodrigo Soto. “Wetting
Dynamics by Mixtures of Fast and Slow Self-Propelled Particles.” Physical Review
E. American Physical Society, 2023. https://doi.org/10.1103/PhysRevE.107.014608.
ieee: M. N. Rojas Vega, P. De Castro, and R. Soto, “Wetting dynamics by mixtures
of fast and slow self-propelled particles,” Physical Review E, vol. 107,
no. 1. American Physical Society, 2023.
ista: Rojas Vega MN, De Castro P, Soto R. 2023. Wetting dynamics by mixtures of
fast and slow self-propelled particles. Physical Review E. 107(1), 014608.
mla: Rojas Vega, Mauricio Nicolas, et al. “Wetting Dynamics by Mixtures of Fast
and Slow Self-Propelled Particles.” Physical Review E, vol. 107, no. 1,
014608, American Physical Society, 2023, doi:10.1103/PhysRevE.107.014608.
short: M.N. Rojas Vega, P. De Castro, R. Soto, Physical Review E 107 (2023).
date_created: 2023-02-12T23:00:59Z
date_published: 2023-01-24T00:00:00Z
date_updated: 2025-03-06T14:01:47Z
day: '24'
department:
- _id: GradSch
doi: 10.1103/PhysRevE.107.014608
external_id:
arxiv:
- '2301.01856'
isi:
- '000963909800006'
pmid:
- '36797971'
intvolume: ' 107'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2301.01856
month: '01'
oa: 1
oa_version: Preprint
pmid: 1
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Wetting dynamics by mixtures of fast and slow self-propelled particles
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 107
year: '2023'
...
---
_id: '12789'
abstract:
- lang: eng
text: Experiments have shown that charge distributions of granular materials are
non-Gaussian, with broad tails that indicate many particles with high charge.
This observation has consequences for the behavior of granular materials in many
settings, and may bear relevance to the underlying charge transfer mechanism.
However, there is the unaddressed possibility that broad tails arise due to experimental
uncertainties, as determining the shapes of tails is nontrivial. Here we show
that measurement uncertainties can indeed account for most of the tail broadening
previously observed. The clue that reveals this is that distributions are sensitive
to the electric field at which they are measured; ones measured at low (high)
fields have larger (smaller) tails. Accounting for sources of uncertainty, we
reproduce this broadening in silico. Finally, we use our results to back out the
true charge distribution without broadening, which we find is still non-Guassian,
though with substantially different behavior at the tails and indicating significantly
fewer highly charged particles. These results have implications in many natural
settings where electrostatic interactions, especially among highly charged particles,
strongly affect granular behavior.
acknowledged_ssus:
- _id: M-Shop
acknowledgement: This research was supported by Grants QUIMAL 160001 and Fondecyt
1221597. This project has received funding from the European Research Council (ERC)
under the European Union's Horizon 2020 research and innovation programme (Grant
Agreement No. 949120). This research was supported by the Scientific Service Units
of The Institute of Science and Technology Austria (ISTA) through resources provided
by the Miba Machine Shop. We thank the machine shop technical assistance of Ricardo
Silva and Andrés Espinosa at Departamento de Física, Universidad de Chile.
article_number: '034901'
article_processing_charge: No
article_type: original
author:
- first_name: Nicolás
full_name: Mujica, Nicolás
last_name: Mujica
- first_name: Scott R
full_name: Waitukaitis, Scott R
id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
last_name: Waitukaitis
orcid: 0000-0002-2299-3176
citation:
ama: Mujica N, Waitukaitis SR. Accurate determination of the shapes of granular
charge distributions. Physical Review E. 2023;107(3). doi:10.1103/PhysRevE.107.034901
apa: Mujica, N., & Waitukaitis, S. R. (2023). Accurate determination of the
shapes of granular charge distributions. Physical Review E. American Physical
Society. https://doi.org/10.1103/PhysRevE.107.034901
chicago: Mujica, Nicolás, and Scott R Waitukaitis. “Accurate Determination of the
Shapes of Granular Charge Distributions.” Physical Review E. American Physical
Society, 2023. https://doi.org/10.1103/PhysRevE.107.034901.
ieee: N. Mujica and S. R. Waitukaitis, “Accurate determination of the shapes of
granular charge distributions,” Physical Review E, vol. 107, no. 3. American
Physical Society, 2023.
ista: Mujica N, Waitukaitis SR. 2023. Accurate determination of the shapes of granular
charge distributions. Physical Review E. 107(3), 034901.
mla: Mujica, Nicolás, and Scott R. Waitukaitis. “Accurate Determination of the Shapes
of Granular Charge Distributions.” Physical Review E, vol. 107, no. 3,
034901, American Physical Society, 2023, doi:10.1103/PhysRevE.107.034901.
short: N. Mujica, S.R. Waitukaitis, Physical Review E 107 (2023).
corr_author: '1'
date_created: 2023-04-02T22:01:10Z
date_published: 2023-03-01T00:00:00Z
date_updated: 2025-04-14T07:54:10Z
day: '01'
ddc:
- '530'
department:
- _id: ScWa
doi: 10.1103/PhysRevE.107.034901
ec_funded: 1
external_id:
isi:
- '000992142700001'
pmid:
- '37072968'
file:
- access_level: open_access
checksum: 48f5dfe4e5f1c46c3c86805cd8f84bea
content_type: application/pdf
creator: swaituka
date_created: 2023-11-27T09:51:48Z
date_updated: 2023-11-27T09:51:48Z
file_id: '14612'
file_name: PhysRevE.107.034901 (1).pdf
file_size: 1428631
relation: main_file
success: 1
file_date_updated: 2023-11-27T09:51:48Z
has_accepted_license: '1'
intvolume: ' 107'
isi: 1
issue: '3'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 0aa60e99-070f-11eb-9043-a6de6bdc3afa
call_identifier: H2020
grant_number: '949120'
name: 'Tribocharge: a multi-scale approach to an enduring problem in physics'
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Accurate determination of the shapes of granular charge distributions
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 107
year: '2023'
...
---
_id: '12890'
abstract:
- lang: eng
text: We introduce a stochastic cellular automaton as a model for culture and border
formation. The model can be conceptualized as a game where the expansion rate
of cultures is quantified in terms of their area and perimeter in such a way that
approximately geometrically round cultures get a competitive advantage. We first
analyze the model with periodic boundary conditions, where we study how the model
can end up in a fixed state, i.e., freezes. Then we implement the model on the
European geography with mountains and rivers. We see how the model reproduces
some qualitative features of European culture formation, namely, that rivers and
mountains are more frequently borders between cultures, mountainous regions tend
to have higher cultural diversity, and the central European plain has less clear
cultural borders.
acknowledgement: Thanks to Kim Sneppen, Svend Krøjer, Peter Wildemann, Peter Rasmussen
and Kent Bækgaard Lauritsen for discussions and suggestions. FRK acknowledges support
from the Villum Foundation for support through the QMATH center of Excellence (Grant
No. 10059) and the Villum Young Investigator (Grant No. 25452) programs.
article_number: '054307'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Frederik Ravn
full_name: Klausen, Frederik Ravn
last_name: Klausen
- first_name: Asbjørn Bækgaard
full_name: Lauritsen, Asbjørn Bækgaard
id: e1a2682f-dc8d-11ea-abe3-81da9ac728f1
last_name: Lauritsen
orcid: 0000-0003-4476-2288
citation:
ama: Klausen FR, Lauritsen AB. Stochastic cellular automaton model of culture formation.
Physical Review E. 2023;108(5). doi:10.1103/PhysRevE.108.054307
apa: Klausen, F. R., & Lauritsen, A. B. (2023). Stochastic cellular automaton
model of culture formation. Physical Review E. American Physical Society.
https://doi.org/10.1103/PhysRevE.108.054307
chicago: Klausen, Frederik Ravn, and Asbjørn Bækgaard Lauritsen. “Stochastic Cellular
Automaton Model of Culture Formation.” Physical Review E. American Physical
Society, 2023. https://doi.org/10.1103/PhysRevE.108.054307.
ieee: F. R. Klausen and A. B. Lauritsen, “Stochastic cellular automaton model of
culture formation,” Physical Review E, vol. 108, no. 5. American Physical
Society, 2023.
ista: Klausen FR, Lauritsen AB. 2023. Stochastic cellular automaton model of culture
formation. Physical Review E. 108(5), 054307.
mla: Klausen, Frederik Ravn, and Asbjørn Bækgaard Lauritsen. “Stochastic Cellular
Automaton Model of Culture Formation.” Physical Review E, vol. 108, no.
5, 054307, American Physical Society, 2023, doi:10.1103/PhysRevE.108.054307.
short: F.R. Klausen, A.B. Lauritsen, Physical Review E 108 (2023).
corr_author: '1'
date_created: 2023-05-04T08:35:01Z
date_published: 2023-11-08T00:00:00Z
date_updated: 2025-09-09T12:26:01Z
day: '08'
department:
- _id: GradSch
- _id: RoSe
doi: 10.1103/PhysRevE.108.054307
external_id:
arxiv:
- '2305.02153'
isi:
- '001106396300005'
pmid:
- '38115445'
intvolume: ' 108'
isi: 1
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2305.02153
month: '11'
oa: 1
oa_version: Preprint
pmid: 1
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/FrederikRavnKlausen/model-for-culture-formation
record:
- id: '12869'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Stochastic cellular automaton model of culture formation
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 108
year: '2023'
...
---
_id: '13231'
abstract:
- lang: eng
text: We study ab initio approaches for calculating x-ray Thomson scattering spectra
from density functional theory molecular dynamics simulations based on a modified
Chihara formula that expresses the inelastic contribution in terms of the dielectric
function. We study the electronic dynamic structure factor computed from the Mermin
dielectric function using an ab initio electron-ion collision frequency in comparison
to computations using a linear-response time-dependent density functional theory
(LR-TDDFT) framework for hydrogen and beryllium and investigate the dispersion
of free-free and bound-free contributions to the scattering signal. A separate
treatment of these contributions, where only the free-free part follows the Mermin
dispersion, shows good agreement with LR-TDDFT results for ambient-density beryllium,
but breaks down for highly compressed matter where the bound states become pressure
ionized. LR-TDDFT is used to reanalyze x-ray Thomson scattering experiments on
beryllium demonstrating strong deviations from the plasma conditions inferred
with traditional analytic models at small scattering angles.
acknowledgement: "We want to thank P. Sperling, B. Witte, M. French, G. Röpke, H.
J. Lee and A. Cangi for many helpful discussions. M. S. and R. R. acknowledge support
by the Deutsche Forschungsgemeinschaft (DFG) within the Research Unit FOR 2440.
All simulations and analyses were performed at the North-German Supercomputing Alliance
(HLRN) and the ITMZ of the University of Rostock. M. B. gratefully acknowledges
support by the European Horizon 2020 programme within the Marie Sklodowska-Curie
actions (xICE grant 894725) and the\r\nNOMIS foundation. The work of T. D. was performed
under the auspices of the U.S. Department of Energy by Lawrence Livermore National
Laboratory under Contract No. DE-AC52-07NA27344."
article_number: '065207'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Maximilian
full_name: Schörner, Maximilian
last_name: Schörner
- first_name: Mandy
full_name: Bethkenhagen, Mandy
id: 201939f4-803f-11ed-ab7e-d8da4bd1517f
last_name: Bethkenhagen
orcid: 0000-0002-1838-2129
- first_name: Tilo
full_name: Döppner, Tilo
last_name: Döppner
- first_name: Dominik
full_name: Kraus, Dominik
last_name: Kraus
- first_name: Luke B.
full_name: Fletcher, Luke B.
last_name: Fletcher
- first_name: Siegfried H.
full_name: Glenzer, Siegfried H.
last_name: Glenzer
- first_name: Ronald
full_name: Redmer, Ronald
last_name: Redmer
citation:
ama: Schörner M, Bethkenhagen M, Döppner T, et al. X-ray Thomson scattering spectra
from density functional theory molecular dynamics simulations based on a modified
Chihara formula. Physical Review E. 2023;107(6). doi:10.1103/PhysRevE.107.065207
apa: Schörner, M., Bethkenhagen, M., Döppner, T., Kraus, D., Fletcher, L. B., Glenzer,
S. H., & Redmer, R. (2023). X-ray Thomson scattering spectra from density
functional theory molecular dynamics simulations based on a modified Chihara formula.
Physical Review E. American Physical Society. https://doi.org/10.1103/PhysRevE.107.065207
chicago: Schörner, Maximilian, Mandy Bethkenhagen, Tilo Döppner, Dominik Kraus,
Luke B. Fletcher, Siegfried H. Glenzer, and Ronald Redmer. “X-Ray Thomson Scattering
Spectra from Density Functional Theory Molecular Dynamics Simulations Based on
a Modified Chihara Formula.” Physical Review E. American Physical Society,
2023. https://doi.org/10.1103/PhysRevE.107.065207.
ieee: M. Schörner et al., “X-ray Thomson scattering spectra from density
functional theory molecular dynamics simulations based on a modified Chihara formula,”
Physical Review E, vol. 107, no. 6. American Physical Society, 2023.
ista: Schörner M, Bethkenhagen M, Döppner T, Kraus D, Fletcher LB, Glenzer SH, Redmer
R. 2023. X-ray Thomson scattering spectra from density functional theory molecular
dynamics simulations based on a modified Chihara formula. Physical Review E. 107(6),
065207.
mla: Schörner, Maximilian, et al. “X-Ray Thomson Scattering Spectra from Density
Functional Theory Molecular Dynamics Simulations Based on a Modified Chihara Formula.”
Physical Review E, vol. 107, no. 6, 065207, American Physical Society,
2023, doi:10.1103/PhysRevE.107.065207.
short: M. Schörner, M. Bethkenhagen, T. Döppner, D. Kraus, L.B. Fletcher, S.H. Glenzer,
R. Redmer, Physical Review E 107 (2023).
date_created: 2023-07-16T22:01:10Z
date_published: 2023-06-14T00:00:00Z
date_updated: 2025-03-06T14:02:33Z
day: '14'
department:
- _id: BiCh
doi: 10.1103/PhysRevE.107.065207
external_id:
arxiv:
- '2301.01545'
isi:
- '001020265000002'
pmid:
- '37464593'
intvolume: ' 107'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2301.01545
month: '06'
oa: 1
oa_version: Preprint
pmid: 1
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: X-ray Thomson scattering spectra from density functional theory molecular dynamics
simulations based on a modified Chihara formula
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 107
year: '2023'
...
---
_id: '12257'
abstract:
- lang: eng
text: Structural balance theory is an established framework for studying social
relationships of friendship and enmity. These relationships are modeled by a signed
network whose energy potential measures the level of imbalance, while stochastic
dynamics drives the network toward a state of minimum energy that captures social
balance. It is known that this energy landscape has local minima that can trap
socially aware dynamics, preventing it from reaching balance. Here we first study
the robustness and attractor properties of these local minima. We show that a
stochastic process can reach them from an abundance of initial states and that
some local minima cannot be escaped by mild perturbations of the network. Motivated
by these anomalies, we introduce best-edge dynamics (BED), a new plausible stochastic
process. We prove that BED always reaches balance and that it does so fast in
various interesting settings.
acknowledgement: "K.C. acknowledges support from ERC Start Grant No. (279307: Graph
Games), ERC Consolidator Grant No. (863818: ForM-SMart), and Austrian Science Fund
(FWF)\r\nGrants No. P23499-N23 and No. S11407-N23 (RiSE). This project has received
funding from the European Union’s Horizon 2020 research and innovation programme
under the Marie\r\nSkłodowska-Curie Grant Agreement No. 665385."
article_number: '034321'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Jakub
full_name: Svoboda, Jakub
id: 130759D2-D7DD-11E9-87D2-DE0DE6697425
last_name: Svoboda
orcid: 0000-0002-1419-3267
- first_name: Dorde
full_name: Zikelic, Dorde
id: 294AA7A6-F248-11E8-B48F-1D18A9856A87
last_name: Zikelic
orcid: 0000-0002-4681-1699
- first_name: Andreas
full_name: Pavlogiannis, Andreas
id: 49704004-F248-11E8-B48F-1D18A9856A87
last_name: Pavlogiannis
orcid: 0000-0002-8943-0722
- first_name: Josef
full_name: Tkadlec, Josef
id: 3F24CCC8-F248-11E8-B48F-1D18A9856A87
last_name: Tkadlec
orcid: 0000-0002-1097-9684
citation:
ama: 'Chatterjee K, Svoboda J, Zikelic D, Pavlogiannis A, Tkadlec J. Social balance
on networks: Local minima and best-edge dynamics. Physical Review E. 2022;106(3).
doi:10.1103/physreve.106.034321'
apa: 'Chatterjee, K., Svoboda, J., Zikelic, D., Pavlogiannis, A., & Tkadlec,
J. (2022). Social balance on networks: Local minima and best-edge dynamics. Physical
Review E. American Physical Society. https://doi.org/10.1103/physreve.106.034321'
chicago: 'Chatterjee, Krishnendu, Jakub Svoboda, Dorde Zikelic, Andreas Pavlogiannis,
and Josef Tkadlec. “Social Balance on Networks: Local Minima and Best-Edge Dynamics.”
Physical Review E. American Physical Society, 2022. https://doi.org/10.1103/physreve.106.034321.'
ieee: 'K. Chatterjee, J. Svoboda, D. Zikelic, A. Pavlogiannis, and J. Tkadlec, “Social
balance on networks: Local minima and best-edge dynamics,” Physical Review
E, vol. 106, no. 3. American Physical Society, 2022.'
ista: 'Chatterjee K, Svoboda J, Zikelic D, Pavlogiannis A, Tkadlec J. 2022. Social
balance on networks: Local minima and best-edge dynamics. Physical Review E. 106(3),
034321.'
mla: 'Chatterjee, Krishnendu, et al. “Social Balance on Networks: Local Minima and
Best-Edge Dynamics.” Physical Review E, vol. 106, no. 3, 034321, American
Physical Society, 2022, doi:10.1103/physreve.106.034321.'
short: K. Chatterjee, J. Svoboda, D. Zikelic, A. Pavlogiannis, J. Tkadlec, Physical
Review E 106 (2022).
date_created: 2023-01-16T09:57:57Z
date_published: 2022-09-29T00:00:00Z
date_updated: 2026-04-07T11:49:11Z
day: '29'
department:
- _id: KrCh
doi: 10.1103/physreve.106.034321
ec_funded: 1
external_id:
arxiv:
- '2210.02394'
isi:
- '000870243100001'
intvolume: ' 106'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2210.02394
month: '09'
oa: 1
oa_version: Preprint
project:
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '863818'
name: 'Formal Methods for Stochastic Models: Algorithms 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: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
related_material:
record:
- id: '20138'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: 'Social balance on networks: Local minima and best-edge dynamics'
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 106
year: '2022'
...
---
_id: '10352'
abstract:
- lang: eng
text: In the nuclear pore complex, intrinsically disordered nuclear pore proteins
(FG Nups) form a selective barrier for transport into and out of the cell nucleus,
in a way that remains poorly understood. The collective FG Nup behavior has long
been conceptualized either as a polymer brush, dominated by entropic and excluded-volume
(repulsive) interactions, or as a hydrogel, dominated by cohesive (attractive)
interactions between FG Nups. Here we compare mesoscale computational simulations
with a wide range of experimental data to demonstrate that FG Nups are at the
crossover point between these two regimes. Specifically, we find that repulsive
and attractive interactions are balanced, resulting in morphologies and dynamics
that are close to those of ideal polymer chains. We demonstrate that this property
of FG Nups yields sufficient cohesion to seal the transport barrier, and yet maintains
fast dynamics at the molecular scale, permitting the rapid polymer rearrangements
needed for transport events.
acknowledgement: We thank Dino Osmanović (MIT), Roy Beck (Tel-Aviv), Larissa Kapinos
(Basel), Roderick Lim (Basel), Ralf Richter (Leeds), and Anton Zilman (Toronto)
for discussions. This work was funded by the Royal Society (A.Š.) and the UK Engineering
and Physical Sciences Research Council (EP/L504889/1, B.W.H.).
article_number: '022420'
article_processing_charge: No
article_type: original
author:
- first_name: Luke K.
full_name: Davis, Luke K.
last_name: Davis
- first_name: Ian J.
full_name: Ford, Ian J.
last_name: Ford
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
- first_name: Bart W.
full_name: Hoogenboom, Bart W.
last_name: Hoogenboom
citation:
ama: Davis LK, Ford IJ, Šarić A, Hoogenboom BW. Intrinsically disordered nuclear
pore proteins show ideal-polymer morphologies and dynamics. Physical Review
E. 2020;101(2). doi:10.1103/physreve.101.022420
apa: Davis, L. K., Ford, I. J., Šarić, A., & Hoogenboom, B. W. (2020). Intrinsically
disordered nuclear pore proteins show ideal-polymer morphologies and dynamics.
Physical Review E. American Physical Society. https://doi.org/10.1103/physreve.101.022420
chicago: Davis, Luke K., Ian J. Ford, Anđela Šarić, and Bart W. Hoogenboom. “Intrinsically
Disordered Nuclear Pore Proteins Show Ideal-Polymer Morphologies and Dynamics.”
Physical Review E. American Physical Society, 2020. https://doi.org/10.1103/physreve.101.022420.
ieee: L. K. Davis, I. J. Ford, A. Šarić, and B. W. Hoogenboom, “Intrinsically disordered
nuclear pore proteins show ideal-polymer morphologies and dynamics,” Physical
Review E, vol. 101, no. 2. American Physical Society, 2020.
ista: Davis LK, Ford IJ, Šarić A, Hoogenboom BW. 2020. Intrinsically disordered
nuclear pore proteins show ideal-polymer morphologies and dynamics. Physical Review
E. 101(2), 022420.
mla: Davis, Luke K., et al. “Intrinsically Disordered Nuclear Pore Proteins Show
Ideal-Polymer Morphologies and Dynamics.” Physical Review E, vol. 101,
no. 2, 022420, American Physical Society, 2020, doi:10.1103/physreve.101.022420.
short: L.K. Davis, I.J. Ford, A. Šarić, B.W. Hoogenboom, Physical Review E 101 (2020).
date_created: 2021-11-26T09:41:04Z
date_published: 2020-02-28T00:00:00Z
date_updated: 2021-11-26T11:21:16Z
day: '28'
doi: 10.1103/physreve.101.022420
extern: '1'
external_id:
pmid:
- '32168597'
intvolume: ' 101'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.biorxiv.org/content/10.1101/571687
month: '02'
oa: 1
oa_version: Preprint
pmid: 1
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Intrinsically disordered nuclear pore proteins show ideal-polymer morphologies
and dynamics
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 101
year: '2020'
...
---
_id: '6779'
abstract:
- lang: eng
text: "Recent studies suggest that unstable recurrent solutions of the Navier-Stokes
equation provide new insights\r\ninto dynamics of turbulent flows. In this study,
we compute an extensive network of dynamical connections\r\nbetween such solutions
in a weakly turbulent quasi-two-dimensional Kolmogorov flow that lies in the inversion
symmetric subspace. In particular, we find numerous isolated heteroclinic connections
between different\r\ntypes of solutions—equilibria, periodic, and quasiperiodic
orbits—as well as continua of connections forming\r\nhigher-dimensional connecting
manifolds. We also compute a homoclinic connection of a periodic orbit and\r\nprovide
strong evidence that the associated homoclinic tangle forms the chaotic repeller
that underpins transient\r\nturbulence in the symmetric subspace."
article_number: '013112'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Balachandra
full_name: Suri, Balachandra
id: 47A5E706-F248-11E8-B48F-1D18A9856A87
last_name: Suri
- first_name: Ravi Kumar
full_name: Pallantla, Ravi Kumar
last_name: Pallantla
- first_name: Michael F.
full_name: Schatz, Michael F.
last_name: Schatz
- first_name: Roman O.
full_name: Grigoriev, Roman O.
last_name: Grigoriev
citation:
ama: Suri B, Pallantla RK, Schatz MF, Grigoriev RO. Heteroclinic and homoclinic
connections in a Kolmogorov-like flow. Physical Review E. 2019;100(1).
doi:10.1103/physreve.100.013112
apa: Suri, B., Pallantla, R. K., Schatz, M. F., & Grigoriev, R. O. (2019). Heteroclinic
and homoclinic connections in a Kolmogorov-like flow. Physical Review E.
American Physical Society. https://doi.org/10.1103/physreve.100.013112
chicago: Suri, Balachandra, Ravi Kumar Pallantla, Michael F. Schatz, and Roman O.
Grigoriev. “Heteroclinic and Homoclinic Connections in a Kolmogorov-like Flow.”
Physical Review E. American Physical Society, 2019. https://doi.org/10.1103/physreve.100.013112.
ieee: B. Suri, R. K. Pallantla, M. F. Schatz, and R. O. Grigoriev, “Heteroclinic
and homoclinic connections in a Kolmogorov-like flow,” Physical Review E,
vol. 100, no. 1. American Physical Society, 2019.
ista: Suri B, Pallantla RK, Schatz MF, Grigoriev RO. 2019. Heteroclinic and homoclinic
connections in a Kolmogorov-like flow. Physical Review E. 100(1), 013112.
mla: Suri, Balachandra, et al. “Heteroclinic and Homoclinic Connections in a Kolmogorov-like
Flow.” Physical Review E, vol. 100, no. 1, 013112, American Physical Society,
2019, doi:10.1103/physreve.100.013112.
short: B. Suri, R.K. Pallantla, M.F. Schatz, R.O. Grigoriev, Physical Review E 100
(2019).
date_created: 2019-08-09T09:40:41Z
date_published: 2019-07-25T00:00:00Z
date_updated: 2025-04-15T06:50:28Z
day: '25'
ddc:
- '532'
department:
- _id: BjHo
doi: 10.1103/physreve.100.013112
ec_funded: 1
external_id:
arxiv:
- '1907.05860'
isi:
- '000477911800012'
intvolume: ' 100'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1907.05860
month: '07'
oa: 1
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Heteroclinic and homoclinic connections in a Kolmogorov-like flow
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 100
year: '2019'
...