---
_id: '12822'
abstract:
- lang: eng
text: Gears and cogwheels are elemental components of machines. They restrain degrees
of freedom and channel power into a specified motion. Building and powering small-scale
cogwheels are key steps toward feasible micro and nanomachinery. Assembly, energy
injection, and control are, however, a challenge at the microscale. In contrast
with passive gears, whose function is to transmit torques from one to another,
interlocking and untethered active gears have the potential to unveil dynamics
and functions untapped by externally driven mechanisms. Here, it is shown the
assembly and control of a family of self-spinning cogwheels with varying teeth
numbers and study the interlocking of multiple cogwheels. The teeth are formed
by colloidal microswimmers that power the structure. The cogwheels are autonomous
and active, showing persistent rotation. Leveraging the angular momentum of optical
vortices, we control the direction of rotation of the cogwheels. The pairs of
interlocking and active cogwheels that roll over each other in a random walk and
have curvature-dependent mobility are studied. This behavior is leveraged to self-position
parts and program microbots, demonstrating the ability to pick up, direct, and
release a load. The work constitutes a step toward autonomous machinery with external
control as well as (re)programmable microbots and matter.
acknowledgement: 'Army Research Office. Grant Number: W911NF-20-1-0112'
article_number: '2200129'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Quentin
full_name: Martinet, Quentin
id: b37485a8-d343-11eb-a0e9-df8c484ef8ab
last_name: Martinet
orcid: 0000-0002-2916-6632
- first_name: Antoine
full_name: Aubret, Antoine
last_name: Aubret
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
citation:
ama: Martinet Q, Aubret A, Palacci JA. Rotation control, interlocking, and self‐positioning
of active cogwheels. Advanced Intelligent Systems. 2023;5(1). doi:10.1002/aisy.202200129
apa: Martinet, Q., Aubret, A., & Palacci, J. A. (2023). Rotation control, interlocking,
and self‐positioning of active cogwheels. Advanced Intelligent Systems.
Wiley. https://doi.org/10.1002/aisy.202200129
chicago: Martinet, Quentin, Antoine Aubret, and Jérémie A Palacci. “Rotation Control,
Interlocking, and Self‐positioning of Active Cogwheels.” Advanced Intelligent
Systems. Wiley, 2023. https://doi.org/10.1002/aisy.202200129.
ieee: Q. Martinet, A. Aubret, and J. A. Palacci, “Rotation control, interlocking,
and self‐positioning of active cogwheels,” Advanced Intelligent Systems,
vol. 5, no. 1. Wiley, 2023.
ista: Martinet Q, Aubret A, Palacci JA. 2023. Rotation control, interlocking, and
self‐positioning of active cogwheels. Advanced Intelligent Systems. 5(1), 2200129.
mla: Martinet, Quentin, et al. “Rotation Control, Interlocking, and Self‐positioning
of Active Cogwheels.” Advanced Intelligent Systems, vol. 5, no. 1, 2200129,
Wiley, 2023, doi:10.1002/aisy.202200129.
short: Q. Martinet, A. Aubret, J.A. Palacci, Advanced Intelligent Systems 5 (2023).
corr_author: '1'
date_created: 2023-04-12T08:30:03Z
date_published: 2023-01-01T00:00:00Z
date_updated: 2024-10-09T21:04:56Z
day: '01'
ddc:
- '530'
department:
- _id: JePa
doi: 10.1002/aisy.202200129
external_id:
arxiv:
- '2201.03333'
isi:
- '000852291200001'
file:
- access_level: open_access
checksum: d48fc41d39892e7fa0d44cb352dd46aa
content_type: application/pdf
creator: dernst
date_created: 2023-04-17T06:44:17Z
date_updated: 2023-04-17T06:44:17Z
file_id: '12840'
file_name: 2023_AdvancedIntelligentSystems_Martinet.pdf
file_size: 2414125
relation: main_file
success: 1
file_date_updated: 2023-04-17T06:44:17Z
has_accepted_license: '1'
intvolume: ' 5'
isi: 1
issue: '1'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '01'
oa: 1
oa_version: Published Version
publication: Advanced Intelligent Systems
publication_identifier:
issn:
- 2640-4567
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Rotation control, interlocking, and self‐positioning of active cogwheels
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 5
year: '2023'
...
---
_id: '12829'
abstract:
- lang: eng
text: The deployment of direct formate fuel cells (DFFCs) relies on the development
of active and stable catalysts for the formate oxidation reaction (FOR). Palladium,
providing effective full oxidation of formate to CO2, has been widely used as
FOR catalyst, but it suffers from low stability, moderate activity, and high cost.
Herein, we detail a colloidal synthesis route for the incorporation of P on Pd2Sn
nanoparticles. These nanoparticles are dispersed on carbon black and the obtained
composite is used as electrocatalytic material for the FOR. The Pd2Sn0.8P-based
electrodes present outstanding catalytic activities with record mass current densities
up to 10.0 A mgPd-1, well above those of Pd1.6Sn/C reference electrode. These
high current densities are further enhanced by increasing the temperature from
25 °C to 40 °C. The Pd2Sn0.8P electrode also allows for slowing down the rapid
current decay that generally happens during operation and can be rapidly re-activated
through potential cycling. The excellent catalytic performance obtained is rationalized
using density functional theory (DFT) calculations.
acknowledgement: 'This work was carried out within the framework of the project Combenergy,
PID2019-105490RB-C32, financed by the Spanish MCIN/AEI/10.13039/501100011033. ICN2
is supported by the Severo Ochoa program from Spanish MCIN / AEI (Grant No.: CEX2021-001214-S).
IREC and ICN2 are funded by the CERCA Programme from the Generalitat de Catalunya.
Part of the present work has been performed in the frameworks of the Universitat
de Barcelona Nanoscience PhD program. ICN2 acknowledges funding from Generalitat
de Catalunya 2021SGR00457. This study was supported by MCIN with funding from European
Union NextGenerationEU (PRTR-C17.I1) and Generalitat de Catalunya. The authors thank
the support from the project NANOGEN (PID2020-116093RB-C43), funded by MCIN/ AEI/10.13039/501100011033/
and by “ERDF A way of making Europe”, by the European Union. The project on which
these results are based has received funding from the European Union''s Horizon
2020 research and innovation programme under Marie Skłodowska-Curie grant agreement
No. 801342 (Tecniospring INDUSTRY) and the Government of Catalonia''s Agency for
Business Competitiveness (ACCIÓ). J. Li is grateful for the project supported by
the Natural Science Foundation of Sichuan (2022NSFSC1229). M.I. acknowledges funding
by ISTA and the Werner Siemens Foundation.'
article_number: '117369'
article_processing_charge: No
article_type: original
author:
- first_name: Guillem
full_name: Montaña-Mora, Guillem
last_name: Montaña-Mora
- first_name: Xueqiang
full_name: Qi, Xueqiang
last_name: Qi
- first_name: Xiang
full_name: Wang, Xiang
last_name: Wang
- first_name: Jesus
full_name: Chacón-Borrero, Jesus
last_name: Chacón-Borrero
- first_name: Paulina R.
full_name: Martinez-Alanis, Paulina R.
last_name: Martinez-Alanis
- first_name: Xiaoting
full_name: Yu, Xiaoting
last_name: Yu
- first_name: Junshan
full_name: Li, Junshan
last_name: Li
- first_name: Qian
full_name: Xue, Qian
last_name: Xue
- first_name: Jordi
full_name: Arbiol, Jordi
last_name: Arbiol
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
- first_name: Andreu
full_name: Cabot, Andreu
last_name: Cabot
citation:
ama: Montaña-Mora G, Qi X, Wang X, et al. Phosphorous incorporation into palladium
tin nanoparticles for the electrocatalytic formate oxidation reaction. Journal
of Electroanalytical Chemistry. 2023;936. doi:10.1016/j.jelechem.2023.117369
apa: Montaña-Mora, G., Qi, X., Wang, X., Chacón-Borrero, J., Martinez-Alanis, P.
R., Yu, X., … Cabot, A. (2023). Phosphorous incorporation into palladium tin nanoparticles
for the electrocatalytic formate oxidation reaction. Journal of Electroanalytical
Chemistry. Elsevier. https://doi.org/10.1016/j.jelechem.2023.117369
chicago: Montaña-Mora, Guillem, Xueqiang Qi, Xiang Wang, Jesus Chacón-Borrero, Paulina
R. Martinez-Alanis, Xiaoting Yu, Junshan Li, et al. “Phosphorous Incorporation
into Palladium Tin Nanoparticles for the Electrocatalytic Formate Oxidation Reaction.”
Journal of Electroanalytical Chemistry. Elsevier, 2023. https://doi.org/10.1016/j.jelechem.2023.117369.
ieee: G. Montaña-Mora et al., “Phosphorous incorporation into palladium tin
nanoparticles for the electrocatalytic formate oxidation reaction,” Journal
of Electroanalytical Chemistry, vol. 936. Elsevier, 2023.
ista: Montaña-Mora G, Qi X, Wang X, Chacón-Borrero J, Martinez-Alanis PR, Yu X,
Li J, Xue Q, Arbiol J, Ibáñez M, Cabot A. 2023. Phosphorous incorporation into
palladium tin nanoparticles for the electrocatalytic formate oxidation reaction.
Journal of Electroanalytical Chemistry. 936, 117369.
mla: Montaña-Mora, Guillem, et al. “Phosphorous Incorporation into Palladium Tin
Nanoparticles for the Electrocatalytic Formate Oxidation Reaction.” Journal
of Electroanalytical Chemistry, vol. 936, 117369, Elsevier, 2023, doi:10.1016/j.jelechem.2023.117369.
short: G. Montaña-Mora, X. Qi, X. Wang, J. Chacón-Borrero, P.R. Martinez-Alanis,
X. Yu, J. Li, Q. Xue, J. Arbiol, M. Ibáñez, A. Cabot, Journal of Electroanalytical
Chemistry 936 (2023).
corr_author: '1'
date_created: 2023-04-16T22:01:06Z
date_published: 2023-05-01T00:00:00Z
date_updated: 2025-04-15T06:36:40Z
day: '01'
department:
- _id: MaIb
doi: 10.1016/j.jelechem.2023.117369
external_id:
isi:
- '000967060900001'
intvolume: ' 936'
isi: 1
language:
- iso: eng
month: '05'
oa_version: None
project:
- _id: 9B8F7476-BA93-11EA-9121-9846C619BF3A
name: 'HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of
Semiconductors for Waste Heat Recovery'
publication: Journal of Electroanalytical Chemistry
publication_identifier:
issn:
- 1572-6657
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Phosphorous incorporation into palladium tin nanoparticles for the electrocatalytic
formate oxidation reaction
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 936
year: '2023'
...
---
_id: '12830'
abstract:
- lang: eng
text: Interstitial fluid (IF) accumulation between embryonic cells is thought to
be important for embryo patterning and morphogenesis. Here, we identify a positive
mechanical feedback loop between cell migration and IF relocalization and find
that it promotes embryonic axis formation during zebrafish gastrulation. We show
that anterior axial mesendoderm (prechordal plate [ppl]) cells, moving in between
the yolk cell and deep cell tissue to extend the embryonic axis, compress the
overlying deep cell layer, thereby causing IF to flow from the deep cell layer
to the boundary between the yolk cell and the deep cell layer, directly ahead
of the advancing ppl. This IF relocalization, in turn, facilitates ppl cell protrusion
formation and migration by opening up the space into which the ppl moves and,
thereby, the ability of the ppl to trigger IF relocalization by pushing against
the overlying deep cell layer. Thus, embryonic axis formation relies on a hydraulic
feedback loop between cell migration and IF relocalization.
acknowledged_ssus:
- _id: PreCl
- _id: Bio
acknowledgement: We thank Andrea Pauli (IMP) and Edouard Hannezo (ISTA) for fruitful
discussions and support with the SPIM experiments; the Heisenberg group, and especially
Feyza Nur Arslan and Alexandra Schauer, for discussions and feedback; Michaela Jović
(ISTA) for help with the quantitative real-time PCR protocol; the bioimaging and
zebrafish facilities of ISTA for continuous support; Stephan Preibisch (Janelia
Research Campus) for support with the SPIM data analysis; and Nobuhiro Nakamura
(Tokyo Institute of Technology) for sharing α1-Na+/K+-ATPase antibody. This work
was supported by funding from the European Union (European Research Council Advanced
grant 742573 to C.-P.H.), postdoctoral fellowships from EMBO (LTF-850-2017) and
HFSP (LT000429/2018-L2) to D.P., and a PhD fellowship from the Studienstiftung des
deutschen Volkes to F.P.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Karla
full_name: Huljev, Karla
id: 44C6F6A6-F248-11E8-B48F-1D18A9856A87
last_name: Huljev
- first_name: Shayan
full_name: Shamipour, Shayan
id: 40B34FE2-F248-11E8-B48F-1D18A9856A87
last_name: Shamipour
- first_name: Diana C
full_name: Nunes Pinheiro, Diana C
id: 2E839F16-F248-11E8-B48F-1D18A9856A87
last_name: Nunes Pinheiro
orcid: 0000-0003-4333-7503
- first_name: Friedrich
full_name: Preusser, Friedrich
last_name: Preusser
- first_name: Irene
full_name: Steccari, Irene
id: 2705C766-9FE2-11EA-B224-C6773DDC885E
last_name: Steccari
- first_name: Christoph M
full_name: Sommer, Christoph M
id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87
last_name: Sommer
orcid: 0000-0003-1216-9105
- first_name: Suyash
full_name: Naik, Suyash
id: 2C0B105C-F248-11E8-B48F-1D18A9856A87
last_name: Naik
orcid: 0000-0001-8421-5508
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Huljev K, Shamipour S, Nunes Pinheiro DC, et al. A hydraulic feedback loop
between mesendoderm cell migration and interstitial fluid relocalization promotes
embryonic axis formation in zebrafish. Developmental Cell. 2023;58(7):582-596.e7.
doi:10.1016/j.devcel.2023.02.016
apa: Huljev, K., Shamipour, S., Nunes Pinheiro, D. C., Preusser, F., Steccari, I.,
Sommer, C. M., … Heisenberg, C.-P. J. (2023). A hydraulic feedback loop between
mesendoderm cell migration and interstitial fluid relocalization promotes embryonic
axis formation in zebrafish. Developmental Cell. Elsevier. https://doi.org/10.1016/j.devcel.2023.02.016
chicago: Huljev, Karla, Shayan Shamipour, Diana C Nunes Pinheiro, Friedrich Preusser,
Irene Steccari, Christoph M Sommer, Suyash Naik, and Carl-Philipp J Heisenberg.
“A Hydraulic Feedback Loop between Mesendoderm Cell Migration and Interstitial
Fluid Relocalization Promotes Embryonic Axis Formation in Zebrafish.” Developmental
Cell. Elsevier, 2023. https://doi.org/10.1016/j.devcel.2023.02.016.
ieee: K. Huljev et al., “A hydraulic feedback loop between mesendoderm cell
migration and interstitial fluid relocalization promotes embryonic axis formation
in zebrafish,” Developmental Cell, vol. 58, no. 7. Elsevier, p. 582–596.e7,
2023.
ista: Huljev K, Shamipour S, Nunes Pinheiro DC, Preusser F, Steccari I, Sommer CM,
Naik S, Heisenberg C-PJ. 2023. A hydraulic feedback loop between mesendoderm cell
migration and interstitial fluid relocalization promotes embryonic axis formation
in zebrafish. Developmental Cell. 58(7), 582–596.e7.
mla: Huljev, Karla, et al. “A Hydraulic Feedback Loop between Mesendoderm Cell Migration
and Interstitial Fluid Relocalization Promotes Embryonic Axis Formation in Zebrafish.”
Developmental Cell, vol. 58, no. 7, Elsevier, 2023, p. 582–596.e7, doi:10.1016/j.devcel.2023.02.016.
short: K. Huljev, S. Shamipour, D.C. Nunes Pinheiro, F. Preusser, I. Steccari, C.M.
Sommer, S. Naik, C.-P.J. Heisenberg, Developmental Cell 58 (2023) 582–596.e7.
corr_author: '1'
date_created: 2023-04-16T22:01:07Z
date_published: 2023-04-10T00:00:00Z
date_updated: 2025-04-23T08:51:34Z
day: '10'
ddc:
- '570'
department:
- _id: CaHe
- _id: Bio
doi: 10.1016/j.devcel.2023.02.016
ec_funded: 1
external_id:
isi:
- '000982111800001'
pmid:
- '36931269'
file:
- access_level: open_access
checksum: c80ca2ebc241232aacdb5aa4b4c80957
content_type: application/pdf
creator: dernst
date_created: 2023-04-17T07:41:25Z
date_updated: 2023-04-17T07:41:25Z
file_id: '12842'
file_name: 2023_DevelopmentalCell_Huljev.pdf
file_size: 7925886
relation: main_file
success: 1
file_date_updated: 2023-04-17T07:41:25Z
has_accepted_license: '1'
intvolume: ' 58'
isi: 1
issue: '7'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 582-596.e7
pmid: 1
project:
- _id: 260F1432-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742573'
name: Interaction and feedback between cell mechanics and fate specification in
vertebrate gastrulation
- _id: 26520D1E-B435-11E9-9278-68D0E5697425
grant_number: ALTF 850-2017
name: Coordination of mesendoderm cell fate specification and internalization during
zebrafish gastrulation
- _id: 266BC5CE-B435-11E9-9278-68D0E5697425
grant_number: LT000429
name: Coordination of mesendoderm fate specification and internalization during
zebrafish gastrulation
publication: Developmental Cell
publication_identifier:
eissn:
- 1878-1551
issn:
- 1534-5807
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: A hydraulic feedback loop between mesendoderm cell migration and interstitial
fluid relocalization promotes embryonic axis formation in zebrafish
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: 58
year: '2023'
...
---
_id: '12831'
abstract:
- lang: eng
text: The angulon, a quasiparticle formed by a quantum rotor dressed by the excitations
of a many-body bath, can be used to describe an impurity rotating in a fluid or
solid environment. Here, we propose a coherent state ansatz in the co-rotating
frame, which provides a comprehensive theoretical description of angulons. We
reveal the quasiparticle properties, such as energies, quasiparticle weights,
and spectral functions, and show that our ansatz yields a persistent decrease
in the impurity’s rotational constant due to many-body dressing, which is consistent
with experimental observations. From our study, a picture of the angulon emerges
as an effective spin interacting with a magnetic field that is self-consistently
generated by the molecule’s rotation. Moreover, we discuss rotational spectroscopy,
which focuses on the response of rotating molecules to a laser perturbation in
the linear response regime. Importantly, we take into account initial-state interactions
that have been neglected in prior studies and reveal their impact on the excitation
spectrum. To examine the angulon instability regime, we use a single-excitation
ansatz and obtain results consistent with experiments, in which a broadening of
spectral lines is observed while phonon wings remain highly suppressed due to
initial-state interactions.
acknowledgement: We thank Ignacio Cirac, Christian Schmauder, and Henrik Stapelfeldt
for their valuable discussions. We acknowledge support by the Max Planck Society
and the Deutsche Forschungsgemeinschaft under Germany’s Excellence Strategy EXC
2181/1—390900948 (the Heidelberg STRUCTURES Excellence Cluster). M.L. acknowledges
support from the European Research Council (ERC) Starting Grant No. 801770 (ANGULON).
T.S. is supported by the National Key Research and Development Program of China
(Grant No. 2017YFA0718304) and the National Natural Science Foundation of China
(Grant Nos. 11974363, 12135018, and 12047503).
article_number: '134301'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Zhongda
full_name: Zeng, Zhongda
last_name: Zeng
- 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
- first_name: Tao
full_name: Shi, Tao
last_name: Shi
- first_name: Richard
full_name: Schmidt, Richard
last_name: Schmidt
citation:
ama: Zeng Z, Yakaboylu E, Lemeshko M, Shi T, Schmidt R. Variational theory of angulons
and their rotational spectroscopy. The Journal of Chemical Physics. 2023;158(13).
doi:10.1063/5.0135893
apa: Zeng, Z., Yakaboylu, E., Lemeshko, M., Shi, T., & Schmidt, R. (2023). Variational
theory of angulons and their rotational spectroscopy. The Journal of Chemical
Physics. American Institute of Physics. https://doi.org/10.1063/5.0135893
chicago: Zeng, Zhongda, Enderalp Yakaboylu, Mikhail Lemeshko, Tao Shi, and Richard
Schmidt. “Variational Theory of Angulons and Their Rotational Spectroscopy.” The
Journal of Chemical Physics. American Institute of Physics, 2023. https://doi.org/10.1063/5.0135893.
ieee: Z. Zeng, E. Yakaboylu, M. Lemeshko, T. Shi, and R. Schmidt, “Variational theory
of angulons and their rotational spectroscopy,” The Journal of Chemical Physics,
vol. 158, no. 13. American Institute of Physics, 2023.
ista: Zeng Z, Yakaboylu E, Lemeshko M, Shi T, Schmidt R. 2023. Variational theory
of angulons and their rotational spectroscopy. The Journal of Chemical Physics.
158(13), 134301.
mla: Zeng, Zhongda, et al. “Variational Theory of Angulons and Their Rotational
Spectroscopy.” The Journal of Chemical Physics, vol. 158, no. 13, 134301,
American Institute of Physics, 2023, doi:10.1063/5.0135893.
short: Z. Zeng, E. Yakaboylu, M. Lemeshko, T. Shi, R. Schmidt, The Journal of Chemical
Physics 158 (2023).
date_created: 2023-04-16T22:01:07Z
date_published: 2023-04-07T00:00:00Z
date_updated: 2025-04-23T08:55:25Z
day: '07'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.1063/5.0135893
ec_funded: 1
external_id:
arxiv:
- '2211.08070'
isi:
- '000970038800001'
pmid:
- '37031113'
file:
- access_level: open_access
checksum: 8d801babea4df48e08895c76571bb19e
content_type: application/pdf
creator: dernst
date_created: 2023-04-17T07:28:38Z
date_updated: 2023-04-17T07:28:38Z
file_id: '12841'
file_name: 2023_JourChemicalPhysics_Zeng.pdf
file_size: 7388057
relation: main_file
success: 1
file_date_updated: 2023-04-17T07:28:38Z
has_accepted_license: '1'
intvolume: ' 158'
isi: 1
issue: '13'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 2688CF98-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '801770'
name: 'Angulon: physics and applications of a new quasiparticle'
publication: The Journal of Chemical Physics
publication_identifier:
eissn:
- 1089-7690
publication_status: published
publisher: American Institute of Physics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Variational theory of angulons and their rotational spectroscopy
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: 158
year: '2023'
...
---
OA_place: repository
OA_type: green
_id: '12832'
abstract:
- lang: eng
text: The development of cost-effective, high-activity and stable bifunctional catalysts
for the oxygen reduction and evolution reactions (ORR/OER) is essential for zinc–air
batteries (ZABs) to reach the market. Such catalysts must contain multiple adsorption/reaction
sites to cope with the high demands of reversible oxygen electrodes. Herein, we
propose a high entropy alloy (HEA) based on relatively abundant elements as a
bifunctional ORR/OER catalyst. More specifically, we detail the synthesis of a
CrMnFeCoNi HEA through a low-temperature solution-based approach. Such HEA displays
superior OER performance with an overpotential of 265 mV at a current density
of 10 mA/cm2, and a 37.9 mV/dec Tafel slope, well above the properties of a standard
commercial catalyst based on RuO2. This high performance is partially explained
by the presence of twinned defects, the incidence of large lattice distortions,
and the electronic synergy between the different components, being Cr key to decreasing
the energy barrier of the OER rate-determining step. CrMnFeCoNi also displays
superior ORR performance with a half-potential of 0.78 V and an onset potential
of 0.88 V, comparable with commercial Pt/C. The potential gap (Egap) between the
OER overpotential and the ORR half-potential of CrMnFeCoNi is just 0.734 V. Taking
advantage of these outstanding properties, ZABs are assembled using the CrMnFeCoNi
HEA as air cathode and a zinc foil as the anode. The assembled cells provide an
open-circuit voltage of 1.489 V, i.e. 90% of its theoretical limit (1.66 V), a
peak power density of 116.5 mW/cm2, and a specific capacity of 836 mAh/g that
stays stable for more than 10 days of continuous cycling, i.e. 720 cycles @ 8
mA/cm2 and 16.6 days of continuous cycling, i.e. 1200 cycles @ 5 mA/cm2.
acknowledged_ssus:
- _id: EM-Fac
acknowledgement: 'The authors thank the support from the project COMBENERGY, PID2019-105490RB-C32,
from the Spanish Ministerio de Ciencia e Innovación. The authors acknowledge funding
from Generalitat de Catalunya 2021 SGR 01581 and 2021 SGR 00457. ICN2 acknowledges
the Severo Ochoa program from Spanish MINECO (Grant No. SEV-2017-0706). IREC and
ICN2 are funded by the CERCA Programme from the Generalitat de Catalunya. ICN2 is
supported by the Severo Ochoa program from Spanish MCIN / AEI (Grant No.: CEX2021-001214-S).
ICN2 acknowledges funding from Generalitat de Catalunya 2017 SGR 327. This study
was supported by MCIN with funding from European Union NextGenerationEU (PRTR-C17.I1)
and Generalitat de Catalunya. The authors thank the support from the project NANOGEN
(PID2020-116093RB-C43), funded by MCIN/ AEI/10.13039/501100011033/ and by “ERDF
A way of making Europe”, by the “European Union”. Part of the present work has been
performed in the frameworks of Universitat de Barcelona Nanoscience PhD program.
This research was supported by the Scientific Service Units (SSU) of IST Austria
through resources provided by Electron Microscopy Facility (EMF). S. Lee. and M.
Ibáñez acknowledge funding by IST Austria and the Werner Siemens Foundation. J.
Llorca is a Serra Húnter Fellow and is grateful to ICREA Academia program and projects
MICINN/FEDER PID2021-124572OB-C31 and GC 2017 SGR 128. L. L.Yang thanks the China
Scholarship Council (CSC) for the scholarship support (202008130132). Z. F. Liang
acknowledges funding from MINECO SO-FPT PhD grant (SEV-2013-0295-17-1). J. W. Chen
and Y. Xu thank the support from The Key Research and Development Program of Hebei
Province (No. 20314305D) and the cooperative scientific research project of the
“Chunhui Program” of the Ministry of Education (2018-7). This work was supported
by the Natural Science Foundation of Sichuan province (NSFSC) and funded by the
Science and Technology Department of Sichuan Province (2022NSFSC1229).'
article_processing_charge: No
article_type: original
author:
- first_name: Ren
full_name: He, Ren
last_name: He
- first_name: Linlin
full_name: Yang, Linlin
last_name: Yang
- first_name: Yu
full_name: Zhang, Yu
last_name: Zhang
- first_name: Xiang
full_name: Wang, Xiang
last_name: Wang
- first_name: Seungho
full_name: Lee, Seungho
id: BB243B88-D767-11E9-B658-BC13E6697425
last_name: Lee
orcid: 0000-0002-6962-8598
- first_name: Ting
full_name: Zhang, Ting
last_name: Zhang
- first_name: Lingxiao
full_name: Li, Lingxiao
last_name: Li
- first_name: Zhifu
full_name: Liang, Zhifu
last_name: Liang
- first_name: Jingwei
full_name: Chen, Jingwei
last_name: Chen
- first_name: Junshan
full_name: Li, Junshan
last_name: Li
- first_name: Ahmad
full_name: Ostovari Moghaddam, Ahmad
last_name: Ostovari Moghaddam
- first_name: Jordi
full_name: Llorca, Jordi
last_name: Llorca
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
- first_name: Jordi
full_name: Arbiol, Jordi
last_name: Arbiol
- first_name: Ying
full_name: Xu, Ying
last_name: Xu
- first_name: Andreu
full_name: Cabot, Andreu
last_name: Cabot
citation:
ama: He R, Yang L, Zhang Y, et al. A CrMnFeCoNi high entropy alloy boosting oxygen
evolution/reduction reactions and zinc-air battery performance. Energy Storage
Materials. 2023;58(4):287-298. doi:10.1016/j.ensm.2023.03.022
apa: He, R., Yang, L., Zhang, Y., Wang, X., Lee, S., Zhang, T., … Cabot, A. (2023).
A CrMnFeCoNi high entropy alloy boosting oxygen evolution/reduction reactions
and zinc-air battery performance. Energy Storage Materials. Elsevier. https://doi.org/10.1016/j.ensm.2023.03.022
chicago: He, Ren, Linlin Yang, Yu Zhang, Xiang Wang, Seungho Lee, Ting Zhang, Lingxiao
Li, et al. “A CrMnFeCoNi High Entropy Alloy Boosting Oxygen Evolution/Reduction
Reactions and Zinc-Air Battery Performance.” Energy Storage Materials.
Elsevier, 2023. https://doi.org/10.1016/j.ensm.2023.03.022.
ieee: R. He et al., “A CrMnFeCoNi high entropy alloy boosting oxygen evolution/reduction
reactions and zinc-air battery performance,” Energy Storage Materials,
vol. 58, no. 4. Elsevier, pp. 287–298, 2023.
ista: He R, Yang L, Zhang Y, Wang X, Lee S, Zhang T, Li L, Liang Z, Chen J, Li J,
Ostovari Moghaddam A, Llorca J, Ibáñez M, Arbiol J, Xu Y, Cabot A. 2023. A CrMnFeCoNi
high entropy alloy boosting oxygen evolution/reduction reactions and zinc-air
battery performance. Energy Storage Materials. 58(4), 287–298.
mla: He, Ren, et al. “A CrMnFeCoNi High Entropy Alloy Boosting Oxygen Evolution/Reduction
Reactions and Zinc-Air Battery Performance.” Energy Storage Materials,
vol. 58, no. 4, Elsevier, 2023, pp. 287–98, doi:10.1016/j.ensm.2023.03.022.
short: R. He, L. Yang, Y. Zhang, X. Wang, S. Lee, T. Zhang, L. Li, Z. Liang, J.
Chen, J. Li, A. Ostovari Moghaddam, J. Llorca, M. Ibáñez, J. Arbiol, Y. Xu, A.
Cabot, Energy Storage Materials 58 (2023) 287–298.
date_created: 2023-04-16T22:01:07Z
date_published: 2023-04-01T00:00:00Z
date_updated: 2025-06-25T06:12:51Z
day: '01'
department:
- _id: MaIb
doi: 10.1016/j.ensm.2023.03.022
external_id:
isi:
- '000967601700001'
intvolume: ' 58'
isi: 1
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://hdl.handle.net/2117/389931
month: '04'
oa: 1
oa_version: Submitted Version
page: 287-298
project:
- _id: 9B8F7476-BA93-11EA-9121-9846C619BF3A
name: 'HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of
Semiconductors for Waste Heat Recovery'
publication: Energy Storage Materials
publication_identifier:
eissn:
- 2405-8297
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: A CrMnFeCoNi high entropy alloy boosting oxygen evolution/reduction reactions
and zinc-air battery performance
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 58
year: '2023'
...
---
_id: '12833'
abstract:
- lang: eng
text: 'The input to the token swapping problem is a graph with vertices v1, v2,
. . . , vn, and n tokens with labels 1,2, . . . , n, one on each vertex. The goal
is to get token i to vertex vi for all i= 1, . . . , n using a minimum number
of swaps, where a swap exchanges the tokens on the endpoints of an edge.Token
swapping on a tree, also known as “sorting with a transposition tree,” is not
known to be in P nor NP-complete. We present some partial results: 1. An optimum
swap sequence may need to perform a swap on a leaf vertex that has the correct
token (a “happy leaf”), disproving a conjecture of Vaughan. 2. Any algorithm that
fixes happy leaves—as all known approximation algorithms for the problem do—has
approximation factor at least 4/3. Furthermore, the two best-known 2-approximation
algorithms have approximation factor exactly 2. 3. A generalized problem—weighted
coloured token swapping—is NP-complete on trees, but solvable in polynomial time
on paths and stars. In this version, tokens and vertices have colours, and colours
have weights. The goal is to get every token to a vertex of the same colour, and
the cost of a swap is the sum of the weights of the two tokens involved.'
acknowledgement: "This work was begun at the University of Waterloo and was partially
supported by the Natural Sciences and Engineering Council of Canada (NSERC).\r\n"
article_number: '9'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Ahmad
full_name: Biniaz, Ahmad
last_name: Biniaz
- first_name: Kshitij
full_name: Jain, Kshitij
last_name: Jain
- 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: Tillmann
full_name: Miltzow, Tillmann
last_name: Miltzow
- first_name: Debajyoti
full_name: Mondal, Debajyoti
last_name: Mondal
- first_name: Anurag Murty
full_name: Naredla, Anurag Murty
last_name: Naredla
- first_name: Josef
full_name: Tkadlec, Josef
id: 3F24CCC8-F248-11E8-B48F-1D18A9856A87
last_name: Tkadlec
orcid: 0000-0002-1097-9684
- first_name: Alexi
full_name: Turcotte, Alexi
last_name: Turcotte
citation:
ama: Biniaz A, Jain K, Lubiw A, et al. Token swapping on trees. Discrete Mathematics
and Theoretical Computer Science. 2023;24(2). doi:10.46298/DMTCS.8383
apa: Biniaz, A., Jain, K., Lubiw, A., Masárová, Z., Miltzow, T., Mondal, D., … Turcotte,
A. (2023). Token swapping on trees. Discrete Mathematics and Theoretical Computer
Science. EPI Sciences. https://doi.org/10.46298/DMTCS.8383
chicago: Biniaz, Ahmad, Kshitij Jain, Anna Lubiw, Zuzana Masárová, Tillmann Miltzow,
Debajyoti Mondal, Anurag Murty Naredla, Josef Tkadlec, and Alexi Turcotte. “Token
Swapping on Trees.” Discrete Mathematics and Theoretical Computer Science.
EPI Sciences, 2023. https://doi.org/10.46298/DMTCS.8383.
ieee: A. Biniaz et al., “Token swapping on trees,” Discrete Mathematics
and Theoretical Computer Science, vol. 24, no. 2. EPI Sciences, 2023.
ista: Biniaz A, Jain K, Lubiw A, Masárová Z, Miltzow T, Mondal D, Naredla AM, Tkadlec
J, Turcotte A. 2023. Token swapping on trees. Discrete Mathematics and Theoretical
Computer Science. 24(2), 9.
mla: Biniaz, Ahmad, et al. “Token Swapping on Trees.” Discrete Mathematics and
Theoretical Computer Science, vol. 24, no. 2, 9, EPI Sciences, 2023, doi:10.46298/DMTCS.8383.
short: A. Biniaz, K. Jain, A. Lubiw, Z. Masárová, T. Miltzow, D. Mondal, A.M. Naredla,
J. Tkadlec, A. Turcotte, Discrete Mathematics and Theoretical Computer Science
24 (2023).
date_created: 2023-04-16T22:01:08Z
date_published: 2023-01-18T00:00:00Z
date_updated: 2025-01-20T14:05:09Z
day: '18'
ddc:
- '000'
department:
- _id: KrCh
- _id: HeEd
- _id: UlWa
doi: 10.46298/DMTCS.8383
external_id:
arxiv:
- '1903.06981'
file:
- access_level: open_access
checksum: 439102ea4f6e2aeefd7107dfb9ccf532
content_type: application/pdf
creator: dernst
date_created: 2023-04-17T08:10:28Z
date_updated: 2023-04-17T08:10:28Z
file_id: '12844'
file_name: 2022_DMTCS_Biniaz.pdf
file_size: 2072197
relation: main_file
success: 1
file_date_updated: 2023-04-17T08:10:28Z
has_accepted_license: '1'
intvolume: ' 24'
issue: '2'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: Discrete Mathematics and Theoretical Computer Science
publication_identifier:
eissn:
- 1365-8050
issn:
- 1462-7264
publication_status: published
publisher: EPI Sciences
quality_controlled: '1'
related_material:
record:
- id: '7950'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Token swapping on trees
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2023'
...
---
_id: '12836'
abstract:
- lang: eng
text: Coherent control and manipulation of quantum degrees of freedom such as spins
forms the basis of emerging quantum technologies. In this context, the robust
valley degree of freedom and the associated valley pseudospin found in two-dimensional
transition metal dichalcogenides is a highly attractive platform. Valley polarization
and coherent superposition of valley states have been observed in these systems
even up to room temperature. Control of valley coherence is an important building
block for the implementation of valley qubit. Large magnetic fields or high-power
lasers have been used in the past to demonstrate the control (initialization and
rotation) of the valley coherent states. Here, the control of layer–valley coherence
via strong coupling of valley excitons in bilayer WS2 to microcavity photons is
demonstrated by exploiting the pseudomagnetic field arising in optical cavities
owing to the transverse electric–transverse magnetic (TE–TM)mode splitting. The
use of photonic structures to generate pseudomagnetic fields which can be used
to manipulate exciton-polaritons presents an attractive approach to control optical
responses without the need for large magnets or high-intensity optical pump powers.
acknowledgement: The authors acknowledge insightful discussions with Prof. Wang Yao
and graphics by Rezlind Bushati. M.K. and N.Y. acknowledge support from NSF grants
NSF DMR-1709996 and NSF OMA 1936276. S.G. was supported by the Army Research Office
Multidisciplinary University Research Initiative program (W911NF-17-1-0312) and
V.M.M. by the Army Research Office grant (W911NF-22-1-0091). K.M acknowledges the
SPARC program that supported his collaboration with the CUNY team. The authors acknowledge
the Nanofabrication facility at the CUNY Advanced Science Research Center where
the cavity devices were fabricated.
article_number: '2202631'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Mandeep
full_name: Khatoniar, Mandeep
last_name: Khatoniar
- first_name: Nicholas
full_name: Yama, Nicholas
last_name: Yama
- first_name: Areg
full_name: Ghazaryan, Areg
id: 4AF46FD6-F248-11E8-B48F-1D18A9856A87
last_name: Ghazaryan
orcid: 0000-0001-9666-3543
- first_name: Sriram
full_name: Guddala, Sriram
last_name: Guddala
- first_name: Pouyan
full_name: Ghaemi, Pouyan
last_name: Ghaemi
- first_name: Kausik
full_name: Majumdar, Kausik
last_name: Majumdar
- first_name: Vinod
full_name: Menon, Vinod
last_name: Menon
citation:
ama: Khatoniar M, Yama N, Ghazaryan A, et al. Optical manipulation of Layer–Valley
coherence via strong exciton–photon coupling in microcavities. Advanced Optical
Materials. 2023;11(13). doi:10.1002/adom.202202631
apa: Khatoniar, M., Yama, N., Ghazaryan, A., Guddala, S., Ghaemi, P., Majumdar,
K., & Menon, V. (2023). Optical manipulation of Layer–Valley coherence via
strong exciton–photon coupling in microcavities. Advanced Optical Materials.
Wiley. https://doi.org/10.1002/adom.202202631
chicago: Khatoniar, Mandeep, Nicholas Yama, Areg Ghazaryan, Sriram Guddala, Pouyan
Ghaemi, Kausik Majumdar, and Vinod Menon. “Optical Manipulation of Layer–Valley
Coherence via Strong Exciton–Photon Coupling in Microcavities.” Advanced Optical
Materials. Wiley, 2023. https://doi.org/10.1002/adom.202202631.
ieee: M. Khatoniar et al., “Optical manipulation of Layer–Valley coherence
via strong exciton–photon coupling in microcavities,” Advanced Optical Materials,
vol. 11, no. 13. Wiley, 2023.
ista: Khatoniar M, Yama N, Ghazaryan A, Guddala S, Ghaemi P, Majumdar K, Menon V.
2023. Optical manipulation of Layer–Valley coherence via strong exciton–photon
coupling in microcavities. Advanced Optical Materials. 11(13), 2202631.
mla: Khatoniar, Mandeep, et al. “Optical Manipulation of Layer–Valley Coherence
via Strong Exciton–Photon Coupling in Microcavities.” Advanced Optical Materials,
vol. 11, no. 13, 2202631, Wiley, 2023, doi:10.1002/adom.202202631.
short: M. Khatoniar, N. Yama, A. Ghazaryan, S. Guddala, P. Ghaemi, K. Majumdar,
V. Menon, Advanced Optical Materials 11 (2023).
date_created: 2023-04-16T22:01:09Z
date_published: 2023-07-04T00:00:00Z
date_updated: 2023-10-04T11:15:17Z
day: '04'
department:
- _id: MiLe
doi: 10.1002/adom.202202631
external_id:
arxiv:
- '2211.08755'
isi:
- '000963866700001'
intvolume: ' 11'
isi: 1
issue: '13'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2211.08755
month: '07'
oa: 1
oa_version: Preprint
publication: Advanced Optical Materials
publication_identifier:
eissn:
- 2195-1071
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Optical manipulation of Layer–Valley coherence via strong exciton–photon coupling
in microcavities
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 11
year: '2023'
...
---
_id: '12838'
abstract:
- lang: eng
text: We study the problem of high-dimensional multiple packing in Euclidean space.
Multiple packing is a natural generalization of sphere packing and is defined
as follows. Let N > 0 and L ∈ Z ≽2 . A multiple packing is a set C of points in
R n such that any point in R n lies in the intersection of at most L – 1 balls
of radius √ nN around points in C . Given a well-known connection with coding
theory, multiple packings can be viewed as the Euclidean analog of list-decodable
codes, which are well-studied for finite fields. In this paper, we derive the
best known lower bounds on the optimal density of list-decodable infinite constellations
for constant L under a stronger notion called average-radius multiple packing.
To this end, we apply tools from high-dimensional geometry and large deviation
theory.
acknowledgement: "YZ thanks Jiajin Li for making the observation given by Equation
(23). He also would like to thank Nir Ailon and Ely Porat for several helpful conversations
throughout this project, and Alexander Barg for insightful comments on the manuscript.\r\nYZ
has received funding from the European Union’s Horizon 2020 research and innovation
programme under grant agreement No 682203-ERC-[Inf-Speed-Tradeoff]. The work of
SV was supported by a seed grant from IIT Hyderabad and the start-up research grant
from the Science and Engineering Research Board, India (SRG/2020/000910)."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Yihan
full_name: Zhang, Yihan
id: 2ce5da42-b2ea-11eb-bba5-9f264e9d002c
last_name: Zhang
orcid: 0000-0002-6465-6258
- first_name: Shashank
full_name: Vatedka, Shashank
last_name: Vatedka
citation:
ama: 'Zhang Y, Vatedka S. Multiple packing: Lower bounds via infinite constellations.
IEEE Transactions on Information Theory. 2023;69(7):4513-4527. doi:10.1109/TIT.2023.3260950'
apa: 'Zhang, Y., & Vatedka, S. (2023). Multiple packing: Lower bounds via infinite
constellations. IEEE Transactions on Information Theory. IEEE. https://doi.org/10.1109/TIT.2023.3260950'
chicago: 'Zhang, Yihan, and Shashank Vatedka. “Multiple Packing: Lower Bounds via
Infinite Constellations.” IEEE Transactions on Information Theory. IEEE,
2023. https://doi.org/10.1109/TIT.2023.3260950.'
ieee: 'Y. Zhang and S. Vatedka, “Multiple packing: Lower bounds via infinite constellations,”
IEEE Transactions on Information Theory, vol. 69, no. 7. IEEE, pp. 4513–4527,
2023.'
ista: 'Zhang Y, Vatedka S. 2023. Multiple packing: Lower bounds via infinite constellations.
IEEE Transactions on Information Theory. 69(7), 4513–4527.'
mla: 'Zhang, Yihan, and Shashank Vatedka. “Multiple Packing: Lower Bounds via Infinite
Constellations.” IEEE Transactions on Information Theory, vol. 69, no.
7, IEEE, 2023, pp. 4513–27, doi:10.1109/TIT.2023.3260950.'
short: Y. Zhang, S. Vatedka, IEEE Transactions on Information Theory 69 (2023) 4513–4527.
date_created: 2023-04-16T22:01:09Z
date_published: 2023-07-01T00:00:00Z
date_updated: 2023-12-13T11:16:46Z
day: '01'
department:
- _id: MaMo
doi: 10.1109/TIT.2023.3260950
external_id:
arxiv:
- '2211.04407'
isi:
- '001017307000023'
intvolume: ' 69'
isi: 1
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2211.04407
month: '07'
oa: 1
oa_version: Preprint
page: 4513-4527
publication: IEEE Transactions on Information Theory
publication_identifier:
eissn:
- 1557-9654
issn:
- 0018-9448
publication_status: published
publisher: IEEE
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Multiple packing: Lower bounds via infinite constellations'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 69
year: '2023'
...
---
_id: '12839'
abstract:
- lang: eng
text: Universal nonequilibrium properties of isolated quantum systems are typically
probed by studying transport of conserved quantities, such as charge or spin,
while transport of energy has received considerably less attention. Here, we study
infinite-temperature energy transport in the kinetically constrained PXP model
describing Rydberg atom quantum simulators. Our state-of-the-art numerical simulations,
including exact diagonalization and time-evolving block decimation methods, reveal
the existence of two distinct transport regimes. At moderate times, the energy-energy
correlation function displays periodic oscillations due to families of eigenstates
forming different su(2) representations hidden within the spectrum. These families
of eigenstates generalize the quantum many-body scarred states found in previous
works and leave an imprint on the infinite-temperature energy transport. At later
times, we observe a long-lived superdiffusive transport regime that we attribute
to the proximity of a nearby integrable point. While generic strong deformations
of the PXP model indeed restore diffusive transport, adding a strong chemical
potential intriguingly gives rise to a well-converged superdiffusive exponent
z≈3/2. Our results suggest constrained models to be potential hosts of novel transport
regimes and call for developing an analytic understanding of their energy transport.
acknowledgement: "We would like to thank Alexios Michailidis, Sarang Gopalakrishnan,
and Achilleas Lazarides for useful comments. M. L. and M. S. acknowledge support
by the European Research Council under the European Union’s Horizon 2020 research
and innovation program (Grant\r\nAgreement No. 850899). J.-Y. D. and Z. P. acknowledge
support by EPSRC Grant No. EP/R513258/1 and the Leverhulme Trust Research Leadership
Grant No. RL2019-015. Statement of compliance with EPSRC policy framework on research
data: This publication is theoretical work that does not require supporting research
data. M. S., M. L., and Z. P. acknowledge support by the Erwin Schrödinger International
Institute for Mathematics and\r\nPhysics. M. L. and M. S. acknowledge PRACE for
awarding us access to Joliot-Curie at GENCI@CEA, France, where the TEBD simulations
were performed. The TEBD\r\nsimulations were performed using the ITENSOR library
[54]."
article_number: '011033'
article_processing_charge: No
article_type: original
author:
- first_name: Marko
full_name: Ljubotina, Marko
id: F75EE9BE-5C90-11EA-905D-16643DDC885E
last_name: Ljubotina
orcid: 0000-0003-0038-7068
- first_name: Jean Yves
full_name: Desaules, Jean Yves
last_name: Desaules
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Zlatko
full_name: Papić, Zlatko
last_name: Papić
citation:
ama: Ljubotina M, Desaules JY, Serbyn M, Papić Z. Superdiffusive energy transport
in kinetically constrained models. Physical Review X. 2023;13(1). doi:10.1103/PhysRevX.13.011033
apa: Ljubotina, M., Desaules, J. Y., Serbyn, M., & Papić, Z. (2023). Superdiffusive
energy transport in kinetically constrained models. Physical Review X.
American Physical Society. https://doi.org/10.1103/PhysRevX.13.011033
chicago: Ljubotina, Marko, Jean Yves Desaules, Maksym Serbyn, and Zlatko Papić.
“Superdiffusive Energy Transport in Kinetically Constrained Models.” Physical
Review X. American Physical Society, 2023. https://doi.org/10.1103/PhysRevX.13.011033.
ieee: M. Ljubotina, J. Y. Desaules, M. Serbyn, and Z. Papić, “Superdiffusive energy
transport in kinetically constrained models,” Physical Review X, vol. 13,
no. 1. American Physical Society, 2023.
ista: Ljubotina M, Desaules JY, Serbyn M, Papić Z. 2023. Superdiffusive energy transport
in kinetically constrained models. Physical Review X. 13(1), 011033.
mla: Ljubotina, Marko, et al. “Superdiffusive Energy Transport in Kinetically Constrained
Models.” Physical Review X, vol. 13, no. 1, 011033, American Physical Society,
2023, doi:10.1103/PhysRevX.13.011033.
short: M. Ljubotina, J.Y. Desaules, M. Serbyn, Z. Papić, Physical Review X 13 (2023).
corr_author: '1'
date_created: 2023-04-16T22:01:09Z
date_published: 2023-03-07T00:00:00Z
date_updated: 2025-04-14T07:52:07Z
day: '07'
ddc:
- '530'
department:
- _id: MaSe
doi: 10.1103/PhysRevX.13.011033
ec_funded: 1
external_id:
isi:
- '000957625700001'
file:
- access_level: open_access
checksum: ee060cea609af79bba7af74b1ce28078
content_type: application/pdf
creator: dernst
date_created: 2023-04-17T08:36:53Z
date_updated: 2023-04-17T08:36:53Z
file_id: '12845'
file_name: 2023_PhysReviewX_Ljubotina.pdf
file_size: 1958523
relation: main_file
success: 1
file_date_updated: 2023-04-17T08:36:53Z
has_accepted_license: '1'
intvolume: ' 13'
isi: 1
issue: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
project:
- _id: 23841C26-32DE-11EA-91FC-C7463DDC885E
call_identifier: H2020
grant_number: '850899'
name: 'Non-Ergodic Quantum Matter: Universality, Dynamics and Control'
publication: Physical Review X
publication_identifier:
eissn:
- 2160-3308
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Superdiffusive energy transport in kinetically constrained models
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: 13
year: '2023'
...
---
_id: '12854'
abstract:
- lang: eng
text: "The main idea behind BUBAAK is to run multiple program analyses in parallel
and use runtime monitoring and enforcement to observe and control their progress
in real time. The analyses send information about (un)explored states of the program
and discovered invariants to a monitor. The monitor processes the received data
and can force an analysis to stop the search of certain program parts (which have
already been analyzed by other analyses), or to make it utilize a program invariant
found by another analysis.\r\nAt SV-COMP 2023, the implementation of data exchange
between the monitor and the analyses was not yet completed, which is why BUBAAK
only ran several analyses in parallel, without any coordination. Still, BUBAAK
won the meta-category FalsificationOverall and placed very well in several other
(sub)-categories of the competition."
acknowledgement: This work was supported by the ERC-2020-AdG 10102009 grant.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Marek
full_name: Chalupa, Marek
id: 87e34708-d6c6-11ec-9f5b-9391e7be2463
last_name: Chalupa
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
citation:
ama: 'Chalupa M, Henzinger TA. Bubaak: Runtime monitoring of program verifiers.
In: Tools and Algorithms for the Construction and Analysis of Systems.
Vol 13994. Springer Nature; 2023:535-540. doi:10.1007/978-3-031-30820-8_32'
apa: 'Chalupa, M., & Henzinger, T. A. (2023). Bubaak: Runtime monitoring of
program verifiers. In Tools and Algorithms for the Construction and Analysis
of Systems (Vol. 13994, pp. 535–540). Paris, France: Springer Nature. https://doi.org/10.1007/978-3-031-30820-8_32'
chicago: 'Chalupa, Marek, and Thomas A Henzinger. “Bubaak: Runtime Monitoring of
Program Verifiers.” In Tools and Algorithms for the Construction and Analysis
of Systems, 13994:535–40. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-30820-8_32.'
ieee: 'M. Chalupa and T. A. Henzinger, “Bubaak: Runtime monitoring of program verifiers,”
in Tools and Algorithms for the Construction and Analysis of Systems, Paris,
France, 2023, vol. 13994, pp. 535–540.'
ista: 'Chalupa M, Henzinger TA. 2023. Bubaak: Runtime monitoring of program verifiers.
Tools and Algorithms for the Construction and Analysis of Systems. TACAS: Tools
and Algorithms for the Construction and Analysis of Systems, LNCS, vol. 13994,
535–540.'
mla: 'Chalupa, Marek, and Thomas A. Henzinger. “Bubaak: Runtime Monitoring of Program
Verifiers.” Tools and Algorithms for the Construction and Analysis of Systems,
vol. 13994, Springer Nature, 2023, pp. 535–40, doi:10.1007/978-3-031-30820-8_32.'
short: M. Chalupa, T.A. Henzinger, in:, Tools and Algorithms for the Construction
and Analysis of Systems, Springer Nature, 2023, pp. 535–540.
conference:
end_date: 2023-04-27
location: Paris, France
name: 'TACAS: Tools and Algorithms for the Construction and Analysis of Systems'
start_date: 2023-04-22
corr_author: '1'
date_created: 2023-04-20T08:22:53Z
date_published: 2023-04-20T00:00:00Z
date_updated: 2025-09-09T12:24:56Z
day: '20'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1007/978-3-031-30820-8_32
ec_funded: 1
external_id:
isi:
- '001288698100041'
file:
- access_level: open_access
checksum: 120d2c2a38384058ad0630fdf8288312
content_type: application/pdf
creator: dernst
date_created: 2023-04-25T06:58:36Z
date_updated: 2023-04-25T06:58:36Z
file_id: '12864'
file_name: 2023_LNCS_Chalupa.pdf
file_size: 16096413
relation: main_file
success: 1
file_date_updated: 2023-04-25T06:58:36Z
has_accepted_license: '1'
intvolume: ' 13994'
isi: 1
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 535-540
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: Tools and Algorithms for the Construction and Analysis of Systems
publication_identifier:
eisbn:
- '9783031308208'
eissn:
- 1611-3349
isbn:
- '9783031308192'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Bubaak: Runtime monitoring of program verifiers'
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 13994
year: '2023'
...
---
_id: '12856'
abstract:
- lang: eng
text: "As the complexity and criticality of software increase every year, so does
the importance of run-time monitoring. Third-party monitoring, with limited knowledge
of the monitored software, and best-effort monitoring, which keeps pace with the
monitored software, are especially valuable, yet underexplored areas of run-time
monitoring. Most existing monitoring frameworks do not support their combination
because they either require access to the monitored code for instrumentation purposes
or the processing of all observed events, or both.\r\n\r\nWe present a middleware
framework, VAMOS, for the run-time monitoring of software which is explicitly
designed to support third-party and best-effort scenarios. The design goals of
VAMOS are (i) efficiency (keeping pace at low overhead), (ii) flexibility (the
ability to monitor black-box code through a variety of different event channels,
and the connectability to monitors written in different specification languages),
and (iii) ease-of-use. To achieve its goals, VAMOS combines aspects of event broker
and event recognition systems with aspects of stream processing systems.\r\nWe
implemented a prototype toolchain for VAMOS and conducted experiments including
a case study of monitoring for data races. The results indicate that VAMOS enables
writing useful yet efficient monitors, is compatible with a variety of event sources
and monitor specifications, and simplifies key aspects of setting up a monitoring
system from scratch."
acknowledgement: This work was supported in part by the ERC-2020-AdG 101020093. The
authors would like to thank the anonymous FASE reviewers for their valuable feedback
and suggestions.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Marek
full_name: Chalupa, Marek
id: 87e34708-d6c6-11ec-9f5b-9391e7be2463
last_name: Chalupa
- first_name: Fabian
full_name: Mühlböck, Fabian
id: 6395C5F6-89DF-11E9-9C97-6BDFE5697425
last_name: Mühlböck
orcid: 0000-0003-1548-0177
- first_name: Stefanie
full_name: Muroya Lei, Stefanie
id: a376de31-8972-11ed-ae7b-d0251c13c8ff
last_name: Muroya Lei
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
citation:
ama: 'Chalupa M, Mühlböck F, Muroya Lei S, Henzinger TA. Vamos: Middleware for best-effort
third-party monitoring. In: Fundamental Approaches to Software Engineering.
Vol 13991. Springer Nature; 2023:260-281. doi:10.1007/978-3-031-30826-0_15'
apa: 'Chalupa, M., Mühlböck, F., Muroya Lei, S., & Henzinger, T. A. (2023).
Vamos: Middleware for best-effort third-party monitoring. In Fundamental Approaches
to Software Engineering (Vol. 13991, pp. 260–281). Paris, France: Springer
Nature. https://doi.org/10.1007/978-3-031-30826-0_15'
chicago: 'Chalupa, Marek, Fabian Mühlböck, Stefanie Muroya Lei, and Thomas A Henzinger.
“Vamos: Middleware for Best-Effort Third-Party Monitoring.” In Fundamental
Approaches to Software Engineering, 13991:260–81. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-30826-0_15.'
ieee: 'M. Chalupa, F. Mühlböck, S. Muroya Lei, and T. A. Henzinger, “Vamos: Middleware
for best-effort third-party monitoring,” in Fundamental Approaches to Software
Engineering, Paris, France, 2023, vol. 13991, pp. 260–281.'
ista: 'Chalupa M, Mühlböck F, Muroya Lei S, Henzinger TA. 2023. Vamos: Middleware
for best-effort third-party monitoring. Fundamental Approaches to Software Engineering.
FASE: Fundamental Approaches to Software Engineering, LNCS, vol. 13991, 260–281.'
mla: 'Chalupa, Marek, et al. “Vamos: Middleware for Best-Effort Third-Party Monitoring.”
Fundamental Approaches to Software Engineering, vol. 13991, Springer Nature,
2023, pp. 260–81, doi:10.1007/978-3-031-30826-0_15.'
short: M. Chalupa, F. Mühlböck, S. Muroya Lei, T.A. Henzinger, in:, Fundamental
Approaches to Software Engineering, Springer Nature, 2023, pp. 260–281.
conference:
end_date: 2023-04-27
location: Paris, France
name: 'FASE: Fundamental Approaches to Software Engineering'
start_date: 2023-04-22
corr_author: '1'
date_created: 2023-04-20T08:29:42Z
date_published: 2023-04-20T00:00:00Z
date_updated: 2025-09-09T12:25:29Z
day: '20'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1007/978-3-031-30826-0_15
ec_funded: 1
external_id:
isi:
- '001284136600015'
file:
- access_level: open_access
checksum: 17a7c8e08be609cf2408d37ea55e322c
content_type: application/pdf
creator: dernst
date_created: 2023-04-25T07:16:36Z
date_updated: 2023-04-25T07:16:36Z
file_id: '12865'
file_name: 2023_LNCS_ChalupaM.pdf
file_size: 580828
relation: main_file
success: 1
file_date_updated: 2023-04-25T07:16:36Z
has_accepted_license: '1'
intvolume: ' 13991'
isi: 1
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 260-281
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: Fundamental Approaches to Software Engineering
publication_identifier:
eisbn:
- '9783031308260'
eissn:
- 1611-3349
isbn:
- '9783031308253'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '18169'
relation: later_version
status: public
- id: '12407'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: 'Vamos: Middleware for best-effort third-party monitoring'
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 13991
year: '2023'
...
---
_id: '12859'
abstract:
- lang: eng
text: 'Machine learning models are vulnerable to adversarial perturbations, and
a thought-provoking paper by Bubeck and Sellke has analyzed this phenomenon through
the lens of over-parameterization: interpolating smoothly the data requires significantly
more parameters than simply memorizing it. However, this "universal" law provides
only a necessary condition for robustness, and it is unable to discriminate between
models. In this paper, we address these gaps by focusing on empirical risk minimization
in two prototypical settings, namely, random features and the neural tangent kernel
(NTK). We prove that, for random features, the model is not robust for any degree
of over-parameterization, even when the necessary condition coming from the universal
law of robustness is satisfied. In contrast, for even activations, the NTK model
meets the universal lower bound, and it is robust as soon as the necessary condition
on over-parameterization is fulfilled. This also addresses a conjecture in prior
work by Bubeck, Li and Nagaraj. Our analysis decouples the effect of the kernel
of the model from an "interaction matrix", which describes the interaction with
the test data and captures the effect of the activation. Our theoretical results
are corroborated by numerical evidence on both synthetic and standard datasets
(MNIST, CIFAR-10).'
acknowledgement: "Simone Bombari and Marco Mondelli were partially supported by the
2019 Lopez-Loreta prize, and\r\nthe authors would like to thank Hamed Hassani for
helpful discussions.\r\n"
alternative_title:
- PMLR
article_processing_charge: No
arxiv: 1
author:
- first_name: Simone
full_name: Bombari, Simone
id: ca726dda-de17-11ea-bc14-f9da834f63aa
last_name: Bombari
- first_name: Shayan
full_name: Kiyani, Shayan
id: f5a2b424-e339-11ed-8435-ff3b4fe70cf8
last_name: Kiyani
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
citation:
ama: 'Bombari S, Kiyani S, Mondelli M. Beyond the universal law of robustness: Sharper
laws for random features and neural tangent kernels. In: Proceedings of the
40th International Conference on Machine Learning. Vol 202. ML Research Press;
2023:2738-2776.'
apa: 'Bombari, S., Kiyani, S., & Mondelli, M. (2023). Beyond the universal law
of robustness: Sharper laws for random features and neural tangent kernels. In
Proceedings of the 40th International Conference on Machine Learning (Vol.
202, pp. 2738–2776). Honolulu, HI, United States: ML Research Press.'
chicago: 'Bombari, Simone, Shayan Kiyani, and Marco Mondelli. “Beyond the Universal
Law of Robustness: Sharper Laws for Random Features and Neural Tangent Kernels.”
In Proceedings of the 40th International Conference on Machine Learning,
202:2738–76. ML Research Press, 2023.'
ieee: 'S. Bombari, S. Kiyani, and M. Mondelli, “Beyond the universal law of robustness:
Sharper laws for random features and neural tangent kernels,” in Proceedings
of the 40th International Conference on Machine Learning, Honolulu, HI, United
States, 2023, vol. 202, pp. 2738–2776.'
ista: 'Bombari S, Kiyani S, Mondelli M. 2023. Beyond the universal law of robustness:
Sharper laws for random features and neural tangent kernels. Proceedings of the
40th International Conference on Machine Learning. ICML: International Conference
on Machine Learning, PMLR, vol. 202, 2738–2776.'
mla: 'Bombari, Simone, et al. “Beyond the Universal Law of Robustness: Sharper Laws
for Random Features and Neural Tangent Kernels.” Proceedings of the 40th International
Conference on Machine Learning, vol. 202, ML Research Press, 2023, pp. 2738–76.'
short: S. Bombari, S. Kiyani, M. Mondelli, in:, Proceedings of the 40th International
Conference on Machine Learning, ML Research Press, 2023, pp. 2738–2776.
conference:
end_date: 2023-07-29
location: Honolulu, HI, United States
name: 'ICML: International Conference on Machine Learning'
start_date: 2023-07-23
corr_author: '1'
date_created: 2023-04-23T16:11:03Z
date_published: 2023-10-27T00:00:00Z
date_updated: 2025-04-15T07:50:16Z
day: '27'
department:
- _id: GradSch
- _id: MaMo
external_id:
arxiv:
- '2302.01629'
intvolume: ' 202'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2302.01629
month: '10'
oa: 1
oa_version: Preprint
page: 2738-2776
project:
- _id: 059876FA-7A3F-11EA-A408-12923DDC885E
name: Prix Lopez-Loretta 2019 - Marco Mondelli
publication: Proceedings of the 40th International Conference on Machine Learning
publication_status: published
publisher: ML Research Press
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/simone-bombari/beyond-universal-robustness
status: public
title: 'Beyond the universal law of robustness: Sharper laws for random features and
neural tangent kernels'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 202
year: '2023'
...
---
_id: '12861'
abstract:
- lang: eng
text: The field of indirect reciprocity investigates how social norms can foster
cooperation when individuals continuously monitor and assess each other’s social
interactions. By adhering to certain social norms, cooperating individuals can
improve their reputation and, in turn, receive benefits from others. Eight social
norms, known as the “leading eight," have been shown to effectively promote the
evolution of cooperation as long as information is public and reliable. These
norms categorize group members as either ’good’ or ’bad’. In this study, we examine
a scenario where individuals instead assign nuanced reputation scores to each
other, and only cooperate with those whose reputation exceeds a certain threshold.
We find both analytically and through simulations that such quantitative assessments
are error-correcting, thus facilitating cooperation in situations where information
is private and unreliable. Moreover, our results identify four specific norms
that are robust to such conditions, and may be relevant for helping to sustain
cooperation in natural populations.
acknowledgement: 'This work was supported by the European Research Council CoG 863818
(ForM-SMArt) (to K.C.) and the European Research Council Starting Grant 850529:
E-DIRECT (to C.H.). L.S. received additional partial support by the Austrian Science
Fund (FWF) under grant Z211-N23 (Wittgenstein Award), and also thanks the support
by the Stochastic Analysis and Application Research Center (SAARC) under National
Research Foundation of Korea grant NRF-2019R1A5A1028324. The authors additionally
thank Stefan Schmid for providing access to his lab infrastructure at the University
of Vienna for the purpose of collecting simulation data.'
article_number: '2086'
article_processing_charge: No
article_type: original
author:
- first_name: Laura
full_name: Schmid, Laura
id: 38B437DE-F248-11E8-B48F-1D18A9856A87
last_name: Schmid
orcid: 0000-0002-6978-7329
- first_name: Farbod
full_name: Ekbatani, Farbod
last_name: Ekbatani
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
citation:
ama: Schmid L, Ekbatani F, Hilbe C, Chatterjee K. Quantitative assessment can stabilize
indirect reciprocity under imperfect information. Nature Communications.
2023;14. doi:10.1038/s41467-023-37817-x
apa: Schmid, L., Ekbatani, F., Hilbe, C., & Chatterjee, K. (2023). Quantitative
assessment can stabilize indirect reciprocity under imperfect information. Nature
Communications. Springer Nature. https://doi.org/10.1038/s41467-023-37817-x
chicago: Schmid, Laura, Farbod Ekbatani, Christian Hilbe, and Krishnendu Chatterjee.
“Quantitative Assessment Can Stabilize Indirect Reciprocity under Imperfect Information.”
Nature Communications. Springer Nature, 2023. https://doi.org/10.1038/s41467-023-37817-x.
ieee: L. Schmid, F. Ekbatani, C. Hilbe, and K. Chatterjee, “Quantitative assessment
can stabilize indirect reciprocity under imperfect information,” Nature Communications,
vol. 14. Springer Nature, 2023.
ista: Schmid L, Ekbatani F, Hilbe C, Chatterjee K. 2023. Quantitative assessment
can stabilize indirect reciprocity under imperfect information. Nature Communications.
14, 2086.
mla: Schmid, Laura, et al. “Quantitative Assessment Can Stabilize Indirect Reciprocity
under Imperfect Information.” Nature Communications, vol. 14, 2086, Springer
Nature, 2023, doi:10.1038/s41467-023-37817-x.
short: L. Schmid, F. Ekbatani, C. Hilbe, K. Chatterjee, Nature Communications 14
(2023).
date_created: 2023-04-23T22:01:03Z
date_published: 2023-04-12T00:00:00Z
date_updated: 2025-04-15T06:26:15Z
day: '12'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1038/s41467-023-37817-x
ec_funded: 1
external_id:
isi:
- '001003644100020'
pmid:
- '37045828'
file:
- access_level: open_access
checksum: a4b3b7b36fbef068cabf4fb99501fef6
content_type: application/pdf
creator: dernst
date_created: 2023-04-25T09:13:53Z
date_updated: 2023-04-25T09:13:53Z
file_id: '12868'
file_name: 2023_NatureComm_Schmid.pdf
file_size: 1786475
relation: main_file
success: 1
file_date_updated: 2023-04-25T09:13:53Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '863818'
name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: Formal methods for the design and analysis of complex systems
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Quantitative assessment can stabilize indirect reciprocity under imperfect
information
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 14
year: '2023'
...
---
_id: '12862'
abstract:
- lang: eng
text: Despite the considerable progress of in vivo neural recording techniques,
inferring the biophysical mechanisms underlying large scale coordination of brain
activity from neural data remains challenging. One obstacle is the difficulty
to link high dimensional functional connectivity measures to mechanistic models
of network activity. We address this issue by investigating spike-field coupling
(SFC) measurements, which quantify the synchronization between, on the one hand,
the action potentials produced by neurons, and on the other hand mesoscopic “field”
signals, reflecting subthreshold activities at possibly multiple recording sites.
As the number of recording sites gets large, the amount of pairwise SFC measurements
becomes overwhelmingly challenging to interpret. We develop Generalized Phase
Locking Analysis (GPLA) as an interpretable dimensionality reduction of this multivariate
SFC. GPLA describes the dominant coupling between field activity and neural ensembles
across space and frequencies. We show that GPLA features are biophysically interpretable
when used in conjunction with appropriate network models, such that we can identify
the influence of underlying circuit properties on these features. We demonstrate
the statistical benefits and interpretability of this approach in various computational
models and Utah array recordings. The results suggest that GPLA, used jointly
with biophysical modeling, can help uncover the contribution of recurrent microcircuits
to the spatio-temporal dynamics observed in multi-channel experimental recordings.
acknowledgement: "We thank Britni Crocker for help with preprocessing of the data
and spike sorting; Joachim Werner and Michael Schnabel for their excellent IT support;
Andreas Tolias for help with the initial implantation’s of the Utah arrays.\r\nAll
authors were supported by the Max Planck Society. M.B. was supported by the German\r\nFederal
Ministry of Education and Research (BMBF) through the funding scheme received by\r\nthe
Tübingen AI Center, FKZ: 01IS18039B. N.K.L. and V.K. acknowledge the support from
the\r\nShanghai Municipal Science and Technology Major Project (Grant No. 2019SHZDZX02).
The funders had no role in study design, data collection and analysis, decision
to publish, or preparation of the manuscript. "
article_number: e1010983
article_processing_charge: No
article_type: original
author:
- first_name: Shervin
full_name: Safavi, Shervin
last_name: Safavi
- first_name: Theofanis I.
full_name: Panagiotaropoulos, Theofanis I.
last_name: Panagiotaropoulos
- first_name: Vishal
full_name: Kapoor, Vishal
last_name: Kapoor
- first_name: Juan F
full_name: Ramirez Villegas, Juan F
id: 44B06F76-F248-11E8-B48F-1D18A9856A87
last_name: Ramirez Villegas
- first_name: Nikos K.
full_name: Logothetis, Nikos K.
last_name: Logothetis
- first_name: Michel
full_name: Besserve, Michel
last_name: Besserve
citation:
ama: Safavi S, Panagiotaropoulos TI, Kapoor V, Ramirez Villegas JF, Logothetis NK,
Besserve M. Uncovering the organization of neural circuits with Generalized Phase
Locking Analysis. PLoS Computational Biology. 2023;19(4). doi:10.1371/journal.pcbi.1010983
apa: Safavi, S., Panagiotaropoulos, T. I., Kapoor, V., Ramirez Villegas, J. F.,
Logothetis, N. K., & Besserve, M. (2023). Uncovering the organization of neural
circuits with Generalized Phase Locking Analysis. PLoS Computational Biology.
Public Library of Science. https://doi.org/10.1371/journal.pcbi.1010983
chicago: Safavi, Shervin, Theofanis I. Panagiotaropoulos, Vishal Kapoor, Juan F
Ramirez Villegas, Nikos K. Logothetis, and Michel Besserve. “Uncovering the Organization
of Neural Circuits with Generalized Phase Locking Analysis.” PLoS Computational
Biology. Public Library of Science, 2023. https://doi.org/10.1371/journal.pcbi.1010983.
ieee: S. Safavi, T. I. Panagiotaropoulos, V. Kapoor, J. F. Ramirez Villegas, N.
K. Logothetis, and M. Besserve, “Uncovering the organization of neural circuits
with Generalized Phase Locking Analysis,” PLoS Computational Biology, vol.
19, no. 4. Public Library of Science, 2023.
ista: Safavi S, Panagiotaropoulos TI, Kapoor V, Ramirez Villegas JF, Logothetis
NK, Besserve M. 2023. Uncovering the organization of neural circuits with Generalized
Phase Locking Analysis. PLoS Computational Biology. 19(4), e1010983.
mla: Safavi, Shervin, et al. “Uncovering the Organization of Neural Circuits with
Generalized Phase Locking Analysis.” PLoS Computational Biology, vol. 19,
no. 4, e1010983, Public Library of Science, 2023, doi:10.1371/journal.pcbi.1010983.
short: S. Safavi, T.I. Panagiotaropoulos, V. Kapoor, J.F. Ramirez Villegas, N.K.
Logothetis, M. Besserve, PLoS Computational Biology 19 (2023).
date_created: 2023-04-23T22:01:03Z
date_published: 2023-04-01T00:00:00Z
date_updated: 2025-04-23T08:54:49Z
day: '01'
ddc:
- '570'
department:
- _id: JoCs
doi: 10.1371/journal.pcbi.1010983
external_id:
isi:
- '000962668700002'
pmid:
- '37011110'
file:
- access_level: open_access
checksum: edeb9d09f3e41ba7c0251308b9e372e7
content_type: application/pdf
creator: dernst
date_created: 2023-04-25T08:59:18Z
date_updated: 2023-04-25T08:59:18Z
file_id: '12867'
file_name: 2023_PLoSCompBio_Safavi.pdf
file_size: 4737671
relation: main_file
success: 1
file_date_updated: 2023-04-25T08:59:18Z
has_accepted_license: '1'
intvolume: ' 19'
isi: 1
issue: '4'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
publication: PLoS Computational Biology
publication_identifier:
eissn:
- 1553-7358
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/shervinsafavi/gpla.git
scopus_import: '1'
status: public
title: Uncovering the organization of neural circuits with Generalized Phase Locking
Analysis
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: 19
year: '2023'
...
---
_id: '12863'
abstract:
- lang: eng
text: In the present study, essential and nonessential metal content and biomarker
responses were investigated in the intestine of fish collected from the areas
polluted by mining. Our objective was to determine metal and biomarker levels
in tissue responsible for dietary intake, which is rarely studied in water pollution
research. The study was conducted in the Bregalnica River, reference location,
and in the Zletovska and Kriva Rivers (the Republic of North Macedonia), which
are directly influenced by the active mines Zletovo and Toranica, respectively.
Biological responses were analyzed in Vardar chub (Squalius vardarensis; Karaman,
1928), using for the first time intestinal cytosol as a potentially toxic cell
fraction, since metal sensitivity is mostly associated with cytosol. Cytosolic
metal levels were higher in fish under the influence of mining (Tl, Li, Cs, Mo,
Sr, Cd, Rb, and Cu in the Zletovska River and Cr, Pb, and Se in the Kriva River
compared to the Bregalnica River in both seasons). The same trend was evident
for total proteins, biomarkers of general stress, and metallothioneins, biomarkers
of metal exposure, indicating cellular disturbances in the intestine, the primary
site of dietary metal uptake. The association of cytosolic Cu and Cd at all locations
pointed to similar pathways and homeostasis of these metallothionein-binding metals.
Comparison with other indicator tissues showed that metal concentrations were
higher in the intestine of fish from mining-affected areas than in the liver and
gills. In general, these results indicated the importance of dietary metal pathways,
and cytosolic metal fraction in assessing pollution impacts in freshwater ecosystems.
acknowledgement: 'The authors are grateful to Dr. Nevenka Mikac for the opportunity
to perform metal measurements on HR ICP-MS. This research was funded by the Ministry
of Science, Education and Sport of the Republic of Croatia (projects No. 098–0982934-2721
and 098–1782739-2749). The sampling was carried out as a part of two Croatian-Macedonian
bilateral projects: “The assessment of availability and effects of metals on fish
in the rivers under the impact of mining activities” and “Bacterial and parasitical
communities of chub as indicators of the status of environment exposed to mining
activities.”'
article_processing_charge: No
article_type: original
author:
- first_name: Vlatka
full_name: Filipović Marijić, Vlatka
last_name: Filipović Marijić
- first_name: Nesrete
full_name: Krasnici, Nesrete
id: cb5852d4-287f-11ed-baf0-bc1dd2d5c745
last_name: Krasnici
- first_name: Damir
full_name: Valić, Damir
last_name: Valić
- first_name: Damir
full_name: Kapetanović, Damir
last_name: Kapetanović
- first_name: Irena
full_name: Vardić Smrzlić, Irena
last_name: Vardić Smrzlić
- first_name: Maja
full_name: Jordanova, Maja
last_name: Jordanova
- first_name: Katerina
full_name: Rebok, Katerina
last_name: Rebok
- first_name: Sheriban
full_name: Ramani, Sheriban
last_name: Ramani
- first_name: Vasil
full_name: Kostov, Vasil
last_name: Kostov
- first_name: Rodne
full_name: Nastova, Rodne
last_name: Nastova
- first_name: Zrinka
full_name: Dragun, Zrinka
last_name: Dragun
citation:
ama: Filipović Marijić V, Krasnici N, Valić D, et al. Pollution impact on metal
and biomarker responses in intestinal cytosol of freshwater fish. Environmental
Science and Pollution Research. 2023;30:63510-63521. doi:10.1007/s11356-023-26844-2
apa: Filipović Marijić, V., Krasnici, N., Valić, D., Kapetanović, D., Vardić Smrzlić,
I., Jordanova, M., … Dragun, Z. (2023). Pollution impact on metal and biomarker
responses in intestinal cytosol of freshwater fish. Environmental Science and
Pollution Research. Springer Nature. https://doi.org/10.1007/s11356-023-26844-2
chicago: Filipović Marijić, Vlatka, Nesrete Krasnici, Damir Valić, Damir Kapetanović,
Irena Vardić Smrzlić, Maja Jordanova, Katerina Rebok, et al. “Pollution Impact
on Metal and Biomarker Responses in Intestinal Cytosol of Freshwater Fish.” Environmental
Science and Pollution Research. Springer Nature, 2023. https://doi.org/10.1007/s11356-023-26844-2.
ieee: V. Filipović Marijić et al., “Pollution impact on metal and biomarker
responses in intestinal cytosol of freshwater fish,” Environmental Science
and Pollution Research, vol. 30. Springer Nature, pp. 63510–63521, 2023.
ista: Filipović Marijić V, Krasnici N, Valić D, Kapetanović D, Vardić Smrzlić I,
Jordanova M, Rebok K, Ramani S, Kostov V, Nastova R, Dragun Z. 2023. Pollution
impact on metal and biomarker responses in intestinal cytosol of freshwater fish.
Environmental Science and Pollution Research. 30, 63510–63521.
mla: Filipović Marijić, Vlatka, et al. “Pollution Impact on Metal and Biomarker
Responses in Intestinal Cytosol of Freshwater Fish.” Environmental Science
and Pollution Research, vol. 30, Springer Nature, 2023, pp. 63510–21, doi:10.1007/s11356-023-26844-2.
short: V. Filipović Marijić, N. Krasnici, D. Valić, D. Kapetanović, I. Vardić Smrzlić,
M. Jordanova, K. Rebok, S. Ramani, V. Kostov, R. Nastova, Z. Dragun, Environmental
Science and Pollution Research 30 (2023) 63510–63521.
date_created: 2023-04-23T22:01:03Z
date_published: 2023-05-01T00:00:00Z
date_updated: 2023-10-04T11:23:10Z
day: '01'
department:
- _id: LifeSc
doi: 10.1007/s11356-023-26844-2
external_id:
isi:
- '000970917900012'
pmid:
- '37055686'
intvolume: ' 30'
isi: 1
language:
- iso: eng
month: '05'
oa_version: None
page: 63510-63521
pmid: 1
publication: Environmental Science and Pollution Research
publication_identifier:
eissn:
- 1614-7499
issn:
- 0944-1344
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Pollution impact on metal and biomarker responses in intestinal cytosol of
freshwater fish
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 30
year: '2023'
...
---
_id: '12866'
abstract:
- lang: eng
text: "Autism spectrum disorder (ASD) and epilepsy are frequently comorbid neurodevelopmental
disorders. Extensive research has demonstrated shared pathological pathways, etiologies,
and phenotypes. Many risk factors for these disorders, like genetic mutations
and environmental pressures, are linked to changes in childhood brain development,
which is a critical period for their manifestation.\r\nDecades of research have
yielded many signatures for ASD and epilepsy, some shared and others unique or
opposing. The anatomical, physiological, and behavioral correlates of these disorders
are discussed in this chapter in the context of understanding shared pathological
pathways. We end with important takeaways on the presentation, prevention, intervention,
and policy changes for ASD and epilepsy. This chapter aims to explore the complexity
of these disorders, both in etiology and phenotypes, with the further goal of
appreciating the expanse of unknowns still to explore about the brain."
alternative_title:
- 'Vol. 1: Biological Development and Physical Health'
article_processing_charge: No
author:
- first_name: Christopher
full_name: Currin, Christopher
id: e8321fc5-3091-11eb-8a53-83f309a11ac9
last_name: Currin
orcid: 0000-0002-4809-5059
- first_name: Chad
full_name: Beyer, Chad
last_name: Beyer
citation:
ama: 'Currin C, Beyer C. Altered childhood brain development in autism and epilepsy.
In: Halpern-Felsher B, ed. Encyclopedia of Child and Adolescent Health.
1st ed. Elsevier; 2023:86-98. doi:10.1016/b978-0-12-818872-9.00129-1'
apa: Currin, C., & Beyer, C. (2023). Altered childhood brain development in
autism and epilepsy. In B. Halpern-Felsher (Ed.), Encyclopedia of Child and
Adolescent Health (1st ed., pp. 86–98). Elsevier. https://doi.org/10.1016/b978-0-12-818872-9.00129-1
chicago: Currin, Christopher, and Chad Beyer. “Altered Childhood Brain Development
in Autism and Epilepsy.” In Encyclopedia of Child and Adolescent Health,
edited by Bonnie Halpern-Felsher, 1st ed., 86–98. Elsevier, 2023. https://doi.org/10.1016/b978-0-12-818872-9.00129-1.
ieee: C. Currin and C. Beyer, “Altered childhood brain development in autism and
epilepsy,” in Encyclopedia of Child and Adolescent Health, 1st ed., B.
Halpern-Felsher, Ed. Elsevier, 2023, pp. 86–98.
ista: 'Currin C, Beyer C. 2023.Altered childhood brain development in autism and
epilepsy. In: Encyclopedia of Child and Adolescent Health. Vol. 1: Biological
Development and Physical Health, , 86–98.'
mla: Currin, Christopher, and Chad Beyer. “Altered Childhood Brain Development in
Autism and Epilepsy.” Encyclopedia of Child and Adolescent Health, edited
by Bonnie Halpern-Felsher, 1st ed., Elsevier, 2023, pp. 86–98, doi:10.1016/b978-0-12-818872-9.00129-1.
short: C. Currin, C. Beyer, in:, B. Halpern-Felsher (Ed.), Encyclopedia of Child
and Adolescent Health, 1st ed., Elsevier, 2023, pp. 86–98.
corr_author: '1'
date_created: 2023-04-25T07:52:43Z
date_published: 2023-02-01T00:00:00Z
date_updated: 2024-10-21T06:01:23Z
day: '01'
department:
- _id: TiVo
doi: 10.1016/b978-0-12-818872-9.00129-1
edition: '1'
editor:
- first_name: Bonnie
full_name: Halpern-Felsher, Bonnie
last_name: Halpern-Felsher
language:
- iso: eng
month: '02'
oa_version: None
page: 86-98
publication: Encyclopedia of Child and Adolescent Health
publication_identifier:
isbn:
- '9780128188736'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Altered childhood brain development in autism and epilepsy
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '12869'
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 round cultures get a competitive advantage. We first analyse 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: '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_processing_charge: No
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. Research data for: A stochastic cellular automaton
model of culture formation. 2023. doi:10.15479/AT:ISTA:12869'
apa: 'Klausen, F. R., & Lauritsen, A. B. (2023). Research data for: A stochastic
cellular automaton model of culture formation. Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:12869'
chicago: 'Klausen, Frederik Ravn, and Asbjørn Bækgaard Lauritsen. “Research Data
for: A Stochastic Cellular Automaton Model of Culture Formation.” Institute of
Science and Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:12869.'
ieee: 'F. R. Klausen and A. B. Lauritsen, “Research data for: A stochastic cellular
automaton model of culture formation.” Institute of Science and Technology Austria,
2023.'
ista: 'Klausen FR, Lauritsen AB. 2023. Research data for: A stochastic cellular
automaton model of culture formation, Institute of Science and Technology Austria,
10.15479/AT:ISTA:12869.'
mla: 'Klausen, Frederik Ravn, and Asbjørn Bækgaard Lauritsen. Research Data for:
A Stochastic Cellular Automaton Model of Culture Formation. Institute of Science
and Technology Austria, 2023, doi:10.15479/AT:ISTA:12869.'
short: F.R. Klausen, A.B. Lauritsen, (2023).
corr_author: '1'
date_created: 2023-04-26T12:34:49Z
date_published: 2023-04-26T00:00:00Z
date_updated: 2025-09-09T12:26:01Z
day: '26'
ddc:
- '000'
department:
- _id: GradSch
- _id: RoSe
doi: 10.15479/AT:ISTA:12869
file:
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creator: alaurits
date_created: 2023-04-26T12:30:06Z
date_updated: 2023-04-26T12:30:06Z
file_id: '12870'
file_name: README.md
file_size: 4567
relation: main_file
success: 1
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creator: alaurits
date_created: 2023-04-26T12:27:34Z
date_updated: 2023-04-26T12:27:34Z
file_id: '12871'
file_name: simulations_era=10_flux_varied_europe.zip
file_size: 732586731
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creator: alaurits
date_created: 2023-04-26T12:29:53Z
date_updated: 2023-04-26T12:29:53Z
file_id: '12872'
file_name: simulations_era=10_flux_varied_torus.zip
file_size: 1743893150
relation: main_file
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checksum: e77a655db15486a387a36362fbf0b665
content_type: application/x-zip-compressed
creator: alaurits
date_created: 2023-04-26T12:29:19Z
date_updated: 2023-04-26T12:29:19Z
file_id: '12873'
file_name: simulations_era=10_R_varied_torus.zip
file_size: 878391851
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success: 1
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creator: alaurits
date_created: 2023-04-26T12:30:05Z
date_updated: 2023-04-26T12:30:05Z
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file_size: 201652478
relation: main_file
success: 1
file_date_updated: 2023-04-26T12:30:06Z
has_accepted_license: '1'
license: https://creativecommons.org/publicdomain/zero/1.0/
month: '04'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '14505'
relation: used_in_publication
status: deleted
- id: '12890'
relation: used_in_publication
status: public
status: public
title: 'Research data for: A stochastic cellular automaton model of culture formation'
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '12876'
abstract:
- lang: eng
text: "Motivation: The problem of model inference is of fundamental importance to
systems biology. Logical models (e.g. Boolean networks; BNs) represent a computationally
attractive approach capable of handling large biological networks. The models
are typically inferred from experimental data. However, even with a substantial
amount of experimental data supported by some prior knowledge, existing inference
methods often focus on a small sample of admissible candidate models only.\r\n\r\nResults:
We propose Boolean network sketches as a new formal instrument for the inference
of Boolean networks. A sketch integrates (typically partial) knowledge about the
network’s topology and the update logic (obtained through, e.g. a biological knowledge
base or a literature search), as well as further assumptions about the properties
of the network’s transitions (e.g. the form of its attractor landscape), and additional
restrictions on the model dynamics given by the measured experimental data. Our
new BNs inference algorithm starts with an ‘initial’ sketch, which is extended
by adding restrictions representing experimental data to a ‘data-informed’ sketch
and subsequently computes all BNs consistent with the data-informed sketch. Our
algorithm is based on a symbolic representation and coloured model-checking. Our
approach is unique in its ability to cover a broad spectrum of knowledge and efficiently
produce a compact representation of all inferred BNs. We evaluate the method on
a non-trivial collection of real-world and simulated data."
acknowledgement: This work was partially supported by GACR [grant No. GA22-10845S];
and Grant Agency of Masaryk University [grant No. MUNI/G/1771/2020]. This work was
partially supported by European Union’s Horizon 2020 research and innovation programme
under the Marie Skłodowska-Curie [Grant Agreement No. 101034413 to S.P.].
article_number: btad158
article_processing_charge: No
article_type: original
author:
- first_name: Nikola
full_name: Beneš, Nikola
last_name: Beneš
- first_name: Luboš
full_name: Brim, Luboš
last_name: Brim
- first_name: Ondřej
full_name: Huvar, Ondřej
last_name: Huvar
- first_name: Samuel
full_name: Pastva, Samuel
id: 07c5ea74-f61c-11ec-a664-aa7c5d957b2b
last_name: Pastva
orcid: 0000-0003-1993-0331
- first_name: David
full_name: Šafránek, David
last_name: Šafránek
citation:
ama: 'Beneš N, Brim L, Huvar O, Pastva S, Šafránek D. Boolean network sketches:
A unifying framework for logical model inference. Bioinformatics. 2023;39(4).
doi:10.1093/bioinformatics/btad158'
apa: 'Beneš, N., Brim, L., Huvar, O., Pastva, S., & Šafránek, D. (2023). Boolean
network sketches: A unifying framework for logical model inference. Bioinformatics.
Oxford University Press. https://doi.org/10.1093/bioinformatics/btad158'
chicago: 'Beneš, Nikola, Luboš Brim, Ondřej Huvar, Samuel Pastva, and David Šafránek.
“Boolean Network Sketches: A Unifying Framework for Logical Model Inference.”
Bioinformatics. Oxford University Press, 2023. https://doi.org/10.1093/bioinformatics/btad158.'
ieee: 'N. Beneš, L. Brim, O. Huvar, S. Pastva, and D. Šafránek, “Boolean network
sketches: A unifying framework for logical model inference,” Bioinformatics,
vol. 39, no. 4. Oxford University Press, 2023.'
ista: 'Beneš N, Brim L, Huvar O, Pastva S, Šafránek D. 2023. Boolean network sketches:
A unifying framework for logical model inference. Bioinformatics. 39(4), btad158.'
mla: 'Beneš, Nikola, et al. “Boolean Network Sketches: A Unifying Framework for
Logical Model Inference.” Bioinformatics, vol. 39, no. 4, btad158, Oxford
University Press, 2023, doi:10.1093/bioinformatics/btad158.'
short: N. Beneš, L. Brim, O. Huvar, S. Pastva, D. Šafránek, Bioinformatics 39 (2023).
date_created: 2023-04-30T22:01:05Z
date_published: 2023-04-03T00:00:00Z
date_updated: 2025-05-14T11:06:50Z
day: '03'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1093/bioinformatics/btad158
ec_funded: 1
external_id:
isi:
- '000976610800001'
pmid:
- '37004199'
file:
- access_level: open_access
checksum: 2cb90ddf781baefddf47eac4b54e2a03
content_type: application/pdf
creator: dernst
date_created: 2023-05-02T07:39:04Z
date_updated: 2023-05-02T07:39:04Z
file_id: '12886'
file_name: 2023_Bioinformatics_Benes.pdf
file_size: 478740
relation: main_file
success: 1
file_date_updated: 2023-05-02T07:39:04Z
has_accepted_license: '1'
intvolume: ' 39'
isi: 1
issue: '4'
language:
- iso: eng
month: '04'
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: Bioinformatics
publication_identifier:
eissn:
- 1367-4811
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://doi.org/10.5281/zenodo.7688740
scopus_import: '1'
status: public
title: 'Boolean network sketches: A unifying framework for logical model inference'
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: 39
year: '2023'
...
---
_id: '12877'
abstract:
- lang: eng
text: We consider billiards obtained by removing from the plane finitely many strictly
convex analytic obstacles satisfying the non-eclipse condition. The restriction
of the dynamics to the set of non-escaping orbits is conjugated to a subshift,
which provides a natural labeling of periodic orbits. We show that under suitable
symmetry and genericity assumptions, the Marked Length Spectrum determines the
geometry of the billiard table.
acknowledgement: 'J.D.S. and M.L. have been partially supported by the NSERC Discovery
grant, reference number 502617-2017. M.L. was also supported by the ERC project
692925 NUHGD of Sylvain Crovisier, by the ANR AAPG 2021 PRC CoSyDy: Conformally
symplectic dynamics, beyond symplectic dynamics (ANR-CE40-0014), and by the ANR
JCJC PADAWAN: Parabolic dynamics, bifurcations and wandering domains (ANR-21-CE40-0012).
V.K. acknowledges partial support of the NSF grant DMS-1402164 and ERC Grant # 885707.'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Jacopo
full_name: De Simoi, Jacopo
last_name: De Simoi
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
- first_name: Martin
full_name: Leguil, Martin
last_name: Leguil
citation:
ama: De Simoi J, Kaloshin V, Leguil M. Marked Length Spectral determination of analytic
chaotic billiards with axial symmetries. Inventiones Mathematicae. 2023;233:829-901.
doi:10.1007/s00222-023-01191-8
apa: De Simoi, J., Kaloshin, V., & Leguil, M. (2023). Marked Length Spectral
determination of analytic chaotic billiards with axial symmetries. Inventiones
Mathematicae. Springer Nature. https://doi.org/10.1007/s00222-023-01191-8
chicago: De Simoi, Jacopo, Vadim Kaloshin, and Martin Leguil. “Marked Length Spectral
Determination of Analytic Chaotic Billiards with Axial Symmetries.” Inventiones
Mathematicae. Springer Nature, 2023. https://doi.org/10.1007/s00222-023-01191-8.
ieee: J. De Simoi, V. Kaloshin, and M. Leguil, “Marked Length Spectral determination
of analytic chaotic billiards with axial symmetries,” Inventiones Mathematicae,
vol. 233. Springer Nature, pp. 829–901, 2023.
ista: De Simoi J, Kaloshin V, Leguil M. 2023. Marked Length Spectral determination
of analytic chaotic billiards with axial symmetries. Inventiones Mathematicae.
233, 829–901.
mla: De Simoi, Jacopo, et al. “Marked Length Spectral Determination of Analytic
Chaotic Billiards with Axial Symmetries.” Inventiones Mathematicae, vol.
233, Springer Nature, 2023, pp. 829–901, doi:10.1007/s00222-023-01191-8.
short: J. De Simoi, V. Kaloshin, M. Leguil, Inventiones Mathematicae 233 (2023)
829–901.
date_created: 2023-04-30T22:01:05Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2025-04-14T07:53:46Z
day: '01'
department:
- _id: VaKa
doi: 10.1007/s00222-023-01191-8
ec_funded: 1
external_id:
arxiv:
- '1905.00890'
isi:
- '000978887600001'
intvolume: ' 233'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1905.00890
month: '08'
oa: 1
oa_version: Preprint
page: 829-901
project:
- _id: 9B8B92DE-BA93-11EA-9121-9846C619BF3A
call_identifier: H2020
grant_number: '885707'
name: Spectral rigidity and integrability for billiards and geodesic flows
publication: Inventiones Mathematicae
publication_identifier:
eissn:
- 1432-1297
issn:
- 0020-9910
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Marked Length Spectral determination of analytic chaotic billiards with axial
symmetries
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 233
year: '2023'
...
---
OA_place: publisher
OA_type: free access
_id: '12878'
abstract:
- lang: eng
text: Salicylic acid (SA) plays important roles in different aspects of plant development,
including root growth, where auxin is also a major player by means of its asymmetric
distribution. However, the mechanism underlying the effect of SA on the development
of rice roots remains poorly understood. Here, we show that SA inhibits rice root
growth by interfering with auxin transport associated with the OsPIN3t- and clathrin-mediated
gene regulatory network (GRN). SA inhibits root growth as well as Brefeldin A-sensitive
trafficking through a non-canonical SA signaling mechanism. Transcriptome analysis
of rice seedlings treated with SA revealed that the OsPIN3t auxin transporter
is at the center of a GRN involving the coat protein clathrin. The root growth
and endocytic trafficking in both the pin3t and clathrin heavy chain mutants were
SA insensitivity. SA inhibitory effect on the endocytosis of OsPIN3t was dependent
on clathrin; however, the root growth and endocytic trafficking mediated by tyrphostin
A23 (TyrA23) were independent of the pin3t mutant under SA treatment. These data
reveal that SA affects rice root growth through the convergence of transcriptional
and non-SA signaling mechanisms involving OsPIN3t-mediated auxin transport and
clathrin-mediated trafficking as key components.
acknowledgement: The authors thank Professor Jianqiang Wu (Kunming Institute of Botany,
Chinese Academy of Sciences) for support with phytohormone measurement. Thanks also
go to Professor Pieter. B. F. Ouwerkerk (Leiden University) and Professor Jean-Benoit
Morel (Plant Health Institute of Montpellier) for provision of the rice lines NB-7B-70
and NB-7B-76 and wild-type NB-61-WT, Professor Zuhua He (Chinese Academy of Sciences)
for provision of the rice OsNPR1-RNAi mutant, and Professor Yinong Yang (The Pennsylvania
State University) for provision of the rice line NahG. This work was supported by
grants from the National Natural Science Foundation of China (Grant Nos. 32260085,
31460453, 31660501, 31860064, 31970609, 31801792 and 31960554), the Key Projects
of the Applied Basic Research Plan of Yunnan Province (202301AS070082), the Major
Special Program for Scientific Research, Education Department of Yunnan Province
(Grant No. ZD2015005), the Start-up fund from Xishuangbanna Tropical Botanical Garden,
and ‘Top Talents Program in Science and Technology’ from Yunnan Province, the SRF
for ROCS, SEM (Grant No. [2013] 1792), and the Major Science and Technology Project
in Yunnan Province (202102AE090042 and 202202AE090036); and the young and middle-aged
academic and technical leaders reserve talent program in Yunnan Province (202205AC160076).
article_processing_charge: No
article_type: original
author:
- first_name: Lihui
full_name: Jiang, Lihui
last_name: Jiang
- first_name: Baolin
full_name: Yao, Baolin
last_name: Yao
- first_name: Xiaoyan
full_name: Zhang, Xiaoyan
last_name: Zhang
- first_name: Lixia
full_name: Wu, Lixia
last_name: Wu
- first_name: Qijing
full_name: Fu, Qijing
last_name: Fu
- first_name: Yiting
full_name: Zhao, Yiting
last_name: Zhao
- first_name: Yuxin
full_name: Cao, Yuxin
last_name: Cao
- first_name: Ruomeng
full_name: Zhu, Ruomeng
last_name: Zhu
- first_name: Xinqi
full_name: Lu, Xinqi
last_name: Lu
- first_name: Wuying
full_name: Huang, Wuying
last_name: Huang
- first_name: Jianping
full_name: Zhao, Jianping
last_name: Zhao
- first_name: Kuixiu
full_name: Li, Kuixiu
last_name: Li
- first_name: Shuanglu
full_name: Zhao, Shuanglu
last_name: Zhao
- first_name: Li
full_name: Han, Li
last_name: Han
- first_name: Xuan
full_name: Zhou, Xuan
last_name: Zhou
- first_name: Chongyu
full_name: Luo, Chongyu
last_name: Luo
- first_name: Haiyan
full_name: Zhu, Haiyan
last_name: Zhu
- first_name: Jing
full_name: Yang, Jing
last_name: Yang
- first_name: Huichuan
full_name: Huang, Huichuan
last_name: Huang
- first_name: Zhengge
full_name: Zhu, Zhengge
last_name: Zhu
- first_name: Xiahong
full_name: He, Xiahong
last_name: He
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Zhongkai
full_name: Zhang, Zhongkai
last_name: Zhang
- first_name: Changning
full_name: Liu, Changning
last_name: Liu
- first_name: Yunlong
full_name: Du, Yunlong
last_name: Du
citation:
ama: Jiang L, Yao B, Zhang X, et al. Salicylic acid inhibits rice endocytic protein
trafficking mediated by OsPIN3t and clathrin to affect root growth. Plant Journal.
2023;115(1):155-174. doi:10.1111/tpj.16218
apa: Jiang, L., Yao, B., Zhang, X., Wu, L., Fu, Q., Zhao, Y., … Du, Y. (2023). Salicylic
acid inhibits rice endocytic protein trafficking mediated by OsPIN3t and clathrin
to affect root growth. Plant Journal. Wiley. https://doi.org/10.1111/tpj.16218
chicago: Jiang, Lihui, Baolin Yao, Xiaoyan Zhang, Lixia Wu, Qijing Fu, Yiting Zhao,
Yuxin Cao, et al. “Salicylic Acid Inhibits Rice Endocytic Protein Trafficking
Mediated by OsPIN3t and Clathrin to Affect Root Growth.” Plant Journal.
Wiley, 2023. https://doi.org/10.1111/tpj.16218.
ieee: L. Jiang et al., “Salicylic acid inhibits rice endocytic protein trafficking
mediated by OsPIN3t and clathrin to affect root growth,” Plant Journal,
vol. 115, no. 1. Wiley, pp. 155–174, 2023.
ista: Jiang L, Yao B, Zhang X, Wu L, Fu Q, Zhao Y, Cao Y, Zhu R, Lu X, Huang W,
Zhao J, Li K, Zhao S, Han L, Zhou X, Luo C, Zhu H, Yang J, Huang H, Zhu Z, He
X, Friml J, Zhang Z, Liu C, Du Y. 2023. Salicylic acid inhibits rice endocytic
protein trafficking mediated by OsPIN3t and clathrin to affect root growth. Plant
Journal. 115(1), 155–174.
mla: Jiang, Lihui, et al. “Salicylic Acid Inhibits Rice Endocytic Protein Trafficking
Mediated by OsPIN3t and Clathrin to Affect Root Growth.” Plant Journal,
vol. 115, no. 1, Wiley, 2023, pp. 155–74, doi:10.1111/tpj.16218.
short: L. Jiang, B. Yao, X. Zhang, L. Wu, Q. Fu, Y. Zhao, Y. Cao, R. Zhu, X. Lu,
W. Huang, J. Zhao, K. Li, S. Zhao, L. Han, X. Zhou, C. Luo, H. Zhu, J. Yang, H.
Huang, Z. Zhu, X. He, J. Friml, Z. Zhang, C. Liu, Y. Du, Plant Journal 115 (2023)
155–174.
date_created: 2023-04-30T22:01:06Z
date_published: 2023-07-01T00:00:00Z
date_updated: 2025-06-25T08:50:43Z
day: '01'
department:
- _id: JiFr
doi: 10.1111/tpj.16218
external_id:
isi:
- '000971861400001'
pmid:
- '37025008 '
intvolume: ' 115'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1111/tpj.16218
month: '07'
oa: 1
oa_version: Published Version
page: 155-174
pmid: 1
publication: Plant Journal
publication_identifier:
eissn:
- 1365-313X
issn:
- 0960-7412
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Salicylic acid inhibits rice endocytic protein trafficking mediated by OsPIN3t
and clathrin to affect root growth
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 115
year: '2023'
...