---
_id: '13173'
abstract:
- lang: eng
text: GABAB receptor (GBR) activation inhibits neurotransmitter release in axon
terminals in the brain, except in medial habenula (MHb) terminals, which show
robust potentiation. However, mechanisms underlying this enigmatic potentiation
remain elusive. Here, we report that GBR activation on MHb terminals induces an
activity-dependent transition from a facilitating, tonic to a depressing, phasic
neurotransmitter release mode. This transition is accompanied by a 4.1-fold increase
in readily releasable vesicle pool (RRP) size and a 3.5-fold increase of docked
synaptic vesicles at the presynaptic active zone (AZ). Strikingly, tonic and phasic
release exhibit distinct coupling distances and are selectively affected by deletion
of synaptoporin (SPO) and Ca2+-dependent activator protein for secretion 2 (CAPS2),
respectively. SPO modulates augmentation, the short-term plasticity associated
with tonic release, and CAPS2 retains the increased RRP for initial responses
in phasic response trains. Double pre-embedding immunolabeling confirmed the co-localization
of CAPS2 and SPO inside the same terminal. The cytosolic protein CAPS2 showed
a synaptic vesicle (SV)-associated distribution similar to the vesicular transmembrane
protein SPO. A newly developed “Flash and Freeze-fracture” method revealed the
release of SPO-associated vesicles in both tonic and phasic modes and activity-dependent
recruitment of CAPS2 to the AZ during phasic release, which lasted several minutes.
Overall, these results indicate that GBR activation translocates CAPS2 to the
AZ along with the fusion of CAPS2-associated SVs, contributing to a persistent
RRP increase. Thus, we discovered structural and molecular mechanisms underlying
tonic and phasic neurotransmitter release and their transition by GBR activation
in MHb terminals.
article_processing_charge: No
author:
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
citation:
ama: Shigemoto R. Transition from tonic to phasic neurotransmitter release by presynaptic
GABAB receptor activation in medial habenula terminals. 2023. doi:10.15479/AT:ISTA:13173
apa: Shigemoto, R. (2023). Transition from tonic to phasic neurotransmitter release
by presynaptic GABAB receptor activation in medial habenula terminals. Institute
of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:13173
chicago: Shigemoto, Ryuichi. “Transition from Tonic to Phasic Neurotransmitter Release
by Presynaptic GABAB Receptor Activation in Medial Habenula Terminals.” Institute
of Science and Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:13173.
ieee: R. Shigemoto, “Transition from tonic to phasic neurotransmitter release by
presynaptic GABAB receptor activation in medial habenula terminals.” Institute
of Science and Technology Austria, 2023.
ista: Shigemoto R. 2023. Transition from tonic to phasic neurotransmitter release
by presynaptic GABAB receptor activation in medial habenula terminals, Institute
of Science and Technology Austria, 10.15479/AT:ISTA:13173.
mla: Shigemoto, Ryuichi. Transition from Tonic to Phasic Neurotransmitter Release
by Presynaptic GABAB Receptor Activation in Medial Habenula Terminals. Institute
of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:13173.
short: R. Shigemoto, (2023).
corr_author: '1'
date_created: 2023-06-29T13:16:42Z
date_published: 2023-07-29T00:00:00Z
date_updated: 2025-09-04T12:16:24Z
day: '29'
ddc:
- '571'
department:
- _id: RySh
doi: 10.15479/AT:ISTA:13173
file:
- access_level: closed
checksum: ed59170869ba621f89f7c1894092192f
content_type: application/x-zip-compressed
creator: shigemot
date_created: 2023-06-29T13:11:22Z
date_updated: 2023-11-17T14:30:44Z
description: After review an updated version of the data is provided
file_id: '13174'
file_name: Raw data for Koppensteiner et al.zip
file_size: 542873672
relation: main_file
title: Outdated Version
- access_level: open_access
checksum: c07860eb82b4d367245f1b589fe5c250
content_type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet
creator: patrickd
date_created: 2023-11-17T14:13:02Z
date_updated: 2023-11-17T14:13:02Z
file_id: '14550'
file_name: 11-17-23 Updated Koppensteiner et al. raw data.xlsx
file_size: 915079
relation: main_file
success: 1
- access_level: open_access
checksum: abf84b1699edac4349dc3a92d466fb7b
content_type: application/x-zip-compressed
creator: dernst
date_created: 2024-02-06T07:21:43Z
date_updated: 2024-02-06T07:21:43Z
file_id: '14942'
file_name: EM_Images.zip
file_size: 544868924
relation: main_file
success: 1
file_date_updated: 2024-02-06T07:21:43Z
has_accepted_license: '1'
keyword:
- medial habenula
- GABAB receptor
- vesicle release
- Flash and Freeze
- Flash and Freeze-fracture
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '07'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '15084'
relation: used_in_publication
status: public
status: public
title: Transition from tonic to phasic neurotransmitter release by presynaptic GABAB
receptor activation in medial habenula terminals
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13177'
abstract:
- lang: eng
text: In this note we study the eigenvalue growth of infinite graphs with discrete
spectrum. We assume that the corresponding Dirichlet forms satisfy certain Sobolev-type
inequalities and that the total measure is finite. In this sense, the associated
operators on these graphs display similarities to elliptic operators on bounded
domains in the continuum. Specifically, we prove lower bounds on the eigenvalue
growth and show by examples that corresponding upper bounds cannot be established.
acknowledgement: The second author was supported by the priority program SPP2026 of
the German Research Foundation (DFG). The fourth author was supported by the German
Academic Scholarship Foundation (Studienstiftung des deutschen Volkes) and by the
German Research Foundation (DFG) via RTG 1523/2.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Bobo
full_name: Hua, Bobo
last_name: Hua
- first_name: Matthias
full_name: Keller, Matthias
last_name: Keller
- first_name: Michael
full_name: Schwarz, Michael
last_name: Schwarz
- first_name: Melchior
full_name: Wirth, Melchior
id: 88644358-0A0E-11EA-8FA5-49A33DDC885E
last_name: Wirth
orcid: 0000-0002-0519-4241
citation:
ama: Hua B, Keller M, Schwarz M, Wirth M. Sobolev-type inequalities and eigenvalue
growth on graphs with finite measure. Proceedings of the American Mathematical
Society. 2023;151(8):3401-3414. doi:10.1090/proc/14361
apa: Hua, B., Keller, M., Schwarz, M., & Wirth, M. (2023). Sobolev-type inequalities
and eigenvalue growth on graphs with finite measure. Proceedings of the American
Mathematical Society. American Mathematical Society. https://doi.org/10.1090/proc/14361
chicago: Hua, Bobo, Matthias Keller, Michael Schwarz, and Melchior Wirth. “Sobolev-Type
Inequalities and Eigenvalue Growth on Graphs with Finite Measure.” Proceedings
of the American Mathematical Society. American Mathematical Society, 2023.
https://doi.org/10.1090/proc/14361.
ieee: B. Hua, M. Keller, M. Schwarz, and M. Wirth, “Sobolev-type inequalities and
eigenvalue growth on graphs with finite measure,” Proceedings of the American
Mathematical Society, vol. 151, no. 8. American Mathematical Society, pp.
3401–3414, 2023.
ista: Hua B, Keller M, Schwarz M, Wirth M. 2023. Sobolev-type inequalities and eigenvalue
growth on graphs with finite measure. Proceedings of the American Mathematical
Society. 151(8), 3401–3414.
mla: Hua, Bobo, et al. “Sobolev-Type Inequalities and Eigenvalue Growth on Graphs
with Finite Measure.” Proceedings of the American Mathematical Society,
vol. 151, no. 8, American Mathematical Society, 2023, pp. 3401–14, doi:10.1090/proc/14361.
short: B. Hua, M. Keller, M. Schwarz, M. Wirth, Proceedings of the American Mathematical
Society 151 (2023) 3401–3414.
corr_author: '1'
date_created: 2023-07-02T22:00:43Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2024-10-09T21:05:50Z
day: '01'
department:
- _id: JaMa
doi: 10.1090/proc/14361
external_id:
arxiv:
- '1804.08353'
isi:
- '000988204400001'
intvolume: ' 151'
isi: 1
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.48550/arXiv.1804.08353'
month: '08'
oa: 1
oa_version: Preprint
page: 3401-3414
publication: Proceedings of the American Mathematical Society
publication_identifier:
eissn:
- 1088-6826
issn:
- 0002-9939
publication_status: published
publisher: American Mathematical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Sobolev-type inequalities and eigenvalue growth on graphs with finite measure
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 151
year: '2023'
...
---
_id: '13178'
abstract:
- lang: eng
text: We consider the large polaron described by the Fröhlich Hamiltonian and study
its energy-momentum relation defined as the lowest possible energy as a function
of the total momentum. Using a suitable family of trial states, we derive an optimal
parabolic upper bound for the energy-momentum relation in the limit of strong
coupling. The upper bound consists of a momentum independent term that agrees
with the predicted two-term expansion for the ground state energy of the strongly
coupled polaron at rest and a term that is quadratic in the momentum with coefficient
given by the inverse of twice the classical effective mass introduced by Landau
and Pekar.
acknowledgement: This research was supported by the European Research Council (ERC)
under the European Union’s Horizon 2020 research and innovation programme grant
agreement No. 694227 (R.S.) and the Maria Skłodowska-Curie grant agreement No. 665386
(K.M.).
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: David Johannes
full_name: Mitrouskas, David Johannes
id: cbddacee-2b11-11eb-a02e-a2e14d04e52d
last_name: Mitrouskas
- first_name: Krzysztof
full_name: Mysliwy, Krzysztof
id: 316457FC-F248-11E8-B48F-1D18A9856A87
last_name: Mysliwy
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Mitrouskas DJ, Mysliwy K, Seiringer R. Optimal parabolic upper bound for the
energy-momentum relation of a strongly coupled polaron. Forum of Mathematics.
2023;11:1-52. doi:10.1017/fms.2023.45
apa: Mitrouskas, D. J., Mysliwy, K., & Seiringer, R. (2023). Optimal parabolic
upper bound for the energy-momentum relation of a strongly coupled polaron. Forum
of Mathematics. Cambridge University Press. https://doi.org/10.1017/fms.2023.45
chicago: Mitrouskas, David Johannes, Krzysztof Mysliwy, and Robert Seiringer. “Optimal
Parabolic Upper Bound for the Energy-Momentum Relation of a Strongly Coupled Polaron.”
Forum of Mathematics. Cambridge University Press, 2023. https://doi.org/10.1017/fms.2023.45.
ieee: D. J. Mitrouskas, K. Mysliwy, and R. Seiringer, “Optimal parabolic upper bound
for the energy-momentum relation of a strongly coupled polaron,” Forum of Mathematics,
vol. 11. Cambridge University Press, pp. 1–52, 2023.
ista: Mitrouskas DJ, Mysliwy K, Seiringer R. 2023. Optimal parabolic upper bound
for the energy-momentum relation of a strongly coupled polaron. Forum of Mathematics.
11, 1–52.
mla: Mitrouskas, David Johannes, et al. “Optimal Parabolic Upper Bound for the Energy-Momentum
Relation of a Strongly Coupled Polaron.” Forum of Mathematics, vol. 11,
Cambridge University Press, 2023, pp. 1–52, doi:10.1017/fms.2023.45.
short: D.J. Mitrouskas, K. Mysliwy, R. Seiringer, Forum of Mathematics 11 (2023)
1–52.
corr_author: '1'
date_created: 2023-07-02T22:00:43Z
date_published: 2023-06-13T00:00:00Z
date_updated: 2025-04-14T07:26:58Z
day: '13'
ddc:
- '500'
department:
- _id: RoSe
doi: 10.1017/fms.2023.45
ec_funded: 1
external_id:
arxiv:
- '2203.02454'
isi:
- '001005008800001'
file:
- access_level: open_access
checksum: f672eb7dd015c472c9a04f1b9bf9df7d
content_type: application/pdf
creator: alisjak
date_created: 2023-07-03T10:36:25Z
date_updated: 2023-07-03T10:36:25Z
file_id: '13186'
file_name: 2023_ForumofMathematics.Sigma_Mitrouskas.pdf
file_size: 943192
relation: main_file
success: 1
file_date_updated: 2023-07-03T10:36:25Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 1-52
project:
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
publication: Forum of Mathematics
publication_identifier:
eissn:
- 2050-5094
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Optimal parabolic upper bound for the energy-momentum relation of a strongly
coupled polaron
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: 11
year: '2023'
...
---
_id: '13179'
abstract:
- lang: eng
text: "Writing concurrent code that is both correct and efficient is notoriously
difficult. Thus, programmers often prefer to use synchronization abstractions,
which render code simpler and easier to reason about. Despite a wealth of work
on this topic, there is still a gap between the rich semantics provided by synchronization
abstractions in modern programming languages—specifically, fair FIFO ordering
of synchronization requests and support for abortable operations—and frameworks
for implementing it correctly and efficiently. Supporting such semantics is critical
given the rising popularity of constructs for asynchronous programming, such as
coroutines, which abort frequently and are cheaper to suspend and resume compared
to native threads.\r\n\r\nThis paper introduces a new framework called CancellableQueueSynchronizer
(CQS), which enables simple yet efficient implementations of a wide range of fair
and abortable synchronization primitives: mutexes, semaphores, barriers, count-down
latches, and blocking pools. Our main contribution is algorithmic, as implementing
both fairness and abortability efficiently at this level of generality is non-trivial.
Importantly, all our algorithms, including the CQS framework and the primitives
built on top of it, come with formal proofs in the Iris framework for Coq for
many of their properties. These proofs are modular, so it is easy to show correctness
for new primitives implemented on top of CQS. From a practical perspective, implementation
of CQS for native threads on the JVM improves throughput by up to two orders of
magnitude over Java’s AbstractQueuedSynchronizer, the only practical abstraction
offering similar semantics. Further, we successfully integrated CQS as a core
component of the popular Kotlin Coroutines library, validating the framework’s
practical impact and expressiveness in a real-world environment. In sum, CancellableQueueSynchronizer
is the first framework to combine expressiveness with formal guarantees and solid
practical performance. Our approach should be extensible to other languages and
families of synchronization primitives."
article_number: '116'
article_processing_charge: No
article_type: original
author:
- first_name: Nikita
full_name: Koval, Nikita
id: 2F4DB10C-F248-11E8-B48F-1D18A9856A87
last_name: Koval
- first_name: Dmitry
full_name: Khalanskiy, Dmitry
last_name: Khalanskiy
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
citation:
ama: 'Koval N, Khalanskiy D, Alistarh D-A. CQS: A formally-verified framework for
fair and abortable synchronization. Proceedings of the ACM on Programming Languages.
2023;7. doi:10.1145/3591230'
apa: 'Koval, N., Khalanskiy, D., & Alistarh, D.-A. (2023). CQS: A formally-verified
framework for fair and abortable synchronization. Proceedings of the ACM on
Programming Languages. Association for Computing Machinery . https://doi.org/10.1145/3591230'
chicago: 'Koval, Nikita, Dmitry Khalanskiy, and Dan-Adrian Alistarh. “CQS: A Formally-Verified
Framework for Fair and Abortable Synchronization.” Proceedings of the ACM on
Programming Languages. Association for Computing Machinery , 2023. https://doi.org/10.1145/3591230.'
ieee: 'N. Koval, D. Khalanskiy, and D.-A. Alistarh, “CQS: A formally-verified framework
for fair and abortable synchronization,” Proceedings of the ACM on Programming
Languages, vol. 7. Association for Computing Machinery , 2023.'
ista: 'Koval N, Khalanskiy D, Alistarh D-A. 2023. CQS: A formally-verified framework
for fair and abortable synchronization. Proceedings of the ACM on Programming
Languages. 7, 116.'
mla: 'Koval, Nikita, et al. “CQS: A Formally-Verified Framework for Fair and Abortable
Synchronization.” Proceedings of the ACM on Programming Languages, vol.
7, 116, Association for Computing Machinery , 2023, doi:10.1145/3591230.'
short: N. Koval, D. Khalanskiy, D.-A. Alistarh, Proceedings of the ACM on Programming
Languages 7 (2023).
corr_author: '1'
date_created: 2023-07-02T22:00:43Z
date_published: 2023-06-06T00:00:00Z
date_updated: 2024-10-09T21:05:51Z
day: '06'
ddc:
- '000'
department:
- _id: DaAl
doi: 10.1145/3591230
file:
- access_level: open_access
checksum: 5dba6e73f0ed79adbdae14d165bc2f68
content_type: application/pdf
creator: alisjak
date_created: 2023-07-03T13:09:39Z
date_updated: 2023-07-03T13:09:39Z
file_id: '13187'
file_name: 2023_ACMProgram.Lang._Koval.pdf
file_size: 1266773
relation: main_file
success: 1
file_date_updated: 2023-07-03T13:09:39Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: Proceedings of the ACM on Programming Languages
publication_identifier:
eissn:
- 2475-1421
publication_status: published
publisher: 'Association for Computing Machinery '
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'CQS: A formally-verified framework for fair and abortable synchronization'
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: 7
year: '2023'
...
---
_id: '13180'
abstract:
- lang: eng
text: We study the density of everywhere locally soluble diagonal quadric surfaces,
parameterised by rational points that lie on a split quadric surface
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Timothy D
full_name: Browning, Timothy D
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
- first_name: Julian
full_name: Lyczak, Julian
id: 3572849A-F248-11E8-B48F-1D18A9856A87
last_name: Lyczak
- first_name: Roman
full_name: Sarapin, Roman
last_name: Sarapin
citation:
ama: Browning TD, Lyczak J, Sarapin R. Local solubility for a family of quadrics
over a split quadric surface. Involve. 2023;16(2):331-342. doi:10.2140/involve.2023.16.331
apa: Browning, T. D., Lyczak, J., & Sarapin, R. (2023). Local solubility for
a family of quadrics over a split quadric surface. Involve. Mathematical
Sciences Publishers. https://doi.org/10.2140/involve.2023.16.331
chicago: Browning, Timothy D, Julian Lyczak, and Roman Sarapin. “Local Solubility
for a Family of Quadrics over a Split Quadric Surface.” Involve. Mathematical
Sciences Publishers, 2023. https://doi.org/10.2140/involve.2023.16.331.
ieee: T. D. Browning, J. Lyczak, and R. Sarapin, “Local solubility for a family
of quadrics over a split quadric surface,” Involve, vol. 16, no. 2. Mathematical
Sciences Publishers, pp. 331–342, 2023.
ista: Browning TD, Lyczak J, Sarapin R. 2023. Local solubility for a family of quadrics
over a split quadric surface. Involve. 16(2), 331–342.
mla: Browning, Timothy D., et al. “Local Solubility for a Family of Quadrics over
a Split Quadric Surface.” Involve, vol. 16, no. 2, Mathematical Sciences
Publishers, 2023, pp. 331–42, doi:10.2140/involve.2023.16.331.
short: T.D. Browning, J. Lyczak, R. Sarapin, Involve 16 (2023) 331–342.
corr_author: '1'
date_created: 2023-07-02T22:00:43Z
date_published: 2023-05-26T00:00:00Z
date_updated: 2024-10-09T21:05:51Z
day: '26'
department:
- _id: TiBr
doi: 10.2140/involve.2023.16.331
external_id:
arxiv:
- '2203.06881'
intvolume: ' 16'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2203.06881
month: '05'
oa: 1
oa_version: Preprint
page: 331-342
publication: Involve
publication_identifier:
eissn:
- 1944-4184
issn:
- 1944-4176
publication_status: published
publisher: Mathematical Sciences Publishers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Local solubility for a family of quadrics over a split quadric surface
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 16
year: '2023'
...
---
_id: '13197'
abstract:
- lang: eng
text: "Nominally identical materials exchange net electric charge during contact
through a mechanism that is still debated. ‘Mosaic models’, in which surfaces
are presumed to consist of a random patchwork of microscopic donor/acceptor sites,
offer an appealing explanation for this phenomenon. However, recent experiments
have shown that global differences persist even between same-material samples,
which the standard mosaic framework does not account for. Here, we expand the
mosaic framework by incorporating global differences in the densities of donor/acceptor
sites. We develop\r\nan analytical model, backed by numerical simulations, that
smoothly connects the global and deterministic charge transfer of different materials
to the local and stochastic mosaic picture normally associated with identical
materials. Going further, we extend our model to explain the effect of contact
asymmetries during sliding, providing a plausible explanation for reversal of
charging sign that has been observed experimentally."
acknowledgement: "This project has received funding from the European Research Council
Grant Agreement No. 949120 and from\r\nthe European Union’s Horizon 2020 research
and innovation program under the Marie Sklodowska-Curie Grant\r\nAgreement No. 754411. "
article_number: '065601'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Galien M
full_name: Grosjean, Galien M
id: 0C5FDA4A-9CF6-11E9-8939-FF05E6697425
last_name: Grosjean
orcid: 0000-0001-5154-417X
- first_name: Scott R
full_name: Waitukaitis, Scott R
id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
last_name: Waitukaitis
orcid: 0000-0002-2299-3176
citation:
ama: 'Grosjean GM, Waitukaitis SR. Asymmetries in triboelectric charging: Generalizing
mosaic models to different-material samples and sliding contacts. Physical
Review Materials. 2023;7(6). doi:10.1103/physrevmaterials.7.065601'
apa: 'Grosjean, G. M., & Waitukaitis, S. R. (2023). Asymmetries in triboelectric
charging: Generalizing mosaic models to different-material samples and sliding
contacts. Physical Review Materials. American Physical Society. https://doi.org/10.1103/physrevmaterials.7.065601'
chicago: 'Grosjean, Galien M, and Scott R Waitukaitis. “Asymmetries in Triboelectric
Charging: Generalizing Mosaic Models to Different-Material Samples and Sliding
Contacts.” Physical Review Materials. American Physical Society, 2023.
https://doi.org/10.1103/physrevmaterials.7.065601.'
ieee: 'G. M. Grosjean and S. R. Waitukaitis, “Asymmetries in triboelectric charging:
Generalizing mosaic models to different-material samples and sliding contacts,”
Physical Review Materials, vol. 7, no. 6. American Physical Society, 2023.'
ista: 'Grosjean GM, Waitukaitis SR. 2023. Asymmetries in triboelectric charging:
Generalizing mosaic models to different-material samples and sliding contacts.
Physical Review Materials. 7(6), 065601.'
mla: 'Grosjean, Galien M., and Scott R. Waitukaitis. “Asymmetries in Triboelectric
Charging: Generalizing Mosaic Models to Different-Material Samples and Sliding
Contacts.” Physical Review Materials, vol. 7, no. 6, 065601, American Physical
Society, 2023, doi:10.1103/physrevmaterials.7.065601.'
short: G.M. Grosjean, S.R. Waitukaitis, Physical Review Materials 7 (2023).
corr_author: '1'
date_created: 2023-07-07T12:48:01Z
date_published: 2023-06-13T00:00:00Z
date_updated: 2025-04-14T07:43:55Z
day: '13'
ddc:
- '537'
department:
- _id: ScWa
doi: 10.1103/physrevmaterials.7.065601
ec_funded: 1
external_id:
arxiv:
- '2304.12861'
isi:
- '001019565900002'
file:
- access_level: open_access
checksum: 75584730d9cdd50eeccb4c52c509776d
content_type: application/pdf
creator: ggrosjea
date_created: 2023-07-07T12:49:51Z
date_updated: 2023-07-07T12:49:51Z
file_id: '13198'
file_name: Mosaic_asymmetries.pdf
file_size: 1127040
relation: main_file
success: 1
file_date_updated: 2023-07-07T12:49:51Z
has_accepted_license: '1'
intvolume: ' 7'
isi: 1
issue: '6'
keyword:
- Physics and Astronomy (miscellaneous)
- General Materials Science
language:
- iso: eng
month: '06'
oa: 1
oa_version: Submitted Version
project:
- _id: 0aa60e99-070f-11eb-9043-a6de6bdc3afa
call_identifier: H2020
grant_number: '949120'
name: 'Tribocharge: a multi-scale approach to an enduring problem in physics'
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Physical Review Materials
publication_identifier:
issn:
- 2475-9953
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Asymmetries in triboelectric charging: Generalizing mosaic models to different-material
samples and sliding contacts'
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 7
year: '2023'
...
---
_id: '13202'
abstract:
- lang: eng
text: Phosphatidylinositol-4,5-bisphosphate (PI(4,5)P2) plays an essential role
in neuronal activities through interaction with various proteins involved in signaling
at membranes. However, the distribution pattern of PI(4,5)P2 and the association
with these proteins on the neuronal cell membranes remain elusive. In this study,
we established a method for visualizing PI(4,5)P2 by SDS-digested freeze-fracture
replica labeling (SDS-FRL) to investigate the quantitative nanoscale distribution
of PI(4,5)P2 in cryo-fixed brain. We demonstrate that PI(4,5)P2 forms tiny clusters
with a mean size of ∼1000 nm2 rather than randomly distributed in cerebellar neuronal
membranes in male C57BL/6J mice. These clusters show preferential accumulation
in specific membrane compartments of different cell types, in particular, in Purkinje
cell (PC) spines and granule cell (GC) presynaptic active zones. Furthermore,
we revealed extensive association of PI(4,5)P2 with CaV2.1 and GIRK3 across different
membrane compartments, whereas its association with mGluR1α was compartment specific.
These results suggest that our SDS-FRL method provides valuable insights into
the physiological functions of PI(4,5)P2 in neurons.
acknowledged_ssus:
- _id: EM-Fac
acknowledgement: This work was supported by The Institute of Science and Technology
(IST) Austria, the European Union's Horizon 2020 Research and Innovation Program
under the Marie Skłodowska-Curie Grant Agreement No. 793482 (to K.E.) and by the
European Research Council (ERC) Grant Agreement No. 694539 (to R.S.). We thank Nicoleta
Condruz (IST Austria, Klosterneuburg, Austria) for technical assistance with sample
preparation, the Electron Microscopy Facility of IST Austria (Klosterneuburg, Austria)
for technical support with EM works, Natalia Baranova (University of Vienna, Vienna,
Austria) and Martin Loose (IST Austria, Klosterneuburg, Austria) for advice on liposome
preparation, and Yugo Fukazawa (University of Fukui, Fukui, Japan) for comments.
article_processing_charge: No
article_type: original
author:
- first_name: Kohgaku
full_name: Eguchi, Kohgaku
id: 2B7846DC-F248-11E8-B48F-1D18A9856A87
last_name: Eguchi
orcid: 0000-0002-6170-2546
- first_name: Elodie
full_name: Le Monnier, Elodie
id: 3B59276A-F248-11E8-B48F-1D18A9856A87
last_name: Le Monnier
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
citation:
ama: Eguchi K, Le Monnier E, Shigemoto R. Nanoscale phosphoinositide distribution
on cell membranes of mouse cerebellar neurons. The Journal of Neuroscience.
2023;43(23):4197-4216. doi:10.1523/JNEUROSCI.1514-22.2023
apa: Eguchi, K., Le Monnier, E., & Shigemoto, R. (2023). Nanoscale phosphoinositide
distribution on cell membranes of mouse cerebellar neurons. The Journal of
Neuroscience. Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.1514-22.2023
chicago: Eguchi, Kohgaku, Elodie Le Monnier, and Ryuichi Shigemoto. “Nanoscale Phosphoinositide
Distribution on Cell Membranes of Mouse Cerebellar Neurons.” The Journal of
Neuroscience. Society for Neuroscience, 2023. https://doi.org/10.1523/JNEUROSCI.1514-22.2023.
ieee: K. Eguchi, E. Le Monnier, and R. Shigemoto, “Nanoscale phosphoinositide distribution
on cell membranes of mouse cerebellar neurons,” The Journal of Neuroscience,
vol. 43, no. 23. Society for Neuroscience, pp. 4197–4216, 2023.
ista: Eguchi K, Le Monnier E, Shigemoto R. 2023. Nanoscale phosphoinositide distribution
on cell membranes of mouse cerebellar neurons. The Journal of Neuroscience. 43(23),
4197–4216.
mla: Eguchi, Kohgaku, et al. “Nanoscale Phosphoinositide Distribution on Cell Membranes
of Mouse Cerebellar Neurons.” The Journal of Neuroscience, vol. 43, no.
23, Society for Neuroscience, 2023, pp. 4197–216, doi:10.1523/JNEUROSCI.1514-22.2023.
short: K. Eguchi, E. Le Monnier, R. Shigemoto, The Journal of Neuroscience 43 (2023)
4197–4216.
corr_author: '1'
date_created: 2023-07-09T22:01:12Z
date_published: 2023-06-07T00:00:00Z
date_updated: 2025-04-14T07:27:15Z
day: '07'
ddc:
- '570'
department:
- _id: RySh
doi: 10.1523/JNEUROSCI.1514-22.2023
ec_funded: 1
external_id:
isi:
- '001020132100005'
pmid:
- '37160366'
file:
- access_level: open_access
checksum: 70b2141870e0bf1c94fd343e18fdbc32
content_type: application/pdf
creator: alisjak
date_created: 2023-07-10T09:04:58Z
date_updated: 2023-07-10T09:04:58Z
file_id: '13205'
file_name: 2023_JN_Eguchi.pdf
file_size: 7794425
relation: main_file
success: 1
file_date_updated: 2023-07-10T09:04:58Z
has_accepted_license: '1'
intvolume: ' 43'
isi: 1
issue: '23'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 4197-4216
pmid: 1
project:
- _id: 2659CC84-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '793482'
name: 'Ultrastructural analysis of phosphoinositides in nerve terminals: distribution,
dynamics and physiological roles in synaptic transmission'
- _id: 25CA28EA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694539'
name: 'In situ analysis of single channel subunit composition in neurons: physiological
implication in synaptic plasticity and behaviour'
publication: The Journal of Neuroscience
publication_identifier:
eissn:
- 1529-2401
issn:
- 0270-6474
publication_status: published
publisher: Society for Neuroscience
quality_controlled: '1'
scopus_import: '1'
status: public
title: Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar
neurons
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: 43
year: '2023'
...
---
_id: '13209'
abstract:
- lang: eng
text: The phytohormone auxin plays central roles in many growth and developmental
processes in plants. Development of chemical tools targeting the auxin pathway
is useful for both plant biology and agriculture. Here we reveal that naproxen,
a synthetic compound with anti-inflammatory activity in humans, acts as an auxin
transport inhibitor targeting PIN-FORMED (PIN) transporters in plants. Physiological
experiments indicate that exogenous naproxen treatment affects pleiotropic auxin-regulated
developmental processes. Additional cellular and biochemical evidence indicates
that naproxen suppresses auxin transport, specifically PIN-mediated auxin efflux.
Moreover, biochemical and structural analyses confirm that naproxen binds directly
to PIN1 protein via the same binding cavity as the indole-3-acetic acid substrate.
Thus, by combining cellular, biochemical, and structural approaches, this study
clearly establishes that naproxen is a PIN inhibitor and elucidates the underlying
mechanisms. Further use of this compound may advance our understanding of the
molecular mechanisms of PIN-mediated auxin transport and expand our toolkit in
auxin biology and agriculture.
acknowledgement: "This work was supported by the Strategic Priority Research Program
of the Chinese Academy of Sciences (XDB37020103 to Linfeng Sun); research funds
from the Center for Advanced Interdisciplinary Science\r\nand Biomedicine of IHM,
Division of Life Sciences and Medicine, University of Science and Technology of
China (QYPY20220012 to S.T.); start-up funding from the University of Science and
Technology of China and the\r\nChinese Academy of Sciences (GG9100007007, KY9100000026,KY9100000051,
and KJ2070000079 to S.T.); the National Natural Science Foundation of China (31900885
to X.L. and 31870732 to Linfeng Sun); the Natural Science Foundation of Anhui Province
(2008085MC90 to X.L. and 2008085J15 to Linfeng Sun); the Fundamental Research Funds
for the Central Universities (WK9100000021 to S.T. and WK9100000031 to Linfeng Sun);
and the USTC Research Funds of the Double First-Class Initiative (YD9100002016 to
S.T. and YD9100002004 to Linfeng Sun). Linfeng Sun is supported by an Outstanding
Young Scholar Award from the Qiu Shi Science and Technologies Foundation and a Young
Scholar Award from the Cyrus Tang Foundation.We thank Dr. Yang Zhao for sharing
published materials (Center for Excellence in Molecular Plant Sciences, Chinese
Academy of Sciences) and the Cryo-EM Center of the University of Science and Technology
of China for the EM facility support. We are grateful to Y. Gao and all other staff
members for their technical support on cryo-EM data collection. "
article_number: '100632'
article_processing_charge: Yes
article_type: original
author:
- first_name: Jing
full_name: Xia, Jing
last_name: Xia
- first_name: Mengjuan
full_name: Kong, Mengjuan
last_name: Kong
- first_name: Zhisen
full_name: Yang, Zhisen
last_name: Yang
- first_name: Lianghanxiao
full_name: Sun, Lianghanxiao
last_name: Sun
- first_name: Yakun
full_name: Peng, Yakun
last_name: Peng
- first_name: Yanbo
full_name: Mao, Yanbo
last_name: Mao
- first_name: Hong
full_name: Wei, Hong
last_name: Wei
- first_name: Wei
full_name: Ying, Wei
last_name: Ying
- first_name: Yongxiao
full_name: Gao, Yongxiao
last_name: Gao
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Jianping
full_name: Weng, Jianping
last_name: Weng
- first_name: Xin
full_name: Liu, Xin
last_name: Liu
- first_name: Linfeng
full_name: Sun, Linfeng
last_name: Sun
- first_name: Shutang
full_name: Tan, Shutang
last_name: Tan
citation:
ama: Xia J, Kong M, Yang Z, et al. Chemical inhibition of Arabidopsis PIN-FORMED
auxin transporters by the anti-inflammatory drug naproxen. Plant Communications.
2023;4(6). doi:10.1016/j.xplc.2023.100632
apa: Xia, J., Kong, M., Yang, Z., Sun, L., Peng, Y., Mao, Y., … Tan, S. (2023).
Chemical inhibition of Arabidopsis PIN-FORMED auxin transporters by the anti-inflammatory
drug naproxen. Plant Communications. Elsevier . https://doi.org/10.1016/j.xplc.2023.100632
chicago: Xia, Jing, Mengjuan Kong, Zhisen Yang, Lianghanxiao Sun, Yakun Peng, Yanbo
Mao, Hong Wei, et al. “Chemical Inhibition of Arabidopsis PIN-FORMED Auxin Transporters
by the Anti-Inflammatory Drug Naproxen.” Plant Communications. Elsevier
, 2023. https://doi.org/10.1016/j.xplc.2023.100632.
ieee: J. Xia et al., “Chemical inhibition of Arabidopsis PIN-FORMED auxin
transporters by the anti-inflammatory drug naproxen,” Plant Communications,
vol. 4, no. 6. Elsevier , 2023.
ista: Xia J, Kong M, Yang Z, Sun L, Peng Y, Mao Y, Wei H, Ying W, Gao Y, Friml J,
Weng J, Liu X, Sun L, Tan S. 2023. Chemical inhibition of Arabidopsis PIN-FORMED
auxin transporters by the anti-inflammatory drug naproxen. Plant Communications.
4(6), 100632.
mla: Xia, Jing, et al. “Chemical Inhibition of Arabidopsis PIN-FORMED Auxin Transporters
by the Anti-Inflammatory Drug Naproxen.” Plant Communications, vol. 4,
no. 6, 100632, Elsevier , 2023, doi:10.1016/j.xplc.2023.100632.
short: J. Xia, M. Kong, Z. Yang, L. Sun, Y. Peng, Y. Mao, H. Wei, W. Ying, Y. Gao,
J. Friml, J. Weng, X. Liu, L. Sun, S. Tan, Plant Communications 4 (2023).
date_created: 2023-07-12T07:32:00Z
date_published: 2023-11-13T00:00:00Z
date_updated: 2024-10-21T06:01:37Z
day: '13'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1016/j.xplc.2023.100632
external_id:
isi:
- '001113003000001'
pmid:
- '37254481'
file:
- access_level: open_access
checksum: f8ef92af6096834f91ce38587fb1db9f
content_type: application/pdf
creator: dernst
date_created: 2024-01-30T10:54:40Z
date_updated: 2024-01-30T10:54:40Z
file_id: '14900'
file_name: 2023_PlantCommunications_Xia.pdf
file_size: 1434862
relation: main_file
success: 1
file_date_updated: 2024-01-30T10:54:40Z
has_accepted_license: '1'
intvolume: ' 4'
isi: 1
issue: '6'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '11'
oa: 1
oa_version: Published Version
pmid: 1
publication: Plant Communications
publication_identifier:
eissn:
- 2590-3462
publication_status: published
publisher: 'Elsevier '
quality_controlled: '1'
scopus_import: '1'
status: public
title: Chemical inhibition of Arabidopsis PIN-FORMED auxin transporters by the anti-inflammatory
drug naproxen
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 4
year: '2023'
...
---
_id: '13213'
abstract:
- lang: eng
text: The primary cell wall is a fundamental plant constituent that is flexible
but sufficiently rigid to support the plant cell shape. Although many studies
have demonstrated that reactive oxygen species (ROS) serve as important signaling
messengers to modify the cell wall structure and affect cellular growth, the regulatory
mechanism underlying the spatial-temporal regulation of ROS activity for cell
wall maintenance remains largely unclear. Here, we demonstrate the role of the
Arabidopsis (Arabidopsis thaliana) multicopper oxidase-like protein skewed 5 (SKU5)
and its homolog SKU5-similar 1 (SKS1) in root cell wall formation through modulating
ROS homeostasis. Loss of SKU5 and SKS1 function resulted in aberrant division
planes, protruding cell walls, ectopic deposition of iron, and reduced nicotinamide
adeninedinucleotide phosphate (NADPH) oxidase-dependent ROS overproduction in
the root epidermis–cortex and cortex–endodermis junctions. A decrease in ROS level
or inhibition of NADPH oxidase activity rescued the cell wall defects of sku5
sks1 double mutants. SKU5 and SKS1 proteins were activated by iron treatment,
and iron over-accumulated in the walls between the root epidermis and cortex cell
layers of sku5 sks1. The glycosylphosphatidylinositol-anchored motif was crucial
for membrane association and functionality of SKU5 and SKS1. Overall, our results
identified SKU5 and SKS1 as regulators of ROS at the cell surface for regulation
of cell wall structure and root cell growth.
acknowledgement: We thank Dong liu for offering iron staining technique; ZhiChang
Chen and Zhenbiao Yang for discussion; Dandan Zheng for earlier attempt; Liwen Jiang
and Dingquan Huang for initial tests of the TEM experiment; John C. Sedbrook for
a donation of sku5 and pSKU5::SKU5-GFP seeds; Catherine Perrot-Rechenmann and Ke
Zhou for the donation of sks1, sks2, and sku5 sks1 seeds; Zengyu Liu and Zhongquan
Lin for live-imaging microscopy assistance. We are grateful to Can Peng, and Xixia
Li for helping with sample preparation, and taking TEM images, at the Center for
Biological Imaging (CBI), Institute of Biophysics, Chinese Academy of Science.
article_processing_charge: No
article_type: original
author:
- first_name: C
full_name: Chen, C
last_name: Chen
- first_name: Y
full_name: Zhang, Y
last_name: Zhang
- first_name: J
full_name: Cai, J
last_name: Cai
- first_name: Y
full_name: Qiu, Y
last_name: Qiu
- first_name: L
full_name: Li, L
last_name: Li
- first_name: C
full_name: Gao, C
last_name: Gao
- first_name: Y
full_name: Gao, Y
last_name: Gao
- first_name: M
full_name: Ke, M
last_name: Ke
- first_name: S
full_name: Wu, S
last_name: Wu
- first_name: C
full_name: Wei, C
last_name: Wei
- first_name: J
full_name: Chen, J
last_name: Chen
- first_name: T
full_name: Xu, T
last_name: Xu
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: J
full_name: Wang, J
last_name: Wang
- first_name: R
full_name: Li, R
last_name: Li
- first_name: D
full_name: Chao, D
last_name: Chao
- first_name: B
full_name: Zhang, B
last_name: Zhang
- first_name: X
full_name: Chen, X
last_name: Chen
- first_name: Z
full_name: Gao, Z
last_name: Gao
citation:
ama: Chen C, Zhang Y, Cai J, et al. Multi-copper oxidases SKU5 and SKS1 coordinate
cell wall formation using apoplastic redox-based reactions in roots. Plant
Physiology. 2023;192(3):2243-2260. doi:10.1093/plphys/kiad207
apa: Chen, C., Zhang, Y., Cai, J., Qiu, Y., Li, L., Gao, C., … Gao, Z. (2023). Multi-copper
oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based
reactions in roots. Plant Physiology. American Society of Plant Biologists.
https://doi.org/10.1093/plphys/kiad207
chicago: Chen, C, Y Zhang, J Cai, Y Qiu, L Li, C Gao, Y Gao, et al. “Multi-Copper
Oxidases SKU5 and SKS1 Coordinate Cell Wall Formation Using Apoplastic Redox-Based
Reactions in Roots.” Plant Physiology. American Society of Plant Biologists,
2023. https://doi.org/10.1093/plphys/kiad207.
ieee: C. Chen et al., “Multi-copper oxidases SKU5 and SKS1 coordinate cell
wall formation using apoplastic redox-based reactions in roots,” Plant Physiology,
vol. 192, no. 3. American Society of Plant Biologists, pp. 2243–2260, 2023.
ista: Chen C, Zhang Y, Cai J, Qiu Y, Li L, Gao C, Gao Y, Ke M, Wu S, Wei C, Chen
J, Xu T, Friml J, Wang J, Li R, Chao D, Zhang B, Chen X, Gao Z. 2023. Multi-copper
oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based
reactions in roots. Plant Physiology. 192(3), 2243–2260.
mla: Chen, C., et al. “Multi-Copper Oxidases SKU5 and SKS1 Coordinate Cell Wall
Formation Using Apoplastic Redox-Based Reactions in Roots.” Plant Physiology,
vol. 192, no. 3, American Society of Plant Biologists, 2023, pp. 2243–60, doi:10.1093/plphys/kiad207.
short: C. Chen, Y. Zhang, J. Cai, Y. Qiu, L. Li, C. Gao, Y. Gao, M. Ke, S. Wu, C.
Wei, J. Chen, T. Xu, J. Friml, J. Wang, R. Li, D. Chao, B. Zhang, X. Chen, Z.
Gao, Plant Physiology 192 (2023) 2243–2260.
date_created: 2023-07-12T07:32:58Z
date_published: 2023-07-01T00:00:00Z
date_updated: 2024-10-21T06:01:27Z
day: '01'
ddc:
- '575'
department:
- _id: JiFr
doi: 10.1093/plphys/kiad207
external_id:
isi:
- '000971795800001'
pmid:
- '37010107'
file:
- access_level: open_access
checksum: 5492e1d18ac3eaf202633d210fa0fb75
content_type: application/pdf
creator: cchlebak
date_created: 2023-07-13T13:26:33Z
date_updated: 2023-07-13T13:26:33Z
file_id: '13220'
file_name: 2023_PlantPhys_Chen.pdf
file_size: 2076977
relation: main_file
success: 1
file_date_updated: 2023-07-13T13:26:33Z
has_accepted_license: '1'
intvolume: ' 192'
isi: 1
issue: '3'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 2243-2260
pmid: 1
publication: Plant Physiology
publication_identifier:
eissn:
- 1532-2548
issn:
- 0032-0889
publication_status: published
publisher: American Society of Plant Biologists
quality_controlled: '1'
scopus_import: '1'
status: public
title: Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic
redox-based reactions in roots
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: 192
year: '2023'
...
---
_id: '13214'
abstract:
- lang: eng
text: Nitrogen is an important macronutrient required for plant growth and development,
thus directly impacting agricultural productivity. In recent years, numerous studies
have shown that nitrogen-driven growth depends on pathways that control nitrate/nitrogen
homeostasis and hormonal networks that act both locally and systemically to coordinate
growth and development of plant organs. In this review, we will focus on recent
advances in understanding the role of the plant hormones auxin and cytokinin and
their crosstalk in nitrate-regulated growth and discuss the significance of novel
findings and possible missing links.
acknowledgement: 'This work was supported by the Austrian Academy of Sciences ÖAW:
Doc fellowship (26130) to Stefan Riegler.'
article_number: '1613'
article_processing_charge: Yes
article_type: review
author:
- first_name: R
full_name: Abualia, R
last_name: Abualia
- first_name: Stefan
full_name: Riegler, Stefan
id: FF6018E0-D806-11E9-8E43-0B14E6697425
last_name: Riegler
orcid: 0000-0003-3413-1343
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
citation:
ama: Abualia R, Riegler S, Benková E. Nitrate, auxin and cytokinin - a trio to tango.
Cells. 2023;12(12). doi:10.3390/cells12121613
apa: Abualia, R., Riegler, S., & Benková, E. (2023). Nitrate, auxin and cytokinin
- a trio to tango. Cells. MDPI. https://doi.org/10.3390/cells12121613
chicago: Abualia, R, Stefan Riegler, and Eva Benková. “Nitrate, Auxin and Cytokinin
- a Trio to Tango.” Cells. MDPI, 2023. https://doi.org/10.3390/cells12121613.
ieee: R. Abualia, S. Riegler, and E. Benková, “Nitrate, auxin and cytokinin - a
trio to tango,” Cells, vol. 12, no. 12. MDPI, 2023.
ista: Abualia R, Riegler S, Benková E. 2023. Nitrate, auxin and cytokinin - a trio
to tango. Cells. 12(12), 1613.
mla: Abualia, R., et al. “Nitrate, Auxin and Cytokinin - a Trio to Tango.” Cells,
vol. 12, no. 12, 1613, MDPI, 2023, doi:10.3390/cells12121613.
short: R. Abualia, S. Riegler, E. Benková, Cells 12 (2023).
corr_author: '1'
date_created: 2023-07-12T07:41:25Z
date_published: 2023-06-13T00:00:00Z
date_updated: 2025-04-15T06:27:18Z
day: '13'
ddc:
- '570'
department:
- _id: EvBe
doi: 10.3390/cells12121613
external_id:
isi:
- '001017033600001'
pmid:
- '37371083'
file:
- access_level: open_access
checksum: 6dc9df5f4f59fc27c509c275060354a5
content_type: application/pdf
creator: alisjak
date_created: 2023-07-12T10:01:54Z
date_updated: 2023-07-12T10:01:54Z
file_id: '13218'
file_name: 2023_cells_Abualia.pdf
file_size: 1066802
relation: main_file
success: 1
file_date_updated: 2023-07-12T10:01:54Z
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
issue: '12'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 62883ed7-2b32-11ec-9570-93580204e56b
grant_number: '26130'
name: Functional asymmetry of medial habenula outputs in mice
publication: Cells
publication_identifier:
issn:
- 2073-4409
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Nitrate, auxin and cytokinin - a trio to tango
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: 12
year: '2023'
...
---
_id: '13216'
abstract:
- lang: eng
text: Physical catalysts often have multiple sites where reactions can take place.
One prominent example is single-atom alloys, where the reactive dopant atoms can
preferentially locate in the bulk or at different sites on the surface of the
nanoparticle. However, ab initio modeling of catalysts usually only considers
one site of the catalyst, neglecting the effects of multiple sites. Here, nanoparticles
of copper doped with single-atom rhodium or palladium are modeled for the dehydrogenation
of propane. Single-atom alloy nanoparticles are simulated at 400–600 K, using
machine learning potentials trained on density functional theory calculations,
and then the occupation of different single-atom active sites is identified using
a similarity kernel. Further, the turnover frequency for all possible sites is
calculated for propane dehydrogenation to propene through microkinetic modeling
using density functional theory calculations. The total turnover frequencies of
the whole nanoparticle are then described from both the population and the individual
turnover frequency of each site. Under operating conditions, rhodium as a dopant
is found to almost exclusively occupy (111) surface sites while palladium as a
dopant occupies a greater variety of facets. Undercoordinated dopant surface sites
are found to tend to be more reactive for propane dehydrogenation compared to
the (111) surface. It is found that considering the dynamics of the single-atom
alloy nanoparticle has a profound effect on the calculated catalytic activity
of single-atom alloys by several orders of magnitude.
acknowledgement: "B.C. acknowledges resources provided by the Cambridge Tier2 system
operated by the University of Cambridge Research\r\nComputing Service funded by
EPSRC Tier-2 capital grant EP/\r\nP020259/1."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Rhys
full_name: Bunting, Rhys
id: 91deeae8-1207-11ec-b130-c194ad5b50c6
last_name: Bunting
orcid: 0000-0001-6928-074X
- first_name: Felix
full_name: Wodaczek, Felix
id: 8b4b6a9f-32b0-11ee-9fa8-bbe85e26258e
last_name: Wodaczek
orcid: 0009-0000-1457-795X
- first_name: Tina
full_name: Torabi, Tina
last_name: Torabi
- first_name: Bingqing
full_name: Cheng, Bingqing
id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
last_name: Cheng
orcid: 0000-0002-3584-9632
citation:
ama: 'Bunting R, Wodaczek F, Torabi T, Cheng B. Reactivity of single-atom alloy
nanoparticles: Modeling the dehydrogenation of propane. Journal of the American
Chemical Society. 2023;145(27):14894-14902. doi:10.1021/jacs.3c04030'
apa: 'Bunting, R., Wodaczek, F., Torabi, T., & Cheng, B. (2023). Reactivity
of single-atom alloy nanoparticles: Modeling the dehydrogenation of propane. Journal
of the American Chemical Society. American Chemical Society. https://doi.org/10.1021/jacs.3c04030'
chicago: 'Bunting, Rhys, Felix Wodaczek, Tina Torabi, and Bingqing Cheng. “Reactivity
of Single-Atom Alloy Nanoparticles: Modeling the Dehydrogenation of Propane.”
Journal of the American Chemical Society. American Chemical Society, 2023.
https://doi.org/10.1021/jacs.3c04030.'
ieee: 'R. Bunting, F. Wodaczek, T. Torabi, and B. Cheng, “Reactivity of single-atom
alloy nanoparticles: Modeling the dehydrogenation of propane,” Journal of the
American Chemical Society, vol. 145, no. 27. American Chemical Society, pp.
14894–14902, 2023.'
ista: 'Bunting R, Wodaczek F, Torabi T, Cheng B. 2023. Reactivity of single-atom
alloy nanoparticles: Modeling the dehydrogenation of propane. Journal of the American
Chemical Society. 145(27), 14894–14902.'
mla: 'Bunting, Rhys, et al. “Reactivity of Single-Atom Alloy Nanoparticles: Modeling
the Dehydrogenation of Propane.” Journal of the American Chemical Society,
vol. 145, no. 27, American Chemical Society, 2023, pp. 14894–902, doi:10.1021/jacs.3c04030.'
short: R. Bunting, F. Wodaczek, T. Torabi, B. Cheng, Journal of the American Chemical
Society 145 (2023) 14894–14902.
corr_author: '1'
date_created: 2023-07-12T09:16:40Z
date_published: 2023-06-30T00:00:00Z
date_updated: 2024-10-21T06:01:30Z
day: '30'
ddc:
- '540'
department:
- _id: MaIb
- _id: BiCh
doi: 10.1021/jacs.3c04030
external_id:
isi:
- '001020623900001'
pmid:
- '37390457'
file:
- access_level: open_access
checksum: e07d5323f9c0e5cbd1ad6453f29440ab
content_type: application/pdf
creator: cchlebak
date_created: 2023-07-12T10:22:04Z
date_updated: 2023-07-12T10:22:04Z
file_id: '13219'
file_name: 2023_JACS_Bunting.pdf
file_size: 3155843
relation: main_file
success: 1
file_date_updated: 2023-07-12T10:22:04Z
has_accepted_license: '1'
intvolume: ' 145'
isi: 1
issue: '27'
keyword:
- Colloid and Surface Chemistry
- Biochemistry
- General Chemistry
- Catalysis
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 14894-14902
pmid: 1
publication: Journal of the American Chemical Society
publication_identifier:
eissn:
- 1520-5126
issn:
- 0002-7863
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Reactivity of single-atom alloy nanoparticles: Modeling the dehydrogenation
of propane'
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: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 145
year: '2023'
...
---
_id: '13225'
abstract:
- lang: eng
text: Recently the leading order of the correlation energy of a Fermi gas in a coupled
mean-field and semiclassical scaling regime has been derived, under the assumption
of an interaction potential with a small norm and with compact support in Fourier
space. We generalize this result to large interaction potentials, requiring only
|⋅|V^∈ℓ1(Z3). Our proof is based on approximate, collective bosonization in three
dimensions. Significant improvements compared to recent work include stronger
bounds on non-bosonizable terms and more efficient control on the bosonization
of the kinetic energy.
acknowledgement: "RS was supported by the European Research Council under the European
Union’s Horizon 2020 research and innovation programme (Grant Agreement No. 694227).
MP acknowledges financial support from the European Research Council under the European
Union’s Horizon 2020 research and innovation programme (ERC StG MaMBoQ, Grant Agreement
No. 802901). BS acknowledges financial support from the NCCR SwissMAP, from the
Swiss National Science Foundation through the Grant “Dynamical and energetic properties
of Bose-Einstein condensates” and from the European Research Council through the
ERC AdG CLaQS (Grant Agreement No. 834782). NB and MP were supported by Gruppo Nazionale
per la Fisica Matematica (GNFM) of Italy. NB was supported by the European Research
Council’s Starting Grant FERMIMATH (Grant Agreement No. 101040991).\r\nOpen access
funding provided by Università degli Studi di Milano within the CRUI-CARE Agreement."
article_number: '65'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Niels P
full_name: Benedikter, Niels P
id: 3DE6C32A-F248-11E8-B48F-1D18A9856A87
last_name: Benedikter
orcid: 0000-0002-1071-6091
- first_name: Marcello
full_name: Porta, Marcello
last_name: Porta
- first_name: Benjamin
full_name: Schlein, Benjamin
last_name: Schlein
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Benedikter NP, Porta M, Schlein B, Seiringer R. Correlation energy of a weakly
interacting Fermi gas with large interaction potential. Archive for Rational
Mechanics and Analysis. 2023;247(4). doi:10.1007/s00205-023-01893-6
apa: Benedikter, N. P., Porta, M., Schlein, B., & Seiringer, R. (2023). Correlation
energy of a weakly interacting Fermi gas with large interaction potential. Archive
for Rational Mechanics and Analysis. Springer Nature. https://doi.org/10.1007/s00205-023-01893-6
chicago: Benedikter, Niels P, Marcello Porta, Benjamin Schlein, and Robert Seiringer.
“Correlation Energy of a Weakly Interacting Fermi Gas with Large Interaction Potential.”
Archive for Rational Mechanics and Analysis. Springer Nature, 2023. https://doi.org/10.1007/s00205-023-01893-6.
ieee: N. P. Benedikter, M. Porta, B. Schlein, and R. Seiringer, “Correlation energy
of a weakly interacting Fermi gas with large interaction potential,” Archive
for Rational Mechanics and Analysis, vol. 247, no. 4. Springer Nature, 2023.
ista: Benedikter NP, Porta M, Schlein B, Seiringer R. 2023. Correlation energy of
a weakly interacting Fermi gas with large interaction potential. Archive for Rational
Mechanics and Analysis. 247(4), 65.
mla: Benedikter, Niels P., et al. “Correlation Energy of a Weakly Interacting Fermi
Gas with Large Interaction Potential.” Archive for Rational Mechanics and Analysis,
vol. 247, no. 4, 65, Springer Nature, 2023, doi:10.1007/s00205-023-01893-6.
short: N.P. Benedikter, M. Porta, B. Schlein, R. Seiringer, Archive for Rational
Mechanics and Analysis 247 (2023).
date_created: 2023-07-16T22:01:08Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2025-04-14T07:26:58Z
day: '01'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1007/s00205-023-01893-6
ec_funded: 1
external_id:
arxiv:
- '2106.13185'
isi:
- '001024369000001'
file:
- access_level: open_access
checksum: 2b45828d854a253b14bf7aa196ec55e9
content_type: application/pdf
creator: dernst
date_created: 2023-11-14T13:12:12Z
date_updated: 2023-11-14T13:12:12Z
file_id: '14535'
file_name: 2023_ArchiveRationalMechAnalysis_Benedikter.pdf
file_size: 851626
relation: main_file
success: 1
file_date_updated: 2023-11-14T13:12:12Z
has_accepted_license: '1'
intvolume: ' 247'
isi: 1
issue: '4'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
publication: Archive for Rational Mechanics and Analysis
publication_identifier:
eissn:
- 1432-0673
issn:
- 0003-9527
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Correlation energy of a weakly interacting Fermi gas with large interaction
potential
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: 247
year: '2023'
...
---
OA_place: publisher
OA_type: hybrid
_id: '13226'
abstract:
- lang: eng
text: We consider the ground state and the low-energy excited states of a system
of N identical bosons with interactions in the mean-field scaling regime. For
the ground state, we derive a weak Edgeworth expansion for the fluctuations of
bounded one-body operators, which yields corrections to a central limit theorem
to any order in 1/N−−√. For suitable excited states, we show that the limiting
distribution is a polynomial times a normal distribution, and that higher-order
corrections are given by an Edgeworth-type expansion.
acknowledgement: "It is a pleasure to thank Martin Kolb, Simone Rademacher, Robert
Seiringer and Stefan Teufel for helpful discussions. Moreover, we thank the referee
for many constructive comments. L.B. gratefully acknowledges funding from the German
Research Foundation within the Munich Center of Quantum Science and Technology (EXC
2111) and from the European Union’s Horizon 2020 research and innovation programme
under the Marie Skłodowska-Curie Grant Agreement No. 754411. We thank the Mathematical
Research Institute Oberwolfach, where part of this work was done, for their hospitality.\r\nOpen
Access funding enabled and organized by Projekt DEAL."
article_number: '77'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Lea
full_name: Bossmann, Lea
id: A2E3BCBE-5FCC-11E9-AA4B-76F3E5697425
last_name: Bossmann
orcid: 0000-0002-6854-1343
- first_name: Sören P
full_name: Petrat, Sören P
id: 40AC02DC-F248-11E8-B48F-1D18A9856A87
last_name: Petrat
orcid: 0000-0002-9166-5889
citation:
ama: Bossmann L, Petrat SP. Weak Edgeworth expansion for the mean-field Bose gas.
Letters in Mathematical Physics. 2023;113(4). doi:10.1007/s11005-023-01698-4
apa: Bossmann, L., & Petrat, S. P. (2023). Weak Edgeworth expansion for the
mean-field Bose gas. Letters in Mathematical Physics. Springer Nature.
https://doi.org/10.1007/s11005-023-01698-4
chicago: Bossmann, Lea, and Sören P Petrat. “Weak Edgeworth Expansion for the Mean-Field
Bose Gas.” Letters in Mathematical Physics. Springer Nature, 2023. https://doi.org/10.1007/s11005-023-01698-4.
ieee: L. Bossmann and S. P. Petrat, “Weak Edgeworth expansion for the mean-field
Bose gas,” Letters in Mathematical Physics, vol. 113, no. 4. Springer Nature,
2023.
ista: Bossmann L, Petrat SP. 2023. Weak Edgeworth expansion for the mean-field Bose
gas. Letters in Mathematical Physics. 113(4), 77.
mla: Bossmann, Lea, and Sören P. Petrat. “Weak Edgeworth Expansion for the Mean-Field
Bose Gas.” Letters in Mathematical Physics, vol. 113, no. 4, 77, Springer
Nature, 2023, doi:10.1007/s11005-023-01698-4.
short: L. Bossmann, S.P. Petrat, Letters in Mathematical Physics 113 (2023).
corr_author: '1'
date_created: 2023-07-16T22:01:08Z
date_published: 2023-07-03T00:00:00Z
date_updated: 2025-06-25T06:20:15Z
day: '03'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1007/s11005-023-01698-4
ec_funded: 1
external_id:
arxiv:
- '2208.00199'
isi:
- '001022878900002'
file:
- access_level: open_access
checksum: 995c902a989a6769fd3db456cfd41111
content_type: application/pdf
creator: dernst
date_created: 2025-06-25T06:20:02Z
date_updated: 2025-06-25T06:20:02Z
file_id: '19898'
file_name: 2023_LettersMathPhysics_Bossmann.pdf
file_size: 586698
relation: main_file
success: 1
file_date_updated: 2025-06-25T06:20:02Z
has_accepted_license: '1'
intvolume: ' 113'
isi: 1
issue: '4'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Letters in Mathematical Physics
publication_identifier:
eissn:
- 1573-0530
issn:
- 0377-9017
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Weak Edgeworth expansion for the mean-field Bose gas
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 113
year: '2023'
...
---
_id: '13228'
abstract:
- lang: eng
text: A machine-learned system that is fair in static decision-making tasks may
have biased societal impacts in the long-run. This may happen when the system
interacts with humans and feedback patterns emerge, reinforcing old biases in
the system and creating new biases. While existing works try to identify and mitigate
long-run biases through smart system design, we introduce techniques for monitoring
fairness in real time. Our goal is to build and deploy a monitor that will continuously
observe a long sequence of events generated by the system in the wild, and will
output, with each event, a verdict on how fair the system is at the current point
in time. The advantages of monitoring are two-fold. Firstly, fairness is evaluated
at run-time, which is important because unfair behaviors may not be eliminated
a priori, at design-time, due to partial knowledge about the system and the environment,
as well as uncertainties and dynamic changes in the system and the environment,
such as the unpredictability of human behavior. Secondly, monitors are by design
oblivious to how the monitored system is constructed, which makes them suitable
to be used as trusted third-party fairness watchdogs. They function as computationally
lightweight statistical estimators, and their correctness proofs rely on the rigorous
analysis of the stochastic process that models the assumptions about the underlying
dynamics of the system. We show, both in theory and experiments, how monitors
can warn us (1) if a bank’s credit policy over time has created an unfair distribution
of credit scores among the population, and (2) if a resource allocator’s allocation
policy over time has made unfair allocations. Our experiments demonstrate that
the monitors introduce very low overhead. We believe that runtime monitoring is
an important and mathematically rigorous new addition to the fairness toolbox.
acknowledgement: 'The authors would like to thank the anonymous reviewers for their
valuable comments and helpful suggestions. This work is supported by the European
Research Council under Grant No.: ERC-2020-AdG 101020093.'
article_processing_charge: Yes (via OA deal)
arxiv: 1
author:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
- first_name: Mahyar
full_name: Karimi, Mahyar
id: 6e5417ba-5355-11ee-ae5a-94c2e510b26b
last_name: Karimi
orcid: 0009-0005-0820-1696
- first_name: Konstantin
full_name: Kueffner, Konstantin
id: 8121a2d0-dc85-11ea-9058-af578f3b4515
last_name: Kueffner
orcid: 0000-0001-8974-2542
- first_name: Kaushik
full_name: Mallik, Kaushik
id: 0834ff3c-6d72-11ec-94e0-b5b0a4fb8598
last_name: Mallik
orcid: 0000-0001-9864-7475
citation:
ama: 'Henzinger TA, Karimi M, Kueffner K, Mallik K. Runtime monitoring of dynamic
fairness properties. In: FAccT ’23: Proceedings of the 2023 ACM Conference
on Fairness, Accountability, and Transparency. Association for Computing Machinery;
2023:604-614. doi:10.1145/3593013.3594028'
apa: 'Henzinger, T. A., Karimi, M., Kueffner, K., & Mallik, K. (2023). Runtime
monitoring of dynamic fairness properties. In FAccT ’23: Proceedings of the
2023 ACM Conference on Fairness, Accountability, and Transparency (pp. 604–614).
Chicago, IL, United States: Association for Computing Machinery. https://doi.org/10.1145/3593013.3594028'
chicago: 'Henzinger, Thomas A, Mahyar Karimi, Konstantin Kueffner, and Kaushik Mallik.
“Runtime Monitoring of Dynamic Fairness Properties.” In FAccT ’23: Proceedings
of the 2023 ACM Conference on Fairness, Accountability, and Transparency,
604–14. Association for Computing Machinery, 2023. https://doi.org/10.1145/3593013.3594028.'
ieee: 'T. A. Henzinger, M. Karimi, K. Kueffner, and K. Mallik, “Runtime monitoring
of dynamic fairness properties,” in FAccT ’23: Proceedings of the 2023 ACM
Conference on Fairness, Accountability, and Transparency, Chicago, IL, United
States, 2023, pp. 604–614.'
ista: 'Henzinger TA, Karimi M, Kueffner K, Mallik K. 2023. Runtime monitoring of
dynamic fairness properties. FAccT ’23: Proceedings of the 2023 ACM Conference
on Fairness, Accountability, and Transparency. FAccT: Conference on Fairness,
Accountability and Transparency, 604–614.'
mla: 'Henzinger, Thomas A., et al. “Runtime Monitoring of Dynamic Fairness Properties.”
FAccT ’23: Proceedings of the 2023 ACM Conference on Fairness, Accountability,
and Transparency, Association for Computing Machinery, 2023, pp. 604–14, doi:10.1145/3593013.3594028.'
short: 'T.A. Henzinger, M. Karimi, K. Kueffner, K. Mallik, in:, FAccT ’23: Proceedings
of the 2023 ACM Conference on Fairness, Accountability, and Transparency, Association
for Computing Machinery, 2023, pp. 604–614.'
conference:
end_date: 2023-06-15
location: Chicago, IL, United States
name: 'FAccT: Conference on Fairness, Accountability and Transparency'
start_date: 2023-06-12
corr_author: '1'
date_created: 2023-07-16T22:01:09Z
date_published: 2023-06-12T00:00:00Z
date_updated: 2026-01-21T07:23:43Z
day: '12'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1145/3593013.3594028
ec_funded: 1
external_id:
arxiv:
- '2305.04699'
isi:
- '001062819300057'
file:
- access_level: open_access
checksum: 96c759db9cdf94b81e37871a66a6ff48
content_type: application/pdf
creator: dernst
date_created: 2023-07-18T07:43:10Z
date_updated: 2023-07-18T07:43:10Z
file_id: '13245'
file_name: 2023_ACM_HenzingerT.pdf
file_size: 4100596
relation: main_file
success: 1
file_date_updated: 2023-07-18T07:43:10Z
has_accepted_license: '1'
isi: 1
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 604-614
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: 'FAccT ''23: Proceedings of the 2023 ACM Conference on Fairness, Accountability,
and Transparency'
publication_identifier:
isbn:
- '9781450372527'
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
scopus_import: '1'
status: public
title: Runtime monitoring of dynamic fairness properties
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13229'
abstract:
- lang: eng
text: Dynamic reorganization of the cytoplasm is key to many core cellular processes,
such as cell division, cell migration, and cell polarization. Cytoskeletal rearrangements
are thought to constitute the main drivers of cytoplasmic flows and reorganization.
In contrast, remarkably little is known about how dynamic changes in size and
shape of cell organelles affect cytoplasmic organization. Here, we show that within
the maturing zebrafish oocyte, the surface localization of exocytosis-competent
cortical granules (Cgs) upon germinal vesicle breakdown (GVBD) is achieved by
the combined activities of yolk granule (Yg) fusion and microtubule aster formation
and translocation. We find that Cgs are moved towards the oocyte surface through
radially outward cytoplasmic flows induced by Ygs fusing and compacting towards
the oocyte center in response to GVBD. We further show that vesicles decorated
with the small Rab GTPase Rab11, a master regulator of vesicular trafficking and
exocytosis, accumulate together with Cgs at the oocyte surface. This accumulation
is achieved by Rab11-positive vesicles being transported by acentrosomal microtubule
asters, the formation of which is induced by the release of CyclinB/Cdk1 upon
GVBD, and which display a net movement towards the oocyte surface by preferentially
binding to the oocyte actin cortex. We finally demonstrate that the decoration
of Cgs by Rab11 at the oocyte surface is needed for Cg exocytosis and subsequent
chorion elevation, a process central in egg activation. Collectively, these findings
unravel a yet unrecognized role of organelle fusion, functioning together with
cytoskeletal rearrangements, in orchestrating cytoplasmic organization during
oocyte maturation.
acknowledgement: This work was supported by funding from the European Union (European
Research Council Advanced grant 742573) to C.-P.H. The funders had no role in study
design, data collection and analysis, decision to publish, or preparation of the
manuscript.
article_processing_charge: No
article_type: original
author:
- first_name: Shayan
full_name: Shamipour, Shayan
id: 40B34FE2-F248-11E8-B48F-1D18A9856A87
last_name: Shamipour
- first_name: Laura
full_name: Hofmann, Laura
id: b88d43f2-dc74-11ea-a0a7-e41b7912e031
last_name: Hofmann
- first_name: Irene
full_name: Steccari, Irene
id: 2705C766-9FE2-11EA-B224-C6773DDC885E
last_name: Steccari
- first_name: Roland
full_name: Kardos, Roland
id: 4039350E-F248-11E8-B48F-1D18A9856A87
last_name: Kardos
- 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: Shamipour S, Hofmann L, Steccari I, Kardos R, Heisenberg C-PJ. Yolk granule
fusion and microtubule aster formation regulate cortical granule translocation
and exocytosis in zebrafish oocytes. PLoS Biology. 2023;21(6):e3002146.
doi:10.1371/journal.pbio.3002146
apa: Shamipour, S., Hofmann, L., Steccari, I., Kardos, R., & Heisenberg, C.-P.
J. (2023). Yolk granule fusion and microtubule aster formation regulate cortical
granule translocation and exocytosis in zebrafish oocytes. PLoS Biology.
Public Library of Science. https://doi.org/10.1371/journal.pbio.3002146
chicago: Shamipour, Shayan, Laura Hofmann, Irene Steccari, Roland Kardos, and Carl-Philipp
J Heisenberg. “Yolk Granule Fusion and Microtubule Aster Formation Regulate Cortical
Granule Translocation and Exocytosis in Zebrafish Oocytes.” PLoS Biology.
Public Library of Science, 2023. https://doi.org/10.1371/journal.pbio.3002146.
ieee: S. Shamipour, L. Hofmann, I. Steccari, R. Kardos, and C.-P. J. Heisenberg,
“Yolk granule fusion and microtubule aster formation regulate cortical granule
translocation and exocytosis in zebrafish oocytes,” PLoS Biology, vol.
21, no. 6. Public Library of Science, p. e3002146, 2023.
ista: Shamipour S, Hofmann L, Steccari I, Kardos R, Heisenberg C-PJ. 2023. Yolk
granule fusion and microtubule aster formation regulate cortical granule translocation
and exocytosis in zebrafish oocytes. PLoS Biology. 21(6), e3002146.
mla: Shamipour, Shayan, et al. “Yolk Granule Fusion and Microtubule Aster Formation
Regulate Cortical Granule Translocation and Exocytosis in Zebrafish Oocytes.”
PLoS Biology, vol. 21, no. 6, Public Library of Science, 2023, p. e3002146,
doi:10.1371/journal.pbio.3002146.
short: S. Shamipour, L. Hofmann, I. Steccari, R. Kardos, C.-P.J. Heisenberg, PLoS
Biology 21 (2023) e3002146.
corr_author: '1'
date_created: 2023-07-16T22:01:09Z
date_published: 2023-06-08T00:00:00Z
date_updated: 2025-04-14T07:46:59Z
day: '08'
ddc:
- '570'
department:
- _id: CaHe
doi: 10.1371/journal.pbio.3002146
ec_funded: 1
external_id:
isi:
- '001003199100005'
pmid:
- '37289834'
file:
- access_level: open_access
checksum: 8e88cb0e5a6433a2f1939a9030bed384
content_type: application/pdf
creator: dernst
date_created: 2023-07-18T07:59:58Z
date_updated: 2023-07-18T07:59:58Z
file_id: '13246'
file_name: 2023_PloSBiology_Shamipour.pdf
file_size: 4431723
relation: main_file
success: 1
file_date_updated: 2023-07-18T07:59:58Z
has_accepted_license: '1'
intvolume: ' 21'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: e3002146
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
publication: PLoS Biology
publication_identifier:
eissn:
- 1545-7885
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: Yolk granule fusion and microtubule aster formation regulate cortical granule
translocation and exocytosis in zebrafish oocytes
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 21
year: '2023'
...
---
_id: '13230'
abstract:
- lang: eng
text: 'To interpret the sensory environment, the brain combines ambiguous sensory
measurements with knowledge that reflects context-specific prior experience. But
environmental contexts can change abruptly and unpredictably, resulting in uncertainty
about the current context. Here we address two questions: how should context-specific
prior knowledge optimally guide the interpretation of sensory stimuli in changing
environments, and do human decision-making strategies resemble this optimum? We
probe these questions with a task in which subjects report the orientation of
ambiguous visual stimuli that were drawn from three dynamically switching distributions,
representing different environmental contexts. We derive predictions for an ideal
Bayesian observer that leverages knowledge about the statistical structure of
the task to maximize decision accuracy, including knowledge about the dynamics
of the environment. We show that its decisions are biased by the dynamically changing
task context. The magnitude of this decision bias depends on the observer’s continually
evolving belief about the current context. The model therefore not only predicts
that decision bias will grow as the context is indicated more reliably, but also
as the stability of the environment increases, and as the number of trials since
the last context switch grows. Analysis of human choice data validates all three
predictions, suggesting that the brain leverages knowledge of the statistical
structure of environmental change when interpreting ambiguous sensory signals.'
acknowledgement: The authors thank Corey Ziemba and Zoe Boundy-Singer for valuable
discussion and feedback.
article_number: e1011104
article_processing_charge: No
article_type: original
author:
- first_name: Julie A.
full_name: Charlton, Julie A.
last_name: Charlton
- first_name: Wiktor F
full_name: Mlynarski, Wiktor F
id: 358A453A-F248-11E8-B48F-1D18A9856A87
last_name: Mlynarski
- first_name: Yoon H.
full_name: Bai, Yoon H.
last_name: Bai
- first_name: Ann M.
full_name: Hermundstad, Ann M.
last_name: Hermundstad
- first_name: Robbe L.T.
full_name: Goris, Robbe L.T.
last_name: Goris
citation:
ama: Charlton JA, Mlynarski WF, Bai YH, Hermundstad AM, Goris RLT. Environmental
dynamics shape perceptual decision bias. PLoS Computational Biology. 2023;19(6).
doi:10.1371/journal.pcbi.1011104
apa: Charlton, J. A., Mlynarski, W. F., Bai, Y. H., Hermundstad, A. M., & Goris,
R. L. T. (2023). Environmental dynamics shape perceptual decision bias. PLoS
Computational Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1011104
chicago: Charlton, Julie A., Wiktor F Mlynarski, Yoon H. Bai, Ann M. Hermundstad,
and Robbe L.T. Goris. “Environmental Dynamics Shape Perceptual Decision Bias.”
PLoS Computational Biology. Public Library of Science, 2023. https://doi.org/10.1371/journal.pcbi.1011104.
ieee: J. A. Charlton, W. F. Mlynarski, Y. H. Bai, A. M. Hermundstad, and R. L. T.
Goris, “Environmental dynamics shape perceptual decision bias,” PLoS Computational
Biology, vol. 19, no. 6. Public Library of Science, 2023.
ista: Charlton JA, Mlynarski WF, Bai YH, Hermundstad AM, Goris RLT. 2023. Environmental
dynamics shape perceptual decision bias. PLoS Computational Biology. 19(6), e1011104.
mla: Charlton, Julie A., et al. “Environmental Dynamics Shape Perceptual Decision
Bias.” PLoS Computational Biology, vol. 19, no. 6, e1011104, Public Library
of Science, 2023, doi:10.1371/journal.pcbi.1011104.
short: J.A. Charlton, W.F. Mlynarski, Y.H. Bai, A.M. Hermundstad, R.L.T. Goris,
PLoS Computational Biology 19 (2023).
date_created: 2023-07-16T22:01:09Z
date_published: 2023-06-08T00:00:00Z
date_updated: 2023-08-02T06:33:50Z
day: '08'
ddc:
- '570'
department:
- _id: MaJö
doi: 10.1371/journal.pcbi.1011104
external_id:
isi:
- '001003410200003'
pmid:
- '37289753'
file:
- access_level: open_access
checksum: 800761fa2c647fabd6ad034589bc526e
content_type: application/pdf
creator: dernst
date_created: 2023-07-18T08:07:59Z
date_updated: 2023-07-18T08:07:59Z
file_id: '13247'
file_name: 2023_PloSCompBio_Charlton.pdf
file_size: 2281868
relation: main_file
success: 1
file_date_updated: 2023-07-18T08:07:59Z
has_accepted_license: '1'
intvolume: ' 19'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
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'
scopus_import: '1'
status: public
title: Environmental dynamics shape perceptual decision bias
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: 19
year: '2023'
...
---
_id: '13231'
abstract:
- lang: eng
text: We study ab initio approaches for calculating x-ray Thomson scattering spectra
from density functional theory molecular dynamics simulations based on a modified
Chihara formula that expresses the inelastic contribution in terms of the dielectric
function. We study the electronic dynamic structure factor computed from the Mermin
dielectric function using an ab initio electron-ion collision frequency in comparison
to computations using a linear-response time-dependent density functional theory
(LR-TDDFT) framework for hydrogen and beryllium and investigate the dispersion
of free-free and bound-free contributions to the scattering signal. A separate
treatment of these contributions, where only the free-free part follows the Mermin
dispersion, shows good agreement with LR-TDDFT results for ambient-density beryllium,
but breaks down for highly compressed matter where the bound states become pressure
ionized. LR-TDDFT is used to reanalyze x-ray Thomson scattering experiments on
beryllium demonstrating strong deviations from the plasma conditions inferred
with traditional analytic models at small scattering angles.
acknowledgement: "We want to thank P. Sperling, B. Witte, M. French, G. Röpke, H.
J. Lee and A. Cangi for many helpful discussions. M. S. and R. R. acknowledge support
by the Deutsche Forschungsgemeinschaft (DFG) within the Research Unit FOR 2440.
All simulations and analyses were performed at the North-German Supercomputing Alliance
(HLRN) and the ITMZ of the University of Rostock. M. B. gratefully acknowledges
support by the European Horizon 2020 programme within the Marie Sklodowska-Curie
actions (xICE grant 894725) and the\r\nNOMIS foundation. The work of T. D. was performed
under the auspices of the U.S. Department of Energy by Lawrence Livermore National
Laboratory under Contract No. DE-AC52-07NA27344."
article_number: '065207'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Maximilian
full_name: Schörner, Maximilian
last_name: Schörner
- first_name: Mandy
full_name: Bethkenhagen, Mandy
id: 201939f4-803f-11ed-ab7e-d8da4bd1517f
last_name: Bethkenhagen
orcid: 0000-0002-1838-2129
- first_name: Tilo
full_name: Döppner, Tilo
last_name: Döppner
- first_name: Dominik
full_name: Kraus, Dominik
last_name: Kraus
- first_name: Luke B.
full_name: Fletcher, Luke B.
last_name: Fletcher
- first_name: Siegfried H.
full_name: Glenzer, Siegfried H.
last_name: Glenzer
- first_name: Ronald
full_name: Redmer, Ronald
last_name: Redmer
citation:
ama: Schörner M, Bethkenhagen M, Döppner T, et al. X-ray Thomson scattering spectra
from density functional theory molecular dynamics simulations based on a modified
Chihara formula. Physical Review E. 2023;107(6). doi:10.1103/PhysRevE.107.065207
apa: Schörner, M., Bethkenhagen, M., Döppner, T., Kraus, D., Fletcher, L. B., Glenzer,
S. H., & Redmer, R. (2023). X-ray Thomson scattering spectra from density
functional theory molecular dynamics simulations based on a modified Chihara formula.
Physical Review E. American Physical Society. https://doi.org/10.1103/PhysRevE.107.065207
chicago: Schörner, Maximilian, Mandy Bethkenhagen, Tilo Döppner, Dominik Kraus,
Luke B. Fletcher, Siegfried H. Glenzer, and Ronald Redmer. “X-Ray Thomson Scattering
Spectra from Density Functional Theory Molecular Dynamics Simulations Based on
a Modified Chihara Formula.” Physical Review E. American Physical Society,
2023. https://doi.org/10.1103/PhysRevE.107.065207.
ieee: M. Schörner et al., “X-ray Thomson scattering spectra from density
functional theory molecular dynamics simulations based on a modified Chihara formula,”
Physical Review E, vol. 107, no. 6. American Physical Society, 2023.
ista: Schörner M, Bethkenhagen M, Döppner T, Kraus D, Fletcher LB, Glenzer SH, Redmer
R. 2023. X-ray Thomson scattering spectra from density functional theory molecular
dynamics simulations based on a modified Chihara formula. Physical Review E. 107(6),
065207.
mla: Schörner, Maximilian, et al. “X-Ray Thomson Scattering Spectra from Density
Functional Theory Molecular Dynamics Simulations Based on a Modified Chihara Formula.”
Physical Review E, vol. 107, no. 6, 065207, American Physical Society,
2023, doi:10.1103/PhysRevE.107.065207.
short: M. Schörner, M. Bethkenhagen, T. Döppner, D. Kraus, L.B. Fletcher, S.H. Glenzer,
R. Redmer, Physical Review E 107 (2023).
date_created: 2023-07-16T22:01:10Z
date_published: 2023-06-14T00:00:00Z
date_updated: 2025-03-06T14:02:33Z
day: '14'
department:
- _id: BiCh
doi: 10.1103/PhysRevE.107.065207
external_id:
arxiv:
- '2301.01545'
isi:
- '001020265000002'
pmid:
- '37464593'
intvolume: ' 107'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2301.01545
month: '06'
oa: 1
oa_version: Preprint
pmid: 1
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: X-ray Thomson scattering spectra from density functional theory molecular dynamics
simulations based on a modified Chihara formula
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 107
year: '2023'
...
---
_id: '13232'
abstract:
- lang: eng
text: The potential of immune-evasive mutation accumulation in the SARS-CoV-2 virus
has led to its rapid spread, causing over 600 million confirmed cases and more
than 6.5 million confirmed deaths. The huge demand for the rapid development and
deployment of low-cost and effective vaccines against emerging variants has renewed
interest in DNA vaccine technology. Here, we report the rapid generation and immunological
evaluation of novel DNA vaccine candidates against the Wuhan-Hu-1 and Omicron
variants based on the RBD protein fused with the Potato virus X coat protein (PVXCP).
The delivery of DNA vaccines using electroporation in a two-dose regimen induced
high-antibody titers and profound cellular responses in mice. The antibody titers
induced against the Omicron variant of the vaccine were sufficient for effective
protection against both Omicron and Wuhan-Hu-1 virus infections. The PVXCP protein
in the vaccine construct shifted the immune response to the favorable Th1-like
type and provided the oligomerization of RBD-PVXCP protein. Naked DNA delivery
by needle-free injection allowed us to achieve antibody titers comparable with
mRNA-LNP delivery in rabbits. These data identify the RBD-PVXCP DNA vaccine platform
as a promising solution for robust and effective SARS-CoV-2 protection, supporting
further translational study.
acknowledgement: The authors declare that this study received funding from Immunofusion.
The funder was not involved in the study design, collection, analysis, interpretation
of data, the writing of this article, or the decision to submit it for publication.
The authors express their gratitude to the Institute of Physiology of the National
Academy of Sciences of Belarus for providing assistance in keeping laboratory animals.
article_number: '1014'
article_processing_charge: No
article_type: original
author:
- first_name: Dmitri
full_name: Dormeshkin, Dmitri
last_name: Dormeshkin
- first_name: Mikalai
full_name: Katsin, Mikalai
last_name: Katsin
- first_name: Maria
full_name: Stegantseva, Maria
last_name: Stegantseva
- first_name: Sergey
full_name: Golenchenko, Sergey
last_name: Golenchenko
- first_name: Michail
full_name: Shapira, Michail
last_name: Shapira
- first_name: Simon
full_name: Dubovik, Simon
last_name: Dubovik
- first_name: Dzmitry
full_name: Lutskovich, Dzmitry
last_name: Lutskovich
- first_name: Anton
full_name: Kavaleuski, Anton
id: 62304f89-eb97-11eb-a6c2-8903dd183976
last_name: Kavaleuski
orcid: 0000-0003-2091-526X
- first_name: Alexander
full_name: Meleshko, Alexander
last_name: Meleshko
citation:
ama: Dormeshkin D, Katsin M, Stegantseva M, et al. Design and immunogenicity of
SARS-CoV-2 DNA vaccine encoding RBD-PVXCP fusion protein. Vaccines. 2023;11(6).
doi:10.3390/vaccines11061014
apa: Dormeshkin, D., Katsin, M., Stegantseva, M., Golenchenko, S., Shapira, M.,
Dubovik, S., … Meleshko, A. (2023). Design and immunogenicity of SARS-CoV-2 DNA
vaccine encoding RBD-PVXCP fusion protein. Vaccines. MDPI. https://doi.org/10.3390/vaccines11061014
chicago: Dormeshkin, Dmitri, Mikalai Katsin, Maria Stegantseva, Sergey Golenchenko,
Michail Shapira, Simon Dubovik, Dzmitry Lutskovich, Anton Kavaleuski, and Alexander
Meleshko. “Design and Immunogenicity of SARS-CoV-2 DNA Vaccine Encoding RBD-PVXCP
Fusion Protein.” Vaccines. MDPI, 2023. https://doi.org/10.3390/vaccines11061014.
ieee: D. Dormeshkin et al., “Design and immunogenicity of SARS-CoV-2 DNA
vaccine encoding RBD-PVXCP fusion protein,” Vaccines, vol. 11, no. 6. MDPI,
2023.
ista: Dormeshkin D, Katsin M, Stegantseva M, Golenchenko S, Shapira M, Dubovik S,
Lutskovich D, Kavaleuski A, Meleshko A. 2023. Design and immunogenicity of SARS-CoV-2
DNA vaccine encoding RBD-PVXCP fusion protein. Vaccines. 11(6), 1014.
mla: Dormeshkin, Dmitri, et al. “Design and Immunogenicity of SARS-CoV-2 DNA Vaccine
Encoding RBD-PVXCP Fusion Protein.” Vaccines, vol. 11, no. 6, 1014, MDPI,
2023, doi:10.3390/vaccines11061014.
short: D. Dormeshkin, M. Katsin, M. Stegantseva, S. Golenchenko, M. Shapira, S.
Dubovik, D. Lutskovich, A. Kavaleuski, A. Meleshko, Vaccines 11 (2023).
date_created: 2023-07-16T22:01:10Z
date_published: 2023-06-01T00:00:00Z
date_updated: 2025-04-23T13:01:23Z
day: '01'
ddc:
- '570'
department:
- _id: LeSa
doi: 10.3390/vaccines11061014
external_id:
isi:
- '001017740000001'
pmid:
- '37376403'
file:
- access_level: open_access
checksum: 8f484c0f30f8699c589b1c29a0fd7d7f
content_type: application/pdf
creator: dernst
date_created: 2023-07-18T07:25:43Z
date_updated: 2023-07-18T07:25:43Z
file_id: '13244'
file_name: 2023_Vaccines_Dormeshkin.pdf
file_size: 2339746
relation: main_file
success: 1
file_date_updated: 2023-07-18T07:25:43Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
pmid: 1
publication: Vaccines
publication_identifier:
eissn:
- 2076-393X
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Design and immunogenicity of SARS-CoV-2 DNA vaccine encoding RBD-PVXCP fusion
protein
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: 11
year: '2023'
...
---
_id: '13233'
abstract:
- lang: eng
text: We study the impact of finite-range physics on the zero-range-model analysis
of three-body recombination in ultracold atoms. We find that temperature dependence
of the zero-range parameters can vary from one set of measurements to another
as it may be driven by the distribution of error bars in the experiment, and not
by the underlying three-body physics. To study finite-temperature effects in three-body
recombination beyond the zero-range physics, we introduce and examine a finite-range
model based upon a hyperspherical formalism. The systematic error discussed in
this Letter may provide a significant contribution to the error bars of measured
three-body parameters.
acknowledgement: We thank Jan Arlt, Hans-Werner Hammer, and Karsten Riisager for useful
discussions. M.L. acknowledges support by the European Research Council (ERC) Starting
Grant No. 801770 (ANGULON).
article_number: L061304
article_processing_charge: No
article_type: letter_note
arxiv: 1
author:
- first_name: Sofya
full_name: Agafonova, Sofya
id: 09501ff6-dca7-11ea-a8ae-b3e0b9166e80
last_name: Agafonova
orcid: 0000-0003-0582-2946
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
- first_name: Artem
full_name: Volosniev, Artem
id: 37D278BC-F248-11E8-B48F-1D18A9856A87
last_name: Volosniev
orcid: 0000-0003-0393-5525
citation:
ama: Agafonova S, Lemeshko M, Volosniev A. Finite-range bias in fitting three-body
loss to the zero-range model. Physical Review A. 2023;107(6). doi:10.1103/PhysRevA.107.L061304
apa: Agafonova, S., Lemeshko, M., & Volosniev, A. (2023). Finite-range bias
in fitting three-body loss to the zero-range model. Physical Review A.
American Physical Society. https://doi.org/10.1103/PhysRevA.107.L061304
chicago: Agafonova, Sofya, Mikhail Lemeshko, and Artem Volosniev. “Finite-Range
Bias in Fitting Three-Body Loss to the Zero-Range Model.” Physical Review A.
American Physical Society, 2023. https://doi.org/10.1103/PhysRevA.107.L061304.
ieee: S. Agafonova, M. Lemeshko, and A. Volosniev, “Finite-range bias in fitting
three-body loss to the zero-range model,” Physical Review A, vol. 107,
no. 6. American Physical Society, 2023.
ista: Agafonova S, Lemeshko M, Volosniev A. 2023. Finite-range bias in fitting three-body
loss to the zero-range model. Physical Review A. 107(6), L061304.
mla: Agafonova, Sofya, et al. “Finite-Range Bias in Fitting Three-Body Loss to the
Zero-Range Model.” Physical Review A, vol. 107, no. 6, L061304, American
Physical Society, 2023, doi:10.1103/PhysRevA.107.L061304.
short: S. Agafonova, M. Lemeshko, A. Volosniev, Physical Review A 107 (2023).
corr_author: '1'
date_created: 2023-07-16T22:01:10Z
date_published: 2023-06-20T00:00:00Z
date_updated: 2025-04-14T07:48:53Z
day: '20'
department:
- _id: MiLe
- _id: OnHo
doi: 10.1103/PhysRevA.107.L061304
ec_funded: 1
external_id:
arxiv:
- '2302.01022'
isi:
- '001019748000005'
intvolume: ' 107'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2302.01022
month: '06'
oa: 1
oa_version: Preprint
project:
- _id: 2688CF98-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '801770'
name: 'Angulon: physics and applications of a new quasiparticle'
publication: Physical Review A
publication_identifier:
eissn:
- 2469-9934
issn:
- 2469-9926
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Finite-range bias in fitting three-body loss to the zero-range model
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 107
year: '2023'
...
---
_id: '13234'
abstract:
- lang: eng
text: Neural-network classifiers achieve high accuracy when predicting the class
of an input that they were trained to identify. Maintaining this accuracy in dynamic
environments, where inputs frequently fall outside the fixed set of initially
known classes, remains a challenge. We consider the problem of monitoring the
classification decisions of neural networks in the presence of novel classes.
For this purpose, we generalize our recently proposed abstraction-based monitor
from binary output to real-valued quantitative output. This quantitative output
enables new applications, two of which we investigate in the paper. As our first
application, we introduce an algorithmic framework for active monitoring of a
neural network, which allows us to learn new classes dynamically and yet maintain
high monitoring performance. As our second application, we present an offline
procedure to retrain the neural network to improve the monitor’s detection performance
without deteriorating the network’s classification accuracy. Our experimental
evaluation demonstrates both the benefits of our active monitoring framework in
dynamic scenarios and the effectiveness of the retraining procedure.
acknowledgement: This work was supported in part by the ERC-2020-AdG 101020093, by
DIREC - Digital Research Centre Denmark, and by the Villum Investigator Grant S4OS.
article_processing_charge: Yes (in subscription journal)
article_type: original
arxiv: 1
author:
- first_name: Konstantin
full_name: Kueffner, Konstantin
id: 8121a2d0-dc85-11ea-9058-af578f3b4515
last_name: Kueffner
orcid: 0000-0001-8974-2542
- first_name: Anna
full_name: Lukina, Anna
id: CBA4D1A8-0FE8-11E9-BDE6-07BFE5697425
last_name: Lukina
- first_name: Christian
full_name: Schilling, Christian
id: 3A2F4DCE-F248-11E8-B48F-1D18A9856A87
last_name: Schilling
orcid: 0000-0003-3658-1065
- 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: 'Kueffner K, Lukina A, Schilling C, Henzinger TA. Into the unknown: Active
monitoring of neural networks (extended version). International Journal on
Software Tools for Technology Transfer. 2023;25:575-592. doi:10.1007/s10009-023-00711-4'
apa: 'Kueffner, K., Lukina, A., Schilling, C., & Henzinger, T. A. (2023). Into
the unknown: Active monitoring of neural networks (extended version). International
Journal on Software Tools for Technology Transfer. Springer Nature. https://doi.org/10.1007/s10009-023-00711-4'
chicago: 'Kueffner, Konstantin, Anna Lukina, Christian Schilling, and Thomas A Henzinger.
“Into the Unknown: Active Monitoring of Neural Networks (Extended Version).” International
Journal on Software Tools for Technology Transfer. Springer Nature, 2023.
https://doi.org/10.1007/s10009-023-00711-4.'
ieee: 'K. Kueffner, A. Lukina, C. Schilling, and T. A. Henzinger, “Into the unknown:
Active monitoring of neural networks (extended version),” International Journal
on Software Tools for Technology Transfer, vol. 25. Springer Nature, pp. 575–592,
2023.'
ista: 'Kueffner K, Lukina A, Schilling C, Henzinger TA. 2023. Into the unknown:
Active monitoring of neural networks (extended version). International Journal
on Software Tools for Technology Transfer. 25, 575–592.'
mla: 'Kueffner, Konstantin, et al. “Into the Unknown: Active Monitoring of Neural
Networks (Extended Version).” International Journal on Software Tools for Technology
Transfer, vol. 25, Springer Nature, 2023, pp. 575–92, doi:10.1007/s10009-023-00711-4.'
short: K. Kueffner, A. Lukina, C. Schilling, T.A. Henzinger, International Journal
on Software Tools for Technology Transfer 25 (2023) 575–592.
corr_author: '1'
date_created: 2023-07-16T22:01:11Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2025-04-15T06:55:00Z
day: '01'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1007/s10009-023-00711-4
ec_funded: 1
external_id:
arxiv:
- '2009.06429'
isi:
- '001020160000001'
file:
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checksum: 3c4b347f39412a76872f9a6f30101f94
content_type: application/pdf
creator: dernst
date_created: 2024-01-30T12:06:07Z
date_updated: 2024-01-30T12:06:07Z
file_id: '14903'
file_name: 2023_JourSoftwareTools_Kueffner.pdf
file_size: 13387667
relation: main_file
success: 1
file_date_updated: 2024-01-30T12:06:07Z
has_accepted_license: '1'
intvolume: ' 25'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 575-592
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: International Journal on Software Tools for Technology Transfer
publication_identifier:
eissn:
- 1433-2787
issn:
- 1433-2779
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
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relation: shorter_version
status: public
scopus_import: '1'
status: public
title: 'Into the unknown: Active monitoring of neural networks (extended version)'
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: 25
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...