---
OA_place: repository
_id: '18294'
abstract:
- lang: eng
text: Using a two-dimensional version of the delta method, we establish an asymptotic
formula for the number of rational points of bounded height on non-singular complete
intersections of cubic and quadric hypersurfaces of dimension at least 23 over
Fq(t), provided cha(Fq)>3. Under the same hypotheses, we also verify weak approximation.
article_number: '2306.02718'
article_processing_charge: No
arxiv: 1
author:
- first_name: Jakob
full_name: Glas, Jakob
id: d6423cba-dc74-11ea-a0a7-ee61689ff5fb
last_name: Glas
citation:
ama: Glas J. Complete intersections of cubic and quadric hypersurfaces over Fq(t).
arXiv. doi:10.48550/arXiv.2306.02718
apa: Glas, J. (n.d.). Complete intersections of cubic and quadric hypersurfaces
over Fq(t). arXiv. https://doi.org/10.48550/arXiv.2306.02718
chicago: Glas, Jakob. “Complete Intersections of Cubic and Quadric Hypersurfaces
over Fq(T).” ArXiv, n.d. https://doi.org/10.48550/arXiv.2306.02718.
ieee: J. Glas, “Complete intersections of cubic and quadric hypersurfaces over Fq(t),”
arXiv. .
ista: Glas J. Complete intersections of cubic and quadric hypersurfaces over Fq(t).
arXiv, 2306.02718.
mla: Glas, Jakob. “Complete Intersections of Cubic and Quadric Hypersurfaces over
Fq(T).” ArXiv, 2306.02718, doi:10.48550/arXiv.2306.02718.
short: J. Glas, ArXiv (n.d.).
corr_author: '1'
das_tickbox: '0'
date_created: 2024-10-10T13:08:05Z
date_published: 2023-06-05T00:00:00Z
date_updated: 2026-10-02T11:44:29Z
day: '05'
department:
- _id: TiBr
doi: 10.48550/arXiv.2306.02718
external_id:
arxiv:
- '2306.02718'
fulldoi: https://doi.org/10.48550/arXiv.2306.02718
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2306.02718
month: '06'
oa: 1
oa_version: Preprint
publication: arXiv
publication_status: draft
related_material:
record:
- id: '18132'
relation: dissertation_contains
status: public
researchdata_availability: no
status: public
supplementarymaterial: no
title: Complete intersections of cubic and quadric hypersurfaces over Fq(t)
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: preprint
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
year: '2023'
...
---
OA_place: repository
OA_type: green
_id: '23142'
abstract:
- lang: eng
text: It contains the benchmarks and the results of comparison between STORM, PET
and MultiGain for the QComp category of Long-Run Average rewards.
article_processing_charge: No
author:
- first_name: Kush
full_name: Grover, Kush
last_name: Grover
- first_name: Maximilian
full_name: Weiniger, Maximilian
last_name: Weiniger
- first_name: Jan
full_name: Kretinsky, Jan
last_name: Kretinsky
citation:
ama: Grover K, Weiniger M, Kretinsky J. QComp LRA results. 2023. doi:10.5281/zenodo.8219190
apa: Grover, K., Weiniger, M., & Kretinsky, J. (2023). QComp LRA results. Zenodo.
https://doi.org/10.5281/zenodo.8219190
chicago: Grover, Kush, Maximilian Weiniger, and Jan Kretinsky. “QComp LRA Results.”
Zenodo, 2023. https://doi.org/10.5281/zenodo.8219190.
ieee: K. Grover, M. Weiniger, and J. Kretinsky, “QComp LRA results.” Zenodo, 2023.
ista: Grover K, Weiniger M, Kretinsky J. 2023. QComp LRA results, Zenodo, 10.5281/zenodo.8219190.
mla: Grover, Kush, et al. QComp LRA Results. Zenodo, 2023, doi:10.5281/zenodo.8219190.
short: K. Grover, M. Weiniger, J. Kretinsky, (2023).
date_created: 2026-10-16T07:53:22Z
date_published: 2023-08-06T00:00:00Z
date_updated: 2026-10-16T07:53:26Z
day: '06'
department:
- _id: KrCh
doi: 10.5281/zenodo.8219190
fulldoi: https://doi.org/10.5281/zenodo.8219190
main_file_link:
- open_access: '1'
url: https://doi.org/10.5281/zenodo.8219190
month: '08'
oa: 1
oa_version: None
publisher: Zenodo
related_material:
record:
- id: '18600'
relation: used_in_publication
status: public
status: public
title: QComp LRA results
type: research_data_reference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
year: '2023'
...
---
_id: '14417'
abstract:
- lang: eng
text: Entropic risk (ERisk) is an established risk measure in finance, quantifying
risk by an exponential re-weighting of rewards. We study ERisk for the first time
in the context of turn-based stochastic games with the total reward objective.
This gives rise to an objective function that demands the control of systems in
a risk-averse manner. We show that the resulting games are determined and, in
particular, admit optimal memoryless deterministic strategies. This contrasts
risk measures that previously have been considered in the special case of Markov
decision processes and that require randomization and/or memory. We provide several
results on the decidability and the computational complexity of the threshold
problem, i.e. whether the optimal value of ERisk exceeds a given threshold. In
the most general case, the problem is decidable subject to Shanuel’s conjecture.
If all inputs are rational, the resulting threshold problem can be solved using
algebraic numbers, leading to decidability via a polynomial-time reduction to
the existential theory of the reals. Further restrictions on the encoding of the
input allow the solution of the threshold problem in NP∩coNP. Finally, an approximation
algorithm for the optimal value of ERisk is provided.
acknowledgement: "This work was partly funded by the ERC CoG 863818 (ForM-SMArt),
the DFG Grant\r\n389792660 as part of TRR 248 (Foundations of Perspicuous Software
Systems), the Cluster of\r\nExcellence EXC 2050/1 (CeTI, project ID 390696704, as
part of Germany’s Excellence Strategy), and the DFG projects BA-1679/11-1 and BA-1679/12-1."
alternative_title:
- LIPIcs
article_number: '15'
article_processing_charge: Yes
arxiv: 1
author:
- first_name: Christel
full_name: Baier, Christel
last_name: Baier
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Tobias
full_name: Meggendorfer, Tobias
id: b21b0c15-30a2-11eb-80dc-f13ca25802e1
last_name: Meggendorfer
orcid: 0000-0002-1712-2165
- first_name: Jakob
full_name: Piribauer, Jakob
last_name: Piribauer
citation:
ama: 'Baier C, Chatterjee K, Meggendorfer T, Piribauer J. Entropic risk for turn-based
stochastic games. In: 48th International Symposium on Mathematical Foundations
of Computer Science. Vol 272. Schloss Dagstuhl - Leibniz-Zentrum für Informatik;
2023. doi:10.4230/LIPIcs.MFCS.2023.15'
apa: 'Baier, C., Chatterjee, K., Meggendorfer, T., & Piribauer, J. (2023). Entropic
risk for turn-based stochastic games. In 48th International Symposium on Mathematical
Foundations of Computer Science (Vol. 272). Bordeaux, France: Schloss Dagstuhl
- Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.MFCS.2023.15'
chicago: Baier, Christel, Krishnendu Chatterjee, Tobias Meggendorfer, and Jakob
Piribauer. “Entropic Risk for Turn-Based Stochastic Games.” In 48th International
Symposium on Mathematical Foundations of Computer Science, Vol. 272. Schloss
Dagstuhl - Leibniz-Zentrum für Informatik, 2023. https://doi.org/10.4230/LIPIcs.MFCS.2023.15.
ieee: C. Baier, K. Chatterjee, T. Meggendorfer, and J. Piribauer, “Entropic risk
for turn-based stochastic games,” in 48th International Symposium on Mathematical
Foundations of Computer Science, Bordeaux, France, 2023, vol. 272.
ista: 'Baier C, Chatterjee K, Meggendorfer T, Piribauer J. 2023. Entropic risk for
turn-based stochastic games. 48th International Symposium on Mathematical Foundations
of Computer Science. MFCS: Mathematical Foundations of Computer Science, LIPIcs,
vol. 272, 15.'
mla: Baier, Christel, et al. “Entropic Risk for Turn-Based Stochastic Games.” 48th
International Symposium on Mathematical Foundations of Computer Science, vol.
272, 15, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023, doi:10.4230/LIPIcs.MFCS.2023.15.
short: C. Baier, K. Chatterjee, T. Meggendorfer, J. Piribauer, in:, 48th International
Symposium on Mathematical Foundations of Computer Science, Schloss Dagstuhl -
Leibniz-Zentrum für Informatik, 2023.
conference:
end_date: 2023-09-01
location: Bordeaux, France
name: 'MFCS: Mathematical Foundations of Computer Science'
start_date: 2023-08-28
corr_author: '1'
date_created: 2023-10-09T09:21:05Z
date_published: 2023-08-21T00:00:00Z
date_updated: 2026-10-16T08:04:31Z
day: '21'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.4230/LIPIcs.MFCS.2023.15
ec_funded: 1
external_id:
arxiv:
- '2307.06611'
file:
- access_level: open_access
checksum: 402281b17ed669bbf149d0fdf68ac201
content_type: application/pdf
creator: dernst
date_created: 2023-10-09T09:19:11Z
date_updated: 2023-10-09T09:19:11Z
file_id: '14418'
file_name: 2023_LIPIcsMFCS_Baier.pdf
file_size: 826843
relation: main_file
success: 1
file_date_updated: 2023-10-09T09:19:11Z
fulldoi: https://doi.org/10.4230/LIPIcs.MFCS.2023.15
has_accepted_license: '1'
intvolume: ' 272'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '863818'
name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
publication: 48th International Symposium on Mathematical Foundations of Computer
Science
publication_identifier:
eissn:
- 1868-8969
isbn:
- '9783959772921'
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
related_material:
record:
- id: '17474'
relation: later_version
status: public
scopus_import: '1'
status: public
title: Entropic risk for turn-based stochastic games
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 272
year: '2023'
...
---
OA_type: closed access
_id: '19985'
abstract:
- lang: eng
text: We consider a natural problem dealing with weighted packet selection across
a rechargeable link, which e.g., finds applications in cryptocurrency networks.
The capacity of a link (u, v) is determined by how much nodes u and v allocate
for this link. Specifically, the input is a finite ordered sequence of packets
that arrive in both directions along a link. Given (u, v) and a packet of weight
x going from u to v, node u can either accept or reject the packet. If u accepts
the packet, the capacity on link (u, v) decreases by x. Correspondingly, v’s capacity
on (u, v) increases by x. If a node rejects the packet, this will entail a cost
affinely linear in the weight of the packet. A link is “rechargeable” in the sense
that the total capacity of the link has to remain constant, but the allocation
of capacity at the ends of the link can depend arbitrarily on the nodes’ decisions.
The goal is to minimise the sum of the capacity injected into the link and the
cost of rejecting packets. We show that the problem is NP-hard, but can be approximated
efficiently with a ratio of (1 + E) . (1 + square3) for some arbitrary E>0.
acknowledgement: We thank Mahsa Bastankhah and Mohammad Ali Maddah-Ali for fruitful
discussions about different variants of the problem. This work is supported by the
European Research Council (ERC) Consolidator Project 864228 (AdjustNet), 2020-2025,
the ERC CoG 863818 (ForM-SMArt), and the German Research Foundation (DFG) grant
470029389 (FlexNets), 2021–2024.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Stefan
full_name: Schmid, Stefan
last_name: Schmid
- first_name: Jakub
full_name: Svoboda, Jakub
id: 130759D2-D7DD-11E9-87D2-DE0DE6697425
last_name: Svoboda
orcid: 0000-0002-1419-3267
- first_name: Michelle X
full_name: Yeo, Michelle X
id: 2D82B818-F248-11E8-B48F-1D18A9856A87
last_name: Yeo
orcid: 0009-0001-3676-4809
citation:
ama: 'Schmid S, Svoboda J, Yeo MX. Weighted acket selection for rechargeable links
in cryptocurrency networks: Complexity and approximation. In: 30th International
Colloquium on Structural Information and Communication Complexity. Vol 13892.
Springer Nature; 2023:576-594. doi:10.1007/978-3-031-32733-9_26'
apa: 'Schmid, S., Svoboda, J., & Yeo, M. X. (2023). Weighted acket selection
for rechargeable links in cryptocurrency networks: Complexity and approximation.
In 30th International Colloquium on Structural Information and Communication
Complexity (Vol. 13892, pp. 576–594). Alcalá de Henares, Spain: Springer Nature.
https://doi.org/10.1007/978-3-031-32733-9_26'
chicago: 'Schmid, Stefan, Jakub Svoboda, and Michelle X Yeo. “Weighted Acket Selection
for Rechargeable Links in Cryptocurrency Networks: Complexity and Approximation.”
In 30th International Colloquium on Structural Information and Communication
Complexity, 13892:576–94. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-32733-9_26.'
ieee: 'S. Schmid, J. Svoboda, and M. X. Yeo, “Weighted acket selection for rechargeable
links in cryptocurrency networks: Complexity and approximation,” in 30th International
Colloquium on Structural Information and Communication Complexity, Alcalá
de Henares, Spain, 2023, vol. 13892, pp. 576–594.'
ista: 'Schmid S, Svoboda J, Yeo MX. 2023. Weighted acket selection for rechargeable
links in cryptocurrency networks: Complexity and approximation. 30th International
Colloquium on Structural Information and Communication Complexity. SIROCCO: International
Colloquium on Structural Information and Communication Complexity, LNCS, vol.
13892, 576–594.'
mla: 'Schmid, Stefan, et al. “Weighted Acket Selection for Rechargeable Links in Cryptocurrency
Networks: Complexity and Approximation.” 30th International Colloquium on Structural
Information and Communication Complexity, vol. 13892, Springer Nature, 2023,
pp. 576–94, doi:10.1007/978-3-031-32733-9_26.'
short: S. Schmid, J. Svoboda, M.X. Yeo, in:, 30th International Colloquium on Structural
Information and Communication Complexity, Springer Nature, 2023, pp. 576–594.
conference:
end_date: 2023-06-09
location: Alcalá de Henares, Spain
name: 'SIROCCO: International Colloquium on Structural Information and Communication
Complexity'
start_date: 2023-06-06
corr_author: '1'
date_created: 2025-07-10T13:15:43Z
date_published: 2023-05-25T00:00:00Z
date_updated: 2026-10-16T08:09:27Z
day: '25'
department:
- _id: KrCh
- _id: KrPi
doi: 10.1007/978-3-031-32733-9_26
ec_funded: 1
external_id:
isi:
- '001292782600026'
fulldoi: https://doi.org/10.1007/978-3-031-32733-9_26
intvolume: ' 13892'
isi: 1
language:
- iso: eng
month: '05'
oa_version: None
page: 576-594
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '863818'
name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
publication: 30th International Colloquium on Structural Information and Communication
Complexity
publication_identifier:
eisbn:
- '9783031327339'
eissn:
- 1611-3349
isbn:
- '9783031327322'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '14820'
relation: later_version
status: public
scopus_import: '1'
status: public
title: 'Weighted acket selection for rechargeable links in cryptocurrency networks:
Complexity and approximation'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13892
year: '2023'
...
---
OA_place: repository
_id: '17173'
abstract:
- lang: eng
text: Consider the random variable $\mathrm{Tr}( f_1(W)A_1\dots f_k(W)A_k)$ where
$W$ is an $N\times N$ Hermitian Wigner matrix, $k\in\mathbb{N}$, and choose (possibly
$N$-dependent) regular functions $f_1,\dots, f_k$ as well as bounded deterministic
matrices $A_1,\dots,A_k$. We give a functional central limit theorem showing that
the fluctuations around the expectation are Gaussian. Moreover, we determine the
limiting covariance structure and give explicit error bounds in terms of the scaling
of $f_1,\dots,f_k$ and the number of traceless matrices among $A_1,\dots,A_k$,
thus extending the results of [Cipolloni, Erdős, Schröder 2023] to products of
arbitrary length $k\geq2$. As an application, we consider the fluctuation of $\mathrm{Tr}(\mathrm{e}^{\mathrm{i}
tW}A_1\mathrm{e}^{-\mathrm{i} tW}A_2)$ around its thermal value $\mathrm{Tr}(A_1)\mathrm{Tr}(A_2)$
when $t$ is large and give an explicit formula for the variance.
article_number: '2307.11028'
article_processing_charge: No
arxiv: 1
author:
- first_name: Jana
full_name: Reker, Jana
id: e796e4f9-dc8d-11ea-abe3-97e26a0323e9
last_name: Reker
citation:
ama: Reker J. Multi-point functional central limit theorem for Wigner Matrices.
arXiv. doi:10.48550/arXiv.2307.11028
apa: Reker, J. (n.d.). Multi-point functional central limit theorem for Wigner Matrices.
arXiv. https://doi.org/10.48550/arXiv.2307.11028
chicago: Reker, Jana. “Multi-Point Functional Central Limit Theorem for Wigner Matrices.”
ArXiv, n.d. https://doi.org/10.48550/arXiv.2307.11028.
ieee: J. Reker, “Multi-point functional central limit theorem for Wigner Matrices,”
arXiv. .
ista: Reker J. Multi-point functional central limit theorem for Wigner Matrices.
arXiv, 2307.11028.
mla: Reker, Jana. “Multi-Point Functional Central Limit Theorem for Wigner Matrices.”
ArXiv, 2307.11028, doi:10.48550/arXiv.2307.11028.
short: J. Reker, ArXiv (n.d.).
date_created: 2024-06-26T08:54:56Z
date_published: 2023-07-21T00:00:00Z
date_updated: 2026-10-16T08:38:42Z
day: '21'
department:
- _id: LaEr
doi: 10.48550/arXiv.2307.11028
external_id:
arxiv:
- '2307.11028'
fulldoi: https://doi.org/10.48550/arXiv.2307.11028
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2307.11028
month: '07'
oa: 1
oa_version: Preprint
publication: arXiv
publication_status: draft
related_material:
record:
- id: '17164'
relation: dissertation_contains
status: public
- id: '18762'
relation: later_version
status: public
status: public
title: Multi-point functional central limit theorem for Wigner Matrices
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
OA_place: repository
_id: '17174'
abstract:
- lang: eng
text: We prove that a class of weakly perturbed Hamiltonians of the form $H_λ= H_0
+ λW$, with $W$ being a Wigner matrix, exhibits prethermalization. That is, the
time evolution generated by $H_λ$ relaxes to its ultimate thermal state via an
intermediate prethermal state with a lifetime of order $λ^{-2}$. Moreover, we
obtain a general relaxation formula, expressing the perturbed dynamics via the
unperturbed dynamics and the ultimate thermal state. The proof relies on a two-resolvent
law for the deformed Wigner matrix $H_λ$.
article_number: '2310.06677'
article_processing_charge: No
arxiv: 1
author:
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Sven Joscha
full_name: Henheik, Sven Joscha
id: 31d731d7-d235-11ea-ad11-b50331c8d7fb
last_name: Henheik
orcid: 0000-0003-1106-327X
- first_name: Jana
full_name: Reker, Jana
id: e796e4f9-dc8d-11ea-abe3-97e26a0323e9
last_name: Reker
- first_name: Volodymyr
full_name: Riabov, Volodymyr
id: 1949f904-edfb-11eb-afb5-e2dfddabb93b
last_name: Riabov
citation:
ama: Erdös L, Henheik SJ, Reker J, Riabov V. Prethermalization for deformed Wigner
Matrices. arXiv. doi:10.48550/arXiv.2310.06677
apa: Erdös, L., Henheik, S. J., Reker, J., & Riabov, V. (n.d.). Prethermalization
for deformed Wigner Matrices. arXiv. https://doi.org/10.48550/arXiv.2310.06677
chicago: Erdös, László, Sven Joscha Henheik, Jana Reker, and Volodymyr Riabov. “Prethermalization
for Deformed Wigner Matrices.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2310.06677.
ieee: L. Erdös, S. J. Henheik, J. Reker, and V. Riabov, “Prethermalization for deformed
Wigner Matrices,” arXiv. .
ista: Erdös L, Henheik SJ, Reker J, Riabov V. Prethermalization for deformed Wigner
Matrices. arXiv, 2310.06677.
mla: Erdös, László, et al. “Prethermalization for Deformed Wigner Matrices.” ArXiv,
2310.06677, doi:10.48550/arXiv.2310.06677.
short: L. Erdös, S.J. Henheik, J. Reker, V. Riabov, ArXiv (n.d.).
corr_author: '1'
date_created: 2024-06-26T08:56:52Z
date_published: 2023-12-23T00:00:00Z
date_updated: 2026-10-16T08:41:47Z
day: '23'
department:
- _id: LaEr
doi: 10.48550/arXiv.2310.06677
ec_funded: 1
external_id:
arxiv:
- '2310.06677'
fulldoi: https://doi.org/10.48550/arXiv.2310.06677
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2310.06677
month: '12'
oa: 1
oa_version: Preprint
project:
- _id: 62796744-2b32-11ec-9570-940b20777f1d
call_identifier: H2020
grant_number: '101020331'
name: Random matrices beyond Wigner-Dyson-Mehta
publication: arXiv
publication_status: draft
related_material:
record:
- id: '20575'
relation: dissertation_contains
status: public
- id: '17164'
relation: dissertation_contains
status: public
- id: '18764'
relation: later_version
status: public
status: public
title: Prethermalization for deformed Wigner Matrices
type: preprint
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2023'
...
---
_id: '14922'
abstract:
- lang: eng
text: 'We propose a novel approach to concentration for non-independent random variables.
The main idea is to ``pretend'''' that the random variables are independent and
pay a multiplicative price measuring how far they are from actually being independent.
This price is encapsulated in the Hellinger integral between the joint and the
product of the marginals, which is then upper bounded leveraging tensorisation
properties. Our bounds represent a natural generalisation of concentration inequalities
in the presence of dependence: we recover exactly the classical bounds (McDiarmid''s
inequality) when the random variables are independent. Furthermore, in a ``large
deviations'''' regime, we obtain the same decay in the probability as for the
independent case, even when the random variables display non-trivial dependencies.
To show this, we consider a number of applications of interest. First, we provide
a bound for Markov chains with finite state space. Then, we consider the Simple
Symmetric Random Walk, which is a non-contracting Markov chain, and a non-Markovian
setting in which the stochastic process depends on its entire past. To conclude,
we propose an application to Markov Chain Monte Carlo methods, where our approach
leads to an improved lower bound on the minimum burn-in period required to reach
a certain accuracy. In all of these settings, we provide a regime of parameters
in which our bound fares better than what the state of the art can provide.'
acknowledgement: The authors are partially supported by the 2019 Lopez-Loreta Prize.
They would also like to thank Professor Jan Maas for providing valuable suggestions
and comments on an early version of the work.
article_processing_charge: No
arxiv: 1
author:
- first_name: Amedeo Roberto
full_name: Esposito, Amedeo Roberto
id: 9583e921-e1ad-11ec-9862-cef099626dc9
last_name: Esposito
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
citation:
ama: 'Esposito AR, Mondelli M. Concentration without independence via information
measures. In: Proceedings of 2023 IEEE International Symposium on Information
Theory. IEEE; 2023:400-405. doi:10.1109/isit54713.2023.10206899'
apa: 'Esposito, A. R., & Mondelli, M. (2023). Concentration without independence
via information measures. In Proceedings of 2023 IEEE International Symposium
on Information Theory (pp. 400–405). Taipei, Taiwan: IEEE. https://doi.org/10.1109/isit54713.2023.10206899'
chicago: Esposito, Amedeo Roberto, and Marco Mondelli. “Concentration without Independence
via Information Measures.” In Proceedings of 2023 IEEE International Symposium
on Information Theory, 400–405. IEEE, 2023. https://doi.org/10.1109/isit54713.2023.10206899.
ieee: A. R. Esposito and M. Mondelli, “Concentration without independence via information
measures,” in Proceedings of 2023 IEEE International Symposium on Information
Theory, Taipei, Taiwan, 2023, pp. 400–405.
ista: 'Esposito AR, Mondelli M. 2023. Concentration without independence via information
measures. Proceedings of 2023 IEEE International Symposium on Information Theory.
ISIT: International Symposium on Information Theory, 400–405.'
mla: Esposito, Amedeo Roberto, and Marco Mondelli. “Concentration without Independence
via Information Measures.” Proceedings of 2023 IEEE International Symposium
on Information Theory, IEEE, 2023, pp. 400–05, doi:10.1109/isit54713.2023.10206899.
short: A.R. Esposito, M. Mondelli, in:, Proceedings of 2023 IEEE International Symposium
on Information Theory, IEEE, 2023, pp. 400–405.
conference:
end_date: 2023-06-30
location: Taipei, Taiwan
name: 'ISIT: International Symposium on Information Theory'
start_date: 2023-06-25
corr_author: '1'
date_created: 2024-02-02T11:18:40Z
date_published: 2023-06-30T00:00:00Z
date_updated: 2026-10-16T10:39:43Z
day: '30'
department:
- _id: MaMo
doi: 10.1109/isit54713.2023.10206899
external_id:
arxiv:
- '2303.07245'
fulldoi: https://doi.org/10.1109/isit54713.2023.10206899
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2303.07245
month: '06'
oa: 1
oa_version: Preprint
page: 400-405
project:
- _id: 059876FA-7A3F-11EA-A408-12923DDC885E
name: Prix Lopez-Loretta 2019 - Marco Mondelli
publication: Proceedings of 2023 IEEE International Symposium on Information Theory
publication_identifier:
eisbn:
- '9781665475549'
eissn:
- 2157-8117
publication_status: published
publisher: IEEE
quality_controlled: '1'
related_material:
record:
- id: '15172'
relation: later_version
status: public
scopus_import: '1'
status: public
title: Concentration without independence via information measures
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14083'
abstract:
- lang: eng
text: "In this work we consider the list-decodability and list-recoverability of
arbitrary q-ary codes, for all integer values of q ≥ 2. A code is called (p,L)_q-list-decodable
if every radius pn Hamming ball contains less than L codewords; (p,\U0001D4C1,L)_q-list-recoverability
is a generalization where we place radius pn Hamming balls on every point of a
combinatorial rectangle with side length \U0001D4C1 and again stipulate that there
be less than L codewords.\r\nOur main contribution is to precisely calculate the
maximum value of p for which there exist infinite families of positive rate (p,\U0001D4C1,L)_q-list-recoverable
codes, the quantity we call the zero-rate threshold. Denoting this value by p_*,
we in fact show that codes correcting a p_*+ε fraction of errors must have size
O_ε(1), i.e., independent of n. Such a result is typically referred to as a \"Plotkin
bound.\" To complement this, a standard random code with expurgation construction
shows that there exist positive rate codes correcting a p_*-ε fraction of errors.
We also follow a classical proof template (typically attributed to Elias and Bassalygo)
to derive from the zero-rate threshold other tradeoffs between rate and decoding
radius for list-decoding and list-recovery.\r\nTechnically, proving the Plotkin
bound boils down to demonstrating the Schur convexity of a certain function defined
on the q-simplex as well as the convexity of a univariate function derived from
it. We remark that an earlier argument claimed similar results for q-ary list-decoding;
however, we point out that this earlier proof is flawed."
acknowledgement: "Nicolas Resch: Research supported in part by ERC H2020 grant No.74079
(ALGSTRONGCRYPTO). Chen Yuan: Research supported in part by the National Key Research
and Development Projects under Grant 2022YFA1004900 and Grant 2021YFE0109900, the
National Natural Science Foundation of China under Grant 12101403 and Grant 12031011.\r\nAcknowledgements
YZ is grateful to Shashank Vatedka, Diyuan Wu and Fengxing Zhu for inspiring discussions."
alternative_title:
- LIPIcs
article_number: '99'
article_processing_charge: Yes
arxiv: 1
author:
- first_name: Nicolas
full_name: Resch, Nicolas
last_name: Resch
- first_name: Chen
full_name: Yuan, Chen
last_name: Yuan
- first_name: Yihan
full_name: Zhang, Yihan
id: 2ce5da42-b2ea-11eb-bba5-9f264e9d002c
last_name: Zhang
orcid: 0000-0002-6465-6258
citation:
ama: 'Resch N, Yuan C, Zhang Y. Zero-rate thresholds and new capacity bounds for
list-decoding and list-recovery. In: 50th International Colloquium on Automata,
Languages, and Programming. Vol 261. Schloss Dagstuhl - Leibniz-Zentrum für
Informatik; 2023. doi:10.4230/LIPIcs.ICALP.2023.99'
apa: 'Resch, N., Yuan, C., & Zhang, Y. (2023). Zero-rate thresholds and new
capacity bounds for list-decoding and list-recovery. In 50th International
Colloquium on Automata, Languages, and Programming (Vol. 261). Paderborn,
Germany: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.ICALP.2023.99'
chicago: Resch, Nicolas, Chen Yuan, and Yihan Zhang. “Zero-Rate Thresholds and New
Capacity Bounds for List-Decoding and List-Recovery.” In 50th International
Colloquium on Automata, Languages, and Programming, Vol. 261. Schloss Dagstuhl
- Leibniz-Zentrum für Informatik, 2023. https://doi.org/10.4230/LIPIcs.ICALP.2023.99.
ieee: N. Resch, C. Yuan, and Y. Zhang, “Zero-rate thresholds and new capacity bounds
for list-decoding and list-recovery,” in 50th International Colloquium on Automata,
Languages, and Programming, Paderborn, Germany, 2023, vol. 261.
ista: 'Resch N, Yuan C, Zhang Y. 2023. Zero-rate thresholds and new capacity bounds
for list-decoding and list-recovery. 50th International Colloquium on Automata,
Languages, and Programming. ICALP: Automata, Languages and Programming, LIPIcs,
vol. 261, 99.'
mla: Resch, Nicolas, et al. “Zero-Rate Thresholds and New Capacity Bounds for List-Decoding
and List-Recovery.” 50th International Colloquium on Automata, Languages, and
Programming, vol. 261, 99, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2023, doi:10.4230/LIPIcs.ICALP.2023.99.
short: N. Resch, C. Yuan, Y. Zhang, in:, 50th International Colloquium on Automata,
Languages, and Programming, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2023.
conference:
end_date: 2023-07-14
location: Paderborn, Germany
name: 'ICALP: Automata, Languages and Programming'
start_date: 2023-07-10
corr_author: '1'
date_created: 2023-08-20T22:01:13Z
date_published: 2023-07-01T00:00:00Z
date_updated: 2026-10-16T10:41:58Z
day: '01'
ddc:
- '000'
department:
- _id: MaMo
doi: 10.4230/LIPIcs.ICALP.2023.99
external_id:
arxiv:
- '2210.07754'
file:
- access_level: open_access
checksum: a449143fec3fbebb092cb8ef3b53c226
content_type: application/pdf
creator: dernst
date_created: 2023-08-21T07:23:18Z
date_updated: 2023-08-21T07:23:18Z
file_id: '14091'
file_name: 2023_LIPIcsICALP_Resch.pdf
file_size: 1141497
relation: main_file
success: 1
file_date_updated: 2023-08-21T07:23:18Z
fulldoi: https://doi.org/10.4230/LIPIcs.ICALP.2023.99
has_accepted_license: '1'
intvolume: ' 261'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
publication: 50th International Colloquium on Automata, Languages, and Programming
publication_identifier:
isbn:
- '9783959772785'
issn:
- 1868-8969
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
related_material:
record:
- id: '17330'
relation: later_version
status: public
scopus_import: '1'
status: public
title: Zero-rate thresholds and new capacity bounds for list-decoding and list-recovery
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 261
year: '2023'
...
---
_id: '13276'
abstract:
- lang: eng
text: We introduce a generic and accessible implementation of an exact diagonalization
method for studying few-fermion models. Our aim is to provide a testbed for the
newcomers to the field as well as a stepping stone for trying out novel optimizations
and approximations. This userguide consists of a description of the algorithm,
and several examples in varying orders of sophistication. In particular, we exemplify
our routine using an effective-interaction approach that fixes the low-energy
physics. We benchmark this approach against the existing data, and show that it
is able to deliver state-of-the-art numerical results at a significantly reduced
computational cost.
acknowledgement: "We acknowledge fruitful discussions with Hans-Werner Hammer and
thank Gerhard Zürn and\r\nPietro Massignan for sending us their data. We thank Fabian
Brauneis for beta-testing the\r\nprovided code-package, and comments on the manuscript.\r\nL.R.
is supported by FP7/ERC Consolidator Grant QSIMCORR, No.\r\n771891, and the Deutsche
Forschungsgemeinschaft (DFG, German Research Foundation) under\r\nGermany’s Excellence
Strategy –EXC–2111–390814868. A.G.V. acknowledges support\r\nby European Union’s
Horizon 2020 research and innovation programme under the Marie\r\nSkłodowska-Curie
Grant Agreement No. 754411."
article_number: '12'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Lukas
full_name: Rammelmüller, Lukas
last_name: Rammelmüller
- first_name: David
full_name: Huber, David
last_name: Huber
- first_name: Artem
full_name: Volosniev, Artem
id: 37D278BC-F248-11E8-B48F-1D18A9856A87
last_name: Volosniev
orcid: 0000-0003-0393-5525
citation:
ama: Rammelmüller L, Huber D, Volosniev A. A modular implementation of an effective
interaction approach for harmonically trapped fermions in 1D. SciPost Physics
Codebases. 2023. doi:10.21468/scipostphyscodeb.12
apa: Rammelmüller, L., Huber, D., & Volosniev, A. (2023). A modular implementation
of an effective interaction approach for harmonically trapped fermions in 1D.
SciPost Physics Codebases. SciPost Foundation. https://doi.org/10.21468/scipostphyscodeb.12
chicago: Rammelmüller, Lukas, David Huber, and Artem Volosniev. “A Modular Implementation
of an Effective Interaction Approach for Harmonically Trapped Fermions in 1D.”
SciPost Physics Codebases. SciPost Foundation, 2023. https://doi.org/10.21468/scipostphyscodeb.12.
ieee: L. Rammelmüller, D. Huber, and A. Volosniev, “A modular implementation of
an effective interaction approach for harmonically trapped fermions in 1D,” SciPost
Physics Codebases. SciPost Foundation, 2023.
ista: Rammelmüller L, Huber D, Volosniev A. 2023. A modular implementation of an
effective interaction approach for harmonically trapped fermions in 1D. SciPost
Physics Codebases., 12.
mla: Rammelmüller, Lukas, et al. “A Modular Implementation of an Effective Interaction
Approach for Harmonically Trapped Fermions in 1D.” SciPost Physics Codebases,
12, SciPost Foundation, 2023, doi:10.21468/scipostphyscodeb.12.
short: L. Rammelmüller, D. Huber, A. Volosniev, SciPost Physics Codebases (2023).
corr_author: '1'
date_created: 2023-07-24T10:47:15Z
date_published: 2023-04-19T00:00:00Z
date_updated: 2026-10-20T09:16:36Z
day: '19'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.21468/scipostphyscodeb.12
ec_funded: 1
external_id:
arxiv:
- '2202.04603'
file:
- access_level: open_access
checksum: f583a70fe915d2208c803f5afb426daa
content_type: application/pdf
creator: dernst
date_created: 2023-07-31T09:09:23Z
date_updated: 2023-07-31T09:09:23Z
file_id: '13330'
file_name: 2023_SciPostPhysCodebase_Rammelmueller.pdf
file_size: 551418
relation: main_file
success: 1
file_date_updated: 2023-07-31T09:09:23Z
fulldoi: https://doi.org/10.21468/scipostphyscodeb.12
has_accepted_license: '1'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: SciPost Physics Codebases
publication_identifier:
issn:
- 2949-804X
publication_status: published
publisher: SciPost Foundation
quality_controlled: '1'
related_material:
record:
- id: '13275'
relation: research_data
status: public
status: public
title: A modular implementation of an effective interaction approach for harmonically
trapped fermions in 1D
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
year: '2023'
...
---
_id: '13275'
abstract:
- lang: eng
text: We introduce a generic and accessible implementation of an exact diagonalization
method for studying few-fermion models. Our aim is to provide a testbed for the
newcomers to the field as well as a stepping stone for trying out novel optimizations
and approximations. This userguide consists of a description of the algorithm,
and several examples in varying orders of sophistication. In particular, we exemplify
our routine using an effective-interaction approach that fixes the low-energy
physics. We benchmark this approach against the existing data, and show that it
is able to deliver state-of-the-art numerical results at a significantly reduced
computational cost.
article_processing_charge: No
author:
- first_name: Lukas
full_name: Rammelmüller, Lukas
last_name: Rammelmüller
- first_name: David
full_name: Huber, David
last_name: Huber
- first_name: Artem
full_name: Volosniev, Artem
id: 37D278BC-F248-11E8-B48F-1D18A9856A87
last_name: Volosniev
orcid: 0000-0003-0393-5525
citation:
ama: Rammelmüller L, Huber D, Volosniev A. Codebase release 1.0 for FermiFCI. 2023.
doi:10.21468/scipostphyscodeb.12-r1.0
apa: Rammelmüller, L., Huber, D., & Volosniev, A. (2023). Codebase release 1.0
for FermiFCI. SciPost Foundation. https://doi.org/10.21468/scipostphyscodeb.12-r1.0
chicago: Rammelmüller, Lukas, David Huber, and Artem Volosniev. “Codebase Release
1.0 for FermiFCI.” SciPost Foundation, 2023. https://doi.org/10.21468/scipostphyscodeb.12-r1.0.
ieee: L. Rammelmüller, D. Huber, and A. Volosniev, “Codebase release 1.0 for FermiFCI.”
SciPost Foundation, 2023.
ista: Rammelmüller L, Huber D, Volosniev A. 2023. Codebase release 1.0 for FermiFCI,
SciPost Foundation, 10.21468/scipostphyscodeb.12-r1.0.
mla: Rammelmüller, Lukas, et al. Codebase Release 1.0 for FermiFCI. SciPost
Foundation, 2023, doi:10.21468/scipostphyscodeb.12-r1.0.
short: L. Rammelmüller, D. Huber, A. Volosniev, (2023).
corr_author: '1'
date_created: 2023-07-24T10:46:23Z
date_published: 2023-04-19T00:00:00Z
date_updated: 2026-10-20T09:16:35Z
day: '19'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.21468/scipostphyscodeb.12-r1.0
ec_funded: 1
fulldoi: https://doi.org/10.21468/scipostphyscodeb.12-r1.0
main_file_link:
- open_access: '1'
url: https://doi.org/10.21468/SciPostPhysCodeb.12-r1.0
month: '04'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publisher: SciPost Foundation
related_material:
record:
- id: '13276'
relation: used_in_publication
status: public
status: public
title: Codebase release 1.0 for FermiFCI
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13236'
abstract:
- lang: eng
text: We present an auction algorithm using multiplicative instead of constant weight
updates to compute a (1−ε)-approximate maximum weight matching (MWM) in a bipartite
graph with n vertices and m edges in time O(mε−1log(ε−1)), matching the running
time of the linear-time approximation algorithm of Duan and Pettie [JACM ’14].
Our algorithm is very simple and it can be extended to give a dynamic data structure
that maintains a (1−ε)-approximate maximum weight matching under (1) one-sided
vertex deletions (with incident edges) and (2) one-sided vertex insertions (with
incident edges sorted by weight) to the other side. The total time time used is
O(mε−1log(ε−1)), where m is the sum of the number of initially existing and inserted
edges.
acknowledgement: The first author thanks to Chandra Chekuri for useful discussions
about this paper. This project has received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation programme
(Grant agreement No. 101019564 “The Design of Modern Fully Dynamic Data Structures
(MoDynStruct)” and from the Austrian Science Fund (FWF) project “Fast Algorithms
for a Reactive Network Layer (ReactNet)”, P 33775-N, with additional funding from
the netidee SCIENCE Stiftung, 2020–2024.
alternative_title:
- LNCS
article_processing_charge: No
arxiv: 1
author:
- first_name: Da Wei
full_name: Zheng, Da Wei
last_name: Zheng
- first_name: Monika H
full_name: Henzinger, Monika H
id: 540c9bbd-f2de-11ec-812d-d04a5be85630
last_name: Henzinger
orcid: 0000-0002-5008-6530
citation:
ama: 'Zheng DW, Henzinger M. Multiplicative auction algorithm for approximate maximum
weight bipartite matching. In: International Conference on Integer Programming
and Combinatorial Optimization. Vol 13904. Springer Nature; 2023:453-465.
doi:10.1007/978-3-031-32726-1_32'
apa: 'Zheng, D. W., & Henzinger, M. (2023). Multiplicative auction algorithm
for approximate maximum weight bipartite matching. In International Conference
on Integer Programming and Combinatorial Optimization (Vol. 13904, pp. 453–465).
Madison, WI, United States: Springer Nature. https://doi.org/10.1007/978-3-031-32726-1_32'
chicago: Zheng, Da Wei, and Monika Henzinger. “Multiplicative Auction Algorithm
for Approximate Maximum Weight Bipartite Matching.” In International Conference
on Integer Programming and Combinatorial Optimization, 13904:453–65. Springer
Nature, 2023. https://doi.org/10.1007/978-3-031-32726-1_32.
ieee: D. W. Zheng and M. Henzinger, “Multiplicative auction algorithm for approximate
maximum weight bipartite matching,” in International Conference on Integer
Programming and Combinatorial Optimization, Madison, WI, United States, 2023,
vol. 13904, pp. 453–465.
ista: 'Zheng DW, Henzinger M. 2023. Multiplicative auction algorithm for approximate
maximum weight bipartite matching. International Conference on Integer Programming
and Combinatorial Optimization. IPCO: Integer Programming and Combinatorial Optimization,
LNCS, vol. 13904, 453–465.'
mla: Zheng, Da Wei, and Monika Henzinger. “Multiplicative Auction Algorithm for Approximate
Maximum Weight Bipartite Matching.” International Conference on Integer Programming
and Combinatorial Optimization, vol. 13904, Springer Nature, 2023, pp. 453–65,
doi:10.1007/978-3-031-32726-1_32.
short: D.W. Zheng, M. Henzinger, in:, International Conference on Integer Programming
and Combinatorial Optimization, Springer Nature, 2023, pp. 453–465.
conference:
end_date: 2023-06-23
location: Madison, WI, United States
name: 'IPCO: Integer Programming and Combinatorial Optimization'
start_date: 2023-06-21
date_created: 2023-07-16T22:01:11Z
date_published: 2023-05-22T00:00:00Z
date_updated: 2026-10-21T08:03:01Z
day: '22'
department:
- _id: MoHe
doi: 10.1007/978-3-031-32726-1_32
ec_funded: 1
external_id:
arxiv:
- '2301.09217'
isi:
- '001281059600032'
fulldoi: https://doi.org/10.1007/978-3-031-32726-1_32
intvolume: ' 13904'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2301.09217
month: '05'
oa: 1
oa_version: Preprint
page: 453-465
project:
- _id: bd9ca328-d553-11ed-ba76-dc4f890cfe62
call_identifier: H2020
grant_number: '101019564'
name: The design and evaluation of modern fully dynamic data structures
- _id: bd9e3a2e-d553-11ed-ba76-8aa684ce17fe
grant_number: P33775
name: Fast Algorithms for a Reactive Network Layer
publication: International Conference on Integer Programming and Combinatorial Optimization
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783031327254'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '15121'
relation: later_version
status: public
scopus_import: '1'
status: public
title: Multiplicative auction algorithm for approximate maximum weight bipartite matching
type: conference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 13904
year: '2023'
...
---
OA_place: repository
OA_type: green
_id: '22867'
abstract:
- lang: eng
text: 'The impact of ongoing climate change on populations will be contingent upon
their contemporary adaptive evolution. In this study, we investigated the contemporary
evolution of four populations of the cold-water kelp Laminaria digitata by analysing
their spatial and temporal genomic variation using ddRAD-sequencing. These populations
were sampled from the center to the southern margin of its north-eastern Atlantic
distribution at two-time points, spanning at least two generations. Through genome
scans for local adaptation at a single time point, we identified candidate loci
that showed clinal variation correlated with changes in sea surface temperature
(SST) along latitudinal gradients. This finding suggests that SST may drive the
adaptive response of these kelp populations, although factors such as species''
demographic history should also be considered. Additionally, we performed a simulation
approach to distinguish the effect of selection from genetic drift in allele frequency
changes over time. This enabled the detection of loci in the southernmost population
that exhibited temporal differentiation beyond what would be expected from genetic
drift alone: these are candidate loci which could have evolved under selection
over time. In contrast, we did not detect any outlier locus based on temporal
differentiation in the population from the North Sea, which also displayed low
and decreasing levels of genetic diversity. The diverse evolutionary scenarios
observed among populations can be attributed to variations in the prevalence of
selection relative to genetic drift across different environments. Therefore,
our study highlights the potential of temporal genomics to offer valuable insights
into the contemporary evolution of marine foundation species facing climate change.'
article_processing_charge: No
author:
- first_name: Lauric
full_name: Reynes, Lauric
last_name: Reynes
citation:
ama: 'Reynes L. Genomic datasets of Laminaria digitata: Paired-end reads from dd-RADseq,
reference genome assembly and filtered VCF. 2023. doi:10.5061/dryad.tb2rbp064'
apa: 'Reynes, L. (2023). Genomic datasets of Laminaria digitata: Paired-end reads
from dd-RADseq, reference genome assembly and filtered VCF. Repository. https://doi.org/10.5061/dryad.tb2rbp064'
chicago: 'Reynes, Lauric. “Genomic Datasets of Laminaria Digitata: Paired-End Reads
from Dd-RADseq, Reference Genome Assembly and Filtered VCF.” Repository, 2023.
https://doi.org/10.5061/dryad.tb2rbp064.'
ieee: 'L. Reynes, “Genomic datasets of Laminaria digitata: Paired-end reads from
dd-RADseq, reference genome assembly and filtered VCF.” Repository, 2023.'
ista: 'Reynes L. 2023. Genomic datasets of Laminaria digitata: Paired-end reads
from dd-RADseq, reference genome assembly and filtered VCF, Repository, 10.5061/dryad.tb2rbp064.'
mla: 'Reynes, Lauric. Genomic Datasets of Laminaria Digitata: Paired-End Reads
from Dd-RADseq, Reference Genome Assembly and Filtered VCF. Repository, 2023,
doi:10.5061/dryad.tb2rbp064.'
short: L. Reynes, (2023).
date_created: 2026-09-09T09:33:28Z
date_published: 2023-06-20T00:00:00Z
date_updated: 2026-10-21T08:10:14Z
day: '20'
department:
- _id: NiBa
doi: 10.5061/dryad.tb2rbp064
fulldoi: https://doi.org/10.5061/dryad.tb2rbp064
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.tb2rbp064
month: '06'
oa: 1
oa_version: None
publisher: Repository
related_material:
record:
- id: '17237'
relation: used_in_publication
status: public
status: public
title: 'Genomic datasets of Laminaria digitata: Paired-end reads from dd-RADseq, reference
genome assembly and filtered VCF'
type: research_data_reference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
year: '2023'
...
---
OA_place: repository
OA_type: green
_id: '22868'
article_processing_charge: No
author:
- first_name: Arka
full_name: Pal, Arka
last_name: Pal
- first_name: Joshi
full_name: Mihir, Joshi
last_name: Mihir
- first_name: Maria
full_name: Thaker, Maria
last_name: Thaker
citation:
ama: 'Pal A, Mihir J, Thaker M. Raw data for: Too much information? Males convey
parasite levels using more signal modalities than females utilise. 2023. doi:10.5281/zenodo.10423539'
apa: 'Pal, A., Mihir, J., & Thaker, M. (2023). Raw data for: Too much information?
Males convey parasite levels using more signal modalities than females utilise.
Repository. https://doi.org/10.5281/zenodo.10423539'
chicago: 'Pal, Arka, Joshi Mihir, and Maria Thaker. “Raw Data for: Too Much Information?
Males Convey Parasite Levels Using More Signal Modalities than Females Utilise.”
Repository, 2023. https://doi.org/10.5281/zenodo.10423539.'
ieee: 'A. Pal, J. Mihir, and M. Thaker, “Raw data for: Too much information? Males
convey parasite levels using more signal modalities than females utilise.” Repository,
2023.'
ista: 'Pal A, Mihir J, Thaker M. 2023. Raw data for: Too much information? Males
convey parasite levels using more signal modalities than females utilise., Repository,
10.5281/zenodo.10423539.'
mla: 'Pal, Arka, et al. Raw Data for: Too Much Information? Males Convey Parasite
Levels Using More Signal Modalities than Females Utilise. Repository, 2023,
doi:10.5281/zenodo.10423539.'
short: A. Pal, J. Mihir, M. Thaker, (2023).
date_created: 2026-09-09T09:54:36Z
date_published: 2023-12-22T00:00:00Z
date_updated: 2026-10-21T08:13:06Z
day: '22'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.5281/zenodo.10423539
fulldoi: https://doi.org/10.5281/zenodo.10423539
main_file_link:
- open_access: '1'
url: https://doi.org/10.5281/zenodo.10423539
month: '12'
oa: 1
oa_version: None
publisher: Repository
related_material:
record:
- id: '14850'
relation: used_in_publication
status: public
status: public
title: 'Raw data for: Too much information? Males convey parasite levels using more
signal modalities than females utilise.'
type: research_data_reference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
year: '2023'
...
---
OA_place: repository
_id: '14732'
abstract:
- lang: eng
text: 'Fragmented landscapes pose a significant threat to the persistence of species
as they are highly susceptible to heightened risk of extinction due to the combined
effects of genetic and demographic factors such as genetic drift and demographic
stochasticity. This paper explores the intricate interplay between genetic load
and extinction risk within metapopulations with a focus on understanding the impact
of eco-evolutionary feedback mechanisms. We distinguish between two models of
selection: soft selection, characterised by subpopulations maintaining carrying
capacity despite load, and hard selection, where load can significantly affect
population size. Within the soft selection framework, we investigate the impact
of gene flow on genetic load at a single locus, while also considering the effect
of selection strength and dominance coefficient. We subsequently build on this
to examine how gene flow influences both population size and load under hard selection
as well as identify critical thresholds for metapopulation persistence. Our analysis
employs the diffusion, semi-deterministic and effective migration approximations.
Our findings reveal that under soft selection, even modest levels of migration
can significantly alleviate the burden of load. In sharp contrast, with hard selection,
a much higher degree of gene flow is required to mitigate load and prevent the
collapse of the metapopulation. Overall, this study sheds light into the crucial
role migration plays in shaping the dynamics of genetic load and extinction risk
in fragmented landscapes, offering valuable insights for conservation strategies
and the preservation of diversity in a changing world.'
article_processing_charge: No
author:
- first_name: Oluwafunmilola O
full_name: Olusanya, Oluwafunmilola O
id: 41AD96DC-F248-11E8-B48F-1D18A9856A87
last_name: Olusanya
orcid: 0000-0003-1971-8314
- first_name: Kseniia
full_name: Khudiakova, Kseniia
id: 4E6DC800-AE37-11E9-AC72-31CAE5697425
last_name: Khudiakova
orcid: 0000-0002-6246-1465
- first_name: Himani
full_name: Sachdeva, Himani
id: 42377A0A-F248-11E8-B48F-1D18A9856A87
last_name: Sachdeva
citation:
ama: Olusanya OO, Khudiakova K, Sachdeva H. Genetic load, eco-evolutionary feedback
and extinction in a metapopulation. bioRxiv. doi:10.1101/2023.12.02.569702
apa: Olusanya, O. O., Khudiakova, K., & Sachdeva, H. (n.d.). Genetic load, eco-evolutionary
feedback and extinction in a metapopulation. bioRxiv. https://doi.org/10.1101/2023.12.02.569702
chicago: Olusanya, Oluwafunmilola O, Kseniia Khudiakova, and Himani Sachdeva. “Genetic
Load, Eco-Evolutionary Feedback and Extinction in a Metapopulation.” BioRxiv,
n.d. https://doi.org/10.1101/2023.12.02.569702.
ieee: O. O. Olusanya, K. Khudiakova, and H. Sachdeva, “Genetic load, eco-evolutionary
feedback and extinction in a metapopulation,” bioRxiv. .
ista: Olusanya OO, Khudiakova K, Sachdeva H. Genetic load, eco-evolutionary feedback
and extinction in a metapopulation. bioRxiv, 10.1101/2023.12.02.569702.
mla: Olusanya, Oluwafunmilola O., et al. “Genetic Load, Eco-Evolutionary Feedback
and Extinction in a Metapopulation.” BioRxiv, doi:10.1101/2023.12.02.569702.
short: O.O. Olusanya, K. Khudiakova, H. Sachdeva, BioRxiv (n.d.).
corr_author: '1'
date_created: 2024-01-04T09:35:54Z
date_published: 2023-12-04T00:00:00Z
date_updated: 2026-10-21T08:24:47Z
day: '04'
department:
- _id: NiBa
- _id: JaMa
doi: 10.1101/2023.12.02.569702
fulldoi: https://doi.org/10.1101/2023.12.02.569702
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.biorxiv.org/content/10.1101/2023.12.02.569702v1
month: '12'
oa: 1
oa_version: Preprint
project:
- _id: c08d3278-5a5b-11eb-8a69-fdb09b55f4b8
grant_number: P32896
name: Causes and consequences of population fragmentation
- _id: 34d33d68-11ca-11ed-8bc3-ec13763c0ca8
grant_number: '26293'
name: The impact of deleterious mutations on small populations
- _id: 34c872fe-11ca-11ed-8bc3-8534b82131e6
grant_number: '26380'
name: Polygenic Adaptation in a Metapopulation
publication: bioRxiv
publication_status: draft
related_material:
record:
- id: '21322'
relation: later_version
status: public
- id: '14711'
relation: dissertation_contains
status: public
status: public
title: Genetic load, eco-evolutionary feedback and extinction in a metapopulation
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: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14812'
abstract:
- lang: eng
text: This repository contains the code and VCF files needed to conduct the analyses
in our MS. Each folder contains a readMe document explaining the nature of each
file and dataset and the results and analyses that they relate to. The same anlaysis
code (but not VCF files) is also available at https://github.com/seanstankowski/Littorina_reproductive_mode
article_processing_charge: No
author:
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
citation:
ama: 'Stankowski S. Data and code for: The genetic architecture of a recent transition
to live-bearing in marine snails. 2023. doi:10.5281/ZENODO.8318995'
apa: 'Stankowski, S. (2023). Data and code for: The genetic architecture of a recent
transition to live-bearing in marine snails. Zenodo. https://doi.org/10.5281/ZENODO.8318995'
chicago: 'Stankowski, Sean. “Data and Code for: The Genetic Architecture of a Recent
Transition to Live-Bearing in Marine Snails.” Zenodo, 2023. https://doi.org/10.5281/ZENODO.8318995.'
ieee: 'S. Stankowski, “Data and code for: The genetic architecture of a recent transition
to live-bearing in marine snails.” Zenodo, 2023.'
ista: 'Stankowski S. 2023. Data and code for: The genetic architecture of a recent
transition to live-bearing in marine snails, Zenodo, 10.5281/ZENODO.8318995.'
mla: 'Stankowski, Sean. Data and Code for: The Genetic Architecture of a Recent
Transition to Live-Bearing in Marine Snails. Zenodo, 2023, doi:10.5281/ZENODO.8318995.'
short: S. Stankowski, (2023).
contributor:
- first_name: Zusanna
last_name: Zagrodzka
- first_name: Martin
last_name: Garlovsky
- first_name: Arka
id: 6AAB2240-CA9A-11E9-9C1A-D9D1E5697425
last_name: Pal
orcid: 0000-0002-4530-8469
- first_name: Daria
id: 428A94B0-F248-11E8-B48F-1D18A9856A87
last_name: Shipilina
orcid: 0000-0002-1145-9226
- first_name: Diego Fernando
id: ae681a14-dc74-11ea-a0a7-c6ef18161701
last_name: Garcia Castillo
- first_name: Hila
id: d6ab5470-2fb3-11ed-8633-986a9b84edac
last_name: Lifchitz
- first_name: Alan
last_name: Le Moan
- first_name: Erica
last_name: Leder
- first_name: James
last_name: Reeve
- first_name: Kerstin
last_name: Johannesson
- first_name: Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
- first_name: Roger
last_name: Butlin
corr_author: '1'
date_created: 2024-01-16T10:23:01Z
date_published: 2023-09-05T00:00:00Z
date_updated: 2026-10-21T08:23:54Z
day: '05'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.5281/ZENODO.8318995
fulldoi: https://doi.org/10.5281/ZENODO.8318995
has_accepted_license: '1'
main_file_link:
- open_access: '1'
url: https://doi.org/10.5281/zenodo.8318995
month: '09'
oa: 1
oa_version: Published Version
publisher: Zenodo
related_material:
record:
- id: '14796'
relation: used_in_publication
status: public
status: public
title: 'Data and code for: The genetic architecture of a recent transition to live-bearing
in marine snails'
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: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13126'
abstract:
- lang: eng
text: Mapping the complex and dense arrangement of cells and their connectivity
in brain tissue demands nanoscale spatial resolution imaging. Super-resolution
optical microscopy excels at visualizing specific molecules and individual cells
but fails to provide tissue context. Here, we developed Comprehensive Analysis
of Tissues across Scales (CATS), a technology to densely map brain tissue architecture
from millimeter regional to nanometer synaptic scales in diverse chemically fixed
brain preparations, including rodent and human. CATS uses fixation-compatible
extracellular labeling and optical imaging, including stimulated emission depletion
or expansion microscopy, to comprehensively delineate cellular structures. It
enables three-dimensional reconstruction of single synapses and mapping of synaptic
connectivity by identification and analysis of putative synaptic cleft regions.
Applying CATS to the mouse hippocampal mossy fiber circuitry, we reconstructed
and quantified the synaptic input and output structure of identified neurons.
We furthermore demonstrate applicability to clinically derived human tissue samples,
including formalin-fixed paraffin-embedded routine diagnostic specimens, for visualizing
the cellular architecture of brain tissue in health and disease.
acknowledged_ssus:
- _id: ScienComp
- _id: Bio
- _id: PreCl
- _id: LifeSc
- _id: M-Shop
- _id: E-Lib
acknowledgement: "We thank Jakob Vorlaufer, Nathalie Agudelo-Dueñas, Wiebke Jahr,
Andreas Wartak for microscope maintenance and troubleshooting, Caroline Kreuzinger,
Anna Freeman, and Irene Erber for technical assistance and Matthias Tomschik for
support with obtaining human samples. We gratefully acknowledge Eder Miguel for
setting up webKnossos and Marek Šuplata for computational support and hardware control.
We are grateful to Ryuichi Shigemoto and Bernd Bickel for generous support, and
Michael Sixt and Scott Boyd (Stanford University) for discussions and critical reading
of the manuscript. PSD95-HaloTag mice were kindly provided by Seth Grant (University
of Edinburgh). We acknowledge expert support by IST Austria’s scientific computing,
imaging and optics, preclinical, and lab support facilities, and by the Library
and Miba machine shop.\r\nWe gratefully acknowledge funding by the following sources:
\r\nAustrian Science Fund (FWF) grant I3600-B27 (JGD)\r\nAustrian Science Fund (FWF)
grant DK W1232 (JGD, JMM)\r\nAustrian Science Fund (FWF) grant Z 312-B27, Wittgenstein
award (PJ)\r\nAustrian Science Funds (FWF) projects I4685-B, I6565-B (SYNABS) and
DOC 33-B27 (RH)\r\nGesellschaft für Forschungsförderung NÖ (NFB) grant LSC18-022
(JGD)\r\nEuropean Union’s Horizon 2020 research and innovation programme, European
Research Council (ERC) grant 715508 – REVERSEAUTISM (GN)\r\nEuropean Union’s Horizon
2020 research and innovation programme, European Research Council (ERC) grant 692692
– GIANTSYN (PJ)\r\nMarie Skłodowska-Curie Actions Fellowship GA no. 665385 under
the EU Horizon 2020 program (JMM, JL)\r\nMarie Skłodowska-Curie Actions Individual
Fellowship 101026635 under the EU Horizon 2020 program (JFW)"
article_processing_charge: No
author:
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
citation:
ama: Danzl JG. Research data for the publication “Imaging brain tissue architecture
across millimeter to nanometer scales.” 2023. doi:10.15479/AT:ISTA:13126
apa: Danzl, J. G. (2023). Research data for the publication “Imaging brain tissue
architecture across millimeter to nanometer scales.” Institute of Science and
Technology Austria. https://doi.org/10.15479/AT:ISTA:13126
chicago: Danzl, Johann G. “Research Data for the Publication ‘Imaging Brain Tissue
Architecture across Millimeter to Nanometer Scales.’” Institute of Science and
Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:13126.
ieee: J. G. Danzl, “Research data for the publication ‘Imaging brain tissue architecture
across millimeter to nanometer scales.’” Institute of Science and Technology Austria,
2023.
ista: Danzl JG. 2023. Research data for the publication ‘Imaging brain tissue architecture
across millimeter to nanometer scales’, Institute of Science and Technology Austria,
10.15479/AT:ISTA:13126.
mla: Danzl, Johann G. Research Data for the Publication “Imaging Brain Tissue
Architecture across Millimeter to Nanometer Scales.” Institute of Science
and Technology Austria, 2023, doi:10.15479/AT:ISTA:13126.
short: J.G. Danzl, (2023).
contributor:
- first_name: Julia M
id: 443DB6DE-F248-11E8-B48F-1D18A9856A87
last_name: Michalska
- first_name: Julia
id: 46E28B80-F248-11E8-B48F-1D18A9856A87
last_name: Lyudchik
- first_name: Philipp
id: 39BDC62C-F248-11E8-B48F-1D18A9856A87
last_name: Velicky
orcid: 0000-0002-2340-7431
- first_name: Hana
id: ee3cb6ca-ec98-11ea-ae11-ff703e2254ed
last_name: Stefanickova
- first_name: Jake
id: 63836096-4690-11EA-BD4E-32803DDC885E
last_name: Watson
orcid: 0000-0002-8698-3823
- first_name: Alban
id: 9ac8f577-2357-11eb-997a-e566c5550886
last_name: Cenameri
- first_name: Christoph M
id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87
last_name: Sommer
orcid: 0000-0003-1216-9105
- first_name: Nicole
id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87
last_name: Amberg
orcid: 0000-0002-3183-8207
- first_name: Alessandro
id: 41CB84B2-F248-11E8-B48F-1D18A9856A87
last_name: Venturino
orcid: 0000-0003-2356-9403
- first_name: Karl
last_name: Roessler
- first_name: Thomas
last_name: Czech
- first_name: Romana
last_name: Höftberger
- first_name: Sandra
id: 36ACD32E-F248-11E8-B48F-1D18A9856A87
last_name: Siegert
orcid: 0000-0001-8635-0877
- first_name: Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
- first_name: Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
corr_author: '1'
date_created: 2023-06-07T07:15:12Z
date_published: 2023-08-04T00:00:00Z
date_updated: 2026-10-21T08:36:19Z
day: '04'
ddc:
- '610'
department:
- _id: JoDa
- _id: SaSi
- _id: GaNo
- _id: PeJo
- _id: Bio
- _id: RySh
doi: 10.15479/AT:ISTA:13126
ec_funded: 1
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fulldoi: https://doi.org/10.15479/AT:ISTA:13126
has_accepted_license: '1'
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project:
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call_identifier: FWF
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name: Optical control of synaptic function via adhesion molecules
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name: Molecular Drug Targets
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name: Synaptic communication in neuronal microcircuits
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name: High content imaging to decode human immune cell interactions in health and
allergic disease
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call_identifier: H2020
grant_number: '715508'
name: Probing the Reversibility of Autism Spectrum Disorders by Employing in vivo
and in vitro Models
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call_identifier: H2020
grant_number: '692692'
name: Biophysics and circuit function of a giant cortical glutamatergic synapse
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name: International IST Doctoral Program
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call_identifier: H2020
grant_number: '101026635'
name: Synaptic computations of the hippocampal CA3 circuitry
publisher: Institute of Science and Technology Austria
related_material:
link:
- description: 'Original data for Fig. 5d, Fig. 5d (N2V) and Fig. 5f-i, provided
via an external link due to the large size (>10GB) of the datasets. '
relation: research_data
url: https://pub.ista.ac.at/group_danzl/data/CATS/
record:
- id: '14257'
relation: used_in_publication
status: public
status: public
title: Research data for the publication "Imaging brain tissue architecture across
millimeter to nanometer scales"
tmp:
image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_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'
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keyword:
- medial habenula
- GABAB receptor
- vesicle release
- Flash and Freeze
- Flash and Freeze-fracture
month: '07'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
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title: Transition from tonic to phasic neurotransmitter release by presynaptic GABAB
receptor activation in medial habenula terminals
tmp:
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type: research_data
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abstract:
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text: 'Code and data necessary to reproduce the simulations and data analyses reported
in our manuscript: Tomé, D.F., Zhang, Y., Aida, T., Mosto, O., Lu, Y., Chen, M.,
Sadeh, S., Roy, D. S., Clopath, C. Dynamic and selective engrams emerge with memory
consolidation. 2023.'
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full_name: Feitosa Tomé, Douglas
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citation:
ama: 'Feitosa Tomé D. douglastome/dynamic-engrams: Dynamic and selective engrams
emerge with memory consolidation. 2023. doi:10.5281/ZENODO.10251087'
apa: 'Feitosa Tomé, D. (2023). douglastome/dynamic-engrams: Dynamic and selective
engrams emerge with memory consolidation. Zenodo. https://doi.org/10.5281/ZENODO.10251087'
chicago: 'Feitosa Tomé, Douglas. “Douglastome/Dynamic-Engrams: Dynamic and Selective
Engrams Emerge with Memory Consolidation.” Zenodo, 2023. https://doi.org/10.5281/ZENODO.10251087.'
ieee: 'D. Feitosa Tomé, “douglastome/dynamic-engrams: Dynamic and selective engrams
emerge with memory consolidation.” Zenodo, 2023.'
ista: 'Feitosa Tomé D. 2023. douglastome/dynamic-engrams: Dynamic and selective
engrams emerge with memory consolidation, Zenodo, 10.5281/ZENODO.10251087.'
mla: 'Feitosa Tomé, Douglas. Douglastome/Dynamic-Engrams: Dynamic and Selective
Engrams Emerge with Memory Consolidation. Zenodo, 2023, doi:10.5281/ZENODO.10251087.'
short: D. Feitosa Tomé, (2023).
corr_author: '1'
date_created: 2024-01-29T09:06:43Z
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date_updated: 2026-10-21T11:20:36Z
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oa: 1
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title: 'douglastome/dynamic-engrams: Dynamic and selective engrams emerge with memory
consolidation'
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image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
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user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
OA_place: repository
OA_type: green
_id: '23183'
abstract:
- lang: eng
text: "Cooperative verification is gaining momentum in recent years. The usual
setup in cooperative verification is that verifier A is run with some pre-defined
resources, and if it is not able to verify the program, the verification task
is passed to verifier B together with information learned about the program by
the verifier A, then the chain can continue to verifier C, and so on. This scheme,
which is employed by most of cooperative verification tools, is static and sequential:
tools run one after another in a fixed pre-defined order and fixed parameters
and resource limits.\r\n\r\nBubaak is a portfolio-based program analysis tool
for verification of C programs that run multiple program verifiers in parallel
and allows to exchange verification artifacts between them on run-time. Moreover,
the new version of Bubaak allows to combine sequential and parallel portfolios
into workflows. In brief, one or more verification tasks are initially started
and each of the tasks, when it is done (e.g., because of hitting a time limit
or finishing its job), can rewrite itself into a new task or generate a set of
new verification tasks. This all happens dynamically based on the result of the
task that finished.\r\n\r\nThis artifact contains Bubaak and Bubaak-SpLit (which
is a specific configuration for Bubaak) that competed in SV-COMP 2024."
article_processing_charge: No
author:
- first_name: Marek
full_name: Chalupa, Marek
last_name: Chalupa
citation:
ama: Chalupa M. Bubaak at SV-COMP 2024. 2023. doi:10.5281/zenodo.10065866
apa: Chalupa, M. (2023). Bubaak at SV-COMP 2024. Zenodo. https://doi.org/10.5281/zenodo.10065866
chicago: Chalupa, Marek. “Bubaak at SV-COMP 2024.” Zenodo, 2023. https://doi.org/10.5281/zenodo.10065866.
ieee: M. Chalupa, “Bubaak at SV-COMP 2024.” Zenodo, 2023.
ista: Chalupa M. 2023. Bubaak at SV-COMP 2024, Zenodo, 10.5281/zenodo.10065866.
mla: Chalupa, Marek. Bubaak at SV-COMP 2024. Zenodo, 2023, doi:10.5281/zenodo.10065866.
short: M. Chalupa, (2023).
contributor:
- contributor_type: project_member
first_name: Cedric
last_name: Richter
date_created: 2026-10-21T12:12:11Z
date_published: 2023-11-24T00:00:00Z
date_updated: 2026-10-21T12:12:16Z
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...
---
OA_place: publisher
_id: '12491'
abstract:
- lang: eng
text: "The extracellular matrix (ECM) is a hydrated and complex three-dimensional
network consisting of proteins, polysaccharides, and water. It provides structural
scaffolding for the cells embedded within it and is essential in regulating numerous
physiological processes, including cell migration and proliferation, wound healing,
and stem cell fate. \r\nDespite extensive study, detailed structural knowledge
of ECM components in physiologically relevant conditions is still rudimentary.
This is due to methodological limitations in specimen preparation protocols which
are incompatible with keeping large samples, such as the ECM, in their native
state for subsequent imaging. Conventional electron microscopy (EM) techniques
rely on fixation, dehydration, contrasting, and sectioning. This results in the
alteration of a highly hydrated environment and the potential introduction of
artifacts. Other structural biology techniques, such as nuclear magnetic resonance
(NMR) spectroscopy and X-ray crystallography, allow high-resolution analysis of
protein structures but only work on homogenous and purified samples, hence lacking
contextual information. Currently, no approach exists for the ultrastructural
and structural study of extracellular components under native conditions in a
physiological, 3D environment. \r\nIn this thesis, I have developed a workflow
that allows for the ultrastructural analysis of the ECM in near-native conditions
at molecular resolution. The developments I introduced include implementing a
novel specimen preparation workflow for cell-derived matrices (CDMs) to render
them compatible with ion-beam milling and subsequent high-resolution cryo-electron
tomography (ET). \r\nTo this end, I have established protocols to generate CDMs
grown over several weeks on EM grids that are compatible with downstream cryo-EM
sample preparation and imaging techniques. Characterization of these ECMs confirmed
that they contain essential ECM components such as collagen I, collagen VI, and
fibronectin I in high abundance and hence represent a bona fide biologically-relevant
sample. I successfully optimized vitrification of these specimens by testing various
vitrification techniques and cryoprotectants. \r\nIn order to obtain high-resolution
molecular insights into the ultrastructure and organization of CDMs, I established
cryo-focused ion beam scanning electron microscopy (FIBSEM) on these challenging
and complex specimens. I explored different approaches for the creation of thin
cryo-lamellae by FIB milling and succeeded in optimizing the cryo-lift-out technique,
resulting in high-quality lamellae of approximately 200 nm thickness. \r\nHigh-resolution
Cryo-ET of these lamellae revealed for the first time the architecture of native
CDM in the context of matrix-secreting cells. This allowed for the in situ visualization
of fibrillar matrix proteins such as collagen, laying the foundation for future
structural and ultrastructural characterization of these proteins in their near-native
environment. \r\nIn summary, in this thesis, I present a novel workflow that combines
state-of-the-art cryo-EM specimen preparation and imaging technologies to permit
characterization of the ECM, an important tissue component in higher organisms.
This innovative and highly versatile workflow will enable addressing far-reaching
questions on ECM architecture, composition, and reciprocal ECM-cell interactions."
acknowledged_ssus:
- _id: EM-Fac
- _id: LifeSc
- _id: Bio
alternative_title:
- ISTA Thesis
article_processing_charge: No
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full_name: Zens, Bettina
id: 45FD126C-F248-11E8-B48F-1D18A9856A87
last_name: Zens
orcid: 0000-0002-9561-1239
citation:
ama: Zens B. Ultrastructural characterization of natively preserved extracellular
matrix by cryo-electron tomography. 2023. doi:10.15479/at:ista:12491
apa: Zens, B. (2023). Ultrastructural characterization of natively preserved
extracellular matrix by cryo-electron tomography. Institute of Science and
Technology Austria. https://doi.org/10.15479/at:ista:12491
chicago: Zens, Bettina. “Ultrastructural Characterization of Natively Preserved
Extracellular Matrix by Cryo-Electron Tomography.” Institute of Science and Technology
Austria, 2023. https://doi.org/10.15479/at:ista:12491.
ieee: B. Zens, “Ultrastructural characterization of natively preserved extracellular
matrix by cryo-electron tomography,” Institute of Science and Technology Austria,
2023.
ista: Zens B. 2023. Ultrastructural characterization of natively preserved extracellular
matrix by cryo-electron tomography. Institute of Science and Technology Austria.
mla: Zens, Bettina. Ultrastructural Characterization of Natively Preserved Extracellular
Matrix by Cryo-Electron Tomography. Institute of Science and Technology Austria,
2023, doi:10.15479/at:ista:12491.
short: B. Zens, Ultrastructural Characterization of Natively Preserved Extracellular
Matrix by Cryo-Electron Tomography, Institute of Science and Technology Austria,
2023.
corr_author: '1'
date_created: 2023-02-02T14:50:20Z
date_published: 2023-02-02T00:00:00Z
date_updated: 2026-04-07T13:49:23Z
day: '02'
ddc:
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degree_awarded: PhD
department:
- _id: GradSch
- _id: FlSc
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fulldoi: https://doi.org/10.15479/at:ista:12491
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keyword:
- cryo-EM
- cryo-ET
- FIB milling
- method development
- FIBSEM
- extracellular matrix
- ECM
- cell-derived matrices
- CDMs
- cell culture
- high pressure freezing
- HPF
- structural biology
- tomography
- collagen
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
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name: Integrated visual proteomics of reciprocal cell-extracellular matrix interactions
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name: "NÃ\x96-Fonds Preis für die Jungforscherin des Jahres am IST Austria"
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issn:
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publisher: Institute of Science and Technology Austria
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supervisor:
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full_name: Schur, Florian KM
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
title: Ultrastructural characterization of natively preserved extracellular matrix
by cryo-electron tomography
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2023'
...