---
_id: '22831'
abstract:
- lang: eng
text: "Neural models learn representations of high-dimensional data on low-dimensional\r\nmanifolds.
Multiple factors, including stochasticities in the training process, model\r\narchitectures,
and additional inductive biases, may induce different representations,\r\neven
when learning the same task on the same data. However, it has recently been\r\nshown
that when a latent structure is shared between distinct latent spaces, relative\r\ndistances
between representations can be preserved, up to distortions. Building\r\non this
idea, we demonstrate that exploiting the differential-geometric structure of\r\nlatent
spaces of neural models, it is possible to capture precisely the transformations\r\nbetween
representational spaces trained on similar data distributions. Specifically,\r\nwe
assume that distinct neural models parametrize approximately the same underlying
manifold, and introduce a representation based on the pullback metric\r\nthat
captures the intrinsic structure of the latent space, while scaling efficiently\r\nto
large models. We validate experimentally our method on model stitching and\r\nretrieval
tasks, covering autoencoders and vision foundation discriminative models,\r\nacross
diverse architectures, datasets, pretraining schemes and modalities. Code is\r\navailable
at https://github.com/marc0git/RelativeGeodesics."
acknowledgement: "We thank Gregor Krzmanc, German Magai, Vital Fernandez for insightful
discussions in the early\r\nstages of the project. HY was supported by the Research
Council of Finland Flagship programme:\r\nFinnish Center for Artificial Intelligence
FCAI. HY wishes to acknowledge CSC - IT Center for\r\nScience, Finland, for computational
resources. GA was supported by the DFF Sapere Aude Starting\r\nGrant “GADL”. SH
was supported by a research grant (42062) from VILLUM FONDEN and partly\r\nfunded
by the Novo Nordisk Foundation through the Center for Basic Research in Life Science\r\n(NNF20OC0062606).
SH received funding from the European Research Council (ERC) under the\r\nEuropean
Union’s Horizon Programme (grant agreement 101125003). MF is supported by the MSCA\r\nIST-Bridge
fellowship which has received funding from the European Union’s Horizon 2020 research\r\nand
innovation program under the Marie Skłodowska-Curie grant agreement No 101034413."
alternative_title:
- Advances in Neural Information Processing Systems
article_processing_charge: No
arxiv: 1
author:
- first_name: Hanlin
full_name: Yu, Hanlin
last_name: Yu
- first_name: Berfin
full_name: Inal, Berfin
last_name: Inal
- first_name: Georgios
full_name: Arvanitidis, Georgios
last_name: Arvanitidis
- first_name: Søren
full_name: Hauberg, Søren
last_name: Hauberg
- first_name: Francesco
full_name: Locatello, Francesco
id: 26cfd52f-2483-11ee-8040-88983bcc06d4
last_name: Locatello
orcid: 0000-0002-4850-0683
- first_name: Marco
full_name: Fumero, Marco
id: 1c1593eb-393f-11ef-bb8e-ab4f1e979650
last_name: Fumero
citation:
ama: 'Yu H, Inal B, Arvanitidis G, Hauberg S, Locatello F, Fumero M. Connecting
neural models latent geometries with relative geodesic representations. In: 39th
Conference on Neural Information Processing Systems. Vol 38. Neural Information
Processing Systems Foundation; 2025:125316-125360. doi:10.52202/085713-3769'
apa: 'Yu, H., Inal, B., Arvanitidis, G., Hauberg, S., Locatello, F., & Fumero,
M. (2025). Connecting neural models latent geometries with relative geodesic representations.
In 39th Conference on Neural Information Processing Systems (Vol. 38, pp.
125316–125360). San Diego, CA, United States: Neural Information Processing Systems
Foundation. https://doi.org/10.52202/085713-3769'
chicago: Yu, Hanlin, Berfin Inal, Georgios Arvanitidis, Søren Hauberg, Francesco
Locatello, and Marco Fumero. “Connecting Neural Models Latent Geometries with
Relative Geodesic Representations.” In 39th Conference on Neural Information
Processing Systems, 38:125316–60. Neural Information Processing Systems Foundation,
2025. https://doi.org/10.52202/085713-3769.
ieee: H. Yu, B. Inal, G. Arvanitidis, S. Hauberg, F. Locatello, and M. Fumero, “Connecting
neural models latent geometries with relative geodesic representations,” in 39th
Conference on Neural Information Processing Systems, San Diego, CA, United
States, 2025, vol. 38, pp. 125316–125360.
ista: 'Yu H, Inal B, Arvanitidis G, Hauberg S, Locatello F, Fumero M. 2025. Connecting
neural models latent geometries with relative geodesic representations. 39th Conference
on Neural Information Processing Systems. NeurIPS: Neural Information Processing
Systems, Advances in Neural Information Processing Systems, vol. 38, 125316–125360.'
mla: Yu, Hanlin, et al. “Connecting Neural Models Latent Geometries with Relative
Geodesic Representations.” 39th Conference on Neural Information Processing
Systems, vol. 38, Neural Information Processing Systems Foundation, 2025,
pp. 125316–60, doi:10.52202/085713-3769.
short: H. Yu, B. Inal, G. Arvanitidis, S. Hauberg, F. Locatello, M. Fumero, in:,
39th Conference on Neural Information Processing Systems, Neural Information Processing
Systems Foundation, 2025, pp. 125316–125360.
conference:
end_date: 2025-12-07
location: San Diego, CA, United States
name: 'NeurIPS: Neural Information Processing Systems'
start_date: 2025-12-02
corr_author: '1'
das_tickbox: '0'
date_created: 2026-09-06T22:02:01Z
date_published: 2025-12-01T00:00:00Z
date_updated: 2026-09-17T07:09:28Z
day: '01'
department:
- _id: FrLo
doi: 10.52202/085713-3769
ec_funded: 1
external_id:
arxiv:
- '2506.01599'
fulldoi: https://doi.org/10.52202/085713-3769
intvolume: ' 38'
language:
- iso: eng
month: '12'
oa_version: None
page: 125316-125360
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: 39th Conference on Neural Information Processing Systems
publication_identifier:
eissn:
- 1049-5258
isbn:
- '9798331338275'
publication_status: published
publisher: Neural Information Processing Systems Foundation
quality_controlled: '1'
related_material:
link:
- relation: software
url: ' https://github.com/marc0git/RelativeGeodesics'
researchdata_availability: yes
scopus_import: '1'
status: public
supplementarymaterial: yes
title: Connecting neural models latent geometries with relative geodesic representations
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 38
year: '2025'
...
---
OA_place: repository
OA_type: green
_id: '22929'
abstract:
- lang: eng
text: The circle method has been successfully used over the last century to study
rational points on hypersurfaces. More recently, a version of the method over
function fields, combined with spreading out techniques, has led to a range of
results about moduli spaces of rational curves on hypersurfaces. In this paper
a version of the circle method is implemented in the setting of the Grothendieck
ring of varieties. This allows us to approximate the classes of these moduli spaces
directly, without relying on point counting, and leads to a deeper understanding
of their geometry.
- lang: fre
text: "La méthode du cercle a été utilisée avec succès au cours du siècle dernier
pour l’étude\r\ndes points rationnels sur les hypersurfaces. Plus récemment, une
version fonctionnelle de cette méthode,\r\ncombinée à des techniques d’étalement,
a mené à une série de résultats sur les espaces de modules de\r\ncourbes sur les
hypersurfaces. Dans cet article on implémente une version de la méthode du cercle
dans\r\nle cadre de l’anneau de Grothendieck des variétés. Cela permet d’approximer
les classes de ces espaces\r\nde modules directement, sans recours au comptage
de points, ce qui donne accès à une compréhension\r\nplus profonde de leur géométrie."
acknowledgement: "The authors are grateful to Yohan Brunebarbe, Tom Burel, Antoine\r\nChambert-Loir,
Loïs Faisant, Mirko Mauri and Will Sawin for useful comments. Thanks are\r\nalso
due to the anonymous referees for numerous helpful remarks. M.B. received funding\r\nfrom
the European Union’s Horizon 2020 research and innovation programme under the\r\nMarie
Skłodowska-Curie Grant agreement No. 893012. T.B. was supported by a FWF grant\r\n(DOI
10.55776/P36278) and by a grant from the Institute for Advanced Study School of\r\nMathematics."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Margaret
full_name: Bilu, Margaret
id: 98C47862-10D5-11EA-BEDD-0F6F3DDC885E
last_name: Bilu
- first_name: Timothy D
full_name: Browning, Timothy D
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
citation:
ama: Bilu M, Browning TD. A motivic circle method. Annales Scientifiques de l’École
Normale Supérieure. 2025;58(5):1179-1242. doi:10.24033/asens.2628
apa: Bilu, M., & Browning, T. D. (2025). A motivic circle method. Annales
Scientifiques de l’École Normale Supérieure. Société Mathématique de France.
https://doi.org/10.24033/asens.2628
chicago: Bilu, Margaret, and Timothy D Browning. “A Motivic Circle Method.” Annales
Scientifiques de l’École Normale Supérieure. Société Mathématique de France,
2025. https://doi.org/10.24033/asens.2628.
ieee: M. Bilu and T. D. Browning, “A motivic circle method,” Annales Scientifiques
de l’École Normale Supérieure, vol. 58, no. 5. Société Mathématique de France,
pp. 1179–1242, 2025.
ista: Bilu M, Browning TD. 2025. A motivic circle method. Annales Scientifiques
de l’École Normale Supérieure. 58(5), 1179–1242.
mla: Bilu, Margaret, and Timothy D. Browning. “A Motivic Circle Method.” Annales
Scientifiques de l’École Normale Supérieure, vol. 58, no. 5, Société Mathématique
de France, 2025, pp. 1179–242, doi:10.24033/asens.2628.
short: M. Bilu, T.D. Browning, Annales Scientifiques de l’École Normale Supérieure
58 (2025) 1179–1242.
corr_author: '1'
das_tickbox: '0'
date_created: 2026-09-13T22:01:57Z
date_published: 2025-05-01T00:00:00Z
date_updated: 2026-09-17T08:22:39Z
day: '01'
department:
- _id: TiBr
doi: 10.24033/asens.2628
ec_funded: 1
external_id:
arxiv:
- '2304.09645'
fulldoi: https://doi.org/10.24033/asens.2628
intvolume: ' 58'
issue: '5'
keyword:
- Circle method
- moduli spaces of curves
- hypersurfaces
- Grothendieck ring of varieties
- motivic integration
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2304.09645
month: '05'
oa: 1
oa_version: Preprint
page: 1179-1242
project:
- _id: 05A4F6F0-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '893012'
name: A motivic circle method
- _id: bd8a4fdc-d553-11ed-ba76-80a0167441a3
grant_number: P36278
name: Rational curves via function field analytic number theory
publication: Annales Scientifiques de l’École Normale Supérieure
publication_identifier:
eissn:
- 1873-2151
issn:
- 0012-9593
publication_status: published
publisher: Société Mathématique de France
quality_controlled: '1'
researchdata_availability: no
scopus_import: '1'
status: public
supplementarymaterial: yes
title: A motivic circle method
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 58
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '18449'
abstract:
- lang: eng
text: "Research involving human subjects or identifiable human material and data
must be assessed by an ethics committee. The Karl Landsteiner University of Health
Sciences has established a Commission on Ethics and Scientific Integrity to evaluate
medical research conducted by its faculty and students and at its affiliated hospitals.\r\nAll
projects submitted to the Commission on Ethics and Scientific Integrity between
2018 and 2023 were analyzed regarding their major characteristics, the duration
of the evaluation process, and votes issued.\r\nA total of 520 applications were
electronically submitted during the observation period. Most of the studies were
retrospective data analyses in the field of oncology, psychology and surgery.
Most studies included less than 100 volunteers. Of the applications 50% received
a final vote within 5 months, during which several revision rounds took place.
Overall, about 77% of votes issued during the observation period were positive
and 2% were rejections. In 11% files were closed due to withdrawal. In 11% final
votes were pending at the end of the observation period due to requests for revisions.\r\nOur
results emphasize the importance of institutional ethics committees using the
example of the Commission on Ethics and Scientific Integrity at the Karl Landsteiner
University. Such committees fill a gap in evaluating research not covered by Austrian
legal regulations. Continuous development of standards, operating procedures,
and national and international collaborations are required to assess and minimize
risks to trial subjects and to provide a safe and productive environment for research
in human medicine and related fields."
acknowledgement: Open access funding provided by Karl Landsteiner University.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Sophie
full_name: Schober, Sophie
id: 80b0a0ef-4b9f-11ec-b119-8d9d94c4a1d8
last_name: Schober
- first_name: Sascha
full_name: Klee, Sascha
last_name: Klee
- first_name: Franz
full_name: Trautinger, Franz
last_name: Trautinger
citation:
ama: 'Schober S, Klee S, Trautinger F. The role of institutional ethics committees
in Austria: Report of the Commission on Ethics and Scientific Integrity of the
Karl Landsteiner University of Health Sciences 2018–2023. Wiener Klinische
Wochenschrift. 2025;137:432-437. doi:10.1007/s00508-024-02462-x'
apa: 'Schober, S., Klee, S., & Trautinger, F. (2025). The role of institutional
ethics committees in Austria: Report of the Commission on Ethics and Scientific
Integrity of the Karl Landsteiner University of Health Sciences 2018–2023. Wiener
Klinische Wochenschrift. Springer Nature. https://doi.org/10.1007/s00508-024-02462-x'
chicago: 'Schober, Sophie, Sascha Klee, and Franz Trautinger. “The Role of Institutional
Ethics Committees in Austria: Report of the Commission on Ethics and Scientific
Integrity of the Karl Landsteiner University of Health Sciences 2018–2023.” Wiener
Klinische Wochenschrift. Springer Nature, 2025. https://doi.org/10.1007/s00508-024-02462-x.'
ieee: 'S. Schober, S. Klee, and F. Trautinger, “The role of institutional ethics
committees in Austria: Report of the Commission on Ethics and Scientific Integrity
of the Karl Landsteiner University of Health Sciences 2018–2023,” Wiener Klinische
Wochenschrift, vol. 137. Springer Nature, pp. 432–437, 2025.'
ista: 'Schober S, Klee S, Trautinger F. 2025. The role of institutional ethics committees
in Austria: Report of the Commission on Ethics and Scientific Integrity of the
Karl Landsteiner University of Health Sciences 2018–2023. Wiener Klinische Wochenschrift.
137, 432–437.'
mla: 'Schober, Sophie, et al. “The Role of Institutional Ethics Committees in Austria:
Report of the Commission on Ethics and Scientific Integrity of the Karl Landsteiner
University of Health Sciences 2018–2023.” Wiener Klinische Wochenschrift,
vol. 137, Springer Nature, 2025, pp. 432–37, doi:10.1007/s00508-024-02462-x.'
short: S. Schober, S. Klee, F. Trautinger, Wiener Klinische Wochenschrift 137 (2025)
432–437.
corr_author: '1'
das_tickbox: '0'
date_created: 2024-10-20T22:02:07Z
date_published: 2025-07-01T00:00:00Z
date_updated: 2026-09-17T10:27:37Z
day: '01'
ddc:
- '570'
department:
- _id: PreCl
doi: 10.1007/s00508-024-02462-x
external_id:
isi:
- '001329812000001'
file:
- access_level: open_access
checksum: 321be8a584117feaea9f3feaa28caabd
content_type: application/pdf
creator: dernst
date_created: 2025-12-30T06:54:03Z
date_updated: 2025-12-30T06:54:03Z
file_id: '20880'
file_name: 2025_WrKlinischeWochenschrift_Schober.pdf
file_size: 580791
relation: main_file
success: 1
file_date_updated: 2025-12-30T06:54:03Z
fulldoi: https://doi.org/10.1007/s00508-024-02462-x
has_accepted_license: '1'
intvolume: ' 137'
isi: 1
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '07'
oa: 1
oa_version: Published Version
page: 432-437
publication: Wiener Klinische Wochenschrift
publication_identifier:
eissn:
- 1613-7671
issn:
- 0043-5325
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
researchdata_availability: no
scopus_import: '1'
status: public
supplementarymaterial: no
title: 'The role of institutional ethics committees in Austria: Report of the Commission
on Ethics and Scientific Integrity of the Karl Landsteiner University of Health
Sciences 2018–2023'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 137
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '17240'
abstract:
- lang: eng
text: We prove an upper bound on the energy density of the dilute spin-\(\frac {1}{2}\)
Fermi gas capturing the leading correction to the kinetic energy\(8\pi a\rho _\uparrow\rho
_\downarrow\) with an error of size smaller than\(a\rho^{2}(a^ 3\rho)^{1/3-\varepsilon}\)
for any\(\varepsilon> 0\), where a denotes the scattering length of the interaction.
The result is valid for a large class of interactions including interactions with
a hard core. A central ingredient in the proof is a rigorous version of a fermionic
cluster expansion adapted from the formal expansion of Gaudin et al. (Nucl Phys
A 176(2):237–260, 1971. https://doi.org/10.1016/0375-9474(71)90267-3).
acknowledgement: "Open access funding provided by Institute of Science and Technology
(IST Austria).\r\nWe thank Alessandro Giuliani and Robert Seiringer for helpful
discussions and Robert Seiringer for his comments on the manuscript. Financial support
by the Austrian Science Fund (FWF) through Grant https://doi.org/10.55776/I6427
(as part of the SFB/TRR 352) is gratefully acknowledged."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Asbjørn Bækgaard
full_name: Lauritsen, Asbjørn Bækgaard
id: e1a2682f-dc8d-11ea-abe3-81da9ac728f1
last_name: Lauritsen
orcid: 0000-0003-4476-2288
citation:
ama: Lauritsen AB. Almost optimal upper bound for the ground state energy of a dilute
Fermi gas via cluster expansion. Annales Henri Poincare. 2025;26:203-243.
doi:10.1007/s00023-024-01450-1
apa: Lauritsen, A. B. (2025). Almost optimal upper bound for the ground state energy
of a dilute Fermi gas via cluster expansion. Annales Henri Poincare. Springer
Nature. https://doi.org/10.1007/s00023-024-01450-1
chicago: Lauritsen, Asbjørn Bækgaard. “Almost Optimal Upper Bound for the Ground
State Energy of a Dilute Fermi Gas via Cluster Expansion.” Annales Henri Poincare.
Springer Nature, 2025. https://doi.org/10.1007/s00023-024-01450-1.
ieee: A. B. Lauritsen, “Almost optimal upper bound for the ground state energy of
a dilute Fermi gas via cluster expansion,” Annales Henri Poincare, vol.
26. Springer Nature, pp. 203–243, 2025.
ista: Lauritsen AB. 2025. Almost optimal upper bound for the ground state energy
of a dilute Fermi gas via cluster expansion. Annales Henri Poincare. 26, 203–243.
mla: Lauritsen, Asbjørn Bækgaard. “Almost Optimal Upper Bound for the Ground State
Energy of a Dilute Fermi Gas via Cluster Expansion.” Annales Henri Poincare,
vol. 26, Springer Nature, 2025, pp. 203–43, doi:10.1007/s00023-024-01450-1.
short: A.B. Lauritsen, Annales Henri Poincare 26 (2025) 203–243.
corr_author: '1'
das_tickbox: '0'
date_created: 2024-07-14T22:01:12Z
date_published: 2025-01-01T00:00:00Z
date_updated: 2026-09-17T11:02:45Z
day: '01'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1007/s00023-024-01450-1
external_id:
isi:
- '001261197700002'
pmid:
- '39926012'
file:
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checksum: 01b6572f55f721e97498522c85072ed2
content_type: application/pdf
creator: dernst
date_created: 2025-08-05T11:42:27Z
date_updated: 2025-08-05T11:42:27Z
file_id: '20125'
file_name: 2025_AnnalesHenriPoincare_Lauritsen.pdf
file_size: 797241
relation: main_file
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file_date_updated: 2025-08-05T11:42:27Z
fulldoi: https://doi.org/10.1007/s00023-024-01450-1
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intvolume: ' 26'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 203-243
pmid: 1
project:
- _id: bda63fe5-d553-11ed-ba76-a16e3d2f256b
grant_number: I06427
name: Mathematical Challenges in BCS Theory of Superconductivity
publication: Annales Henri Poincare
publication_identifier:
issn:
- 1424-0637
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '18135'
relation: dissertation_contains
status: public
researchdata_availability: no
scopus_import: '1'
status: public
supplementarymaterial: no
title: Almost optimal upper bound for the ground state energy of a dilute Fermi gas
via cluster expansion
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 26
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '18074'
abstract:
- lang: eng
text: The Aharonov–Casher theorem is a result on the number of the so-called zero
modes of a system described by the magnetic Pauli operator in R2. In this paper
we address the same question for the Dirac operator on a flat two-dimensional
manifold with boundary and Atiyah–Patodi–Singer boundary condition. More concretely
we are interested in the plane and a disc with a finite number of circular holes
cut out. We consider a smooth compactly supported magnetic field on the manifold
and an arbitrary magnetic field inside the holes.
acknowledgement: "First and foremost I am grateful to Jan Philip Solovej for fruitful
meetings during (and after) my PhD programme, when this work was done. Further I
would like to thank Joshua Hunt, Anna Sisak, Jakub Löwit, Błażej Ruba, Volodymir
Riabov, Lukas Schimmer and Georgios Koutentakis for valuable discussions. Many thanks
belong to Rafael Benguria for hosting my visit, during which some of the work has
been done. I am also grateful to Marina Prokhorova who first initiated the discussion
of this project topic and to Annemarie Luger for her valuable comments during my
PhD defence and in particular pointing out the qualitative difference in our two
main results. I would like to acknowledge support for research on this paper from
VILLUM FONDEN through the QMATH Centre of Excellence grant. nr. 10059. This project
also received funding from the European Union’s Horizon 2020 research and innovation
programme under the Marie Skłodowska-Curie grant agreement No 101034413. I am grateful
to the two reviewers for reading carefully my manuscript and pointing out several
issues contributing thus significantly to the readability and clarity of this paper.\r\nOpen
access funding provided by Institute of Science and Technology (IST Austria)."
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Marie
full_name: Fialova, Marie
id: e9c9844d-9e21-11ec-b482-f96fc09f7c4d
last_name: Fialova
citation:
ama: Fialova M. Aharonov–Casher theorems for Dirac operators on manifolds with boundary
and APS boundary condition. Annales Henri Poincare. 2025;26:2859-2900.
doi:10.1007/s00023-024-01482-7
apa: Fialova, M. (2025). Aharonov–Casher theorems for Dirac operators on manifolds
with boundary and APS boundary condition. Annales Henri Poincare. Springer
Nature. https://doi.org/10.1007/s00023-024-01482-7
chicago: Fialova, Marie. “Aharonov–Casher Theorems for Dirac Operators on Manifolds
with Boundary and APS Boundary Condition.” Annales Henri Poincare. Springer
Nature, 2025. https://doi.org/10.1007/s00023-024-01482-7.
ieee: M. Fialova, “Aharonov–Casher theorems for Dirac operators on manifolds with
boundary and APS boundary condition,” Annales Henri Poincare, vol. 26.
Springer Nature, pp. 2859–2900, 2025.
ista: Fialova M. 2025. Aharonov–Casher theorems for Dirac operators on manifolds
with boundary and APS boundary condition. Annales Henri Poincare. 26, 2859–2900.
mla: Fialova, Marie. “Aharonov–Casher Theorems for Dirac Operators on Manifolds
with Boundary and APS Boundary Condition.” Annales Henri Poincare, vol.
26, Springer Nature, 2025, pp. 2859–900, doi:10.1007/s00023-024-01482-7.
short: M. Fialova, Annales Henri Poincare 26 (2025) 2859–2900.
corr_author: '1'
das_tickbox: '0'
date_created: 2024-09-15T22:01:42Z
date_published: 2025-08-01T00:00:00Z
date_updated: 2026-09-17T11:06:35Z
day: '01'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1007/s00023-024-01482-7
ec_funded: 1
external_id:
arxiv:
- '2304.13373'
isi:
- '001304370000001'
file:
- access_level: open_access
checksum: d8d2d6dbce293c9ee6eaa9262e597147
content_type: application/pdf
creator: dernst
date_created: 2025-08-05T11:24:25Z
date_updated: 2025-08-05T11:24:25Z
file_id: '20124'
file_name: 2025_AnnalesHenriPoincare_Fialova.pdf
file_size: 728124
relation: main_file
success: 1
file_date_updated: 2025-08-05T11:24:25Z
fulldoi: https://doi.org/10.1007/s00023-024-01482-7
has_accepted_license: '1'
intvolume: ' 26'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 2859-2900
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Annales Henri Poincare
publication_identifier:
issn:
- 1424-0637
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
researchdata_availability: no
scopus_import: '1'
status: public
supplementarymaterial: yes
title: Aharonov–Casher theorems for Dirac operators on manifolds with boundary and
APS boundary condition
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 26
year: '2025'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '17293'
abstract:
- lang: eng
text: Voltage-gated CaV2.1 (P/Q-type) Ca2+ channels play a crucial role in regulating
neurotransmitter release, thus contributing to synaptic plasticity and to processes
such as learning and memory. Despite their recognized importance in neural function,
there is limited information on their potential involvement in neurodegenerative
conditions such as Alzheimer's disease (AD). Here, we aimed to explore the impact
of AD pathology on the density and nanoscale compartmentalization of CaV2.1 channels
in the hippocampus in association with GABAB receptors. Histoblotting experiments
showed that the density of CaV2.1 channel was significantly reduced in the hippocampus
of APP/PS1 mice in a laminar-dependent manner. CaV2.1 channel was enriched in
the active zone of the axon terminals and was present at a very low density over
the surface of dendritic tree of the CA1 pyramidal cells, as shown by quantitative
SDS-digested freeze-fracture replica labelling (SDS-FRL). In APP/PS1 mice, the
density of CaV2.1 channel in the active zone was significantly reduced in the
strata radiatum and lacunosum-moleculare, while it remained unaltered in the stratum
oriens. The decline in Cav2.1 channel density was found to be associated with
a corresponding impairment in the GABAergic synaptic function, as evidenced by
electrophysiological experiments carried out in the hippocampus of APP/PS1 mice.
Remarkably, double SDS-FRL showed a co-clustering of CaV2.1 channel and GABAB1
receptor in nanodomains (~40–50 nm) in wild type mice, while in APP/PS1 mice this
nanoarchitecture was absent. Together, these findings suggest that the AD pathology-induced
reduction in CaV2.1 channel density and CaV2.1-GABAB1 de-clustering may play a
role in the synaptic transmission alterations shown in the AD hippocampus. Therefore,
uncovering these layer-dependent changes in P/Q calcium currents associated with
AD pathology can benefit the development of future strategies for AD management.
acknowledgement: "Funding sources were Spanish Ministerio de Economía y Competitividad,
Junta de Comunidades de Castilla-La Mancha (Spain), Life Science Innovation Center
at University of Fukui and German Research Foundation.\r\nGrants RTI2018-095812-B-I00
and PID2021-125875OB-I00 funded by MCIN/AEI/10.13039/501100011033 and by “ERDF A
way of making Europe” to Rafael Luján. This study was also supported by a grant
from Junta de Comunidades de Castilla-La Mancha (SBPLY/17/180501/000229 and SBPLY/21/180501/000064)
and Universidad de Castilla-La Mancha (2023-GRIN-34187) to Rafael Luján, and Life
Science Innovation Center (Research and Education Program for Life Science) at University
of Fukui and JSPS KAKENHI Grant Numbers 16H04662, 17K19446, 18H05120 to Yugo Fukazawa
and Margarita Salas fellowship from Ministerio de Universidades and Universidad
de Castilla-La Mancha to Alejandro Martín-Belmonte. German Research Foundation (DFG
FOR 2143) and BIOSS-2 to Akos Kulik."
article_number: e13279
article_processing_charge: Yes
article_type: original
author:
- first_name: Alejandro
full_name: Martín‐Belmonte, Alejandro
last_name: Martín‐Belmonte
- first_name: Carolina
full_name: Aguado, Carolina
last_name: Aguado
- first_name: Rocío
full_name: Alfaro‐Ruiz, Rocío
last_name: Alfaro‐Ruiz
- first_name: Akos
full_name: Kulik, Akos
last_name: Kulik
- first_name: Luis
full_name: de la Ossa, Luis
last_name: de la Ossa
- first_name: Ana Esther
full_name: Moreno‐Martínez, Ana Esther
last_name: Moreno‐Martínez
- first_name: Samuel
full_name: Alberquilla, Samuel
last_name: Alberquilla
- first_name: Lucía
full_name: García‐Carracedo, Lucía
last_name: García‐Carracedo
- first_name: Miriam
full_name: Fernández, Miriam
last_name: Fernández
- first_name: Ana
full_name: Fajardo‐Serrano, Ana
last_name: Fajardo‐Serrano
- first_name: Ester
full_name: Aso, Ester
last_name: Aso
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Eduardo D.
full_name: Martín, Eduardo D.
last_name: Martín
- first_name: Yugo
full_name: Fukazawa, Yugo
last_name: Fukazawa
- first_name: Francisco
full_name: Ciruela, Francisco
last_name: Ciruela
- first_name: Rafael
full_name: Luján, Rafael
last_name: Luján
citation:
ama: 'Martín‐Belmonte A, Aguado C, Alfaro‐Ruiz R, et al. Nanoarchitecture of CaV>2.1
channels and GABAB receptors in the mouse hippocampus: Impact of APP/PS1 pathology.
Brain Pathology. 2025;35(2). doi:10.1111/bpa.13279'
apa: 'Martín‐Belmonte, A., Aguado, C., Alfaro‐Ruiz, R., Kulik, A., de la Ossa, L.,
Moreno‐Martínez, A. E., … Luján, R. (2025). Nanoarchitecture of CaV>2.1 channels
and GABAB receptors in the mouse hippocampus: Impact of APP/PS1 pathology. Brain
Pathology. Wiley. https://doi.org/10.1111/bpa.13279'
chicago: 'Martín‐Belmonte, Alejandro, Carolina Aguado, Rocío Alfaro‐Ruiz, Akos Kulik,
Luis de la Ossa, Ana Esther Moreno‐Martínez, Samuel Alberquilla, et al. “Nanoarchitecture
of CaV>2.1 Channels and GABAB Receptors in the Mouse Hippocampus: Impact of
APP/PS1 Pathology.” Brain Pathology. Wiley, 2025. https://doi.org/10.1111/bpa.13279.'
ieee: 'A. Martín‐Belmonte et al., “Nanoarchitecture of CaV>2.1 channels
and GABAB receptors in the mouse hippocampus: Impact of APP/PS1 pathology,” Brain
Pathology, vol. 35, no. 2. Wiley, 2025.'
ista: 'Martín‐Belmonte A, Aguado C, Alfaro‐Ruiz R, Kulik A, de la Ossa L, Moreno‐Martínez
AE, Alberquilla S, García‐Carracedo L, Fernández M, Fajardo‐Serrano A, Aso E,
Shigemoto R, Martín ED, Fukazawa Y, Ciruela F, Luján R. 2025. Nanoarchitecture
of CaV>2.1 channels and GABAB receptors in the mouse hippocampus: Impact of
APP/PS1 pathology. Brain Pathology. 35(2), e13279.'
mla: 'Martín‐Belmonte, Alejandro, et al. “Nanoarchitecture of CaV>2.1 Channels
and GABAB Receptors in the Mouse Hippocampus: Impact of APP/PS1 Pathology.” Brain
Pathology, vol. 35, no. 2, e13279, Wiley, 2025, doi:10.1111/bpa.13279.'
short: A. Martín‐Belmonte, C. Aguado, R. Alfaro‐Ruiz, A. Kulik, L. de la Ossa, A.E.
Moreno‐Martínez, S. Alberquilla, L. García‐Carracedo, M. Fernández, A. Fajardo‐Serrano,
E. Aso, R. Shigemoto, E.D. Martín, Y. Fukazawa, F. Ciruela, R. Luján, Brain Pathology
35 (2025).
das_tickbox: '1'
dataavailabilitystatement: All data used and/or analyzed during the current study
are available from the corresponding author on reasonable request.
date_created: 2024-07-22T07:48:20Z
date_published: 2025-03-01T00:00:00Z
date_updated: 2026-09-17T11:10:34Z
day: '01'
ddc:
- '570'
department:
- _id: RySh
doi: 10.1111/bpa.13279
external_id:
isi:
- '001250034200001'
pmid:
- '38887180'
file:
- access_level: open_access
checksum: 75a172800ab2e949abb66fba97cf70f0
content_type: application/pdf
creator: dernst
date_created: 2025-04-16T09:56:08Z
date_updated: 2025-04-16T09:56:08Z
file_id: '19582'
file_name: 2025_BrainPathology_MartinBelmonte.pdf
file_size: 8767863
relation: main_file
success: 1
file_date_updated: 2025-04-16T09:56:08Z
fulldoi: https://doi.org/10.1111/bpa.13279
has_accepted_license: '1'
intvolume: ' 35'
isi: 1
issue: '2'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
publication: Brain Pathology
publication_identifier:
eissn:
- 1750-3639
issn:
- 1015-6305
publication_status: published
publisher: Wiley
quality_controlled: '1'
researchdata_availability: upon request
scopus_import: '1'
status: public
supplementarymaterial: yes
title: 'Nanoarchitecture of CaV>2.1 channels and GABAB receptors in the mouse hippocampus:
Impact of APP/PS1 pathology'
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 35
year: '2025'
...
---
OA_place: publisher
_id: '20292'
abstract:
- lang: eng
text: In automated decision-making, it is desirable that outputs of decision-makers
be robust to slight perturbations in their inputs, a property that may be called
input-output robustness. Input-output robustness appears in various different
forms in the literature, such as robustness of AI models to adversarial or semantic
perturbations and individual fairness of AI models that make decisions about humans.
We propose runtime monitoring of input-output robustness of deployed, black-box
AI models, where the goal is to design monitors that would observe one long execution
sequence of the model, and would raise an alarm whenever it is detected that two
similar inputs from the past led to dissimilar outputs. This way, monitoring will
complement existing offline ''robustification'' approaches to increase the trustworthiness
of AI decision-makers. We show that the monitoring problem can be cast as the
fixed-radius nearest neighbor (FRNN) search problem, which, despite being well-studied,
lacks suitable online solutions. We present our tool Clemont, which offers a number
of lightweight monitors, some of which use upgraded online variants of existing
FRNN algorithms, and one uses a novel algorithm based on binary decision diagrams--a
data-structure commonly used in software and hardware verification. We have also
developed an efficient parallelization technique that can substantially cut down
the computation time of monitors for which the distance between input-output pairs
is measured using the L∞norm. Using standard benchmarks from the literature of
adversarial and semantic robustness and individual fairness, we perform a comparative
study of different monitors in Clemont, and demonstrate their effectiveness in
correctly detecting robustness violations at runtime.
acknowledgement: This work was supported in part by the ERC project ERC-2020-AdG 101020093
and the SBI Foundation Hub for Data Science &Analytics, IIT Bombay.
article_processing_charge: No
arxiv: 1
author:
- first_name: Ashutosh
full_name: Gupta, Ashutosh
id: 335E5684-F248-11E8-B48F-1D18A9856A87
last_name: Gupta
- 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: 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
- first_name: David
full_name: Pape, David
last_name: Pape
citation:
ama: 'Gupta A, Henzinger TA, Kueffner K, Mallik K, Pape D. Monitoring robustness
and individual fairness. In: Proceedings of the 31st ACM SIGKDD Conference
on Knowledge Discovery and Data Mining. Vol 2. Association for Computing Machinery;
2025:790-801. doi:10.1145/3711896.3737054'
apa: 'Gupta, A., Henzinger, T. A., Kueffner, K., Mallik, K., & Pape, D. (2025).
Monitoring robustness and individual fairness. In Proceedings of the 31st ACM
SIGKDD Conference on Knowledge Discovery and Data Mining (Vol. 2, pp. 790–801).
Toronto, Canada: Association for Computing Machinery. https://doi.org/10.1145/3711896.3737054'
chicago: Gupta, Ashutosh, Thomas A Henzinger, Konstantin Kueffner, Kaushik Mallik,
and David Pape. “Monitoring Robustness and Individual Fairness.” In Proceedings
of the 31st ACM SIGKDD Conference on Knowledge Discovery and Data Mining,
2:790–801. Association for Computing Machinery, 2025. https://doi.org/10.1145/3711896.3737054.
ieee: A. Gupta, T. A. Henzinger, K. Kueffner, K. Mallik, and D. Pape, “Monitoring
robustness and individual fairness,” in Proceedings of the 31st ACM SIGKDD
Conference on Knowledge Discovery and Data Mining, Toronto, Canada, 2025,
vol. 2, pp. 790–801.
ista: 'Gupta A, Henzinger TA, Kueffner K, Mallik K, Pape D. 2025. Monitoring robustness
and individual fairness. Proceedings of the 31st ACM SIGKDD Conference on Knowledge
Discovery and Data Mining. KDD: Conference on Knowledge Discovery and Data Mining
vol. 2, 790–801.'
mla: Gupta, Ashutosh, et al. “Monitoring Robustness and Individual Fairness.” Proceedings
of the 31st ACM SIGKDD Conference on Knowledge Discovery and Data Mining,
vol. 2, Association for Computing Machinery, 2025, pp. 790–801, doi:10.1145/3711896.3737054.
short: A. Gupta, T.A. Henzinger, K. Kueffner, K. Mallik, D. Pape, in:, Proceedings
of the 31st ACM SIGKDD Conference on Knowledge Discovery and Data Mining, Association
for Computing Machinery, 2025, pp. 790–801.
conference:
end_date: 2025-08-07
location: Toronto, Canada
name: 'KDD: Conference on Knowledge Discovery and Data Mining'
start_date: 2025-08-03
corr_author: '1'
date_created: 2025-09-07T22:01:33Z
date_published: 2025-08-03T00:00:00Z
date_updated: 2026-09-18T07:41:29Z
day: '03'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1145/3711896.3737054
ec_funded: 1
external_id:
arxiv:
- '2506.00496'
file:
- access_level: open_access
checksum: 81e18cdf9ca5f6dfa79425b326ea9725
content_type: application/pdf
creator: dernst
date_created: 2025-09-08T08:46:31Z
date_updated: 2025-09-08T08:46:31Z
file_id: '20310'
file_name: 2025_KDD_Gupta.pdf
file_size: 7745940
relation: main_file
success: 1
file_date_updated: 2025-09-08T08:46:31Z
fulldoi: https://doi.org/10.1145/3711896.3737054
has_accepted_license: '1'
intvolume: ' 2'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 790-801
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: Proceedings of the 31st ACM SIGKDD Conference on Knowledge Discovery
and Data Mining
publication_identifier:
isbn:
- '9798400714542'
issn:
- 2154-817X
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/ariez-xyz/clemont
record:
- id: '22808'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Monitoring robustness and individual fairness
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: 2
year: '2025'
...
---
OA_place: repository
OA_type: green
_id: '21090'
abstract:
- lang: eng
text: Fairness in AI is traditionally studied as a static property evaluated once,
over a fixed dataset. However, real-world AI systems operate sequentially, with
outcomes and environments evolving over time. This paper proposes a framework
for analysing fairness as a runtime property. Using a minimal yet expressive model
based on sequences of coin tosses with possibly evolving biases, we study the
problems of monitoring and enforcing fairness expressed in either toss outcomes
or coin biases. Since there is no one-size-fits-all solution for either problem,
we provide a summary of monitoring and enforcement strategies, parametrised by
environment dynamics, prediction horizon, and confidence thresholds. For both
problems, we present general results under simple or minimal assumptions. We survey
existing solutions for the monitoring problem for Markovian and additive dynamics,
and existing solutions for the enforcement problem in static settings with known
dynamics.
acknowledgement: 'This work is supported by the European Research Council under Grant
No.: ERC-2020-AdG 101020093.'
alternative_title:
- LNCS
article_processing_charge: No
arxiv: 1
author:
- first_name: Filip
full_name: Cano Cordoba, Filip
id: 708cad98-e86a-11ef-8098-bdae2d7c6af1
last_name: Cano Cordoba
orcid: 0000-0002-0783-904X
- 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: Konstantin
full_name: Kueffner, Konstantin
id: 8121a2d0-dc85-11ea-9058-af578f3b4515
last_name: Kueffner
orcid: 0000-0001-8974-2542
citation:
ama: 'Cano Cordoba F, Henzinger TA, Kueffner K. Algorithmic fairness: A runtime
perspective. In: 25th International Conference on Runtime Verification.
Vol 16087. Springer Nature; 2025:1-21. doi:10.1007/978-3-032-05435-7_1'
apa: 'Cano Cordoba, F., Henzinger, T. A., & Kueffner, K. (2025). Algorithmic
fairness: A runtime perspective. In 25th International Conference on Runtime
Verification (Vol. 16087, pp. 1–21). Graz, Austria: Springer Nature. https://doi.org/10.1007/978-3-032-05435-7_1'
chicago: 'Cano Cordoba, Filip, Thomas A Henzinger, and Konstantin Kueffner. “Algorithmic
Fairness: A Runtime Perspective.” In 25th International Conference on Runtime
Verification, 16087:1–21. Springer Nature, 2025. https://doi.org/10.1007/978-3-032-05435-7_1.'
ieee: 'F. Cano Cordoba, T. A. Henzinger, and K. Kueffner, “Algorithmic fairness:
A runtime perspective,” in 25th International Conference on Runtime Verification,
Graz, Austria, 2025, vol. 16087, pp. 1–21.'
ista: 'Cano Cordoba F, Henzinger TA, Kueffner K. 2025. Algorithmic fairness: A runtime
perspective. 25th International Conference on Runtime Verification. RV: Runtime
Verification, LNCS, vol. 16087, 1–21.'
mla: 'Cano Cordoba, Filip, et al. “Algorithmic Fairness: A Runtime Perspective.”
25th International Conference on Runtime Verification, vol. 16087, Springer
Nature, 2025, pp. 1–21, doi:10.1007/978-3-032-05435-7_1.'
short: F. Cano Cordoba, T.A. Henzinger, K. Kueffner, in:, 25th International Conference
on Runtime Verification, Springer Nature, 2025, pp. 1–21.
conference:
end_date: 2025-09-19
location: Graz, Austria
name: 'RV: Runtime Verification'
start_date: 2025-09-15
corr_author: '1'
date_created: 2026-01-29T16:01:41Z
date_published: 2025-09-13T00:00:00Z
date_updated: 2026-09-18T07:41:29Z
day: '13'
department:
- _id: ToHe
doi: 10.1007/978-3-032-05435-7_1
ec_funded: 1
external_id:
arxiv:
- '2507.20711'
fulldoi: https://doi.org/10.1007/978-3-032-05435-7_1
intvolume: ' 16087'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2507.20711
month: '09'
oa: 1
oa_version: Preprint
page: 1-21
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: 25th International Conference on Runtime Verification
publication_identifier:
eisbn:
- '9783032054357'
eissn:
- 1611-3349
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '22808'
relation: dissertation_contains
status: public
status: public
title: 'Algorithmic fairness: A runtime perspective'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 16087
year: '2025'
...
---
OA_place: publisher
_id: '20357'
acknowledged_ssus:
- _id: ScienComp
- _id: E-Lib
acknowledgement: "I would also like to acknowledge the Austrian Academy of Sciences
for funding through the\r\nDOC Fellowship program (fellowship number 26917), the
Grants Office at ISTA for their\r\nassistance with the application, and the Scientific
Computing Unit for their support regarding\r\nhigh-performance computation.\r\n"
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Natalia
full_name: Ruzickova, Natalia
id: D2761128-D73D-11E9-A1BF-BA0DE6697425
last_name: Ruzickova
citation:
ama: Ruzickova N. Effect propagation in biological networks. 2025. doi:10.15479/AT-ISTA-20357
apa: Ruzickova, N. (2025). Effect propagation in biological networks. Institute
of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20357
chicago: Ruzickova, Natalia. “Effect Propagation in Biological Networks.” Institute
of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20357.
ieee: N. Ruzickova, “Effect propagation in biological networks,” Institute of Science
and Technology Austria, 2025.
ista: Ruzickova N. 2025. Effect propagation in biological networks. Institute of
Science and Technology Austria.
mla: Ruzickova, Natalia. Effect Propagation in Biological Networks. Institute
of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20357.
short: N. Ruzickova, Effect Propagation in Biological Networks, Institute of Science
and Technology Austria, 2025.
corr_author: '1'
date_created: 2025-09-15T17:04:48Z
date_published: 2025-09-15T00:00:00Z
date_updated: 2026-09-15T22:30:03Z
day: '15'
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- '570'
- '530'
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- _id: GaTk
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doi_confirm: '1'
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keyword:
- gene regulation
- networks
- omnigenic model
- pancreas
- collective behaviour
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '156'
project:
- _id: 7bec9174-9f16-11ee-852c-ded9fe5f810e
name: Collective behaviour of cells in pancreatic Islets of Langerhans
publication_identifier:
isbn:
- 978-3-99078-066-4
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
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status: public
supervisor:
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
title: Effect propagation in biological networks
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2025'
...
---
OA_place: repository
_id: '21427'
abstract:
- lang: eng
text: While tumor malignancy has been extensively studied under the prism of genetic
and epigenetic heterogeneity, tumor cell states also critically depend on reciprocal
interactions with the microenvironment. This raises the hitherto untested possibility
that heterogeneity of the untransformed tumor stroma can actively fuel malignant
progression. As biological heterogeneity is inherently difficult to control, we
adopted a reductionist approach and let tumor cells invade micro-engineered environments
harboring obstacles with precision-controlled geometry. We find that not only
the presence of obstacles, but more surprisingly their spatial disorder, causes
a drastic shift from a collective to a single-cell mode of invasion – comparable
in strength to cadherin loss. Combining live-imaging and perturbation experiments
with minimal biophysical modeling, we demonstrate that cell detachments result
both from local geometrical constraints and a global integration of spatial disorder
over time. We show that different types of microenvironments map onto different
universality classes of invasion dynamics - homogeneous substrates follow Kardar–Parisi–Zhang
(KPZ) scaling, while disordered ones exhibit exponents consistent with KPZ with
quenched disorder (KPZq). Our findings highlight generic physical principles for
how the mode of cancer cell invasion depends on environmental heterogeneity, with
potential implications to understand tumor evolution in vivo.
acknowledgement: "European Research Council, https://ror.org/0472cxd90, 101071793\r\nAustrian
Academy of Sciences, 26360"
article_processing_charge: No
author:
- first_name: Zuzana
full_name: Dunajova, Zuzana
id: 4B39F286-F248-11E8-B48F-1D18A9856A87
last_name: Dunajova
- first_name: Saren
full_name: Tasciyan, Saren
id: 4323B49C-F248-11E8-B48F-1D18A9856A87
last_name: Tasciyan
orcid: 0000-0003-1671-393X
- first_name: Juraj
full_name: Majek, Juraj
id: 3e6d9473-f38e-11ec-8ae0-c4e05a8aa9e1
last_name: Majek
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Erik
full_name: Sahai, Erik
last_name: Sahai
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
citation:
ama: Dunajova Z, Tasciyan S, Majek J, et al. Substrate heterogeneity promotes cancer
cell dissemination through interface roughening. bioRxiv. doi:10.1101/2025.05.20.655037
apa: Dunajova, Z., Tasciyan, S., Majek, J., Merrin, J., Sahai, E., Sixt, M. K.,
& Hannezo, E. B. (n.d.). Substrate heterogeneity promotes cancer cell dissemination
through interface roughening. bioRxiv. https://doi.org/10.1101/2025.05.20.655037
chicago: Dunajova, Zuzana, Saren Tasciyan, Juraj Majek, Jack Merrin, Erik Sahai,
Michael K Sixt, and Edouard B Hannezo. “Substrate Heterogeneity Promotes Cancer
Cell Dissemination through Interface Roughening.” BioRxiv, n.d. https://doi.org/10.1101/2025.05.20.655037.
ieee: Z. Dunajova et al., “Substrate heterogeneity promotes cancer cell dissemination
through interface roughening,” bioRxiv. .
ista: Dunajova Z, Tasciyan S, Majek J, Merrin J, Sahai E, Sixt MK, Hannezo EB. Substrate
heterogeneity promotes cancer cell dissemination through interface roughening.
bioRxiv, 10.1101/2025.05.20.655037.
mla: Dunajova, Zuzana, et al. “Substrate Heterogeneity Promotes Cancer Cell Dissemination
through Interface Roughening.” BioRxiv, doi:10.1101/2025.05.20.655037.
short: Z. Dunajova, S. Tasciyan, J. Majek, J. Merrin, E. Sahai, M.K. Sixt, E.B.
Hannezo, BioRxiv (n.d.).
corr_author: '1'
das_tickbox: '1'
date_created: 2026-03-11T08:40:06Z
date_published: 2025-09-25T00:00:00Z
date_updated: 2026-09-20T22:30:09Z
day: '25'
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- '539'
- '570'
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- _id: GradSch
- _id: EdHa
- _id: MiSi
- _id: NanoFab
- _id: AnSa
doi: 10.1101/2025.05.20.655037
fulldoi: https://doi.org/10.1101/2025.05.20.655037
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language:
- iso: eng
main_file_link:
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month: '09'
oa: 1
oa_version: Preprint
project:
- _id: bd91e723-d553-11ed-ba76-fe7eeb2185fd
grant_number: '101071793'
name: 'Pushing from within: Control of cell shape, integrity and motility by cytoskeletal
pushing forces'
- _id: 34d75525-11ca-11ed-8bc3-89b6307fee9d
grant_number: '26360'
name: Motile active matter models of migrating cells and chiral filaments
publication: bioRxiv
publication_status: draft
related_material:
record:
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relation: research_data
status: public
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relation: dissertation_contains
status: public
status: public
title: Substrate heterogeneity promotes cancer cell dissemination through interface
roughening
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)
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year: '2025'
...
---
OA_place: publisher
_id: '20117'
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
- _id: PreCl
acknowledgement: "I would also like to acknowledge the invaluable assistance provided
by the Plant\r\nFacility, Imaging & Optics Facility, and the Lab Support Facility.
The technical support and\r\nresources offered by these facilities were indispensable
to the successful completion of my\r\nexperiments."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Yiqun
full_name: Wang, Yiqun
id: 82F537F2-B517-11E9-84D7-6433E6697425
last_name: Wang
citation:
ama: Wang Y. The role of dynamin related protein 2A in cytokinin regulated plant
growth and development. 2025. doi:10.15479/AT-ISTA-20117
apa: Wang, Y. (2025). The role of dynamin related protein 2A in cytokinin regulated
plant growth and development. Institute of Science and Technology Austria.
https://doi.org/10.15479/AT-ISTA-20117
chicago: Wang, Yiqun. “The Role of Dynamin Related Protein 2A in Cytokinin Regulated
Plant Growth and Development.” Institute of Science and Technology Austria, 2025.
https://doi.org/10.15479/AT-ISTA-20117.
ieee: Y. Wang, “The role of dynamin related protein 2A in cytokinin regulated plant
growth and development,” Institute of Science and Technology Austria, 2025.
ista: Wang Y. 2025. The role of dynamin related protein 2A in cytokinin regulated
plant growth and development. Institute of Science and Technology Austria.
mla: Wang, Yiqun. The Role of Dynamin Related Protein 2A in Cytokinin Regulated
Plant Growth and Development. Institute of Science and Technology Austria,
2025, doi:10.15479/AT-ISTA-20117.
short: Y. Wang, The Role of Dynamin Related Protein 2A in Cytokinin Regulated Plant
Growth and Development, Institute of Science and Technology Austria, 2025.
corr_author: '1'
date_created: 2025-08-04T15:24:21Z
date_published: 2025-08-04T00:00:00Z
date_updated: 2026-09-03T22:30:04Z
day: '04'
ddc:
- '580'
degree_awarded: PhD
department:
- _id: GradSch
- _id: EvBe
doi: 10.15479/AT-ISTA-20117
file:
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date_updated: 2026-09-03T22:30:03Z
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fulldoi: https://doi.org/10.15479/AT-ISTA-20117
has_accepted_license: '1'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: '108'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '18063'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
title: The role of dynamin related protein 2A in cytokinin regulated plant growth
and development
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2025'
...
---
OA_place: publisher
_id: '20212'
acknowledged_ssus:
- _id: Bio
- _id: PreCl
acknowledgement: "I would also like to\r\nthank the Austrian Academy of Sciences for
awarding me a 2-year DOC fellowship\r\n(DOC26253)."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Osvaldo
full_name: Miranda, Osvaldo
id: 862A3C56-A8BF-11E9-B4FA-D9E3E5697425
last_name: Miranda
orcid: 0000-0001-6618-6889
citation:
ama: Miranda O. Unraveling the role of Pten in cortical stem cell lineage progression
using MADM. 2025. doi:10.15479/AT-ISTA-20212
apa: Miranda, O. (2025). Unraveling the role of Pten in cortical stem cell lineage
progression using MADM. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20212
chicago: Miranda, Osvaldo. “Unraveling the Role of Pten in Cortical Stem Cell Lineage
Progression Using MADM.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20212.
ieee: O. Miranda, “Unraveling the role of Pten in cortical stem cell lineage progression
using MADM,” Institute of Science and Technology Austria, 2025.
ista: Miranda O. 2025. Unraveling the role of Pten in cortical stem cell lineage
progression using MADM. Institute of Science and Technology Austria.
mla: Miranda, Osvaldo. Unraveling the Role of Pten in Cortical Stem Cell Lineage
Progression Using MADM. Institute of Science and Technology Austria, 2025,
doi:10.15479/AT-ISTA-20212.
short: O. Miranda, Unraveling the Role of Pten in Cortical Stem Cell Lineage Progression
Using MADM, Institute of Science and Technology Austria, 2025.
corr_author: '1'
date_created: 2025-08-22T14:07:00Z
date_published: 2025-08-22T00:00:00Z
date_updated: 2026-08-26T22:30:03Z
day: '22'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: GradSch
- _id: SiHi
doi: 10.15479/AT-ISTA-20212
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date_created: 2025-08-26T09:05:55Z
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file_size: 28636240
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file_date_updated: 2026-08-26T22:30:02Z
fulldoi: https://doi.org/10.15479/AT-ISTA-20212
has_accepted_license: '1'
keyword:
- Pten
- mtor
- cortical development
- MADM
- Mapk
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: '119'
project:
- _id: 34c9fbcb-11ca-11ed-8bc3-98fa5658610d
grant_number: '26253'
name: Molecular Mechanisms Regulating Cortical Neural Stem Cell Lineage Progression
and Astrocyte Development
publication_identifier:
isbn:
- 978-3-99078-063-3
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '17425'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
title: Unraveling the role of Pten in cortical stem cell lineage progression using
MADM
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2025'
...
---
OA_embargo: '12'
OA_place: publisher
_id: '19386'
abstract:
- lang: eng
text: "Crustaceans are a large group of arthropods with a great diversity of species
and\r\ndifferent types of sex determination systems and reproductive modes (Subramoniam,
2017).\r\nThis makes them a great model for exploring the evolution of sex chromosomes
and sexual\r\ndimorphism and investigating the evolutionary mechanisms driving
and maintaining the\r\ndiversity of reproductive systems. Within this taxon, Brine
shrimp of the genus Artemia, a\r\nbranchiopod crustacean, are well suited for
such explorations, as they have both highly\r\ndimorphic traits and closely related
sexual and asexual species. Although brine shrimp are\r\nknown to have ZW sex
chromosomes (Bowen, 1963; Parraguez et al., 2009), the sex\r\nchromosomes are
still not well characterized at the genomic level, the sex-determination gene\r\nis
unknown, and it is still unclear whether the same sex chromosomes as shared by
the\r\ndifferent species.\r\nThe first part of this thesis was to characterize
the Z and W chromosomes in Artemia\r\nusing an array of methods, from generating
multiple chromosome and contig level genome\r\nassemblies to identifying W-linked
scaffolds and transcripts in multiple species using k-mer\r\nbased approaches.\r\nThe
second part tackles the conservation of the cell type specific regulatory pathways\r\nin
the female reproductive system between Artemia and Drosophila, and the expression
of the\r\nZ-specific region throughout meiosis using single-nucleus RNA-seq data.
Our results show\r\nthat germline cells lack dosage compensation, with a subset
of cells showing evidence of\r\nextreme repression of the Z chromosome.\r\nWith
multiple sexual species and several asexual lineages of parthenogenetic females\r\nthat
produce rare males at low frequencies, Brine shrimp present the perfect opportunity
to\r\nexplore the transition to asexuality and shed light on the prerequisites
and repercussions of\r\nthe form of modified meiosis maintaining the asexual lineages.
The last chapter is an\r\ninvestigation of the molecular pathways involved in
asexual reproduction in Artemia using\r\nnewly generated single nucleus RNAseq
and WGS data and previously published data. "
acknowledged_ssus:
- _id: ScienComp
acknowledgement: My PhD work was funded by the Austrian science fund (FWF), as part
of the SFB Meiosis consortium (https://sfbmeiosis.org/, grant ID FWF SFB F88-10).
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
citation:
ama: Elkrewi MN. Evolution of sex chromosomes, sex determination and asexuality
in Artemia brine shrimp. 2025. doi:10.15479/AT-ISTA-19386
apa: Elkrewi, M. N. (2025). Evolution of sex chromosomes, sex determination and
asexuality in Artemia brine shrimp. Institute of Science and Technology Austria.
https://doi.org/10.15479/AT-ISTA-19386
chicago: Elkrewi, Marwan N. “Evolution of Sex Chromosomes, Sex Determination and
Asexuality in Artemia Brine Shrimp.” Institute of Science and Technology Austria,
2025. https://doi.org/10.15479/AT-ISTA-19386.
ieee: M. N. Elkrewi, “Evolution of sex chromosomes, sex determination and asexuality
in Artemia brine shrimp,” Institute of Science and Technology Austria, 2025.
ista: Elkrewi MN. 2025. Evolution of sex chromosomes, sex determination and asexuality
in Artemia brine shrimp. Institute of Science and Technology Austria.
mla: Elkrewi, Marwan N. Evolution of Sex Chromosomes, Sex Determination and Asexuality
in Artemia Brine Shrimp. Institute of Science and Technology Austria, 2025,
doi:10.15479/AT-ISTA-19386.
short: M.N. Elkrewi, Evolution of Sex Chromosomes, Sex Determination and Asexuality
in Artemia Brine Shrimp, Institute of Science and Technology Austria, 2025.
corr_author: '1'
date_created: 2025-03-11T12:54:31Z
date_published: 2025-03-14T00:00:00Z
date_updated: 2026-07-06T13:48:33Z
day: '14'
ddc:
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- '576'
degree_awarded: PhD
department:
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- _id: BeVi
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language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: '170'
project:
- _id: 34ae1506-11ca-11ed-8bc3-c14f4c474396
grant_number: F8810
name: The highjacking of meiosis for asexual reproduction
publication_identifier:
eissn:
- 2663-337X
isbn:
- '9783990780534'
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
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- id: '12248'
relation: part_of_dissertation
status: public
- id: '10767'
relation: part_of_dissertation
status: public
- id: '15009'
relation: part_of_dissertation
status: public
- id: '14613'
relation: part_of_dissertation
status: public
- id: '17890'
relation: part_of_dissertation
status: public
- id: '10167'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
title: Evolution of sex chromosomes, sex determination and asexuality in Artemia brine
shrimp
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2025'
...
---
OA_embargo: '6'
OA_place: publisher
_id: '20798'
abstract:
- lang: eng
text: "Atom interferometers measure the relative phase shifts between coherent matter-wave
paths\r\nthat arise from interactions with external fields or inertial forces.
Due to their exceptional\r\nphase sensitivity, atom interferometers became an
essential tool for precision measurements\r\nand fundamental physics experiments,
finding applications in geodesy, gravimetry, and inertial\r\nnavigation. However,
their measurement precision is limited by quantum projection noise,\r\nwhich arises
from the Heisenberg uncertainty principle, preventing the measurement of atomic\r\nstates
with absolute precision. The generation of entanglement between the atoms offers
a\r\npath to surpass this so-called standard quantum limit, thereby enhancing
the interferometer’s\r\nphase sensitivity beyond classical measurement bounds.\r\nThis
thesis reports on the development of an atom interferometer experiment designed
to\r\nrealize cavity-mediated, squeezed Mach-Zehnder-type interferometry with
ultra-cold 87Rb atoms.\r\nThe experiment combines cavity-aided spin-squeezing
with cavity-mediated Mach-Zehnder\r\ninterferometry to demonstrate entanglement-enhanced
phase sensitivity. The experiment is\r\ncentered on a triangular optical cavity
that mediates all relevant atom-light interactions. The\r\ncavity provides optical
trapping, spin-squeezing, and Raman beam-splitter operations, enabling\r\nto perform
interferometry on a continuously trapped atomic ensemble.\r\nThe thesis elaborates
on the fundamental theoretical framework, the cavity design, and the full\r\noptical
setup, including the detailed configuration of the developed laser stabilization
methods.\r\nExperimentally, continuous loading methods were explored, resulting
in an accumulation of\r\nup to 4 × 106\r\natoms in the dipole trap within a cycle
time of 500 ms. The AC Stark shift\r\ncompensation method developed for continuous
loading was further applied for in-trap cooling\r\nto 10 µK, and optical pumping
for efficient atomic state preparation. Coherent state control\r\nwas verified
via observation of microwave-driven Rabi oscillations, and used to characterize\r\natom-cavity
coupling.\r\nThese presented results establish the experimental groundwork for
the future development of\r\ncavity-mediated, entanglement-enhanced Mach-Zehnder-type
atom interferometry."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Sebastian
full_name: Wald, Sebastian
id: 133F200A-B015-11E9-AD41-0EDAE5697425
last_name: Wald
orcid: 0000-0002-5869-1604
citation:
ama: Wald S. Atoms in a propagating-wave cavity for squeezed Mach-Zehnder atom interferometry.
2025. doi:10.15479/AT-ISTA-20798
apa: Wald, S. (2025). Atoms in a propagating-wave cavity for squeezed Mach-Zehnder
atom interferometry. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20798
chicago: Wald, Sebastian. “Atoms in a Propagating-Wave Cavity for Squeezed Mach-Zehnder
Atom Interferometry.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20798.
ieee: S. Wald, “Atoms in a propagating-wave cavity for squeezed Mach-Zehnder atom
interferometry,” Institute of Science and Technology Austria, 2025.
ista: Wald S. 2025. Atoms in a propagating-wave cavity for squeezed Mach-Zehnder
atom interferometry. Institute of Science and Technology Austria.
mla: Wald, Sebastian. Atoms in a Propagating-Wave Cavity for Squeezed Mach-Zehnder
Atom Interferometry. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20798.
short: S. Wald, Atoms in a Propagating-Wave Cavity for Squeezed Mach-Zehnder Atom
Interferometry, Institute of Science and Technology Austria, 2025.
corr_author: '1'
das_tickbox: '1'
date_created: 2025-12-11T11:48:11Z
date_published: 2025-12-11T00:00:00Z
date_updated: 2026-07-24T08:07:28Z
day: '11'
ddc:
- '530'
degree_awarded: PhD
department:
- _id: GradSch
- _id: OnHo
doi: 10.15479/AT-ISTA-20798
doi_confirm: '1'
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fulldoi: https://doi.org/10.15479/AT-ISTA-20798
has_accepted_license: '1'
keyword:
- entanglement-enhanced atom interferometry
- cavity QED
- spin-squeezing
- dipole trap
- quantum optics
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '12'
oa: 1
oa_version: Published Version
page: '152'
publication_identifier:
isbn:
- 978-3-99078-075-6
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '14759'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Onur
full_name: Hosten, Onur
id: 4C02D85E-F248-11E8-B48F-1D18A9856A87
last_name: Hosten
orcid: 0000-0002-2031-204X
title: Atoms in a propagating-wave cavity for squeezed Mach-Zehnder atom interferometry
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: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2025'
...
---
OA_embargo: 6 months
OA_place: publisher
OA_type: hybrid
_id: '19498'
abstract:
- lang: eng
text: A dynamic interplay between fast synaptic signals and slower neuromodulatory
signals controls the excitatory/inhibitory (E/I) balance within neuronal circuits.
The mechanisms by which neuropeptide signaling is regulated to maintain E/I balance
remain uncertain. We designed a genetic screen to isolate genes involved in the
peptidergic maintenance of the E/I balance in the C. elegans motor circuit. This
screen identified the C. elegans orthologs of the presynaptic phosphoprotein synapsin
(snn-1) and the protein phosphatase 1 (PP1) regulatory subunit PHACTR1 (phac-1).
We demonstrate that both phac-1 and snn-1 alter the motor behavior of C. elegans,
and genetic interactions suggest that SNN-1 contributes to PP1-PHAC-1 holoenzyme
signaling. De novo variants of human PHACTR1, associated with early-onset epilepsies
[developmental and epileptic encephalopathy 70 (DEE70)], when expressed in C.
elegans resulted in constitutive PP1-PHAC-1 holoenzyme activity. Unregulated PP1-PHAC-1
signaling alters the synapsin and actin cytoskeleton and increases neuropeptide
release by cholinergic motor neurons, which secondarily affects the presynaptic
vesicle cycle. Together, these results clarify the dominant mechanisms of action
of the DEE70 alleles and suggest that altered neuropeptide release may alter E/I
balance in DEE70.
acknowledgement: P.L. is a research associate of the Belgian National Fund for Scientific
Research (FRS-FNRS). K.S., M.S.-G., S.S., and P.L. are supported by grants from
the FRS-FNRS. This work was supported by an Advanced ERC Grant (269058 ACMO) to
M.D.B. We thank the team of Alexander Gottschalk for the snn-1(S9A) strain. We thank
the Imaging Facility of the Faculty of Medicine (LiMiF) of the Universite Libre
de Bruxelles, supported by FRS-FNRS. This work made use of instruments in the Electron
Microscopy Core of the University of Illinois Chicago Research Resources Center
as well as the BioCryo facility of Northwestern University's NUANCE Center, which
has received support from the SHyNE Resource (NSF ECCS-2025633), the IIN, and Northwestern's
MRSEC program (NSF DMR-2308691). Some strains were provided by the CGC, which is
funded by NIH Office of Research Infrastructure Programs (P40 OD010440).
article_number: e1767232024
article_processing_charge: No
article_type: original
author:
- first_name: Aikaterini
full_name: Stratigi, Aikaterini
last_name: Stratigi
- first_name: Miguel
full_name: Soler-García, Miguel
last_name: Soler-García
- first_name: Mia
full_name: Krout, Mia
last_name: Krout
- first_name: Shikha
full_name: Shukla, Shikha
last_name: Shukla
- first_name: Mario
full_name: De Bono, Mario
id: 4E3FF80E-F248-11E8-B48F-1D18A9856A87
last_name: De Bono
orcid: 0000-0001-8347-0443
- first_name: Janet E.
full_name: Richmond, Janet E.
last_name: Richmond
- first_name: Patrick
full_name: Laurent, Patrick
last_name: Laurent
citation:
ama: Stratigi A, Soler-García M, Krout M, et al. Neuroendocrine control of synaptic
transmission by PHAC-1 in C. elegans. Journal of Neuroscience. 2025;45(13).
doi:10.1523/JNEUROSCI.1767-23.2024
apa: Stratigi, A., Soler-García, M., Krout, M., Shukla, S., de Bono, M., Richmond,
J. E., & Laurent, P. (2025). Neuroendocrine control of synaptic transmission
by PHAC-1 in C. elegans. Journal of Neuroscience. Society for Neuroscience.
https://doi.org/10.1523/JNEUROSCI.1767-23.2024
chicago: Stratigi, Aikaterini, Miguel Soler-García, Mia Krout, Shikha Shukla, Mario
de Bono, Janet E. Richmond, and Patrick Laurent. “Neuroendocrine Control of Synaptic
Transmission by PHAC-1 in C. Elegans.” Journal of Neuroscience. Society
for Neuroscience, 2025. https://doi.org/10.1523/JNEUROSCI.1767-23.2024.
ieee: A. Stratigi et al., “Neuroendocrine control of synaptic transmission
by PHAC-1 in C. elegans,” Journal of Neuroscience, vol. 45, no. 13. Society
for Neuroscience, 2025.
ista: Stratigi A, Soler-García M, Krout M, Shukla S, de Bono M, Richmond JE, Laurent
P. 2025. Neuroendocrine control of synaptic transmission by PHAC-1 in C. elegans.
Journal of Neuroscience. 45(13), e1767232024.
mla: Stratigi, Aikaterini, et al. “Neuroendocrine Control of Synaptic Transmission
by PHAC-1 in C. Elegans.” Journal of Neuroscience, vol. 45, no. 13, e1767232024,
Society for Neuroscience, 2025, doi:10.1523/JNEUROSCI.1767-23.2024.
short: A. Stratigi, M. Soler-García, M. Krout, S. Shukla, M. de Bono, J.E. Richmond,
P. Laurent, Journal of Neuroscience 45 (2025).
date_created: 2025-04-06T22:01:32Z
date_published: 2025-03-26T00:00:00Z
date_updated: 2026-07-28T11:30:41Z
day: '26'
ddc:
- '570'
department:
- _id: MaDe
doi: 10.1523/JNEUROSCI.1767-23.2024
external_id:
isi:
- '001460952700001'
pmid:
- '39919830'
file:
- access_level: open_access
checksum: 7befc0168f4cd5bd2b0fcff9e2a94784
content_type: application/pdf
creator: dernst
date_created: 2025-04-07T11:57:19Z
date_updated: 2025-09-27T22:30:02Z
embargo: 2025-09-27
file_id: '19525'
file_name: 2025_JourNeuroscience_Stratigi.pdf
file_size: 3111735
relation: main_file
file_date_updated: 2025-09-27T22:30:02Z
fulldoi: https://doi.org/10.1523/JNEUROSCI.1767-23.2024
has_accepted_license: '1'
intvolume: ' 45'
isi: 1
issue: '13'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
publication: 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: Neuroendocrine control of synaptic transmission by PHAC-1 in C. elegans
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: 45
year: '2025'
...
---
OA_place: publisher
_id: '18871'
abstract:
- lang: eng
text: "\"Can we do this with a new type of computer - a quantum computer?\". This
famous\r\nquotation of the brilliant Richard Feynman within a conference talk
on \"Simulating physics\r\nwith computers.” is often reverently praised as the
origin of the field of quantum computing.\r\nThe idea was to use quantum mechanical
systems itself to simulate \"Nature\", which is\r\ninherently quantum mechanical.
Now, 43 years later, the theoretical framework of how such\r\na computer can operate
has been developed. Two main important concepts for a potential\r\nquantum supremacy,
superposition and entanglement, have been exploited to design quantum\r\nalgorithms
to significantly speed up certain tasks. Yet, the specific hardware implementation\r\nis
still far from being certain, in fact the race between the most promising platforms
such as\r\nsuperconducting qubits, bosonic codes, cold atoms, trapped ions, optical
computing as well\r\nas spin qubits has recently intensified. If one also includes
the most mature applications of\r\nquantum communication technologies, secure
quantum key distribution and quantum random\r\nnumber generators, as part of a
quantum information technology ecosystem, we are confronted\r\nwith a plethora
of different materials, concepts, and also operation frequencies. While\r\nsuperconducting
qubits, bosonic codes and spin qubits work in the regime of approximately 5\r\nGHz
and are controlled by electrical fields, trapped ions, cold atoms, and optical
quantum\r\ncomputing operate with light in the infrared or visible range.\r\nConsequently,
a quantum frequency converter or microwave-optic transducer is required\r\nto
interface the different frequency domains or establish a long-range network connection\r\nwith
suitable telecom fibers. In fact, the combination of different frequency regimes
is also\r\nan essential part in our classical modern communication network, where
computations are\r\nperformed in electrical circuits and the information exchange
over longer distances happens\r\nvia optical fibers. However, the specific challenges
specific to building a quantum computer,\r\nalso apply to the development of such
a quantum frequency transducer: 1) As we deal with\r\nsingle excitations as the
carrier of information, i.e. the smallest possible quantity, the signal\r\ncan
easily be corrupted by other noise sources which needs to be avoided by all means.
This\r\nis also the reason why microwave quantum computers operate at temperature
environments\r\nclose to zero temperature (< 0.1 Kelvin) to avoid corruption by
thermal noise. 2) The\r\nfrequency interface generally needs to preserve the phase
of the signal as an essential part\r\nof the quantum state. And 3) Quantum signals
cannot be copied which would be a typical\r\nstrategy to account for errors in
classical computers. And finally, there is a challenge specific to\r\nmicrowave-optic
transducers: While quantum computers are operating in one specific frequency\r\ndomain,
microwave-optic transducers combine microwave and optical fields in one device.\r\nThis
results in the particular challenge that high-energy optical radiation, which
is usually\r\nwell-shielded from superconducting microwave quantum processors,
are now an essential part\r\nof the device. The concomitant optical radiation
in the operating transducer will inevitably\r\nhave a detrimental effect on the
superconducting microwave components. Together with the\r\nrequirement of minimal
background noise for quantum-limited operation as described above,\r\nv\r\nheating
from the absorption of optical photons within the same device where single microwave\r\nexcitations
are processed forms a formidable challenge.\r\nThis thesis aims to address this
challenge by developing microwave-optic transducers where\r\nthe impact of optical
absorption on superconducting circuits in general and superconducting\r\nqubits
specifically can be mitigated. In our first approach, we developed a compact device\r\nwith
optimized interaction strengths between the different frequency domains. This
minimizes\r\nthe optical powers used for transducer operation and thus the optical
absorption heating. This\r\nwork was - to the best of our knowledge - the first
comprehensive noise study, in an integrated\r\nmicrowave-optic transducer. Unfortunately,
we saw that the optical absorption heating added\r\nnoise way above a single excitation.
Consequently, a potential quantum signal would have\r\nbeen buried in the noise,
added by the transduction.\r\nBuilding on this insight, we utilized a three-dimensional
microwave-optic transducer instead\r\nof an integrated device. The larger heat
capacity of the macroscopic device with a size\r\nof a few millimeters can absorb
a larger fraction of the optical heating before it increases\r\nthe temperature
of the device. This allowed us to interface the transducer directly with a\r\nsuperconducting
qubit to readout the qubit state in a novel all-optical manner. We showed\r\nthat
the microwave-optic transducer can be operated in a regime in which optical fields
don’t\r\nharm the sensitive qubit. This is an important prerequisite for the operation
of microwave-optic\r\ntransducers in conjunction with microwave quantum processors
and brings the integration and\r\nseamless orchestration of different frequency
components in a quantum network a step closer.\r\n"
acknowledged_ssus:
- _id: SSU
- _id: M-Shop
- _id: NanoFab
acknowledgement: "This work was supported by the European Research Council under grant
agreement no. 758053\r\n(ERC StG QUNNECT) and the European Union’s Horizon 2020
research, innovation program\r\nunder grant agreement no. 899354 (FETopen SuperQuLAN)
and the Austrian Science Fund\r\n(FWF) through BeyondC (F7105). I want to acknowledge
generous support from the Austrian\r\nAcademy of Sciences from a DOC [Doctoral program
of the Austrian Academy of Sciences]\r\nfellowship (no. 25129).\r\n"
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Georg M
full_name: Arnold, Georg M
id: 3770C838-F248-11E8-B48F-1D18A9856A87
last_name: Arnold
orcid: 0000-0003-1397-7876
citation:
ama: Arnold GM. Microwave-optic interconnects for superconducting circuits. 2025.
doi:10.15479/at:ista:18871
apa: Arnold, G. M. (2025). Microwave-optic interconnects for superconducting
circuits. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:18871
chicago: Arnold, Georg M. “Microwave-Optic Interconnects for Superconducting Circuits.”
Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/at:ista:18871.
ieee: G. M. Arnold, “Microwave-optic interconnects for superconducting circuits,”
Institute of Science and Technology Austria, 2025.
ista: Arnold GM. 2025. Microwave-optic interconnects for superconducting circuits.
Institute of Science and Technology Austria.
mla: Arnold, Georg M. Microwave-Optic Interconnects for Superconducting Circuits.
Institute of Science and Technology Austria, 2025, doi:10.15479/at:ista:18871.
short: G.M. Arnold, Microwave-Optic Interconnects for Superconducting Circuits,
Institute of Science and Technology Austria, 2025.
corr_author: '1'
date_created: 2025-01-24T10:28:39Z
date_published: 2025-01-24T00:00:00Z
date_updated: 2026-04-16T12:20:43Z
day: '24'
ddc:
- '530'
degree_awarded: PhD
department:
- _id: JoFi
- _id: GradSch
doi: 10.15479/at:ista:18871
ec_funded: 1
file:
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checksum: 71872702e8f46c275eaea44efc4d304f
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creator: cchlebak
date_created: 2025-01-29T08:38:08Z
date_updated: 2026-01-29T23:30:03Z
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file_name: tex for upload.zip
file_size: 18856130
relation: source_file
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checksum: dfaa06591970f4bff163705802fad56d
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creator: cchlebak
date_created: 2025-01-29T08:38:34Z
date_updated: 2026-01-29T23:30:03Z
embargo: 2026-01-29
file_id: '18947'
file_name: ISTThesisGA2022_final.pdf
file_size: 17344760
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fulldoi: https://doi.org/10.15479/at:ista:18871
has_accepted_license: '1'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-sa/4.0/
month: '01'
oa: 1
oa_version: Published Version
page: '135'
project:
- _id: 26336814-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '758053'
name: A Fiber Optic Transceiver for Superconducting Qubits
- _id: 9B868D20-BA93-11EA-9121-9846C619BF3A
call_identifier: H2020
grant_number: '899354'
name: Quantum Local Area Networks with Superconducting Qubits
- _id: 2671EB66-B435-11E9-9278-68D0E5697425
name: Coherent on-chip conversion of superconducting qubit signals from microwaves
to optical frequencies
- _id: bdb108fd-d553-11ed-ba76-83dc74a9864f
grant_number: F07105
name: QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration
of Superconducting Quantum Circuits
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '6609'
relation: part_of_dissertation
status: public
- id: '8529'
relation: part_of_dissertation
status: public
- id: '18953'
relation: part_of_dissertation
status: public
- id: '10924'
relation: part_of_dissertation
status: public
- id: '9114'
relation: part_of_dissertation
status: public
- id: '13200'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Johannes M
full_name: Fink, Johannes M
id: 4B591CBA-F248-11E8-B48F-1D18A9856A87
last_name: Fink
orcid: 0000-0001-8112-028X
title: Microwave-optic interconnects for superconducting circuits
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: dissertation
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2025'
...
---
OA_embargo: '6'
OA_place: publisher
_id: '19745'
abstract:
- lang: eng
text: "Cell migration is a crucial process in animal development and maintenance.
It is incredibly\r\nheterogeneous, with different cell types utilizing fundamentally
distinct migration strategies.\r\nThe strategies also depend on the cellular microenvironment,
where cells can switch between\r\nmigration modes as they encounter new environmental
cues. In this thesis, we investigated\r\nhow dendritic cells adapt their migration
strategy when encountering geometrically,\r\nmechanically and chemically distinct
environments.\r\nWhen dendritic cells are embedded in a homogeneous fibrous network,
they migrate in a fast\r\nand directional amoeboid manner. In this migration strategy,
extracellular proteolysis and\r\nintegrin-mediated adhesions are dispensable.
Instead, the cells use topography of the\r\nenvironment to propel their cell body
forward. To migrate efficiently in the maze of different\r\npore sizes, they position
the nucleus ahead of the microtubule organizing center (MTOC) and\r\nuse it to
gauge the pores to identify the path of least resistance. Our aim was to identify\r\nwhether
dendritic cells adapt their migration strategy when encountering asymmetrical\r\ntransitions
into much denser environments with limited choice of large pores. In such invasive\r\ntransitions
it is unclear if the cells can cross tight pores without the use of adhesions
and\r\nextracellular proteolysis and whether they maintain the nucleus in the
cell front.\r\nUsing various cell migration assays such as fibrous 3D collagen
gels, geometrically defined\r\nmicrochannels with constrictions and simplistic
under agarose migration assay, we provide\r\na comprehensive characterization
of invasive migration of dendritic cells. We show that\r\nduring invasion the
cells stall and stretch, reflecting the difficulty to translocate the bulky cell\r\nbody
into the dense environment. In collagen gels, we show that dendritic cells can
invade\r\nwithout proteolysis and adhesions. Instead, they utilize contractility,
which can lead to largescale collagen compressions. During invasion, the nucleus
stalls at tight constrictions, leading\r\nto a transient organelle reorientation.
To resolve the stalling, upregulated rear contractility is\r\nrequired. This contractile
force is simultaneously necessary for reverting the nucleus back to\r\nthe cell
front after invasion and maintaining this positioning during permissive migration.\r\nA
functional role of the reorientation was uncovered in the first collaboration
project.\r\nA prominent central actin pool was identified around the MTOC, especially
pronounced in\r\ndense and compressive environments. The actin pool was shown
to generate pushing forces\r\nto dilate the space for cell translocation. These
forces are only necessary in non-permissive\r\nenvironments, where the nucleus
reorients to the cell rear, allowing the actin pool to\r\ngenerate space. In permissive
environments where space generation is dispensable, the\r\nMTOC is located behind
the nucleus and the actin cloud has reduced intensity, allowing more\r\nactin
to be incorporated into the lamellipodium, speeding up migration.\r\nIn the second
collaboration project, we investigated the effects of distinct chemical\r\nenvironments
on dendritic cell migration. The strikingly persistent migration of these cells\r\nwas
explained by their ability to modulate and even self-generate chemokine gradients.
This\r\nallows the cells to migrate faster and more persistent in uniform chemokine
fields compared\r\nto imposed chemokine gradients. The chemokine receptor CCR7
was identified as a crucial\r\nplayer in this process, both sensing the signal
and internalizing the chemokine to create a sink."
acknowledgement: "This project has received funding from the Austrian Science Fund
(FWF) via the doctorate\r\ncollege DK NanoCell and from the European Union’s Horizon
2020 research and innovation\r\nprogramme under the Marie Skłodowska-Curie Grant
Agreement No. 665385.\r\n"
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Nikola
full_name: Canigova, Nikola
id: 3795523E-F248-11E8-B48F-1D18A9856A87
last_name: Canigova
orcid: 0000-0002-8518-5926
citation:
ama: Canigova N. Adaptive strategies of dendritic cell migration in response to
environmental cues. 2025. doi:10.15479/AT-ISTA-19745
apa: Canigova, N. (2025). Adaptive strategies of dendritic cell migration in
response to environmental cues. Institute of Science and Technology Austria.
https://doi.org/10.15479/AT-ISTA-19745
chicago: Canigova, Nikola. “Adaptive Strategies of Dendritic Cell Migration in Response
to Environmental Cues.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-19745.
ieee: N. Canigova, “Adaptive strategies of dendritic cell migration in response
to environmental cues,” Institute of Science and Technology Austria, 2025.
ista: Canigova N. 2025. Adaptive strategies of dendritic cell migration in response
to environmental cues. Institute of Science and Technology Austria.
mla: Canigova, Nikola. Adaptive Strategies of Dendritic Cell Migration in Response
to Environmental Cues. Institute of Science and Technology Austria, 2025,
doi:10.15479/AT-ISTA-19745.
short: N. Canigova, Adaptive Strategies of Dendritic Cell Migration in Response
to Environmental Cues, Institute of Science and Technology Austria, 2025.
corr_author: '1'
date_created: 2025-05-26T08:49:00Z
date_published: 2025-05-27T00:00:00Z
date_updated: 2026-06-18T17:34:48Z
day: '27'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: MiSi
- _id: GradSch
doi: 10.15479/AT-ISTA-19745
ec_funded: 1
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file_size: 194530600
relation: main_file
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fulldoi: https://doi.org/10.15479/AT-ISTA-19745
has_accepted_license: '1'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: '133'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: 265E2996-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: W01250-B20
name: Nano-Analytics of Cellular Systems
publication_identifier:
isbn:
- 978-3-99078-058-9
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '14274'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
title: Adaptive strategies of dendritic cell migration in response to environmental
cues
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2025'
...
---
OA_place: publisher
_id: '19271'
abstract:
- lang: eng
text: "The medial habenula (MHb) is implicated in regulating emotional responses\r\nto
aversive events. Studies in zebrafish have identified a remarkable morphological\r\nleft-right
asymmetry in the dorsal habenula (zebrafish equivalent of mammalian\r\nMHb)-to-interpeduncular
nucleus (IPN) pathway and its left-side specific role in\r\nmodulating fear responses.
However, there is little evidence for structural or\r\nfunctional lateralization
in the mammalian MHb-IPN pathway.\r\nHere, I investigated the synaptic properties
of the left and right MHb\r\nafferents to the IPN in mice and addressed whether
these synaptic connections\r\nselectively influence the expression of conditioned
fear in mice. My findings reveal\r\nthat each individual IPN neuron receives inputs
from both left and right MHb.\r\nElectrophysiological recordings from the same
postsynaptic IPN neurons\r\ndemonstrate that the left MHb-originating synapses
exhibit lower release\r\nprobability and higher \U0001D6FE-aminobutyric acid type
B receptor (GABABR)-mediated\r\npotentiation compared to the right MHb-originating
synapses. Interestingly,\r\nchemogenetic inhibition of cholinergic neurons in
the left but not the right MHb\r\nsignificantly attenuated cue-dependent fear
recall. Furthermore, conditional\r\ndeletion of GABABR in the left MHb interfered
with the recall of cued fear memory,\r\nwhereas that in the right MHb neurons
spared fear memory expression.\r\nCollectively, I demonstrate a functional asymmetry
of the MHb in mice,\r\nrevealing a predominant role for GABABR-mediated signaling
in the left MHb-IPN\r\npathway in the modulation of fear memories. These findings
suggest that\r\nlateralized pathways could represent a fundamental principle in
the neural\r\nregulation of emotion across species."
acknowledged_ssus:
- _id: PreCl
- _id: M-Shop
acknowledgement: "I would like to thank the European Research Council and European
Commission, under the European Union’s Horizon 2020 research and innovation program
(ERC grant agreement no. 694539 to Ryuichi Shigemoto and the Marie Skłodowska-Curie
grant agreement no. 665385 to Cihan Önal), and the Austrian Neuroscience Association
for providing financial support and opportunities, which were important in allowing
me to present my work. I also wish to thank the\r\nPreclinical Facility, especially
Michael Schunn, for always welcoming me from my earliest days as an intern. My gratitude
goes as well to the Miba Machine Shop, in particular Todor Asenov, Astrit Arslani,
and Thomas Menner, whose technical expertise often saved the day."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Hüseyin C
full_name: Önal, Hüseyin C
id: 4659D740-F248-11E8-B48F-1D18A9856A87
last_name: Önal
orcid: 0000-0002-2771-2011
citation:
ama: Önal C. Asymmetrical modulation of fear expression via GABAB receptors in the
mouse medial habenula. 2025. doi:10.15479/AT-ISTA-19271
apa: Önal, C. (2025). Asymmetrical modulation of fear expression via GABAB receptors
in the mouse medial habenula. Institute of Science and Technology Austria.
https://doi.org/10.15479/AT-ISTA-19271
chicago: Önal, Cihan. “Asymmetrical Modulation of Fear Expression via GABAB Receptors
in the Mouse Medial Habenula.” Institute of Science and Technology Austria, 2025.
https://doi.org/10.15479/AT-ISTA-19271.
ieee: C. Önal, “Asymmetrical modulation of fear expression via GABAB receptors in
the mouse medial habenula,” Institute of Science and Technology Austria, 2025.
ista: Önal C. 2025. Asymmetrical modulation of fear expression via GABAB receptors
in the mouse medial habenula. Institute of Science and Technology Austria.
mla: Önal, Cihan. Asymmetrical Modulation of Fear Expression via GABAB Receptors
in the Mouse Medial Habenula. Institute of Science and Technology Austria,
2025, doi:10.15479/AT-ISTA-19271.
short: C. Önal, Asymmetrical Modulation of Fear Expression via GABAB Receptors in
the Mouse Medial Habenula, Institute of Science and Technology Austria, 2025.
corr_author: '1'
date_created: 2025-02-28T14:15:53Z
date_published: 2025-03-04T00:00:00Z
date_updated: 2026-04-07T12:40:42Z
day: '04'
ddc:
- '570'
- '571'
- '573'
- '599'
degree_awarded: PhD
department:
- _id: GradSch
- _id: RySh
doi: 10.15479/AT-ISTA-19271
ec_funded: 1
file:
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file_size: 12077596
relation: main_file
file_date_updated: 2026-02-01T23:30:02Z
fulldoi: https://doi.org/10.15479/AT-ISTA-19271
has_accepted_license: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
project:
- _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'
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication_identifier:
eissn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '9437'
relation: part_of_dissertation
status: public
- id: '15084'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
title: Asymmetrical modulation of fear expression via GABAB receptors in the mouse
medial habenula
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: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2025'
...
---
OA_place: publisher
_id: '19431'
abstract:
- lang: eng
text: "Gene expression is crucial for cell differentiation, development and survival
of\r\norganisms. It consists of several steps, starting with transcription that
is mediated by\r\nRNA polymerases. These are protein machineries transcribing
and producing different\r\ntypes of RNAs. Although, the individual steps of transcription
by RNA polymerase II\r\n(Pol II) as well as the structure of Pol II has been extensively
studied, surprisingly,\r\nthere is still little known about its regulation and
assembly in cytoplasm. Among the\r\nproteins that are important in biogenesis
of Pol II are RNA polymerase II associating\r\nproteins (RPAP) and small GPN-loop
GTPases (GPN). Both of these protein groups\r\nwere shown to take essential part
in assembly of Pol II.\r\nThe aim of this project was to deepen our knowledge
in regulation of Pol II in\r\nthe cytoplasm as well as the proteins involved in
this process. Techniques of structural\r\nbiology, biochemistry and cell biology
were employed to study and characterize cytoplasmic Pol II and its interacting
partners.\r\nThis study shows for the first time the structure of cytoplasmic
Pol II at high\r\nresolution. The structure also reveals proteins interacting
with Pol II in cytoplasm,\r\nnamely GDOWN1, RPAP2. Comparing the structure of
cytoplasmic Pol II with transcribing Pol II revealed striking difference in clamp
region that is not in closed state.\r\nFurthermore, GDOWN1 and RPAP2 make steric
clashes with various transcription\r\nfactors bound to Pol II during different
stages of transcription. Even though GPN1 and\r\nGPN3 proteins were not resolved
in the cytoplasmic Pol II structure, they are part of\r\nthe complex and their
interaction with Pol II was confirmed in vitro. RPAP2 stabilizes\r\nthese proteins
on Pol II and several experiments suggest that they interact with the\r\nclamp
region. In addition, GDOWN1, RPAP2 and GPNs might keep clamp in open or\r\npartially
open state. Based on these results I propose a novel model of regulation of\r\nPol
II in cytoplasm. GDOWN1, RPAP2, GPN1 and GPN3 bind to Pol II in cytoplasm\r\nand
doing so they can prevent pre-mature binding of DNA or RNA and different transcription
factors to Pol II in cytoplasm or before engaging in transcription nucleus.\r\nThis
research contributes to the current knowledge of molecular mechanisms\r\nof Pol
II regulation in cytoplasm."
acknowledged_ssus:
- _id: LifeSc
- _id: EM-Fac
- _id: ScienComp
acknowledgement: 'I would also like to acknowledge the ISTA Facilities: Lab Support
Facility, Protein Services and Electron Microscopy Facility (EMF) and Scientific
Computing. EMF for their support during data collections and troubleshooting, especially
Valentin. Scientific Computing for solving quickly any issues related with cluster.'
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Annamaria
full_name: Hlavata, Annamaria
id: 36062FEC-F248-11E8-B48F-1D18A9856A87
last_name: Hlavata
citation:
ama: Hlavata A. Regulation of Cytoplasmic RNA Polymerase II. 2025. doi:10.15479/10.15479/AT-ISTA-19431
apa: Hlavata, A. (2025). Regulation of Cytoplasmic RNA Polymerase II. Institute
of Science and Technology Austria. https://doi.org/10.15479/10.15479/AT-ISTA-19431
chicago: Hlavata, Annamaria. “Regulation of Cytoplasmic RNA Polymerase II.” Institute
of Science and Technology Austria, 2025. https://doi.org/10.15479/10.15479/AT-ISTA-19431.
ieee: A. Hlavata, “Regulation of Cytoplasmic RNA Polymerase II,” Institute of Science
and Technology Austria, 2025.
ista: Hlavata A. 2025. Regulation of Cytoplasmic RNA Polymerase II. Institute of
Science and Technology Austria.
mla: Hlavata, Annamaria. Regulation of Cytoplasmic RNA Polymerase II. Institute
of Science and Technology Austria, 2025, doi:10.15479/10.15479/AT-ISTA-19431.
short: A. Hlavata, Regulation of Cytoplasmic RNA Polymerase II, Institute of Science
and Technology Austria, 2025.
corr_author: '1'
date_created: 2025-03-20T12:52:47Z
date_published: 2025-03-20T00:00:00Z
date_updated: 2026-04-07T11:46:32Z
day: '20'
ddc:
- '572'
degree_awarded: PhD
department:
- _id: GradSch
- _id: CaBe
doi: 10.15479/10.15479/AT-ISTA-19431
file:
- access_level: closed
checksum: b7ddf424ffe95f8c767c53c8bb62d4f3
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: ahlavata
date_created: 2025-03-24T12:48:36Z
date_updated: 2026-03-20T23:30:04Z
embargo_to: open_access
file_id: '19448'
file_name: PhD_Thesis_Hlavata_final_submission.docx
file_size: 23506747
relation: source_file
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checksum: 6c5a59c9bac467c3d0b3ffb8ea6d9fd4
content_type: application/pdf
creator: ahlavata
date_created: 2025-03-24T12:51:10Z
date_updated: 2026-03-20T23:30:04Z
embargo: 2026-03-20
file_id: '19449'
file_name: PhD_Thesis_Hlavata_final_submission_update.pdf
file_size: 9478591
relation: main_file
file_date_updated: 2026-03-20T23:30:04Z
fulldoi: https://doi.org/10.15479/10.15479/AT-ISTA-19431
has_accepted_license: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: '83'
publication_identifier:
eissn:
- 2663-337X
isbn:
- 978-3-99078-055-8
publication_status: published
publisher: Institute of Science and Technology Austria
status: public
supervisor:
- first_name: Carrie A
full_name: Bernecky, Carrie A
id: 2CB9DFE2-F248-11E8-B48F-1D18A9856A87
last_name: Bernecky
orcid: 0000-0003-0893-7036
title: Regulation of Cytoplasmic RNA Polymerase II
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2025'
...
---
OA_type: closed access
_id: '19302'
abstract:
- lang: eng
text: "Social interaction networks of insect colonies facilitate efficient information
exchange and\r\ndemonstrate adaptive changes to mitigate disease transmission.
While circadian rhythms\r\ninfluence individual behaviour, their role in shaping
colony-level defences against pathogens\r\nremains unexplored. Here, we investigate
whether social networks of the black garden ant,\r\nLasius niger, exhibit circadian
rhythms and how these rhythms influence disease vulnerability\r\nwhen colonies
are exposed to a pathogen during the day or the night.\r\nWe first establish baseline
daily variations in activity and network dynamics in pathogen-free\r\ncolonies,
revealing constitutive daily fluctuations in disease susceptibility. Subsequently,
we\r\nexamine pathogen-induced changes in sanitary care and network dynamics by
exposing\r\nforagers to a natural pathogen (Metarhizium brunneum) during either
the day or the night.\r\nIndividual pathogen loads were measured after a nine-hour
post-exposure period to evaluate\r\ntransmission outcomes.\r\nOur results demonstrate
that diurnal ant colonies maintain robust circadian patterns in network\r\nproperties
while flexibly adapting to pathogen exposure. Ants upregulate sanitary care\r\nirrespective
of exposure timing, prioritising the protection of the valuable colony centre\r\nconsisting
of nurses and the queen. These findings underscore the robustness and adaptability\r\nof
ant colonies in balancing circadian rhythms with effective social immune responses."
acknowledged_ssus:
- _id: LifeSc
acknowledgement: Thank you to the Lab Support Facility at ISTA. Thank you to the European
Research Council (ERC) for their funding under the European Union’s Horizon 2020
research and innovation program (ERC Consolidator Grant EPIDEMICSonCHIP, No. 771402,
to Sylvia Cremer, and ERC Starting Grant DISEASE, No. 802628, to Nathalie Stroeymeyt).
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Linda
full_name: Sartoris, Linda
id: 2B9284CA-F248-11E8-B48F-1D18A9856A87
last_name: Sartoris
citation:
ama: Sartoris L. The effect of circadian rhythm on organisational immunity of ant
colonies. 2025. doi:10.15479/AT-ISTA-19302
apa: Sartoris, L. (2025). The effect of circadian rhythm on organisational immunity
of ant colonies. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-19302
chicago: Sartoris, Linda. “The Effect of Circadian Rhythm on Organisational Immunity
of Ant Colonies.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-19302.
ieee: L. Sartoris, “The effect of circadian rhythm on organisational immunity of
ant colonies,” Institute of Science and Technology Austria, 2025.
ista: Sartoris L. 2025. The effect of circadian rhythm on organisational immunity
of ant colonies. Institute of Science and Technology Austria.
mla: Sartoris, Linda. The Effect of Circadian Rhythm on Organisational Immunity
of Ant Colonies. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-19302.
short: L. Sartoris, The Effect of Circadian Rhythm on Organisational Immunity of
Ant Colonies, Institute of Science and Technology Austria, 2025.
corr_author: '1'
date_created: 2025-03-06T12:16:54Z
date_published: 2025-02-24T00:00:00Z
date_updated: 2026-03-02T23:31:14Z
day: '24'
ddc:
- '577'
degree_awarded: PhD
department:
- _id: GradSch
- _id: SyCr
doi: 10.15479/AT-ISTA-19302
ec_funded: 1
file:
- access_level: closed
checksum: 7e9466dcf3681454211b74b5107e9f7b
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: lsartori
date_created: 2025-03-07T10:16:11Z
date_updated: 2026-02-23T23:30:03Z
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file_name: Thesis_Linda_Sartoris.docx
file_size: 7129583
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checksum: 2ccfcf32f0590bb0ec1a488e606a73f5
content_type: application/pdf
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date_created: 2025-03-11T10:42:20Z
date_updated: 2026-03-02T23:31:13Z
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creator: lsartori
date_created: 2025-03-11T10:52:00Z
date_updated: 2026-02-23T23:30:03Z
embargo: 2026-02-23
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relation: main_file
file_date_updated: 2026-03-02T23:31:13Z
fulldoi: https://doi.org/10.15479/AT-ISTA-19302
has_accepted_license: '1'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: '85'
project:
- _id: 2649B4DE-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '771402'
name: Epidemics in ant societies on a chip
publication_identifier:
eissn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
status: public
supervisor:
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
title: The effect of circadian rhythm on organisational immunity of ant colonies
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: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2025'
...