---
OA_place: publisher
OA_type: diamond
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_id: '20734'
abstract:
- lang: eng
text: We consider the problem of parameter estimation in a high-dimensional generalized
linear model. Spectral methods obtained via the principal eigenvector of a suitable
data-dependent matrix provide a simple yet surprisingly effective solution. However,
despite their wide use, a rigorous performance characterization, as well as a
principled way to preprocess the data, are available only for unstructured (i.i.d.
Gaussian and Haar orthogonal) designs. In contrast, real-world data matrices are
highly structured and exhibit non-trivial correlations. To address the problem,
we consider correlated Gaussian designs capturing the anisotropic nature of the
features via a covariance matrix Σ. Our main result is a precise asymptotic characterization
of the performance of spectral estimators. This allows us to identify the optimal
preprocessing that minimizes the number of samples needed for parameter estimation.
Surprisingly, such preprocessing is universal across a broad set of designs, which
partly addresses a conjecture on optimal spectral estimators for rotationally
invariant models. Our principled approach vastly improves upon previous heuristic
methods, including for designs common in computational imaging and genetics. The
proposed methodology, based on approximate message passing, is broadly applicable
and opens the way to the precise characterization of spiked matrices and of the
corresponding spectral methods in a variety of settings.
acknowledgement: "This work was done when Y. Z. and H. C. J. were at the Institute
of Science and Technology Austria. Y. Z. thanks Hugo Latourelle-Vigeant for bringing
[53] to the authors’ attention.\r\nY. Z. and M. M. are partially supported by the
2019 Lopez-Loreta Prize and by the Interdisciplinary Projects Committee (IPC) at
ISTA. H. C. J. is supported by the ERC Advanced Grant “RMTBeyond” No. 101020331."
article_processing_charge: No
article_type: original
author:
- first_name: Yihan
full_name: Zhang, Yihan
id: 2ce5da42-b2ea-11eb-bba5-9f264e9d002c
last_name: Zhang
orcid: 0000-0002-6465-6258
- first_name: Hong Chang
full_name: Ji, Hong Chang
last_name: Ji
- first_name: Ramji
full_name: Venkataramanan, Ramji
last_name: Venkataramanan
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
citation:
ama: Zhang Y, Ji HC, Venkataramanan R, Mondelli M. Spectral estimators for structured
generalized linear models via approximate message passing. Mathematical Statistics
and Learning. 2025;8(3-4):193-304. doi:10.4171/MSL/52
apa: Zhang, Y., Ji, H. C., Venkataramanan, R., & Mondelli, M. (2025). Spectral
estimators for structured generalized linear models via approximate message passing.
Mathematical Statistics and Learning. EMS Press. https://doi.org/10.4171/MSL/52
chicago: Zhang, Yihan, Hong Chang Ji, Ramji Venkataramanan, and Marco Mondelli.
“Spectral Estimators for Structured Generalized Linear Models via Approximate
Message Passing.” Mathematical Statistics and Learning. EMS Press, 2025.
https://doi.org/10.4171/MSL/52.
ieee: Y. Zhang, H. C. Ji, R. Venkataramanan, and M. Mondelli, “Spectral estimators
for structured generalized linear models via approximate message passing,” Mathematical
Statistics and Learning, vol. 8, no. 3–4. EMS Press, pp. 193–304, 2025.
ista: Zhang Y, Ji HC, Venkataramanan R, Mondelli M. 2025. Spectral estimators for
structured generalized linear models via approximate message passing. Mathematical
Statistics and Learning. 8(3–4), 193–304.
mla: Zhang, Yihan, et al. “Spectral Estimators for Structured Generalized Linear
Models via Approximate Message Passing.” Mathematical Statistics and Learning,
vol. 8, no. 3–4, EMS Press, 2025, pp. 193–304, doi:10.4171/MSL/52.
short: Y. Zhang, H.C. Ji, R. Venkataramanan, M. Mondelli, Mathematical Statistics
and Learning 8 (2025) 193–304.
corr_author: '1'
date_created: 2025-12-07T23:02:02Z
date_published: 2025-09-02T00:00:00Z
date_updated: 2025-12-09T13:53:31Z
day: '02'
ddc:
- '000'
department:
- _id: MaMo
doi: 10.4171/MSL/52
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file_id: '20752'
file_name: 2025_MathStatLearning_Zhang.pdf
file_size: 1379626
relation: main_file
success: 1
file_date_updated: 2025-12-09T13:50:03Z
fulldoi: https://doi.org/10.4171/MSL/52
has_accepted_license: '1'
intvolume: ' 8'
issue: 3-4
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '09'
oa: 1
oa_version: Published Version
page: 193-304
project:
- _id: 059876FA-7A3F-11EA-A408-12923DDC885E
name: Prix Lopez-Loretta 2019 - Marco Mondelli
publication: Mathematical Statistics and Learning
publication_identifier:
eissn:
- 2520-2324
issn:
- 2520-2316
publication_status: published
publisher: EMS Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Spectral estimators for structured generalized linear models via approximate
message passing
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: 8
year: '2025'
...
---
OA_place: publisher
_id: '20737'
acknowledged_ssus:
- _id: Bio
- _id: PreCl
acknowledgement: "I also want to thank ISTA and the Austrian Science Fund FWF SFB
F78 (F7805) for financially\r\nsupporting my research."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
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full_name: Casado Polanco, Raquel
id: 15240fc1-dbcd-11ea-9d1d-ac5a786425fd
last_name: Casado Polanco
orcid: 0000-0001-8293-4568
citation:
ama: Casado Polanco R. Role of NOTCH signaling in radial glial progenitor lineage
progression. 2025. doi:10.15479/AT-ISTA-20737
apa: Casado Polanco, R. (2025). Role of NOTCH signaling in radial glial progenitor
lineage progression. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20737
chicago: Casado Polanco, Raquel. “Role of NOTCH Signaling in Radial Glial Progenitor
Lineage Progression.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20737.
ieee: R. Casado Polanco, “Role of NOTCH signaling in radial glial progenitor lineage
progression,” Institute of Science and Technology Austria, 2025.
ista: Casado Polanco R. 2025. Role of NOTCH signaling in radial glial progenitor
lineage progression. Institute of Science and Technology Austria.
mla: Casado Polanco, Raquel. Role of NOTCH Signaling in Radial Glial Progenitor
Lineage Progression. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20737.
short: R. Casado Polanco, Role of NOTCH Signaling in Radial Glial Progenitor Lineage
Progression, Institute of Science and Technology Austria, 2025.
corr_author: '1'
date_created: 2025-12-09T09:04:18Z
date_published: 2025-12-09T00:00:00Z
date_updated: 2026-04-14T08:16:58Z
day: '09'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: GradSch
- _id: SiHi
doi: 10.15479/AT-ISTA-20737
file:
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content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: rcasadop
date_created: 2025-12-11T09:28:09Z
date_updated: 2025-12-11T11:18:37Z
file_id: '20793'
file_name: 2025_CasadoPolanco_Raquel_Thesis.docx
file_size: 78207207
relation: source_file
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content_type: application/pdf
creator: rcasadop
date_created: 2025-12-11T09:28:04Z
date_updated: 2025-12-11T09:28:04Z
embargo: 2026-12-01
embargo_to: open_access
file_id: '20794'
file_name: 2025_CasadoPolanco_Raquel_Thesis.pdf
file_size: 6261874
relation: main_file
file_date_updated: 2025-12-11T11:18:37Z
fulldoi: https://doi.org/10.15479/AT-ISTA-20737
has_accepted_license: '1'
keyword:
- NOTCH
- radial glial progenitor
- lineage progression
- cortical development
language:
- iso: eng
month: '12'
oa_version: Published Version
page: '133'
project:
- _id: 059F6AB4-7A3F-11EA-A408-12923DDC885E
grant_number: F7805
name: Stem Cell Modulation in Neural Development and Regeneration/ P05-Molecular
Mechanisms of Neural Stem Cell Lineage Progression
publication_identifier:
isbn:
- 978-3-99078-072-5
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
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: Role of NOTCH signaling in radial glial progenitor lineage progression
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2025'
...
---
OA_place: repository
OA_type: green
_id: '20749'
abstract:
- lang: eng
text: Datasets and code for publication "Electrostatics overcome acoustic collapse
to assemble, adapt, and activate levitated matter"
article_processing_charge: No
author:
- first_name: Sue
full_name: Shi, Sue
id: 5c5b9247-15b2-11ec-abd3-fd958715639c
last_name: Shi
citation:
ama: Shi S. Datasets and code for manuscript “Electrostatics overcome acoustic collapse
to assemble, adapt, and activate levitated matter.” 2025. doi:10.5281/ZENODO.15752991
apa: Shi, S. (2025). Datasets and code for manuscript “Electrostatics overcome acoustic
collapse to assemble, adapt, and activate levitated matter.” Zenodo. https://doi.org/10.5281/ZENODO.15752991
chicago: Shi, Sue. “Datasets and Code for Manuscript ‘Electrostatics Overcome Acoustic
Collapse to Assemble, Adapt, and Activate Levitated Matter.’” Zenodo, 2025. https://doi.org/10.5281/ZENODO.15752991.
ieee: S. Shi, “Datasets and code for manuscript ‘Electrostatics overcome acoustic
collapse to assemble, adapt, and activate levitated matter.’” Zenodo, 2025.
ista: Shi S. 2025. Datasets and code for manuscript ‘Electrostatics overcome acoustic
collapse to assemble, adapt, and activate levitated matter’, Zenodo, 10.5281/ZENODO.15752991.
mla: Shi, Sue. Datasets and Code for Manuscript “Electrostatics Overcome Acoustic
Collapse to Assemble, Adapt, and Activate Levitated Matter.” Zenodo, 2025,
doi:10.5281/ZENODO.15752991.
short: S. Shi, (2025).
contributor:
- first_name: Maximilian
id: 5eb8629e-15b2-11ec-abd3-e6f3e5e01f32
last_name: Hübl
- first_name: Galien M
id: 0C5FDA4A-9CF6-11E9-8939-FF05E6697425
last_name: Grosjean
orcid: 0000-0001-5154-417X
corr_author: '1'
date_created: 2025-12-09T13:36:16Z
date_published: 2025-11-10T00:00:00Z
date_updated: 2026-05-20T08:41:14Z
day: '10'
ddc:
- '530'
department:
- _id: ScWa
- _id: CaGo
doi: 10.5281/ZENODO.15752991
fulldoi: https://doi.org/10.5281/ZENODO.15752991
has_accepted_license: '1'
main_file_link:
- open_access: '1'
url: https://doi.org/10.5281/ZENODO.15752991
month: '11'
oa: 1
oa_version: Published Version
publisher: Zenodo
related_material:
record:
- id: '20727'
relation: used_in_publication
status: public
status: public
title: Datasets and code for manuscript "Electrostatics overcome acoustic collapse
to assemble, adapt, and activate levitated matter"
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2025'
...
---
OA_place: repository
OA_type: green
_id: '20750'
article_processing_charge: No
author:
- first_name: Barnaby
full_name: Van Straaten, Barnaby
last_name: Van Straaten
- first_name: Federico
full_name: Fedele, Federico
last_name: Fedele
- first_name: Florian
full_name: Vigneau, Florian
last_name: Vigneau
- first_name: Joseph
full_name: Hickie, Joseph
last_name: Hickie
- first_name: Daniel
full_name: Jirovec, Daniel
id: 4C473F58-F248-11E8-B48F-1D18A9856A87
last_name: Jirovec
orcid: 0000-0002-7197-4801
- first_name: Daniel
full_name: Chrastina, Daniel
last_name: Chrastina
- first_name: Giovanni
full_name: Isella, Giovanni
last_name: Isella
- first_name: Natalia
full_name: Ares, Natalia
last_name: Ares
citation:
ama: Van Straaten B, Fedele F, Vigneau F, et al. All rf-based tuning algorithm for
quantum devices using machine learning. 2025. doi:10.5281/ZENODO.17352653
apa: Van Straaten, B., Fedele, F., Vigneau, F., Hickie, J., Jirovec, D., Chrastina,
D., … Ares, N. (2025). All rf-based tuning algorithm for quantum devices using
machine learning. Zenodo. https://doi.org/10.5281/ZENODO.17352653
chicago: Van Straaten, Barnaby, Federico Fedele, Florian Vigneau, Joseph Hickie,
Daniel Jirovec, Daniel Chrastina, Giovanni Isella, and Natalia Ares. “All Rf-Based
Tuning Algorithm for Quantum Devices Using Machine Learning.” Zenodo, 2025. https://doi.org/10.5281/ZENODO.17352653.
ieee: B. Van Straaten et al., “All rf-based tuning algorithm for quantum
devices using machine learning.” Zenodo, 2025.
ista: Van Straaten B, Fedele F, Vigneau F, Hickie J, Jirovec D, Chrastina D, Isella
G, Ares N. 2025. All rf-based tuning algorithm for quantum devices using machine
learning, Zenodo, 10.5281/ZENODO.17352653.
mla: Van Straaten, Barnaby, et al. All Rf-Based Tuning Algorithm for Quantum
Devices Using Machine Learning. Zenodo, 2025, doi:10.5281/ZENODO.17352653.
short: B. Van Straaten, F. Fedele, F. Vigneau, J. Hickie, D. Jirovec, D. Chrastina,
G. Isella, N. Ares, (2025).
date_created: 2025-12-09T13:36:29Z
date_published: 2025-10-14T00:00:00Z
date_updated: 2025-12-09T14:49:36Z
day: '14'
ddc:
- '530'
department:
- _id: GeKa
doi: 10.5281/ZENODO.17352653
fulldoi: https://doi.org/10.5281/ZENODO.17352653
has_accepted_license: '1'
main_file_link:
- open_access: '1'
url: https://doi.org/10.5281/zenodo.17352653
month: '10'
oa: 1
oa_version: Published Version
publisher: Zenodo
related_material:
record:
- id: '20730'
relation: used_in_publication
status: public
status: public
title: All rf-based tuning algorithm for quantum devices using machine learning
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
_id: '20755'
abstract:
- lang: eng
text: We report the development of a continuous flow approach to nitrogen atom insertion.
The setup is modular, enabling the rapid optimization of reaction conditions for
a wide range of substrates. The milder reaction conditions led to an improved
substrate scope and functional group tolerance compared to batch conditions. The
reactions can also be safely scaled up to preparative scale.
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Sooyeon
full_name: Moon, Sooyeon
last_name: Moon
- first_name: Julia
full_name: Reisenbauer, Julia
id: 51d862e9-36ee-11f0-86d3-8534c85a5496
last_name: Reisenbauer
- first_name: Ann-Sophie K.
full_name: Paschke, Ann-Sophie K.
last_name: Paschke
- first_name: Alessandro
full_name: Scotto, Alessandro
last_name: Scotto
- first_name: Luca
full_name: Terraneo, Luca
last_name: Terraneo
- first_name: Niklas
full_name: Brenner, Niklas
last_name: Brenner
- first_name: Quentin
full_name: Lefebvre, Quentin
last_name: Lefebvre
- first_name: Thomas C.
full_name: Fessard, Thomas C.
last_name: Fessard
- first_name: Bill
full_name: Morandi, Bill
last_name: Morandi
citation:
ama: Moon S, Reisenbauer J, Paschke A-SK, et al. Efficient optimization and synthesis
of diverse azaarenes via nitrogen atom insertion under continuous flow conditions.
Chemical Communications. 2025;61(87):16993-16996. doi:10.1039/d5cc03194j
apa: Moon, S., Reisenbauer, J., Paschke, A.-S. K., Scotto, A., Terraneo, L., Brenner,
N., … Morandi, B. (2025). Efficient optimization and synthesis of diverse azaarenes
via nitrogen atom insertion under continuous flow conditions. Chemical Communications.
Royal Society of Chemistry. https://doi.org/10.1039/d5cc03194j
chicago: Moon, Sooyeon, Julia Reisenbauer, Ann-Sophie K. Paschke, Alessandro Scotto,
Luca Terraneo, Niklas Brenner, Quentin Lefebvre, Thomas C. Fessard, and Bill Morandi.
“Efficient Optimization and Synthesis of Diverse Azaarenes via Nitrogen Atom Insertion
under Continuous Flow Conditions.” Chemical Communications. Royal Society
of Chemistry, 2025. https://doi.org/10.1039/d5cc03194j.
ieee: S. Moon et al., “Efficient optimization and synthesis of diverse azaarenes
via nitrogen atom insertion under continuous flow conditions,” Chemical Communications,
vol. 61, no. 87. Royal Society of Chemistry, pp. 16993–16996, 2025.
ista: Moon S, Reisenbauer J, Paschke A-SK, Scotto A, Terraneo L, Brenner N, Lefebvre
Q, Fessard TC, Morandi B. 2025. Efficient optimization and synthesis of diverse
azaarenes via nitrogen atom insertion under continuous flow conditions. Chemical
Communications. 61(87), 16993–16996.
mla: Moon, Sooyeon, et al. “Efficient Optimization and Synthesis of Diverse Azaarenes
via Nitrogen Atom Insertion under Continuous Flow Conditions.” Chemical Communications,
vol. 61, no. 87, Royal Society of Chemistry, 2025, pp. 16993–96, doi:10.1039/d5cc03194j.
short: S. Moon, J. Reisenbauer, A.-S.K. Paschke, A. Scotto, L. Terraneo, N. Brenner,
Q. Lefebvre, T.C. Fessard, B. Morandi, Chemical Communications 61 (2025) 16993–16996.
date_created: 2025-12-09T14:22:09Z
date_published: 2025-10-06T00:00:00Z
date_updated: 2026-03-16T08:31:23Z
day: '06'
ddc:
- '540'
doi: 10.1039/d5cc03194j
extern: '1'
fulldoi: https://doi.org/10.1039/d5cc03194j
has_accepted_license: '1'
intvolume: ' 61'
issue: '87'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1039/D5CC03194J
month: '10'
oa: 1
oa_version: Published Version
page: 16993-16996
publication: Chemical Communications
publication_identifier:
eissn:
- 1364-548X
issn:
- 1359-7345
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: Efficient optimization and synthesis of diverse azaarenes via nitrogen atom
insertion under continuous flow conditions
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: 61
year: '2025'
...
---
OA_type: closed access
_id: '20767'
abstract:
- lang: eng
text: Chemistry education at the graduate level and beyond faces the formidable
challenge of a boundless and constantly expanding frontier of knowledge on many
fronts. While modern learners have an increasingly broad range of resources available
at their disposal (including open access text-based references, online videos,
training problems, and other digital learning materials), there are comparatively
fewer such materials aimed at the highest levels of study. With the goal of producing
widely accessible graduate-level learning content, we created a community-based
approach to online course design that is easily digestible to meet the expectations
of modern learners. Herein, we report the development of an open access Advanced
Organic Chemistry video-based online course and several other specialized minicourses
using the Synthesis Workshop YouTube channel.
article_processing_charge: No
article_type: original
author:
- first_name: Matthew A.
full_name: Horwitz, Matthew A.
last_name: Horwitz
- first_name: Reem
full_name: Al-Ahmad, Reem
last_name: Al-Ahmad
- first_name: Xingfeng
full_name: Bai, Xingfeng
last_name: Bai
- first_name: Matteo
full_name: Balletti, Matteo
last_name: Balletti
- first_name: Peter
full_name: Bellotti, Peter
last_name: Bellotti
- first_name: Yael
full_name: Ben-Tal, Yael
last_name: Ben-Tal
- first_name: Mark W.
full_name: Campbell, Mark W.
last_name: Campbell
- first_name: Kathleen
full_name: Cheasty, Kathleen
last_name: Cheasty
- first_name: Steven W. M.
full_name: Crossley, Steven W. M.
last_name: Crossley
- first_name: Craig S.
full_name: Day, Craig S.
last_name: Day
- first_name: Patrick J.
full_name: Deneny, Patrick J.
last_name: Deneny
- first_name: Katherine C.
full_name: Forbes, Katherine C.
last_name: Forbes
- first_name: Emma S.
full_name: Gogarnoiu, Emma S.
last_name: Gogarnoiu
- first_name: Phillip S.
full_name: Grant, Phillip S.
last_name: Grant
- first_name: Riya
full_name: Halder, Riya
last_name: Halder
- first_name: Georgia R.
full_name: Harris, Georgia R.
last_name: Harris
- first_name: Pol
full_name: Hernández-Lladó, Pol
last_name: Hernández-Lladó
- first_name: Morgan
full_name: Jouanneau, Morgan
last_name: Jouanneau
- first_name: Vera
full_name: Jost, Vera
last_name: Jost
- first_name: Dennis A.
full_name: Kutateladze, Dennis A.
last_name: Kutateladze
- first_name: Gabriele
full_name: Laudadio, Gabriele
last_name: Laudadio
- first_name: Chun
full_name: Liu, Chun
last_name: Liu
- first_name: Aidan P.
full_name: Looby, Aidan P.
last_name: Looby
- first_name: Aitor
full_name: Maestro, Aitor
last_name: Maestro
- first_name: Terry
full_name: McCallum, Terry
last_name: McCallum
- first_name: Maximilian D.
full_name: Palkowitz, Maximilian D.
last_name: Palkowitz
- first_name: Joshua M.
full_name: Paolillo, Joshua M.
last_name: Paolillo
- first_name: Matthew W. D.
full_name: Perry, Matthew W. D.
last_name: Perry
- first_name: Julia
full_name: Reisenbauer, Julia
id: 51d862e9-36ee-11f0-86d3-8534c85a5496
last_name: Reisenbauer
- first_name: Cesar
full_name: Reyes, Cesar
last_name: Reyes
- first_name: Hayden A.
full_name: Sharma, Hayden A.
last_name: Sharma
- first_name: Fu Kit
full_name: Sheong, Fu Kit
last_name: Sheong
- first_name: Benjamin
full_name: Thoma, Benjamin
last_name: Thoma
- first_name: Andrew V.
full_name: Tran, Andrew V.
last_name: Tran
- first_name: Duc N.
full_name: Tran, Duc N.
last_name: Tran
- first_name: Francisco José
full_name: Aguilar Troyano, Francisco José
last_name: Aguilar Troyano
- first_name: Thomas
full_name: Verheyen, Thomas
last_name: Verheyen
- first_name: Mark P.
full_name: Walsh, Mark P.
last_name: Walsh
- first_name: Alicia
full_name: Wagner, Alicia
last_name: Wagner
- first_name: Emily R.
full_name: Wearing, Emily R.
last_name: Wearing
- first_name: Georg
full_name: Wuitschik, Georg
last_name: Wuitschik
citation:
ama: 'Horwitz MA, Al-Ahmad R, Bai X, et al. Reimagining advanced chemistry education:
A community-based approach to course design for modern learners. Journal of
Chemical Education. 2025;102(9):3777-3783. doi:10.1021/acs.jchemed.5c00555'
apa: 'Horwitz, M. A., Al-Ahmad, R., Bai, X., Balletti, M., Bellotti, P., Ben-Tal,
Y., … Wuitschik, G. (2025). Reimagining advanced chemistry education: A community-based
approach to course design for modern learners. Journal of Chemical Education.
American Chemical Society. https://doi.org/10.1021/acs.jchemed.5c00555'
chicago: 'Horwitz, Matthew A., Reem Al-Ahmad, Xingfeng Bai, Matteo Balletti, Peter
Bellotti, Yael Ben-Tal, Mark W. Campbell, et al. “Reimagining Advanced Chemistry
Education: A Community-Based Approach to Course Design for Modern Learners.” Journal
of Chemical Education. American Chemical Society, 2025. https://doi.org/10.1021/acs.jchemed.5c00555.'
ieee: 'M. A. Horwitz et al., “Reimagining advanced chemistry education: A
community-based approach to course design for modern learners,” Journal of
Chemical Education, vol. 102, no. 9. American Chemical Society, pp. 3777–3783,
2025.'
ista: 'Horwitz MA, Al-Ahmad R, Bai X, Balletti M, Bellotti P, Ben-Tal Y, Campbell
MW, Cheasty K, Crossley SWM, Day CS, Deneny PJ, Forbes KC, Gogarnoiu ES, Grant
PS, Halder R, Harris GR, Hernández-Lladó P, Jouanneau M, Jost V, Kutateladze DA,
Laudadio G, Liu C, Looby AP, Maestro A, McCallum T, Palkowitz MD, Paolillo JM,
Perry MWD, Reisenbauer J, Reyes C, Sharma HA, Sheong FK, Thoma B, Tran AV, Tran
DN, Aguilar Troyano FJ, Verheyen T, Walsh MP, Wagner A, Wearing ER, Wuitschik
G. 2025. Reimagining advanced chemistry education: A community-based approach
to course design for modern learners. Journal of Chemical Education. 102(9), 3777–3783.'
mla: 'Horwitz, Matthew A., et al. “Reimagining Advanced Chemistry Education: A Community-Based
Approach to Course Design for Modern Learners.” Journal of Chemical Education,
vol. 102, no. 9, American Chemical Society, 2025, pp. 3777–83, doi:10.1021/acs.jchemed.5c00555.'
short: M.A. Horwitz, R. Al-Ahmad, X. Bai, M. Balletti, P. Bellotti, Y. Ben-Tal,
M.W. Campbell, K. Cheasty, S.W.M. Crossley, C.S. Day, P.J. Deneny, K.C. Forbes,
E.S. Gogarnoiu, P.S. Grant, R. Halder, G.R. Harris, P. Hernández-Lladó, M. Jouanneau,
V. Jost, D.A. Kutateladze, G. Laudadio, C. Liu, A.P. Looby, A. Maestro, T. McCallum,
M.D. Palkowitz, J.M. Paolillo, M.W.D. Perry, J. Reisenbauer, C. Reyes, H.A. Sharma,
F.K. Sheong, B. Thoma, A.V. Tran, D.N. Tran, F.J. Aguilar Troyano, T. Verheyen,
M.P. Walsh, A. Wagner, E.R. Wearing, G. Wuitschik, Journal of Chemical Education
102 (2025) 3777–3783.
date_created: 2025-12-09T14:27:11Z
date_published: 2025-08-15T00:00:00Z
date_updated: 2025-12-16T12:13:49Z
day: '15'
doi: 10.1021/acs.jchemed.5c00555
extern: '1'
fulldoi: https://doi.org/10.1021/acs.jchemed.5c00555
intvolume: ' 102'
issue: '9'
language:
- iso: eng
month: '08'
oa_version: None
page: 3777-3783
publication: Journal of Chemical Education
publication_identifier:
eissn:
- 1938-1328
issn:
- 0021-9584
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Reimagining advanced chemistry education: A community-based approach to course
design for modern learners'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 102
year: '2025'
...
---
_id: '20780'
abstract:
- lang: eng
text: Sex-chromosome systems are highly variable across animals, but how they transition
from one to another is not well understood. Diptera have undergone multiple sex-chromosome
turnovers and expansions while maintaining their general chromosomal content,
which makes them an ideal clade to study such transitions. We analysed more than
100 dipteran whole-genome assemblies and identified 4 new lineages that underwent
sex-chromosome turnover (in addition to the 5 previously reported). We find the
majority of turnovers happened in the group Schizophora, which tend to have fewer
genes on the F element (the chromosome homologous to the ancestral insect X chromosome)
than lower dipterans, a factor previously hypothesized to facilitate turnover.
Most derived X chromosomes have higher GC content than autosomes, consistent with
a high prevalence of male-achiasmy in Diptera. In addition, an excess of gene
movement out of the X is detected for most of these new X chromosomes, and many
of these moved genes have high testis expression in Drosophila, suggesting that
out-of-X gene movement contributes to the long-term demasculinization of X chromosomes.
acknowledged_ssus:
- _id: ScienComp
article_processing_charge: No
author:
- first_name: Lorena Alexandra
full_name: Layana Franco, Lorena Alexandra
id: 02814589-eb8f-11eb-b029-a70074f3f18f
last_name: Layana Franco
orcid: 0000-0002-1253-6297
- first_name: Melissa A
full_name: Toups, Melissa A
id: 4E099E4E-F248-11E8-B48F-1D18A9856A87
last_name: Toups
orcid: 0000-0002-9752-7380
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Layana Franco LA, Toups MA, Vicoso B. Causes and consequences of sex-chromosome
turnovers in Diptera. 2025. doi:10.15479/AT-ISTA-20780
apa: Layana Franco, L. A., Toups, M. A., & Vicoso, B. (2025). Causes and consequences
of sex-chromosome turnovers in Diptera. Institute of Science and Technology Austria.
https://doi.org/10.15479/AT-ISTA-20780
chicago: Layana Franco, Lorena Alexandra, Melissa A Toups, and Beatriz Vicoso. “Causes
and Consequences of Sex-Chromosome Turnovers in Diptera.” Institute of Science
and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20780.
ieee: L. A. Layana Franco, M. A. Toups, and B. Vicoso, “Causes and consequences
of sex-chromosome turnovers in Diptera.” Institute of Science and Technology Austria,
2025.
ista: Layana Franco LA, Toups MA, Vicoso B. 2025. Causes and consequences of sex-chromosome
turnovers in Diptera, Institute of Science and Technology Austria, 10.15479/AT-ISTA-20780.
mla: Layana Franco, Lorena Alexandra, et al. Causes and Consequences of Sex-Chromosome
Turnovers in Diptera. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20780.
short: L.A. Layana Franco, M.A. Toups, B. Vicoso, (2025).
corr_author: '1'
date_created: 2025-12-10T23:40:14Z
date_published: 2025-12-01T00:00:00Z
date_updated: 2026-06-10T08:27:48Z
department:
- _id: BeVi
doi: 10.15479/AT-ISTA-20780
file:
- access_level: open_access
checksum: 251e7aab01917c2ad2fbccf465492ea1
content_type: application/zip
creator: llayanaf
date_created: 2025-12-11T10:47:15Z
date_updated: 2025-12-11T10:47:15Z
file_id: '20799'
file_name: Perl_scripts.zip
file_size: 4575
relation: main_file
success: 1
- access_level: open_access
checksum: daf1c03149dd170b14e5c8e109ee3c77
content_type: application/zip
creator: llayanaf
date_created: 2025-12-11T10:52:17Z
date_updated: 2025-12-11T10:52:17Z
file_id: '20800'
file_name: Supplementary_Datasets.zip
file_size: 19052849
relation: main_file
success: 1
- access_level: open_access
checksum: 658d6e95a361b0a3db058b7b4e1733d4
content_type: application/zip
creator: llayanaf
date_created: 2025-12-11T10:52:11Z
date_updated: 2025-12-11T10:52:11Z
file_id: '20801'
file_name: Supplementary_Tables.zip
file_size: 566476
relation: main_file
success: 1
- access_level: open_access
checksum: 2a2b92eb9fade0015719190596a8c5b7
content_type: text/plain
creator: llayanaf
date_created: 2025-12-11T11:00:53Z
date_updated: 2025-12-11T11:00:53Z
file_id: '20802'
file_name: README.txt
file_size: 1204
relation: main_file
success: 1
file_date_updated: 2025-12-11T11:00:53Z
fulldoi: https://doi.org/10.15479/AT-ISTA-20780
has_accepted_license: '1'
keyword:
- Schizophora
- sex chromosomes
- sex-chromosome turnover
- Diptera
- genomic features
- out-of-X movement.
month: '12'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Causes and consequences of sex-chromosome turnovers in Diptera
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: research_data
user_id: 68b8ca59-c5b3-11ee-8790-cd641c68093d
year: '2025'
...
---
APC_amount: 5651,35 EUR
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20795'
abstract:
- lang: eng
text: The tropical climate variability is characterized by various oscillations
across a range of timescales. Oscillations that imprint the tropical mean state
are generally attributed to slow processes, such as the seasonal cycle or interannual
variability. Here, we identify a pronounced tropics-wide intraseasonal oscillation
(TWISO) in satellite observations and reanalyses. This oscillation, with a period
of 30 to 60 d, is evident across multiple variables and involves interactions
between convection, radiation, surface fluxes, and large-scale circulation. It
is primarily manifested as convective perturbations in the tropical Indo-Pacific
warm pool accompanied by oscillations in the large-scale tropical overturning
circulation. Here, we examine the relationship between TWISO, the Madden–Julian
Oscillation (MJO), and the instability of radiative-convective equilibrium. Certain
phases of TWISO coincide with specific phases of the MJO, suggesting a potential
connection between the two. However, although the MJO can amplify the oscillation
amplitude of TWISO, it is not essential for TWISO to occur. Finally, due to its
broad manifestation across the tropics, TWISO potentially exerts widespread influence
on tropical weather and climate at regional scales.
acknowledgement: 'J.B. acknowledges funding from the European Union’s Horizon 2020
research and innovation programme under the Marie Skłodowska-Curie grant (grant
agreement No. 101034413). S.B. acknowledges funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation program (Project
Mesoscale organization of tropical convection, grant agreement No 101098063). D.T.
acknowledges funding from the Japan Society for the Promotion of Science (JSPS)
(Project JSPS Grants-in-Aid for Scientific Research, grant No. JP24K22893). C.M.
gratefully acknowledges funding from the ERC under the European Union’s Horizon
2020 research and innovation program (Project organisation of CLoUdS, and implications
for Tropical cyclones and for the Energetics of the tropics, in current and in a
waRming climate, grant agreement No. 805041). We thank Martin Singh, Steven Sherwood,
Bjorn Stevens, and Lokahith Agasthya for helpful discussions. JSPS Core-to-Core
Program, “International Core-to-Core Project on Global Storm Resolving Analysis”
(Grant Number: JPJSCCA20220001)'
article_number: e2511549122
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Jiawei
full_name: Bao, Jiawei
id: bb9a7399-fefd-11ed-be3c-ae648fd1d160
last_name: Bao
- first_name: Sandrine
full_name: Bony, Sandrine
last_name: Bony
- first_name: Daisuke
full_name: Takasuka, Daisuke
last_name: Takasuka
- first_name: Caroline J
full_name: Muller, Caroline J
id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b
last_name: Muller
orcid: 0000-0001-5836-5350
citation:
ama: Bao J, Bony S, Takasuka D, Muller CJ. Tropics-wide intraseasonal oscillations.
Proceedings of the National Academy of Sciences. 2025;122(48). doi:10.1073/pnas.2511549122
apa: Bao, J., Bony, S., Takasuka, D., & Muller, C. J. (2025). Tropics-wide intraseasonal
oscillations. Proceedings of the National Academy of Sciences. National
Academy of Sciences. https://doi.org/10.1073/pnas.2511549122
chicago: Bao, Jiawei, Sandrine Bony, Daisuke Takasuka, and Caroline J Muller. “Tropics-Wide
Intraseasonal Oscillations.” Proceedings of the National Academy of Sciences.
National Academy of Sciences, 2025. https://doi.org/10.1073/pnas.2511549122.
ieee: J. Bao, S. Bony, D. Takasuka, and C. J. Muller, “Tropics-wide intraseasonal
oscillations,” Proceedings of the National Academy of Sciences, vol. 122,
no. 48. National Academy of Sciences, 2025.
ista: Bao J, Bony S, Takasuka D, Muller CJ. 2025. Tropics-wide intraseasonal oscillations.
Proceedings of the National Academy of Sciences. 122(48), e2511549122.
mla: Bao, Jiawei, et al. “Tropics-Wide Intraseasonal Oscillations.” Proceedings
of the National Academy of Sciences, vol. 122, no. 48, e2511549122, National
Academy of Sciences, 2025, doi:10.1073/pnas.2511549122.
short: J. Bao, S. Bony, D. Takasuka, C.J. Muller, Proceedings of the National Academy
of Sciences 122 (2025).
corr_author: '1'
date_created: 2025-12-11T10:41:13Z
date_published: 2025-12-02T00:00:00Z
date_updated: 2026-05-20T08:11:56Z
day: '02'
ddc:
- '550'
department:
- _id: CaMu
doi: 10.1073/pnas.2511549122
ec_funded: 1
external_id:
pmid:
- '41284872'
file:
- access_level: open_access
checksum: 093a8685170e4a1de9176f68ee449493
content_type: application/pdf
creator: dernst
date_created: 2025-12-15T09:17:33Z
date_updated: 2025-12-15T09:17:33Z
file_id: '20822'
file_name: 2025_PNAS_Bao.pdf
file_size: 30890293
relation: main_file
success: 1
file_date_updated: 2025-12-15T09:17:33Z
fulldoi: https://doi.org/10.1073/pnas.2511549122
has_accepted_license: '1'
intvolume: ' 122'
issue: '48'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
- _id: 629205d8-2b32-11ec-9570-e1356ff73576
call_identifier: H2020
grant_number: '805041'
name: Organization of CLoUdS, and implications of Tropical cyclones and for the
Energetics of the tropics, in current and waRming climate
publication: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
related_material:
link:
- description: News on ISTA website
relation: press_release
url: https://ista.ac.at/en/news/hidden-in-plain-sight/
scopus_import: '1'
status: public
title: Tropics-wide intraseasonal oscillations
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: 122
year: '2025'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
PlanS_conform: '1'
_id: '20796'
abstract:
- lang: eng
text: Rapid prophase chromosome movements ensure faithful alignment of the parental
homologous chromosomes and successful synapsis formation during meiosis. These
movements are driven by cytoplasmic forces transmitted to the nuclear periphery,
where chromosome ends are attached through transmembrane proteins. During many
developmental stages a specific genome architecture with chromatin nuclear periphery
contacts mediates specific gene expression. Whether chromatin is removed from
the nuclear periphery as a consequence of chromosome motions or by a specific
mechanism is not fully understood. Here, we identify a mechanism to remove chromatin
from the nuclear periphery through vaccinia related kinase (VRK-1)–dependent phosphorylation
of Barrier to Autointegration Factor 1 (BAF-1) in Caenorhabditis elegans early
prophase of meiosis. Interfering with chromatin removal delays chromosome pairing,
impairs synapsis, produces oocytes with abnormal chromosomes and elevated apoptosis.
Long read sequencing reveals deletions and duplications in offspring lacking VRK-1
underscoring the importance of the BAF-1–VRK-1 module in preserving genome stability
in gametes during rapid chromosome movements.
acknowledgement: We are grateful to Monique Zetka, Nicola Silva, and Yumi Kim, Needhi
Bhalla, George Krohne and Rueyling Lin for providing reagents; Scott Kennedy for
sharing the multiplexed FISH library; and members of the Max Perutz Labs’ BioOptics
facility (Irmgard Fischer, Josef Gotzmann, Thomas Peterbauer, Clara Bodner, and
Nick Wedige) for training and support in image acquisition. We also thank the members
of the NGS facility at the Vienna Biocenter. This work was funded by the Austrian
Science Fund (FWF) SFB projects F 8805-B (VJ), https://doi.org/10.55776/F88, F 8809-B
(ITB), and F8810-B (BV). We are also grateful to members of the V. Jantsch laboratory
for helpful discussions. Some strains were provided by the Caenorhabditis Genetics
Center, which is funded by the National Institutes of Health Office of Research
Infrastructure Programs (P40OD010440).
article_number: '10446'
article_processing_charge: Yes
article_type: original
author:
- first_name: Dimitra
full_name: Paouneskou, Dimitra
last_name: Paouneskou
- first_name: Antoine
full_name: Baudrimont, Antoine
last_name: Baudrimont
- first_name: Réka K
full_name: Kelemen, Réka K
id: 48D3F8DE-F248-11E8-B48F-1D18A9856A87
last_name: Kelemen
orcid: 0000-0002-8489-9281
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
- first_name: Angela
full_name: Graf, Angela
last_name: Graf
- first_name: Shehab
full_name: Moukbel Ali Aldawla, Shehab
last_name: Moukbel Ali Aldawla
- first_name: Claudia
full_name: Kölbl, Claudia
last_name: Kölbl
- first_name: Irene
full_name: Tiemann-Boege, Irene
last_name: Tiemann-Boege
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Verena
full_name: Jantsch, Verena
last_name: Jantsch
citation:
ama: Paouneskou D, Baudrimont A, Kelemen RK, et al. BAF-1–VRK-1 mediated release
of meiotic chromosomes from the nuclear periphery is important for genome integrity.
Nature Communications. 2025;16. doi:10.1038/s41467-025-65420-9
apa: Paouneskou, D., Baudrimont, A., Kelemen, R. K., Elkrewi, M. N., Graf, A., Moukbel
Ali Aldawla, S., … Jantsch, V. (2025). BAF-1–VRK-1 mediated release of meiotic
chromosomes from the nuclear periphery is important for genome integrity. Nature
Communications. Springer Nature. https://doi.org/10.1038/s41467-025-65420-9
chicago: Paouneskou, Dimitra, Antoine Baudrimont, Réka K Kelemen, Marwan N Elkrewi,
Angela Graf, Shehab Moukbel Ali Aldawla, Claudia Kölbl, Irene Tiemann-Boege, Beatriz
Vicoso, and Verena Jantsch. “BAF-1–VRK-1 Mediated Release of Meiotic Chromosomes
from the Nuclear Periphery Is Important for Genome Integrity.” Nature Communications.
Springer Nature, 2025. https://doi.org/10.1038/s41467-025-65420-9.
ieee: D. Paouneskou et al., “BAF-1–VRK-1 mediated release of meiotic chromosomes
from the nuclear periphery is important for genome integrity,” Nature Communications,
vol. 16. Springer Nature, 2025.
ista: Paouneskou D, Baudrimont A, Kelemen RK, Elkrewi MN, Graf A, Moukbel Ali Aldawla
S, Kölbl C, Tiemann-Boege I, Vicoso B, Jantsch V. 2025. BAF-1–VRK-1 mediated release
of meiotic chromosomes from the nuclear periphery is important for genome integrity.
Nature Communications. 16, 10446.
mla: Paouneskou, Dimitra, et al. “BAF-1–VRK-1 Mediated Release of Meiotic Chromosomes
from the Nuclear Periphery Is Important for Genome Integrity.” Nature Communications,
vol. 16, 10446, Springer Nature, 2025, doi:10.1038/s41467-025-65420-9.
short: D. Paouneskou, A. Baudrimont, R.K. Kelemen, M.N. Elkrewi, A. Graf, S. Moukbel
Ali Aldawla, C. Kölbl, I. Tiemann-Boege, B. Vicoso, V. Jantsch, Nature Communications
16 (2025).
date_created: 2025-12-11T10:45:06Z
date_published: 2025-11-25T00:00:00Z
date_updated: 2025-12-15T09:28:37Z
day: '25'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1038/s41467-025-65420-9
external_id:
pmid:
- '41290579'
file:
- access_level: open_access
checksum: a952f7ea050242b79008540de49a0e61
content_type: application/pdf
creator: dernst
date_created: 2025-12-15T09:25:51Z
date_updated: 2025-12-15T09:25:51Z
file_id: '20823'
file_name: 2025_NatureComm_Paouneskou.pdf
file_size: 8096309
relation: main_file
success: 1
file_date_updated: 2025-12-15T09:25:51Z
fulldoi: https://doi.org/10.1038/s41467-025-65420-9
has_accepted_license: '1'
intvolume: ' 16'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 34ae1506-11ca-11ed-8bc3-c14f4c474396
grant_number: F8810
name: The highjacking of meiosis for asexual reproduction
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: BAF-1–VRK-1 mediated release of meiotic chromosomes from the nuclear periphery
is important for genome integrity
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: 16
year: '2025'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '20816'
abstract:
- lang: eng
text: "Background: DNA methylation (DNAm) can regulate gene expression, and its
genome-wide patterns (epigenetic scores or EpiScores) can act as biomarkers for
complex traits. The relative stability of methylation profiles may enable better
assessment of chronic exposures compared to single time-point protein measures.
We present the first large-scale epigenetic study of the highly-abundant serum
proteome measured via ultra-high throughput mass spectrometry in 14,671 samples
from the Generation Scotland cohort. We further demonstrate the first large-scale
comparison of protein EpiScores and their respective proteins as predictors of
incident cardiovascular disease.\r\n\r\nResults: Marginal epigenome-wide association
models, adjusting for age, sex, measurement batch, estimated white cell proportions,
BMI, smoking and methylation principal components, reveal 15,855 significant CpG
– protein associations across 125 of 133 proteins PBonferroni < 2.71 × 10-10.
Bayesian epigenome-wide association studies of the same 133 proteins reveal 697
CpG-Protein associations (posterior inclusion probability > 0.95). 112 protein
EpiScores correlate significantly with their respective protein in a holdout test-set.
Of these, sixteen associate significantly with incident all-cause cardiovascular
disease (Nevents=191) compared to one measured protein.\r\n\r\nConclusions: We
highlight a complex interplay between the blood-based methylome and proteome.
Importantly, we show that protein EpiScores correlate with measured proteins and
demonstrate that the, as-yet understudied, high-abundance proteome may yield clinically
relevant biomarkers. The protein EpiScores demonstrate more significant associations
with cardiovascular disease than directly measured proteins, suggesting their
potential as clinical biomarkers for monitoring or predicting disease risk. We
suggest that biomarker development could be enhanced by the consideration of protein
EpiScores alongside measured proteins."
acknowledgement: "Generation Scotland received core support from the Chief Scientist
Office of the Scottish Government Health Directorates [CZD/16/6] and the Scottish
Funding Council [HR03006] and is currently supported by the Wellcome Trust [216767/Z/19/Z].
Genotyping of the Generation Scotland samples was carried out by the Genetics Core
Laboratory at the Edinburgh Clinical Research Facility, University of Edinburgh,
Scotland and was funded by the Medical Research Council UK and the Wellcome Trust
(Wellcome Trust Strategic Award “STratifying Resilience and Depression Longitudinally”
(STRADL) Reference 104036/Z/14/Z). The DNA methylation profiling and analysis was
supported by Wellcome Investigator Award 220857/Z/20/Z and Grant 104036/Z/14/Z (PI:
Prof AM McIntosh) and through funding from NARSAD (Ref: 27404; awardee: Dr DM Howard)
and the Royal College of Physicians of Edinburgh (Sim Fellowship; Awardee: Prof
HC Whalley).\r\nJAR is a University of Edinburgh Clinical Academic Track PhD student,
supported by the Wellcome Trust (319878/Z/24/Z). ADC was supported by a Medical
Research Council PhD Studentship in Precision Medicine with funding from the Medical
Research Council Doctoral Training Program and the University of Edinburgh College
of Medicine and Veterinary Medicine. HMS is a student on the University of Edinburgh
Translational Neuroscience PhD programme funded by the Wellcome Trust (218493/Z/19/Z).
CH was funded by MRC Human Genetics Unit program (QTL in Health and Disease) (grant
U.MC_UU_00007/10). S.R.C. is supported by a Sir Henry Dale Fellowship jointly funded
by the Wellcome Trust and the Royal Society (221890/Z/20/Z). JM and REM were supported
by Alzheimer’s Society project grant AS-PG-19b-010."
article_number: '417'
article_processing_charge: Yes
article_type: original
author:
- first_name: Josephine A.
full_name: Robertson, Josephine A.
last_name: Robertson
- first_name: Jakub
full_name: Bajzik, Jakub
id: b995e25b-8c4b-11ed-a6d8-f71b7bcd6122
last_name: Bajzik
- first_name: Spyros
full_name: Vernardis, Spyros
last_name: Vernardis
- first_name: Aleksandra D.
full_name: Chybowska, Aleksandra D.
last_name: Chybowska
- first_name: Daniel L.
full_name: Mccartney, Daniel L.
last_name: Mccartney
- first_name: Arturas
full_name: Grauslys, Arturas
last_name: Grauslys
- first_name: Jure
full_name: Mur, Jure
last_name: Mur
- first_name: Hannah M.
full_name: Smith, Hannah M.
last_name: Smith
- first_name: Archie
full_name: Campbell, Archie
last_name: Campbell
- first_name: Camilla
full_name: Drake, Camilla
last_name: Drake
- first_name: Hannah
full_name: Grant, Hannah
last_name: Grant
- first_name: Jamie
full_name: Pearce, Jamie
last_name: Pearce
- first_name: Tom C.
full_name: Russ, Tom C.
last_name: Russ
- first_name: Poppy
full_name: Adkin, Poppy
last_name: Adkin
- first_name: Matthew
full_name: White, Matthew
last_name: White
- first_name: Charles
full_name: Brigden, Charles
last_name: Brigden
- first_name: Christoph B.
full_name: Messner, Christoph B.
last_name: Messner
- first_name: David J.
full_name: Porteous, David J.
last_name: Porteous
- first_name: Caroline
full_name: Hayward, Caroline
last_name: Hayward
- first_name: Simon R.
full_name: Cox, Simon R.
last_name: Cox
- first_name: Aleksej
full_name: Zelezniak, Aleksej
last_name: Zelezniak
- first_name: Markus
full_name: Ralser, Markus
last_name: Ralser
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Riccardo E.
full_name: Marioni, Riccardo E.
last_name: Marioni
citation:
ama: Robertson JA, Bajzik J, Vernardis S, et al. Methylome-wide association studies
and epigenetic biomarker development for 133 mass spectrometry-assessed circulating
proteins in 14,671 Generation Scotland participants. Genome Biology. 2025;26.
doi:10.1186/s13059-025-03892-0
apa: Robertson, J. A., Bajzik, J., Vernardis, S., Chybowska, A. D., Mccartney, D.
L., Grauslys, A., … Marioni, R. E. (2025). Methylome-wide association studies
and epigenetic biomarker development for 133 mass spectrometry-assessed circulating
proteins in 14,671 Generation Scotland participants. Genome Biology. Springer
Nature. https://doi.org/10.1186/s13059-025-03892-0
chicago: Robertson, Josephine A., Jakub Bajzik, Spyros Vernardis, Aleksandra D.
Chybowska, Daniel L. Mccartney, Arturas Grauslys, Jure Mur, et al. “Methylome-Wide
Association Studies and Epigenetic Biomarker Development for 133 Mass Spectrometry-Assessed
Circulating Proteins in 14,671 Generation Scotland Participants.” Genome Biology.
Springer Nature, 2025. https://doi.org/10.1186/s13059-025-03892-0.
ieee: J. A. Robertson et al., “Methylome-wide association studies and epigenetic
biomarker development for 133 mass spectrometry-assessed circulating proteins
in 14,671 Generation Scotland participants,” Genome Biology, vol. 26. Springer
Nature, 2025.
ista: Robertson JA, Bajzik J, Vernardis S, Chybowska AD, Mccartney DL, Grauslys
A, Mur J, Smith HM, Campbell A, Drake C, Grant H, Pearce J, Russ TC, Adkin P,
White M, Brigden C, Messner CB, Porteous DJ, Hayward C, Cox SR, Zelezniak A, Ralser
M, Robinson MR, Marioni RE. 2025. Methylome-wide association studies and epigenetic
biomarker development for 133 mass spectrometry-assessed circulating proteins
in 14,671 Generation Scotland participants. Genome Biology. 26, 417.
mla: Robertson, Josephine A., et al. “Methylome-Wide Association Studies and Epigenetic
Biomarker Development for 133 Mass Spectrometry-Assessed Circulating Proteins
in 14,671 Generation Scotland Participants.” Genome Biology, vol. 26, 417,
Springer Nature, 2025, doi:10.1186/s13059-025-03892-0.
short: J.A. Robertson, J. Bajzik, S. Vernardis, A.D. Chybowska, D.L. Mccartney,
A. Grauslys, J. Mur, H.M. Smith, A. Campbell, C. Drake, H. Grant, J. Pearce, T.C.
Russ, P. Adkin, M. White, C. Brigden, C.B. Messner, D.J. Porteous, C. Hayward,
S.R. Cox, A. Zelezniak, M. Ralser, M.R. Robinson, R.E. Marioni, Genome Biology
26 (2025).
date_created: 2025-12-14T23:02:04Z
date_published: 2025-12-08T00:00:00Z
date_updated: 2025-12-15T13:19:41Z
day: '08'
ddc:
- '570'
department:
- _id: MaRo
doi: 10.1186/s13059-025-03892-0
external_id:
pmid:
- '41361833'
file:
- access_level: open_access
checksum: 7c92919af1b5820d01e91e08906a411f
content_type: application/pdf
creator: dernst
date_created: 2025-12-15T13:18:07Z
date_updated: 2025-12-15T13:18:07Z
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file_name: 2025_GenomeBiology_Robertson.pdf
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language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
publication: Genome Biology
publication_identifier:
eissn:
- 1474-760X
issn:
- 1474-7596
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Methylome-wide association studies and epigenetic biomarker development for
133 mass spectrometry-assessed circulating proteins in 14,671 Generation Scotland
participants
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: 26
year: '2025'
...
---
APC_amount: 4910,08 EUR
OA_place: publisher
OA_type: gold
_id: '8125'
abstract:
- lang: eng
text: "Biological memory is known to be flexible—memory formation and recall depend
on factors such as the behavioral context of the organism. However, this property
is often ignored in associative memory models, leaving it unclear how memories
can be organized and recalled when subject to contextual control. Because of the
lack of a rigorous analytical framework, it is also unknown how contextual control
affects memory stability, storage capacity, and information content. Here, we
bring the dynamic nature of memory to the fore by introducing a novel model of
associative memory, which we refer to as the context-modular memory network. In
our model, stored memory patterns are associated to one of several background
network states, or contexts. Memories are accessible when their corresponding
context is active, and are otherwise inaccessible. Context modulates the effective
network connectivity by imposing a specific\r\nconfiguration of neuronal and synaptic
gating—gated neurons (synapses) have their activity (weights) momentarily silenced,
thereby reducing interference from memories belonging to other contexts. Memory
patterns are randomly and independently chosen, while neuronal and synaptic gates
may be selected randomly or optimized through a process of contextual synaptic
refinement. Through analytic and numerical results, we show that context-modular
memory networks can exhibit both improved memory capacity and differential control
of memory stability with random gating (especially for neuronal gating). For contextual
synaptic refinement, we devise a method in which synapses are gated off for a
given context if they destabilize the memory patterns in that context, drastically
improving memory capacity and enabling even more precise control over memory stability.
Notably, synaptic refinement allows for patterns to be\r\naccessible in multiple
contexts, stabilizing memory patterns even for weight matrices that alone do not
contain any information about the memory patterns, such as Gaussian random matrices.
Overall, our model integrates recent ideas about context-dependent memory organization
with classic associative memory models and proposes a rigorous theory which can
act as a framework for future work. Furthermore, our work carries important implications
for the understanding of biological memory storage and recall in the brain, such
as highlighting an intriguing trade-off between memory capacity and accessibility."
acknowledgement: "We thank Helen Barron, Vezha Boboeva, Adam Packer, João Sacramento,
Andrew Saxe, Misha Tsodyks, and Friedemann Zenke for helpful comments at various
stages of this work, and Rubem Erichsen, Jr. for carefully reading the manuscript
and valuable comments. This work was\r\nsupported by a Sir Henry Dale Fellowship
by the Wellcome Trust and the Royal Society [No. WT100000 (W. F. P., E. J. A., and
T. P. V.)], a Wellcome Trust Senior Research Fellowship [No. 214316/Z/18/Z (E. J.
A. and T. P. V.)], and a Research Project Grant by the Leverhulme Trust\r\n[No.
RPG-2016-446 (E. J. A.)]. "
article_number: '011057'
article_processing_charge: Yes
article_type: original
author:
- first_name: William F.
full_name: Podlaski, William F.
last_name: Podlaski
orcid: 0000-0001-6619-7502
- first_name: Everton J.
full_name: Agnes, Everton J.
last_name: Agnes
orcid: 0000-0001-7184-7311
- first_name: Tim P
full_name: Vogels, Tim P
id: CB6FF8D2-008F-11EA-8E08-2637E6697425
last_name: Vogels
orcid: 0000-0003-3295-6181
citation:
ama: Podlaski WF, Agnes EJ, Vogels TP. High capacity and dynamic accessibility in
associative memory networks with context-dependent neuronal and synaptic gating.
Physical Review X. 2025;15. doi:10.1103/PhysRevX.15.011057
apa: Podlaski, W. F., Agnes, E. J., & Vogels, T. P. (2025). High capacity and
dynamic accessibility in associative memory networks with context-dependent neuronal
and synaptic gating. Physical Review X. American Physical Society. https://doi.org/10.1103/PhysRevX.15.011057
chicago: Podlaski, William F., Everton J. Agnes, and Tim P Vogels. “High Capacity
and Dynamic Accessibility in Associative Memory Networks with Context-Dependent
Neuronal and Synaptic Gating.” Physical Review X. American Physical Society,
2025. https://doi.org/10.1103/PhysRevX.15.011057.
ieee: W. F. Podlaski, E. J. Agnes, and T. P. Vogels, “High capacity and dynamic
accessibility in associative memory networks with context-dependent neuronal and
synaptic gating,” Physical Review X, vol. 15. American Physical Society,
2025.
ista: Podlaski WF, Agnes EJ, Vogels TP. 2025. High capacity and dynamic accessibility
in associative memory networks with context-dependent neuronal and synaptic gating.
Physical Review X. 15, 011057.
mla: Podlaski, William F., et al. “High Capacity and Dynamic Accessibility in Associative
Memory Networks with Context-Dependent Neuronal and Synaptic Gating.” Physical
Review X, vol. 15, 011057, American Physical Society, 2025, doi:10.1103/PhysRevX.15.011057.
short: W.F. Podlaski, E.J. Agnes, T.P. Vogels, Physical Review X 15 (2025).
corr_author: '1'
date_created: 2020-07-16T12:24:28Z
date_published: 2025-03-13T00:00:00Z
date_updated: 2026-05-06T12:44:27Z
day: '13'
ddc:
- '530'
department:
- _id: TiVo
doi: 10.1103/PhysRevX.15.011057
external_id:
isi:
- '001451378900002'
file:
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checksum: 1f27ee469ab51a3e1ce1e2df0022e81d
content_type: application/pdf
creator: dernst
date_created: 2025-03-20T12:47:17Z
date_updated: 2025-03-20T12:47:17Z
file_id: '19432'
file_name: 2025_PhysReviewX_Podlaski.pdf
file_size: 1373704
relation: main_file
success: 1
file_date_updated: 2025-03-20T12:47:17Z
fulldoi: https://doi.org/10.1103/PhysRevX.15.011057
has_accepted_license: '1'
intvolume: ' 15'
isi: 1
language:
- iso: eng
locked: '1'
month: '03'
oa: 1
oa_version: Published Version
project:
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
- _id: c084a126-5a5b-11eb-8a69-d75314a70a87
grant_number: 214316/Z/18/Z
name: What’s in a memory? Spatiotemporal dynamics in strongly coupled recurrent
neuronal networks.
publication: Physical Review X
publication_identifier:
eissn:
- 2160-3308
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/wpodlaski/contextual-memory-nets
scopus_import: '1'
status: public
title: High capacity and dynamic accessibility in associative memory networks with
context-dependent neuronal and synaptic gating
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: 15
year: '2025'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '8616'
abstract:
- lang: eng
text: The brain vasculature supplies neurons with glucose and oxygen, but little
is known about how vascular plasticity contributes to brain function. Using longitudinal
in vivo imaging, we report that a substantial proportion of blood vessels in the
adult mouse brain sporadically occlude and regress. Their regression proceeds
through sequential stages of blood-flow occlusion, endothelial cell collapse,
relocation or loss of pericytes, and retraction of glial endfeet. Regressing vessels
are found to be widespread in mouse, monkey and human brains. We further reveal
that blood vessel regression cause a reduction of neuronal activity due to a dysfunction
in mitochondrial metabolism and glutamate production. Our results elucidate the
mechanism of vessel regression and its role in neuronal function in the adult
brain.
acknowledgement: 'The project was initiated in the Jan lab at UCSF. We thank Lily
Jan and Yuh-Nung Jan’s generous support. We thank Liqun Luo’s lab for providing
MADM-7 mice and Rolf A Brekken for VEGF-antibodies. Drs. Yuanquan Song (UPenn),
Zhaozhu Hu (JHU), Ji Hu (ShanghaiTech), Yang Xiang (U. Mass), Hao Wang (Zhejiang
U.) and Ruikang Wang (U. Washington) for critical input, colleagues at Children’s
Research Institute, Departments of Neuroscience, Neurology and Neurotherapeutics,
Pediatrics from UT Southwestern, and colleagues from the Jan lab for discussion.
Dr. Bridget Samuels, Sean Morrison (UT Southwestern), and Nannan Lu (Zhejiang U.)
for critical reading. We acknowledge the assistance of the CIBR Imaging core. We
also thank UT Southwestern Live Cell Imaging Facility, a Shared Resource of the
Harold C. Simmons Cancer Center, supported in part by an NCI Cancer Center Support
Grant, P30 CA142543K. This work is supported by CIBR funds and the American Heart
Association AWRP Summer 2016 Innovative Research Grant (17IRG33410377) to W-P.G.;
National Natural Science Foundation of China (No.81370031) to Z.Z.;National Key
Research and Development Program of China (2016YFE0125400)to F.H.;National Natural
Science Foundations of China (No. 81473202) to Y.L.; National Natural Science Foundation
of China (No.31600839) and Shenzhen Science and Technology Research Program (JCYJ20170818163320865)
to B.P.; National Natural Science Foundation of China (No. 31800864) and Westlake
University start-up funds to J-M. J. NIH R01NS088627 to W.L.J.; NIH: R01 AG020670
and RF1AG054111 to H.Z.; R01 NS088555 to A.M.S., and European Research Council No.725780
to S.H.;W-P.G. was a recipient of Bugher-American Heart Association Dan Adams Thinking
Outside the Box Award.'
article_number: '5840'
article_processing_charge: Yes
article_type: original
author:
- first_name: Xiaofei
full_name: Gao, Xiaofei
last_name: Gao
- first_name: Jun-Liszt
full_name: Li, Jun-Liszt
last_name: Li
- first_name: Xingjun
full_name: Chen, Xingjun
last_name: Chen
- first_name: Bo
full_name: Ci, Bo
last_name: Ci
- first_name: Fei
full_name: Chen, Fei
last_name: Chen
- first_name: Nannan
full_name: Lu, Nannan
last_name: Lu
- first_name: Bo
full_name: Shen, Bo
last_name: Shen
- first_name: Lijun
full_name: Zheng, Lijun
last_name: Zheng
- first_name: Jie-Min
full_name: Jia, Jie-Min
last_name: Jia
- first_name: Yating
full_name: Yi, Yating
last_name: Yi
- first_name: Shiwen
full_name: Zhang, Shiwen
last_name: Zhang
- first_name: Ying-Chao
full_name: Shi, Ying-Chao
last_name: Shi
- first_name: Kaibin
full_name: Shi, Kaibin
last_name: Shi
- first_name: Nicholas E
full_name: Propson, Nicholas E
last_name: Propson
- first_name: Yubin
full_name: Huang, Yubin
last_name: Huang
- first_name: Katherine
full_name: Poinsatte, Katherine
last_name: Poinsatte
- first_name: Zhaohuan
full_name: Zhang, Zhaohuan
last_name: Zhang
- first_name: Yuanlei
full_name: Yue, Yuanlei
last_name: Yue
- first_name: Dale B
full_name: Bosco, Dale B
last_name: Bosco
- first_name: Ying-mei
full_name: Lu, Ying-mei
last_name: Lu
- first_name: Shi-bing
full_name: Yang, Shi-bing
last_name: Yang
- first_name: Ralf H.
full_name: Adams, Ralf H.
last_name: Adams
- first_name: Volkhard
full_name: Lindner, Volkhard
last_name: Lindner
- first_name: Fen
full_name: Huang, Fen
last_name: Huang
- first_name: Long-Jun
full_name: Wu, Long-Jun
last_name: Wu
- first_name: Hui
full_name: Zheng, Hui
last_name: Zheng
- first_name: Feng
full_name: Han, Feng
last_name: Han
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: Ann M.
full_name: Stowe, Ann M.
last_name: Stowe
- first_name: Bo
full_name: Peng, Bo
last_name: Peng
- first_name: Marta
full_name: Margeta, Marta
last_name: Margeta
- first_name: Xiaoqun
full_name: Wang, Xiaoqun
last_name: Wang
- first_name: Qiang
full_name: Liu, Qiang
last_name: Liu
- first_name: Jakob
full_name: Körbelin, Jakob
last_name: Körbelin
- first_name: Martin
full_name: Trepel, Martin
last_name: Trepel
- first_name: Hui
full_name: Lu, Hui
last_name: Lu
- first_name: Bo O.
full_name: Zhou, Bo O.
last_name: Zhou
- first_name: Hu
full_name: Zhao, Hu
last_name: Zhao
- first_name: Wenzhi
full_name: Su, Wenzhi
last_name: Su
- first_name: Robert M.
full_name: Bachoo, Robert M.
last_name: Bachoo
- first_name: Woo-ping
full_name: Ge, Woo-ping
last_name: Ge
citation:
ama: Gao X, Li J-L, Chen X, et al. Reduction of neuronal activity mediated by blood-vessel
regression in the brain. Nature Communications. 2025;16. doi:10.1038/s41467-025-60308-0
apa: Gao, X., Li, J.-L., Chen, X., Ci, B., Chen, F., Lu, N., … Ge, W. (2025). Reduction
of neuronal activity mediated by blood-vessel regression in the brain. Nature
Communications. Springer Nature. https://doi.org/10.1038/s41467-025-60308-0
chicago: Gao, Xiaofei, Jun-Liszt Li, Xingjun Chen, Bo Ci, Fei Chen, Nannan Lu, Bo
Shen, et al. “Reduction of Neuronal Activity Mediated by Blood-Vessel Regression
in the Brain.” Nature Communications. Springer Nature, 2025. https://doi.org/10.1038/s41467-025-60308-0.
ieee: X. Gao et al., “Reduction of neuronal activity mediated by blood-vessel
regression in the brain,” Nature Communications, vol. 16. Springer Nature,
2025.
ista: Gao X, Li J-L, Chen X, Ci B, Chen F, Lu N, Shen B, Zheng L, Jia J-M, Yi Y,
Zhang S, Shi Y-C, Shi K, Propson NE, Huang Y, Poinsatte K, Zhang Z, Yue Y, Bosco
DB, Lu Y, Yang S, Adams RH, Lindner V, Huang F, Wu L-J, Zheng H, Han F, Hippenmeyer
S, Stowe AM, Peng B, Margeta M, Wang X, Liu Q, Körbelin J, Trepel M, Lu H, Zhou
BO, Zhao H, Su W, Bachoo RM, Ge W. 2025. Reduction of neuronal activity mediated
by blood-vessel regression in the brain. Nature Communications. 16, 5840.
mla: Gao, Xiaofei, et al. “Reduction of Neuronal Activity Mediated by Blood-Vessel
Regression in the Brain.” Nature Communications, vol. 16, 5840, Springer
Nature, 2025, doi:10.1038/s41467-025-60308-0.
short: X. Gao, J.-L. Li, X. Chen, B. Ci, F. Chen, N. Lu, B. Shen, L. Zheng, J.-M.
Jia, Y. Yi, S. Zhang, Y.-C. Shi, K. Shi, N.E. Propson, Y. Huang, K. Poinsatte,
Z. Zhang, Y. Yue, D.B. Bosco, Y. Lu, S. Yang, R.H. Adams, V. Lindner, F. Huang,
L.-J. Wu, H. Zheng, F. Han, S. Hippenmeyer, A.M. Stowe, B. Peng, M. Margeta, X.
Wang, Q. Liu, J. Körbelin, M. Trepel, H. Lu, B.O. Zhou, H. Zhao, W. Su, R.M. Bachoo,
W. Ge, Nature Communications 16 (2025).
date_created: 2020-10-06T08:58:59Z
date_published: 2025-07-01T00:00:00Z
date_updated: 2025-09-04T07:08:37Z
day: '01'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.1038/s41467-025-60308-0
ec_funded: 1
external_id:
isi:
- '001523450500035'
file:
- access_level: open_access
checksum: f59748cb67232cfb210035d9aef60836
content_type: application/pdf
creator: dernst
date_created: 2025-07-07T09:52:46Z
date_updated: 2025-07-07T09:52:46Z
file_id: '19971'
file_name: 2025_NatureComm_Gao.pdf
file_size: 17018106
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success: 1
file_date_updated: 2025-07-07T09:52:46Z
fulldoi: https://doi.org/10.1038/s41467-025-60308-0
has_accepted_license: '1'
intvolume: ' 16'
isi: 1
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 260018B0-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '725780'
name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Reduction of neuronal activity mediated by blood-vessel regression in the brain
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 16
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
_id: '18154'
abstract:
- lang: eng
text: 'In 1976, Deligne and Lusztig realized the representation theory of finite
groups of Lie type inside étale cohomology of certain algebraic varieties. Recently,
a p-adic version of this theory started to emerge: there are p-adic Deligne–Lusztig
spaces, whose cohomology encodes representation theoretic information for p-adic
groups – for instance, it partially realizes the local Langlands correspondence
with characteristic zero coefficients. However, the parallel case of coefficients
of positive characteristic ℓ≠p has not been inspected so far. The purpose of
this article is to initiate such an inspection. In particular, we relate cohomology
of certain p-adic Deligne–Lusztig spaces to Vignéras''s modular local Langlands
correspondence for GLn.'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Jakub
full_name: Löwit, Jakub
id: e3b80ae2-eb8e-11eb-b029-9aef4a9108a0
last_name: Löwit
citation:
ama: Löwit J. On modulo ℓ cohomology of p-adic Deligne–Lusztig varieties for GLn.
Journal of Algebra. 2025;663(2):81-118. doi:10.1016/j.jalgebra.2024.08.033
apa: Löwit, J. (2025). On modulo ℓ cohomology of p-adic Deligne–Lusztig varieties
for GLn. Journal of Algebra. Elsevier. https://doi.org/10.1016/j.jalgebra.2024.08.033
chicago: Löwit, Jakub. “On modulo ℓ Cohomology of P-Adic Deligne–Lusztig Varieties
for GLn.” Journal of Algebra. Elsevier, 2025. https://doi.org/10.1016/j.jalgebra.2024.08.033.
ieee: J. Löwit, “On modulo ℓ cohomology of p-adic Deligne–Lusztig varieties for
GLn,” Journal of Algebra, vol. 663, no. 2. Elsevier, pp. 81–118, 2025.
ista: Löwit J. 2025. On modulo ℓ cohomology of p-adic Deligne–Lusztig varieties
for GLn. Journal of Algebra. 663(2), 81–118.
mla: Löwit, Jakub. “On modulo ℓ Cohomology of P-Adic Deligne–Lusztig Varieties for
GLn.” Journal of Algebra, vol. 663, no. 2, Elsevier, 2025, pp. 81–118,
doi:10.1016/j.jalgebra.2024.08.033.
short: J. Löwit, Journal of Algebra 663 (2025) 81–118.
corr_author: '1'
date_created: 2024-09-29T22:01:37Z
date_published: 2025-02-01T00:00:00Z
date_updated: 2025-02-27T12:32:40Z
day: '01'
ddc:
- '510'
department:
- _id: TaHa
doi: 10.1016/j.jalgebra.2024.08.033
external_id:
arxiv:
- '2404.11176'
isi:
- '001325207800001'
file:
- access_level: open_access
checksum: eb240e93c178e48429ad918c9058f1fe
content_type: application/pdf
creator: dernst
date_created: 2025-01-13T08:57:57Z
date_updated: 2025-01-13T08:57:57Z
file_id: '18830'
file_name: 2024_JourAlgebra_Loewit.pdf
file_size: 731175
relation: main_file
success: 1
file_date_updated: 2025-01-13T08:57:57Z
fulldoi: https://doi.org/10.1016/j.jalgebra.2024.08.033
has_accepted_license: '1'
intvolume: ' 663'
isi: 1
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 81-118
publication: Journal of Algebra
publication_identifier:
eissn:
- 1090-266X
issn:
- 0021-8693
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: On modulo ℓ cohomology of p-adic Deligne–Lusztig varieties for GLn
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: 663
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
_id: '18169'
abstract:
- lang: eng
text: "As the complexity and criticality of software increase every year, so does
the importance of runtime monitoring. Third-party and best-effort monitoring are
especially valuable, yet under-explored areas of runtime monitoring. In this context,
third-party monitoring means monitoring with a limited knowledge of the monitored
software (as it has been developed by a third party). Best-effort monitoring keeps
pace with the monitored software at the cost of possibly imprecise verdicts when
keeping up with the monitored software would not be feasible. Most existing monitoring
frameworks do not support the combination of third-party and best-effort monitoring
because they either require the full access to the monitored code or the ability
to process all observable events, or both.\r\nWe present a middleware framework,
Vamos, for the runtime monitoring of software. Vamos is explicitly designed to
support third-party and best-effort scenarios. The design goals of Vamos are (i)
efficiency (tracing events with low overhead), (ii) flexibility (the ability to
monitor a variety of different event channels, and to connect to a wide range
of monitors), and (iii) ease-of-use. To achieve its goals, Vamos combines aspects
of event broker and event recognition systems with aspects of stream processing
systems.\r\nWe implemented a prototype toolchain for Vamos and conducted a set
of experiments demonstrating the usability of the scheme. The results indicate
that Vamos enables writing useful yet efficient monitors, and simplifies key aspects
of setting up a monitoring system from scratch."
acknowledgement: This work was supported in part by the ERC-2020-AdG 101020093. The
authors would like to thank the STTT reviewers for their valuable feedback and suggestions.
article_number: '103212'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Marek
full_name: Chalupa, Marek
id: 87e34708-d6c6-11ec-9f5b-9391e7be2463
last_name: Chalupa
- first_name: Fabian
full_name: Mühlböck, Fabian
id: 6395C5F6-89DF-11E9-9C97-6BDFE5697425
last_name: Mühlböck
orcid: 0000-0003-1548-0177
- first_name: Stefanie
full_name: Muroya Lei, Stefanie
id: a376de31-8972-11ed-ae7b-d0251c13c8ff
last_name: Muroya Lei
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
citation:
ama: 'Chalupa M, Mühlböck F, Muroya Lei S, Henzinger TA. VAMOS: Middleware for best-effort
third-party monitoring. Science of Computer Programming. 2025;240(2). doi:10.1016/j.scico.2024.103212'
apa: 'Chalupa, M., Mühlböck, F., Muroya Lei, S., & Henzinger, T. A. (2025).
VAMOS: Middleware for best-effort third-party monitoring. Science of Computer
Programming. Elsevier. https://doi.org/10.1016/j.scico.2024.103212'
chicago: 'Chalupa, Marek, Fabian Mühlböck, Stefanie Muroya Lei, and Thomas A Henzinger.
“VAMOS: Middleware for Best-Effort Third-Party Monitoring.” Science of Computer
Programming. Elsevier, 2025. https://doi.org/10.1016/j.scico.2024.103212.'
ieee: 'M. Chalupa, F. Mühlböck, S. Muroya Lei, and T. A. Henzinger, “VAMOS: Middleware
for best-effort third-party monitoring,” Science of Computer Programming,
vol. 240, no. 2. Elsevier, 2025.'
ista: 'Chalupa M, Mühlböck F, Muroya Lei S, Henzinger TA. 2025. VAMOS: Middleware
for best-effort third-party monitoring. Science of Computer Programming. 240(2),
103212.'
mla: 'Chalupa, Marek, et al. “VAMOS: Middleware for Best-Effort Third-Party Monitoring.”
Science of Computer Programming, vol. 240, no. 2, 103212, Elsevier, 2025,
doi:10.1016/j.scico.2024.103212.'
short: M. Chalupa, F. Mühlböck, S. Muroya Lei, T.A. Henzinger, Science of Computer
Programming 240 (2025).
corr_author: '1'
date_created: 2024-10-06T22:01:10Z
date_published: 2025-02-01T00:00:00Z
date_updated: 2025-09-09T12:25:29Z
day: '01'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1016/j.scico.2024.103212
ec_funded: 1
external_id:
isi:
- '001327852600001'
file:
- access_level: open_access
checksum: cd93c0c356e479ffccfbe8499b6ba8e2
content_type: application/pdf
creator: dernst
date_created: 2025-01-13T09:02:47Z
date_updated: 2025-01-13T09:02:47Z
file_id: '18831'
file_name: 2024_ScienceCompProg_Chalupa.pdf
file_size: 1173677
relation: main_file
success: 1
file_date_updated: 2025-01-13T09:02:47Z
fulldoi: https://doi.org/10.1016/j.scico.2024.103212
has_accepted_license: '1'
intvolume: ' 240'
isi: 1
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: Science of Computer Programming
publication_identifier:
issn:
- 0167-6423
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '12856'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: 'VAMOS: Middleware for best-effort third-party monitoring'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 240
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
_id: '18170'
abstract:
- lang: eng
text: 'This study presents a graphene field-effect transistor (gFET) biosensor with
dual detection capabilities for SARS-CoV-2: one RNA detection assay to confirm
viral positivity and the other for nucleocapsid (N-)protein detection as a proxy
for infectiousness of the patient. This technology can be rapidly adapted to emerging
infectious diseases, making an essential tool to contain future pandemics. To
detect viral RNA, the highly conserved E-gene of the virus was targeted, allowing
for the determination of SARS-CoV-2 presence or absence using nasopharyngeal swab
samples. For N-protein detection, specific antibodies were used. Tested on 213
clinical nasopharyngeal samples, the gFET biosensor showed good correlation with
RT-PCR cycle threshold values, proving its high sensitivity in detecting SARS-CoV-2
RNA. Specificity was confirmed using 21 pre-pandemic samples positive for other
respiratory viruses. The gFET biosensor had a limit of detection (LOD) for N-protein
of 0.9 pM, establishing a foundation for the development of a sensitive tool for
monitoring active viral infection. Results of gFET based N-protein detection corresponded
to the results of virus culture in all 16 available clinical samples and thus
it also proved its capability to serve as a proxy for infectivity. Overall, these
findings support the potential of the gFET biosensor as a point-of-care device
for rapid diagnosis of SARS-CoV-2 infection and indirect assessment of infectiousness
in patients, providing additional information for clinical and public health decision-making.'
acknowledgement: 'This research was funded in whole by the Austrian Science Fund (FWF)
[P 35103-B, Grant-DOI: 10.55776/P35103]. For open access purposes, the author has
applied a CC BY public copyright license to any author-accepted manuscript version
arising from this submission. We would like to thank Olfert Landt for advice on
ssDNA probe design; Rui Qiang Chen, Jennifer Stock, and Christine Wukotitsch for
their excellent support with ONT sequencing; Christoph Köppl and Andreas Fischer
for excellent support in recombinant N protein expression and purification; and
the whole team at the division of clinical virology for their support with standard
diagnostics.'
article_number: '116807'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Anna Nele
full_name: Herdina, Anna Nele
last_name: Herdina
- first_name: Anil
full_name: Bozdogan, Anil
last_name: Bozdogan
- first_name: Patrik
full_name: Aspermair, Patrik
last_name: Aspermair
- first_name: Jakub
full_name: Dostalek, Jakub
last_name: Dostalek
- first_name: Miriam
full_name: Klausberger, Miriam
last_name: Klausberger
- first_name: Nico
full_name: Lingg, Nico
last_name: Lingg
- first_name: Monika
full_name: Cserjan-Puschmann, Monika
last_name: Cserjan-Puschmann
- first_name: Patricia Pereira
full_name: Aguilar, Patricia Pereira
last_name: Aguilar
- first_name: Simone
full_name: Auer, Simone
last_name: Auer
- first_name: Halil
full_name: Demirtas, Halil
last_name: Demirtas
- first_name: Jakob
full_name: Andersson, Jakob
id: 3a5f4167-9bd9-11ed-bd12-a1446d38776f
last_name: Andersson
- first_name: Felix
full_name: Lötsch, Felix
last_name: Lötsch
- first_name: Barbara
full_name: Holzer, Barbara
last_name: Holzer
- first_name: Adi
full_name: Steinrigl, Adi
last_name: Steinrigl
- first_name: Florian
full_name: Thalhammer, Florian
last_name: Thalhammer
- first_name: Julia
full_name: Schellnegger, Julia
last_name: Schellnegger
- first_name: Monika
full_name: Breuer, Monika
last_name: Breuer
- first_name: Wolfgang
full_name: Knoll, Wolfgang
last_name: Knoll
- first_name: Robert
full_name: Strassl, Robert
last_name: Strassl
citation:
ama: 'Herdina AN, Bozdogan A, Aspermair P, et al. Bridging basic science and applied
diagnostics: Comprehensive viral diagnostics enabled by graphene-based electronic
biosensor technology advancements. Biosensors and Bioelectronics. 2025;267.
doi:10.1016/j.bios.2024.116807'
apa: 'Herdina, A. N., Bozdogan, A., Aspermair, P., Dostalek, J., Klausberger, M.,
Lingg, N., … Strassl, R. (2025). Bridging basic science and applied diagnostics:
Comprehensive viral diagnostics enabled by graphene-based electronic biosensor
technology advancements. Biosensors and Bioelectronics. Elsevier. https://doi.org/10.1016/j.bios.2024.116807'
chicago: 'Herdina, Anna Nele, Anil Bozdogan, Patrik Aspermair, Jakub Dostalek, Miriam
Klausberger, Nico Lingg, Monika Cserjan-Puschmann, et al. “Bridging Basic Science
and Applied Diagnostics: Comprehensive Viral Diagnostics Enabled by Graphene-Based
Electronic Biosensor Technology Advancements.” Biosensors and Bioelectronics.
Elsevier, 2025. https://doi.org/10.1016/j.bios.2024.116807.'
ieee: 'A. N. Herdina et al., “Bridging basic science and applied diagnostics:
Comprehensive viral diagnostics enabled by graphene-based electronic biosensor
technology advancements,” Biosensors and Bioelectronics, vol. 267. Elsevier,
2025.'
ista: 'Herdina AN, Bozdogan A, Aspermair P, Dostalek J, Klausberger M, Lingg N,
Cserjan-Puschmann M, Aguilar PP, Auer S, Demirtas H, Andersson J, Lötsch F, Holzer
B, Steinrigl A, Thalhammer F, Schellnegger J, Breuer M, Knoll W, Strassl R. 2025.
Bridging basic science and applied diagnostics: Comprehensive viral diagnostics
enabled by graphene-based electronic biosensor technology advancements. Biosensors
and Bioelectronics. 267, 116807.'
mla: 'Herdina, Anna Nele, et al. “Bridging Basic Science and Applied Diagnostics:
Comprehensive Viral Diagnostics Enabled by Graphene-Based Electronic Biosensor
Technology Advancements.” Biosensors and Bioelectronics, vol. 267, 116807,
Elsevier, 2025, doi:10.1016/j.bios.2024.116807.'
short: A.N. Herdina, A. Bozdogan, P. Aspermair, J. Dostalek, M. Klausberger, N.
Lingg, M. Cserjan-Puschmann, P.P. Aguilar, S. Auer, H. Demirtas, J. Andersson,
F. Lötsch, B. Holzer, A. Steinrigl, F. Thalhammer, J. Schellnegger, M. Breuer,
W. Knoll, R. Strassl, Biosensors and Bioelectronics 267 (2025).
date_created: 2024-10-06T22:01:11Z
date_published: 2025-01-01T00:00:00Z
date_updated: 2025-02-27T12:34:07Z
day: '01'
ddc:
- '570'
department:
- _id: LeSa
doi: 10.1016/j.bios.2024.116807
external_id:
isi:
- '001328413700001'
pmid:
- '39341071'
file:
- access_level: open_access
checksum: 208ac27dab27af792d198fcb74af8756
content_type: application/pdf
creator: dernst
date_created: 2025-01-13T11:14:32Z
date_updated: 2025-01-13T11:14:32Z
file_id: '18843'
file_name: 2025_BiosensorsBioelectronics_Herdina.pdf
file_size: 4135372
relation: main_file
success: 1
file_date_updated: 2025-01-13T11:14:32Z
fulldoi: https://doi.org/10.1016/j.bios.2024.116807
has_accepted_license: '1'
intvolume: ' 267'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: Biosensors and Bioelectronics
publication_identifier:
eissn:
- 1873-4235
issn:
- 0956-5663
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Bridging basic science and applied diagnostics: Comprehensive viral diagnostics
enabled by graphene-based electronic biosensor technology advancements'
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: 267
year: '2025'
...
---
OA_place: repository
OA_type: green
_id: '22021'
abstract:
- lang: eng
text: "We establish global well-posedness for both the defocusing and\r\nfocusing
complex-valued modified Korteweg–de Vries equations on the real line\r\nin modulation
spaces Ms,2p (R), for all 1 \x14 p < 1 and 0 \x14 s < 3/2 − 1/p. We\r\nwill also
show that such solutions admit global-in-time bounds in these spaces\r\nand that
equicontinuous sets of initial data lead to equicontinuous ensembles\r\nof orbits.
Indeed, such information forms a crucial part of our well-posedness\r\nargument."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Saikatul
full_name: Haque, Saikatul
last_name: Haque
- first_name: Rowan
full_name: Killip, Rowan
last_name: Killip
- first_name: Monica
full_name: Visan, Monica
id: 056daca0-b8d1-11f0-964f-f91054abf8ca
last_name: Visan
- first_name: Yunfeng
full_name: Zhang, Yunfeng
last_name: Zhang
citation:
ama: Haque S, Killip R, Vişan M, Zhang Y. Global well-posedness and equicontinuity
for modified Korteweg–de Vries equations in modulation spaces. Pure and Applied
Analysis. 2025;7(3):615-637. doi:10.2140/paa.2025.7.615
apa: Haque, S., Killip, R., Vişan, M., & Zhang, Y. (2025). Global well-posedness
and equicontinuity for modified Korteweg–de Vries equations in modulation spaces.
Pure and Applied Analysis. Mathematical Sciences Publishers. https://doi.org/10.2140/paa.2025.7.615
chicago: Haque, Saikatul, Rowan Killip, Monica Vişan, and Yunfeng Zhang. “ Global
Well-Posedness and Equicontinuity for Modified Korteweg–de Vries Equations in
Modulation Spaces.” Pure and Applied Analysis. Mathematical Sciences Publishers,
2025. https://doi.org/10.2140/paa.2025.7.615.
ieee: S. Haque, R. Killip, M. Vişan, and Y. Zhang, “ Global well-posedness and equicontinuity
for modified Korteweg–de Vries equations in modulation spaces,” Pure and Applied
Analysis, vol. 7, no. 3. Mathematical Sciences Publishers, pp. 615–637, 2025.
ista: Haque S, Killip R, Vişan M, Zhang Y. 2025. Global well-posedness and equicontinuity
for modified Korteweg–de Vries equations in modulation spaces. Pure and Applied
Analysis. 7(3), 615–637.
mla: Haque, Saikatul, et al. “ Global Well-Posedness and Equicontinuity for Modified
Korteweg–de Vries Equations in Modulation Spaces.” Pure and Applied Analysis,
vol. 7, no. 3, Mathematical Sciences Publishers, 2025, pp. 615–37, doi:10.2140/paa.2025.7.615.
short: S. Haque, R. Killip, M. Vişan, Y. Zhang, Pure and Applied Analysis 7 (2025)
615–637.
das_tickbox: '1'
date_created: 2026-06-19T07:30:23Z
date_published: 2025-06-18T00:00:00Z
date_updated: 2026-06-24T13:22:40Z
day: '18'
doi: 10.2140/paa.2025.7.615
extern: '1'
external_id:
arxiv:
- '2411.05300'
fulldoi: https://doi.org/10.2140/paa.2025.7.615
intvolume: ' 7'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2411.05300
mathsc:
- 35Q53
- 35Q55
- 37K10
month: '06'
oa: 1
oa_version: Preprint
page: 615-637
publication: Pure and Applied Analysis
publication_identifier:
eissn:
- 2578-5885
issn:
- 2578-5893
publication_status: published
publisher: Mathematical Sciences Publishers
quality_controlled: '1'
scopus_import: '1'
status: public
title: ' Global well-posedness and equicontinuity for modified Korteweg–de Vries equations
in modulation spaces'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 7
year: '2025'
...
---
OA_place: repository
OA_type: green
_id: '22027'
abstract:
- lang: eng
text: We demonstrate that in three space dimensions, the scattering behaviour of
semilinear wave equations with quintic-type nonlinearities uniquely determines
the nonlinearity. The nonlinearity is permitted to depend on both space and time.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Nicholas
full_name: Hu, Nicholas
last_name: Hu
- first_name: Rowan
full_name: Killip, Rowan
last_name: Killip
- first_name: Monica
full_name: Visan, Monica
id: 056daca0-b8d1-11f0-964f-f91054abf8ca
last_name: Visan
citation:
ama: Hu N, Killip R, Vişan M. Deconvolutional determination of the nonlinearity
in a semilinear wave equation. Pure and Applied Analysis. 2025;7(1):1-17.
doi:10.2140/paa.2025.7.1
apa: Hu, N., Killip, R., & Vişan, M. (2025). Deconvolutional determination of
the nonlinearity in a semilinear wave equation. Pure and Applied Analysis.
Mathematical Sciences Publishers. https://doi.org/10.2140/paa.2025.7.1
chicago: Hu, Nicholas, Rowan Killip, and Monica Vişan. “Deconvolutional Determination
of the Nonlinearity in a Semilinear Wave Equation.” Pure and Applied Analysis.
Mathematical Sciences Publishers, 2025. https://doi.org/10.2140/paa.2025.7.1.
ieee: N. Hu, R. Killip, and M. Vişan, “Deconvolutional determination of the nonlinearity
in a semilinear wave equation,” Pure and Applied Analysis, vol. 7, no.
1. Mathematical Sciences Publishers, pp. 1–17, 2025.
ista: Hu N, Killip R, Vişan M. 2025. Deconvolutional determination of the nonlinearity
in a semilinear wave equation. Pure and Applied Analysis. 7(1), 1–17.
mla: Hu, Nicholas, et al. “Deconvolutional Determination of the Nonlinearity in
a Semilinear Wave Equation.” Pure and Applied Analysis, vol. 7, no. 1,
Mathematical Sciences Publishers, 2025, pp. 1–17, doi:10.2140/paa.2025.7.1.
short: N. Hu, R. Killip, M. Vişan, Pure and Applied Analysis 7 (2025) 1–17.
date_created: 2026-06-19T07:36:00Z
date_published: 2025-01-22T00:00:00Z
date_updated: 2026-06-24T13:24:38Z
day: '22'
doi: 10.2140/paa.2025.7.1
extern: '1'
external_id:
arxiv:
- '2307.00829'
fulldoi: https://doi.org/10.2140/paa.2025.7.1
intvolume: ' 7'
issue: '1'
keyword:
- dispersive equations
- nonlinear wave equation
- semilinear wave equation
- scattering
- inverse scattering
- deconvolution
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2307.00829
mathsc:
- 35L70
- 35P25
- 35R30
month: '01'
oa: 1
oa_version: Preprint
page: 1-17
publication: Pure and Applied Analysis
publication_identifier:
eissn:
- 2578-5885
issn:
- 2578-5893
publication_status: published
publisher: Mathematical Sciences Publishers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Deconvolutional determination of the nonlinearity in a semilinear wave equation
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 7
year: '2025'
...
---
OA_place: repository
OA_type: green
_id: '22044'
abstract:
- lang: eng
text: We prove that the small-data scattering map uniquely determines the nonlinearity
for a wide class of gauge-invariant, intercritical nonlinear Schrödinger equations.
We use the Born approximation to reduce the analysis to a deconvolution problem
involving the distribution function for linear Schrödinger solutions. We then
solve this deconvolution problem using the Beurling–Lax Theorem.
article_number: '015021'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Rowan
full_name: Killip, Rowan
last_name: Killip
- first_name: Jason
full_name: Murphy, Jason
last_name: Murphy
- first_name: Monica
full_name: Visan, Monica
id: 056daca0-b8d1-11f0-964f-f91054abf8ca
last_name: Visan
citation:
ama: Killip R, Murphy J, Vişan M. Determination of Schrödinger nonlinearities from
the scattering map. Nonlinearity. 2025;38(1). doi:10.1088/1361-6544/ada1bf
apa: Killip, R., Murphy, J., & Vişan, M. (2025). Determination of Schrödinger
nonlinearities from the scattering map. Nonlinearity. IOP Publishing. https://doi.org/10.1088/1361-6544/ada1bf
chicago: Killip, Rowan, Jason Murphy, and Monica Vişan. “Determination of Schrödinger
Nonlinearities from the Scattering Map.” Nonlinearity. IOP Publishing,
2025. https://doi.org/10.1088/1361-6544/ada1bf.
ieee: R. Killip, J. Murphy, and M. Vişan, “Determination of Schrödinger nonlinearities
from the scattering map,” Nonlinearity, vol. 38, no. 1. IOP Publishing,
2025.
ista: Killip R, Murphy J, Vişan M. 2025. Determination of Schrödinger nonlinearities
from the scattering map. Nonlinearity. 38(1), 015021.
mla: Killip, Rowan, et al. “Determination of Schrödinger Nonlinearities from the
Scattering Map.” Nonlinearity, vol. 38, no. 1, 015021, IOP Publishing,
2025, doi:10.1088/1361-6544/ada1bf.
short: R. Killip, J. Murphy, M. Vişan, Nonlinearity 38 (2025).
das_tickbox: '1'
date_created: 2026-06-19T07:47:06Z
date_published: 2025-01-01T00:00:00Z
date_updated: 2026-06-25T07:46:14Z
day: '01'
doi: 10.1088/1361-6544/ada1bf
extern: '1'
external_id:
arxiv:
- '2402.03218'
fulldoi: https://doi.org/10.1088/1361-6544/ada1bf
intvolume: ' 38'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2402.03218
month: '01'
oa: 1
oa_version: Preprint
publication: Nonlinearity
publication_identifier:
eissn:
- 1361-6544
issn:
- 0951-7715
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Determination of Schrödinger nonlinearities from the scattering map
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 38
year: '2025'
...
---
OA_place: repository
OA_type: green
_id: '22069'
abstract:
- lang: eng
text: "For slowly-varying initial data, solutions to the Ablowitz–Ladik system have
been proven to converge to solutions of the cubic Schrödinger equation. In this
paper we show that in the continuum limit, solutions to the Ablowitz–Ladik system
with H^1 initial data may also converge to solutions of the modified Korteweg–de
Vries equation. To exhibit this new limiting behavior, it suffices that the initial
data is supported near the inflection points of the dispersion relation associated
with the Ablowitz–Ladik system.\r\n\r\nOur arguments employ harmonic analysis
tools, Strichartz estimates, and the conservation of mass and energy. Correspondingly,
they are applicable beyond the completely integrable models of greatest interest
to us."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Rowan
full_name: Killip, Rowan
last_name: Killip
- first_name: Zhimeng
full_name: Ouyang, Zhimeng
last_name: Ouyang
- first_name: Monica
full_name: Visan, Monica
id: 056daca0-b8d1-11f0-964f-f91054abf8ca
last_name: Visan
- first_name: Lei
full_name: Wu, Lei
last_name: Wu
citation:
ama: Killip R, Ouyang Z, Vişan M, Wu L. The modified Korteweg–de Vries limit of
the Ablowitz–Ladik system. Discrete and Continuous Dynamical Systems. 2025;45(3):821-846.
doi:10.3934/dcds.2024114
apa: Killip, R., Ouyang, Z., Vişan, M., & Wu, L. (2025). The modified Korteweg–de
Vries limit of the Ablowitz–Ladik system. Discrete and Continuous Dynamical
Systems. American Institute of Mathematical Sciences. https://doi.org/10.3934/dcds.2024114
chicago: Killip, Rowan, Zhimeng Ouyang, Monica Vişan, and Lei Wu. “The Modified
Korteweg–de Vries Limit of the Ablowitz–Ladik System.” Discrete and Continuous
Dynamical Systems. American Institute of Mathematical Sciences, 2025. https://doi.org/10.3934/dcds.2024114.
ieee: R. Killip, Z. Ouyang, M. Vişan, and L. Wu, “The modified Korteweg–de Vries
limit of the Ablowitz–Ladik system,” Discrete and Continuous Dynamical Systems,
vol. 45, no. 3. American Institute of Mathematical Sciences, pp. 821–846, 2025.
ista: Killip R, Ouyang Z, Vişan M, Wu L. 2025. The modified Korteweg–de Vries limit
of the Ablowitz–Ladik system. Discrete and Continuous Dynamical Systems. 45(3),
821–846.
mla: Killip, Rowan, et al. “The Modified Korteweg–de Vries Limit of the Ablowitz–Ladik
System.” Discrete and Continuous Dynamical Systems, vol. 45, no. 3, American
Institute of Mathematical Sciences, 2025, pp. 821–46, doi:10.3934/dcds.2024114.
short: R. Killip, Z. Ouyang, M. Vişan, L. Wu, Discrete and Continuous Dynamical
Systems 45 (2025) 821–846.
das_tickbox: '1'
date_created: 2026-06-19T08:20:28Z
date_published: 2025-03-01T00:00:00Z
date_updated: 2026-06-30T07:34:20Z
day: '01'
ddc:
- '500'
doi: 10.3934/dcds.2024114
extern: '1'
external_id:
arxiv:
- '2404.02366'
fulldoi: https://doi.org/10.3934/dcds.2024114
intvolume: ' 45'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2404.02366
mathsc:
- 37J70
- 37K10
- 37K60
- 35Q53
- 35Q55
month: '03'
oa: 1
oa_version: Preprint
page: 821-846
publication: Discrete and Continuous Dynamical Systems
publication_identifier:
eissn:
- 1553-5231
issn:
- 1078-0947
publication_status: published
publisher: American Institute of Mathematical Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: The modified Korteweg–de Vries limit of the Ablowitz–Ladik system
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 45
year: '2025'
...
---
OA_place: repository
OA_type: green
_id: '22083'
abstract:
- lang: eng
text: We prove global well-posedness for the cubic nonlinear Schrödinger equation
with nonlinearity concentrated on a homogeneous Poisson process.
article_number: '095020'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Benjamin
full_name: Harrop-Griffiths, Benjamin
last_name: Harrop-Griffiths
- first_name: Rowan
full_name: Killip, Rowan
last_name: Killip
- first_name: Monica
full_name: Visan, Monica
id: 056daca0-b8d1-11f0-964f-f91054abf8ca
last_name: Visan
citation:
ama: Harrop-Griffiths B, Killip R, Vişan M. The nonlinear Schrödinger equation with
sprinkled nonlinearity. Nonlinearity. 2025;38(9). doi:10.1088/1361-6544/ae022e
apa: Harrop-Griffiths, B., Killip, R., & Vişan, M. (2025). The nonlinear Schrödinger
equation with sprinkled nonlinearity. Nonlinearity. IOP Publishing. https://doi.org/10.1088/1361-6544/ae022e
chicago: Harrop-Griffiths, Benjamin, Rowan Killip, and Monica Vişan. “The Nonlinear
Schrödinger Equation with Sprinkled Nonlinearity.” Nonlinearity. IOP Publishing,
2025. https://doi.org/10.1088/1361-6544/ae022e.
ieee: B. Harrop-Griffiths, R. Killip, and M. Vişan, “The nonlinear Schrödinger equation
with sprinkled nonlinearity,” Nonlinearity, vol. 38, no. 9. IOP Publishing,
2025.
ista: Harrop-Griffiths B, Killip R, Vişan M. 2025. The nonlinear Schrödinger equation
with sprinkled nonlinearity. Nonlinearity. 38(9), 095020.
mla: Harrop-Griffiths, Benjamin, et al. “The Nonlinear Schrödinger Equation with
Sprinkled Nonlinearity.” Nonlinearity, vol. 38, no. 9, 095020, IOP Publishing,
2025, doi:10.1088/1361-6544/ae022e.
short: B. Harrop-Griffiths, R. Killip, M. Vişan, Nonlinearity 38 (2025).
das_tickbox: '1'
date_created: 2026-06-19T08:27:54Z
date_published: 2025-09-15T00:00:00Z
date_updated: 2026-07-01T07:17:44Z
day: '15'
doi: 10.1088/1361-6544/ae022e
extern: '1'
external_id:
arxiv:
- '2405.01246'
fulldoi: https://doi.org/10.1088/1361-6544/ae022e
intvolume: ' 38'
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2405.01246
month: '09'
oa: 1
oa_version: Preprint
publication: Nonlinearity
publication_identifier:
eissn:
- 1361-6544
issn:
- 0951-7715
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: The nonlinear Schrödinger equation with sprinkled nonlinearity
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 38
year: '2025'
...