---
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'
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'
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
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
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
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
file_id: '20825'
file_name: 2025_GenomeBiology_Robertson.pdf
file_size: 2206991
relation: main_file
success: 1
file_date_updated: 2025-12-15T13:18:07Z
has_accepted_license: '1'
intvolume: ' 26'
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'
...
---
OA_place: publisher
OA_type: gold
_id: '20817'
abstract:
- lang: eng
text: We present Mechanistic PDE Networks -- a model for discovery of governing
partial differential equations from data. Mechanistic PDE Networks represent spatiotemporal
data as space-time dependent linear partial differential equations in neural network
hidden representations. The represented PDEs are then solved and decoded for specific
tasks. The learned PDE representations naturally express the spatiotemporal dynamics
in data in neural network hidden space, enabling increased modeling power. Solving
the PDE representations in a compute and memory-efficient way, however, is a significant
challenge. We develop a native, GPU-capable, parallel, sparse and differentiable
multigrid solver specialized for linear partial differential equations that acts
as a module in Mechanistic PDE Networks. Leveraging the PDE solver we propose
a discovery architecture that can discovers nonlinear PDEs in complex settings,
while being robust to noise. We validate PDE discovery on a number of PDEs including
reaction-diffusion and Navier-Stokes equations.
acknowledgement: "AP. This project has received funding from the European Union’s
Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie
Grant Agreement No. 101034413.\r\nFL. This research was funded in whole or in part
by the Austrian Science Fund (FWF) 10.55776/COE12. For open access purposes, the
author has applied a CC BY public\r\ncopyright license to any author accepted manuscript
version arising from this submission."
alternative_title:
- PMLR
article_processing_charge: No
arxiv: 1
author:
- first_name: Adeel A
full_name: Pervez, Adeel A
id: fca6d90c-d47f-11ee-bc87-93ff51604981
last_name: Pervez
- first_name: Efstratios
full_name: Gavves, Efstratios
last_name: Gavves
- first_name: Francesco
full_name: Locatello, Francesco
id: 26cfd52f-2483-11ee-8040-88983bcc06d4
last_name: Locatello
orcid: 0000-0002-4850-0683
citation:
ama: 'Pervez AA, Gavves E, Locatello F. Mechanistic PDE networks for discovery of
governing equations. In: 42nd International Conference on Machine Learning.
Vol 267. ML Research Press; 2025:48962-48973.'
apa: 'Pervez, A. A., Gavves, E., & Locatello, F. (2025). Mechanistic PDE networks
for discovery of governing equations. In 42nd International Conference on Machine
Learning (Vol. 267, pp. 48962–48973). Vancouver, Canada: ML Research Press.'
chicago: Pervez, Adeel A, Efstratios Gavves, and Francesco Locatello. “Mechanistic
PDE Networks for Discovery of Governing Equations.” In 42nd International Conference
on Machine Learning, 267:48962–73. ML Research Press, 2025.
ieee: A. A. Pervez, E. Gavves, and F. Locatello, “Mechanistic PDE networks for discovery
of governing equations,” in 42nd International Conference on Machine Learning,
Vancouver, Canada, 2025, vol. 267, pp. 48962–48973.
ista: 'Pervez AA, Gavves E, Locatello F. 2025. Mechanistic PDE networks for discovery
of governing equations. 42nd International Conference on Machine Learning. ICML:
International Conference on Machine Learning, PMLR, vol. 267, 48962–48973.'
mla: Pervez, Adeel A., et al. “Mechanistic PDE Networks for Discovery of Governing
Equations.” 42nd International Conference on Machine Learning, vol. 267,
ML Research Press, 2025, pp. 48962–73.
short: A.A. Pervez, E. Gavves, F. Locatello, in:, 42nd International Conference
on Machine Learning, ML Research Press, 2025, pp. 48962–48973.
conference:
end_date: 2025-07-19
location: Vancouver, Canada
name: 'ICML: International Conference on Machine Learning'
start_date: 2025-07-13
corr_author: '1'
date_created: 2025-12-14T23:02:04Z
date_published: 2025-05-01T00:00:00Z
date_updated: 2025-12-16T12:24:55Z
day: '01'
ddc:
- '000'
department:
- _id: FrLo
ec_funded: 1
external_id:
arxiv:
- '2502.18377'
file:
- access_level: open_access
checksum: 933cb673fb41416f537278fb990df6c3
content_type: application/pdf
creator: dernst
date_created: 2025-12-16T12:21:49Z
date_updated: 2025-12-16T12:21:49Z
file_id: '20827'
file_name: 2025_ICML_Pervez.pdf
file_size: 993381
relation: main_file
success: 1
file_date_updated: 2025-12-16T12:21:49Z
has_accepted_license: '1'
intvolume: ' 267'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 48962-48973
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: 42nd International Conference on Machine Learning
publication_identifier:
eissn:
- 2640-3498
publication_status: published
publisher: ML Research Press
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/ alpz/mech-nn-discovery-pde
scopus_import: '1'
status: public
title: Mechanistic PDE networks for discovery of governing equations
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 267
year: '2025'
...
---
OA_place: publisher
OA_type: gold
_id: '20819'
abstract:
- lang: eng
text: "Clustering is a cornerstone of data analysis that is particularly suited
to identifying coherent subgroups or substructures in unlabeled data, as are generated
continuously in large amounts these days. However, in many cases traditional clustering
methods are not applicable, because data are increasingly being produced and stored
in a distributed way, e.g. on edge devices, and privacy concerns prevent it from
being transferred to a central server. To address this challenge, we present FedDP-KMeans,
a new algorithm for \r\n-means clustering that is fully-federated as well as differentially
private. Our approach leverages (potentially small and out-of-distribution) server-side
data to overcome the primary challenge of differentially private clustering methods:
the need for a good initialization. Combining our initialization with a simple
federated DP-Lloyds algorithm we obtain an algorithm that achieves excellent results
on synthetic and real-world benchmark tasks. We also provide a theoretical analysis
of our method that provides bounds on the convergence speed and cluster identification
success."
acknowledged_ssus:
- _id: ScienComp
acknowledgement: "This research was funded in part by the Austrian Science Fund (FWF)
[10.55776/COE12] and supported by the Scientific Service Units (SSU) of ISTA through
resources provided by Scientific Computing (SciComp).\r\n"
alternative_title:
- PMLR
article_processing_charge: No
arxiv: 1
author:
- first_name: Jonathan A
full_name: Scott, Jonathan A
id: e499926b-f6e0-11ea-865d-9c63db0031e8
last_name: Scott
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
- first_name: David
full_name: Saulpic, David
id: f8e48cf0-b0ff-11ed-b0e9-b4c35598f964
last_name: Saulpic
citation:
ama: 'Scott JA, Lampert C, Saulpic D. Differentially private federated k-means clustering
with server-side data. In: 42nd International Conference on Machine Learning.
Vol 267. ML Research Press; 2025:53757-53790.'
apa: 'Scott, J. A., Lampert, C., & Saulpic, D. (2025). Differentially private
federated k-means clustering with server-side data. In 42nd International Conference
on Machine Learning (Vol. 267, pp. 53757–53790). Vancouver, Canada: ML Research
Press.'
chicago: Scott, Jonathan A, Christoph Lampert, and David Saulpic. “Differentially
Private Federated K-Means Clustering with Server-Side Data.” In 42nd International
Conference on Machine Learning, 267:53757–90. ML Research Press, 2025.
ieee: J. A. Scott, C. Lampert, and D. Saulpic, “Differentially private federated
k-means clustering with server-side data,” in 42nd International Conference
on Machine Learning, Vancouver, Canada, 2025, vol. 267, pp. 53757–53790.
ista: 'Scott JA, Lampert C, Saulpic D. 2025. Differentially private federated k-means
clustering with server-side data. 42nd International Conference on Machine Learning.
ICML: International Conference on Machine Learning, PMLR, vol. 267, 53757–53790.'
mla: Scott, Jonathan A., et al. “Differentially Private Federated K-Means Clustering
with Server-Side Data.” 42nd International Conference on Machine Learning,
vol. 267, ML Research Press, 2025, pp. 53757–90.
short: J.A. Scott, C. Lampert, D. Saulpic, in:, 42nd International Conference on
Machine Learning, ML Research Press, 2025, pp. 53757–53790.
conference:
end_date: 2025-07-19
location: Vancouver, Canada
name: 'ICML: International Conference on Machine Learning'
start_date: 2025-07-13
corr_author: '1'
date_created: 2025-12-14T23:02:05Z
date_published: 2025-05-01T00:00:00Z
date_updated: 2026-04-07T11:46:11Z
day: '01'
ddc:
- '000'
department:
- _id: ChLa
- _id: MoHe
external_id:
arxiv:
- '2506.05408'
file:
- access_level: open_access
checksum: 815b32b463023ca21e569c2158745c15
content_type: application/pdf
creator: dernst
date_created: 2025-12-16T12:38:29Z
date_updated: 2025-12-16T12:38:29Z
file_id: '20829'
file_name: 2025_ICML_Scott.pdf
file_size: 746612
relation: main_file
success: 1
file_date_updated: 2025-12-16T12:38:29Z
has_accepted_license: '1'
intvolume: ' 267'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 53757-53790
publication: 42nd International Conference on Machine Learning
publication_identifier:
eissn:
- 2640-3498
publication_status: published
publisher: ML Research Press
quality_controlled: '1'
related_material:
record:
- id: '21198'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Differentially private federated k-means clustering with server-side data
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 267
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
_id: '10045'
abstract:
- lang: eng
text: "Given a fixed finite metric space (V,μ), the {\\em minimum 0-extension problem},
denoted as 0-Ext[μ], is equivalent to the following optimization problem: minimize
function of the form minx∈Vn∑ifi(xi)+∑ijcijμ(xi,xj) where cij,cvi are given nonnegative
costs and fi:V→R are functions given by fi(xi)=∑v∈Vcviμ(xi,v). The computational
complexity of 0-Ext[μ] has been recently established by Karzanov and by Hirai:
if metric μ is {\\em orientable modular} then 0-Ext[μ] can be solved in polynomial
time, otherwise 0-Ext[μ] is NP-hard. To prove the tractability part, Hirai developed
a theory of discrete convex functions on orientable modular graphs generalizing
several known classes of functions in discrete convex analysis, such as L♮-convex
functions. We consider a more general version of the problem in which unary functions
fi(xi) can additionally have terms of the form cuv;iμ(xi,{u,v}) for {u,v}∈F, where
set F⊆(V2) is fixed. We extend the complexity classification above by providing
an explicit condition on (μ,F) for the problem to be tractable. In order to prove
the tractability part, we generalize Hirai's theory and define a larger class
of discrete convex functions. It covers, in particular, another well-known class
of functions, namely submodular functions on an integer lattice. Finally, we improve
the complexity of Hirai's algorithm for solving 0-Ext on orientable modular graphs.\r\n"
acknowledgement: We thank the anonymous reviewers for their careful reading of our
manuscript and their many insightful comments and suggestions. Open access funding
provided by Institute of Science and Technology (IST Austria).
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Martin
full_name: Dvorak, Martin
id: 40ED02A8-C8B4-11E9-A9C0-453BE6697425
last_name: Dvorak
orcid: 0000-0001-5293-214X
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
citation:
ama: Dvorak M, Kolmogorov V. Generalized minimum 0-extension problem and discrete
convexity. Mathematical Programming. 2025;209:279-322. doi:10.1007/s10107-024-02064-5
apa: Dvorak, M., & Kolmogorov, V. (2025). Generalized minimum 0-extension problem
and discrete convexity. Mathematical Programming. Springer Nature. https://doi.org/10.1007/s10107-024-02064-5
chicago: Dvorak, Martin, and Vladimir Kolmogorov. “Generalized Minimum 0-Extension
Problem and Discrete Convexity.” Mathematical Programming. Springer Nature,
2025. https://doi.org/10.1007/s10107-024-02064-5.
ieee: M. Dvorak and V. Kolmogorov, “Generalized minimum 0-extension problem and
discrete convexity,” Mathematical Programming, vol. 209. Springer Nature,
pp. 279–322, 2025.
ista: Dvorak M, Kolmogorov V. 2025. Generalized minimum 0-extension problem and
discrete convexity. Mathematical Programming. 209, 279–322.
mla: Dvorak, Martin, and Vladimir Kolmogorov. “Generalized Minimum 0-Extension Problem
and Discrete Convexity.” Mathematical Programming, vol. 209, Springer Nature,
2025, pp. 279–322, doi:10.1007/s10107-024-02064-5.
short: M. Dvorak, V. Kolmogorov, Mathematical Programming 209 (2025) 279–322.
corr_author: '1'
date_created: 2021-09-27T10:48:23Z
date_published: 2025-01-01T00:00:00Z
date_updated: 2025-05-19T13:52:10Z
day: '01'
ddc:
- '004'
department:
- _id: GradSch
- _id: VlKo
doi: 10.1007/s10107-024-02064-5
external_id:
arxiv:
- '2109.10203'
isi:
- '001176563300001'
file:
- access_level: open_access
checksum: 25d9bd490719b45eca84f4d93a06c69f
content_type: application/pdf
creator: dernst
date_created: 2025-04-16T09:36:08Z
date_updated: 2025-04-16T09:36:08Z
file_id: '19578'
file_name: 2025_MathProgramming_Dvorak.pdf
file_size: 839510
relation: main_file
success: 1
file_date_updated: 2025-04-16T09:36:08Z
has_accepted_license: '1'
intvolume: ' 209'
isi: 1
keyword:
- minimum 0-extension problem
- metric labeling problem
- discrete metric spaces
- metric extensions
- computational complexity
- valued constraint satisfaction problems
- discrete convex analysis
- L-convex functions
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 279-322
publication: Mathematical Programming
publication_identifier:
eissn:
- 1436-4646
issn:
- 0025-5610
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Generalized minimum 0-extension problem and discrete convexity
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: 209
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:
- access_level: open_access
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
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
relation: main_file
success: 1
file_date_updated: 2025-07-07T09:52:46Z
has_accepted_license: '1'
intvolume: ' 16'
isi: 1
language:
- iso: eng
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
PlanS_conform: '1'
_id: '17240'
abstract:
- lang: eng
text: We prove an upper bound on the energy density of the dilute spin-\(\frac {1}{2}\)
Fermi gas capturing the leading correction to the kinetic energy\(8\pi a\rho _\uparrow\rho
_\downarrow\) with an error of size smaller than\(a\rho^{2}(a^ 3\rho)^{1/3-\varepsilon}\)
for any\(\varepsilon> 0\), where a denotes the scattering length of the interaction.
The result is valid for a large class of interactions including interactions with
a hard core. A central ingredient in the proof is a rigorous version of a fermionic
cluster expansion adapted from the formal expansion of Gaudin et al. (Nucl Phys
A 176(2):237–260, 1971. https://doi.org/10.1016/0375-9474(71)90267-3).
acknowledgement: "Open access funding provided by Institute of Science and Technology
(IST Austria).\r\nWe thank Alessandro Giuliani and Robert Seiringer for helpful
discussions and Robert Seiringer for his comments on the manuscript. Financial support
by the Austrian Science Fund (FWF) through Grant https://doi.org/10.55776/I6427
(as part of the SFB/TRR 352) is gratefully acknowledged."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Asbjørn Bækgaard
full_name: Lauritsen, Asbjørn Bækgaard
id: e1a2682f-dc8d-11ea-abe3-81da9ac728f1
last_name: Lauritsen
orcid: 0000-0003-4476-2288
citation:
ama: Lauritsen AB. Almost optimal upper bound for the ground state energy of a dilute
Fermi gas via cluster expansion. Annales Henri Poincare. 2025;26:203-243.
doi:10.1007/s00023-024-01450-1
apa: Lauritsen, A. B. (2025). Almost optimal upper bound for the ground state energy
of a dilute Fermi gas via cluster expansion. Annales Henri Poincare. Springer
Nature. https://doi.org/10.1007/s00023-024-01450-1
chicago: Lauritsen, Asbjørn Bækgaard. “Almost Optimal Upper Bound for the Ground
State Energy of a Dilute Fermi Gas via Cluster Expansion.” Annales Henri Poincare.
Springer Nature, 2025. https://doi.org/10.1007/s00023-024-01450-1.
ieee: A. B. Lauritsen, “Almost optimal upper bound for the ground state energy of
a dilute Fermi gas via cluster expansion,” Annales Henri Poincare, vol.
26. Springer Nature, pp. 203–243, 2025.
ista: Lauritsen AB. 2025. Almost optimal upper bound for the ground state energy
of a dilute Fermi gas via cluster expansion. Annales Henri Poincare. 26, 203–243.
mla: Lauritsen, Asbjørn Bækgaard. “Almost Optimal Upper Bound for the Ground State
Energy of a Dilute Fermi Gas via Cluster Expansion.” Annales Henri Poincare,
vol. 26, Springer Nature, 2025, pp. 203–43, doi:10.1007/s00023-024-01450-1.
short: A.B. Lauritsen, Annales Henri Poincare 26 (2025) 203–243.
corr_author: '1'
date_created: 2024-07-14T22:01:12Z
date_published: 2025-01-01T00:00:00Z
date_updated: 2026-04-07T13:01:40Z
day: '01'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1007/s00023-024-01450-1
external_id:
isi:
- '001261197700002'
pmid:
- '39926012'
file:
- access_level: open_access
checksum: 01b6572f55f721e97498522c85072ed2
content_type: application/pdf
creator: dernst
date_created: 2025-08-05T11:42:27Z
date_updated: 2025-08-05T11:42:27Z
file_id: '20125'
file_name: 2025_AnnalesHenriPoincare_Lauritsen.pdf
file_size: 797241
relation: main_file
success: 1
file_date_updated: 2025-08-05T11:42:27Z
has_accepted_license: '1'
intvolume: ' 26'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 203-243
pmid: 1
project:
- _id: bda63fe5-d553-11ed-ba76-a16e3d2f256b
grant_number: I06427
name: Mathematical Challenges in BCS Theory of Superconductivity
publication: Annales Henri Poincare
publication_identifier:
issn:
- 1424-0637
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '18135'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Almost optimal upper bound for the ground state energy of a dilute Fermi gas
via cluster expansion
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 26
year: '2025'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '17293'
abstract:
- lang: eng
text: Voltage-gated CaV2.1 (P/Q-type) Ca2+ channels play a crucial role in regulating
neurotransmitter release, thus contributing to synaptic plasticity and to processes
such as learning and memory. Despite their recognized importance in neural function,
there is limited information on their potential involvement in neurodegenerative
conditions such as Alzheimer's disease (AD). Here, we aimed to explore the impact
of AD pathology on the density and nanoscale compartmentalization of CaV2.1 channels
in the hippocampus in association with GABAB receptors. Histoblotting experiments
showed that the density of CaV2.1 channel was significantly reduced in the hippocampus
of APP/PS1 mice in a laminar-dependent manner. CaV2.1 channel was enriched in
the active zone of the axon terminals and was present at a very low density over
the surface of dendritic tree of the CA1 pyramidal cells, as shown by quantitative
SDS-digested freeze-fracture replica labelling (SDS-FRL). In APP/PS1 mice, the
density of CaV2.1 channel in the active zone was significantly reduced in the
strata radiatum and lacunosum-moleculare, while it remained unaltered in the stratum
oriens. The decline in Cav2.1 channel density was found to be associated with
a corresponding impairment in the GABAergic synaptic function, as evidenced by
electrophysiological experiments carried out in the hippocampus of APP/PS1 mice.
Remarkably, double SDS-FRL showed a co-clustering of CaV2.1 channel and GABAB1
receptor in nanodomains (~40–50 nm) in wild type mice, while in APP/PS1 mice this
nanoarchitecture was absent. Together, these findings suggest that the AD pathology-induced
reduction in CaV2.1 channel density and CaV2.1-GABAB1 de-clustering may play a
role in the synaptic transmission alterations shown in the AD hippocampus. Therefore,
uncovering these layer-dependent changes in P/Q calcium currents associated with
AD pathology can benefit the development of future strategies for AD management.
acknowledgement: "Funding sources were Spanish Ministerio de Economía y Competitividad,
Junta de Comunidades de Castilla-La Mancha (Spain), Life Science Innovation Center
at University of Fukui and German Research Foundation.\r\nGrants RTI2018-095812-B-I00
and PID2021-125875OB-I00 funded by MCIN/AEI/10.13039/501100011033 and by “ERDF A
way of making Europe” to Rafael Luján. This study was also supported by a grant
from Junta de Comunidades de Castilla-La Mancha (SBPLY/17/180501/000229 and SBPLY/21/180501/000064)
and Universidad de Castilla-La Mancha (2023-GRIN-34187) to Rafael Luján, and Life
Science Innovation Center (Research and Education Program for Life Science) at University
of Fukui and JSPS KAKENHI Grant Numbers 16H04662, 17K19446, 18H05120 to Yugo Fukazawa
and Margarita Salas fellowship from Ministerio de Universidades and Universidad
de Castilla-La Mancha to Alejandro Martín-Belmonte. German Research Foundation (DFG
FOR 2143) and BIOSS-2 to Akos Kulik."
article_number: e13279
article_processing_charge: Yes
article_type: original
author:
- first_name: Alejandro
full_name: Martín‐Belmonte, Alejandro
last_name: Martín‐Belmonte
- first_name: Carolina
full_name: Aguado, Carolina
last_name: Aguado
- first_name: Rocío
full_name: Alfaro‐Ruiz, Rocío
last_name: Alfaro‐Ruiz
- first_name: Akos
full_name: Kulik, Akos
last_name: Kulik
- first_name: Luis
full_name: de la Ossa, Luis
last_name: de la Ossa
- first_name: Ana Esther
full_name: Moreno‐Martínez, Ana Esther
last_name: Moreno‐Martínez
- first_name: Samuel
full_name: Alberquilla, Samuel
last_name: Alberquilla
- first_name: Lucía
full_name: García‐Carracedo, Lucía
last_name: García‐Carracedo
- first_name: Miriam
full_name: Fernández, Miriam
last_name: Fernández
- first_name: Ana
full_name: Fajardo‐Serrano, Ana
last_name: Fajardo‐Serrano
- first_name: Ester
full_name: Aso, Ester
last_name: Aso
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Eduardo D.
full_name: Martín, Eduardo D.
last_name: Martín
- first_name: Yugo
full_name: Fukazawa, Yugo
last_name: Fukazawa
- first_name: Francisco
full_name: Ciruela, Francisco
last_name: Ciruela
- first_name: Rafael
full_name: Luján, Rafael
last_name: Luján
citation:
ama: 'Martín‐Belmonte A, Aguado C, Alfaro‐Ruiz R, et al. Nanoarchitecture of CaV>2.1
channels and GABAB receptors in the mouse hippocampus: Impact of APP/PS1 pathology.
Brain Pathology. 2025;35(2). doi:10.1111/bpa.13279'
apa: 'Martín‐Belmonte, A., Aguado, C., Alfaro‐Ruiz, R., Kulik, A., de la Ossa, L.,
Moreno‐Martínez, A. E., … Luján, R. (2025). Nanoarchitecture of CaV>2.1 channels
and GABAB receptors in the mouse hippocampus: Impact of APP/PS1 pathology. Brain
Pathology. Wiley. https://doi.org/10.1111/bpa.13279'
chicago: 'Martín‐Belmonte, Alejandro, Carolina Aguado, Rocío Alfaro‐Ruiz, Akos Kulik,
Luis de la Ossa, Ana Esther Moreno‐Martínez, Samuel Alberquilla, et al. “Nanoarchitecture
of CaV>2.1 Channels and GABAB Receptors in the Mouse Hippocampus: Impact of
APP/PS1 Pathology.” Brain Pathology. Wiley, 2025. https://doi.org/10.1111/bpa.13279.'
ieee: 'A. Martín‐Belmonte et al., “Nanoarchitecture of CaV>2.1 channels
and GABAB receptors in the mouse hippocampus: Impact of APP/PS1 pathology,” Brain
Pathology, vol. 35, no. 2. Wiley, 2025.'
ista: 'Martín‐Belmonte A, Aguado C, Alfaro‐Ruiz R, Kulik A, de la Ossa L, Moreno‐Martínez
AE, Alberquilla S, García‐Carracedo L, Fernández M, Fajardo‐Serrano A, Aso E,
Shigemoto R, Martín ED, Fukazawa Y, Ciruela F, Luján R. 2025. Nanoarchitecture
of CaV>2.1 channels and GABAB receptors in the mouse hippocampus: Impact of
APP/PS1 pathology. Brain Pathology. 35(2), e13279.'
mla: 'Martín‐Belmonte, Alejandro, et al. “Nanoarchitecture of CaV>2.1 Channels
and GABAB Receptors in the Mouse Hippocampus: Impact of APP/PS1 Pathology.” Brain
Pathology, vol. 35, no. 2, e13279, Wiley, 2025, doi:10.1111/bpa.13279.'
short: A. Martín‐Belmonte, C. Aguado, R. Alfaro‐Ruiz, A. Kulik, L. de la Ossa, A.E.
Moreno‐Martínez, S. Alberquilla, L. García‐Carracedo, M. Fernández, A. Fajardo‐Serrano,
E. Aso, R. Shigemoto, E.D. Martín, Y. Fukazawa, F. Ciruela, R. Luján, Brain Pathology
35 (2025).
date_created: 2024-07-22T07:48:20Z
date_published: 2025-03-01T00:00:00Z
date_updated: 2025-05-19T13:58:12Z
day: '01'
ddc:
- '570'
department:
- _id: RySh
doi: 10.1111/bpa.13279
external_id:
isi:
- '001250034200001'
pmid:
- '38887180'
file:
- access_level: open_access
checksum: 75a172800ab2e949abb66fba97cf70f0
content_type: application/pdf
creator: dernst
date_created: 2025-04-16T09:56:08Z
date_updated: 2025-04-16T09:56:08Z
file_id: '19582'
file_name: 2025_BrainPathology_MartinBelmonte.pdf
file_size: 8767863
relation: main_file
success: 1
file_date_updated: 2025-04-16T09:56:08Z
has_accepted_license: '1'
intvolume: ' 35'
isi: 1
issue: '2'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
publication: Brain Pathology
publication_identifier:
eissn:
- 1750-3639
issn:
- 1015-6305
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Nanoarchitecture of CaV>2.1 channels and GABAB receptors in the mouse hippocampus:
Impact of APP/PS1 pathology'
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
_id: '17459'
abstract:
- lang: eng
text: Atopic dermatitis (AD) is the most common chronic inflammatory skin disease
worldwide. AD is a highly complex disease with different subtypes. Many elements
of AD pathophysiology have been described, but if/how they interact with each
other or which mechanisms are important in which patients is still unclear. Langerhans
cells (LCs) are antigen-presenting cells (APCs) in the epidermis. Depending on
the context, they can act either pro- or anti-inflammatory. Many different studies
have investigated LCs in the context of AD and found them to be connected to all
major mechanisms of AD pathophysiology. As APCs, LCs recruit other immune cells
and shape the immune response, especially adaptive immunity via polarization of
T cells. As sentinel cells, LCs are primary sensors of the skin microbiome and
are important for the decision of immunity versus tolerance. LCs are also involved
with the integrity of the skin barrier by influencing tight junctions. Finally,
LCs are important cells in the neuro-immune crosstalk in the skin. In this review,
we provide an overview about the many different roles of LCs in AD. Understanding
LCs might bring us closer to a more complete understanding of this highly complex
disease. Potentially, modulating LCs might offer new options for targeted therapies
for AD patients.
acknowledgement: This work was supported by the CK-CARE of the KühneFoundation, Switzerland;
the China Scholarship Counciland Shanghai Biocelline Enterprise Co. Ltd, China.
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Yi
full_name: Pan, Yi
last_name: Pan
- first_name: Mathias
full_name: Hochgerner, Mathias
last_name: Hochgerner
- first_name: Malgorzata Anna
full_name: Cichon, Malgorzata Anna
id: d63197a3-c188-11ed-9387-8d33a3f13871
last_name: Cichon
- first_name: Theresa
full_name: Benezeder, Theresa
last_name: Benezeder
- first_name: Thomas
full_name: Bieber, Thomas
last_name: Bieber
- first_name: Peter
full_name: Wolf, Peter
last_name: Wolf
citation:
ama: 'Pan Y, Hochgerner M, Cichon MA, Benezeder T, Bieber T, Wolf P. Langerhans
cells: Central players in the pathophysiology of atopic dermatitis. Journal
of the European Academy of Dermatology and Venereology. 2025;39(2):278-289.
doi:10.1111/jdv.20291'
apa: 'Pan, Y., Hochgerner, M., Cichon, M. A., Benezeder, T., Bieber, T., & Wolf,
P. (2025). Langerhans cells: Central players in the pathophysiology of atopic
dermatitis. Journal of the European Academy of Dermatology and Venereology.
Wiley. https://doi.org/10.1111/jdv.20291'
chicago: 'Pan, Yi, Mathias Hochgerner, Malgorzata Anna Cichon, Theresa Benezeder,
Thomas Bieber, and Peter Wolf. “Langerhans Cells: Central Players in the Pathophysiology
of Atopic Dermatitis.” Journal of the European Academy of Dermatology and Venereology.
Wiley, 2025. https://doi.org/10.1111/jdv.20291.'
ieee: 'Y. Pan, M. Hochgerner, M. A. Cichon, T. Benezeder, T. Bieber, and P. Wolf,
“Langerhans cells: Central players in the pathophysiology of atopic dermatitis,”
Journal of the European Academy of Dermatology and Venereology, vol. 39,
no. 2. Wiley, pp. 278–289, 2025.'
ista: 'Pan Y, Hochgerner M, Cichon MA, Benezeder T, Bieber T, Wolf P. 2025. Langerhans
cells: Central players in the pathophysiology of atopic dermatitis. Journal of
the European Academy of Dermatology and Venereology. 39(2), 278–289.'
mla: 'Pan, Yi, et al. “Langerhans Cells: Central Players in the Pathophysiology
of Atopic Dermatitis.” Journal of the European Academy of Dermatology and Venereology,
vol. 39, no. 2, Wiley, 2025, pp. 278–89, doi:10.1111/jdv.20291.'
short: Y. Pan, M. Hochgerner, M.A. Cichon, T. Benezeder, T. Bieber, P. Wolf, Journal
of the European Academy of Dermatology and Venereology 39 (2025) 278–289.
date_created: 2024-08-25T22:01:07Z
date_published: 2025-02-01T00:00:00Z
date_updated: 2025-05-19T13:58:50Z
day: '01'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.1111/jdv.20291
external_id:
isi:
- '001292894900001'
pmid:
- '39157943'
file:
- access_level: open_access
checksum: 12555ddb3490daf10b8d44e334e7312e
content_type: application/pdf
creator: dernst
date_created: 2025-04-16T09:59:37Z
date_updated: 2025-04-16T09:59:37Z
file_id: '19583'
file_name: 2025_JEADV_Pan.pdf
file_size: 457698
relation: main_file
success: 1
file_date_updated: 2025-04-16T09:59:37Z
has_accepted_license: '1'
intvolume: ' 39'
isi: 1
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 278-289
pmid: 1
publication: Journal of the European Academy of Dermatology and Venereology
publication_identifier:
eissn:
- 1468-3083
issn:
- 0926-9959
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Langerhans cells: Central players in the pathophysiology of atopic dermatitis'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 39
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '17468'
abstract:
- lang: eng
text: Oxygen redox chemistry is central to life1 and many human-made technologies,
such as in energy storage2,3,4. The large energy gain from oxygen redox reactions
is often connected with the occurrence of harmful reactive oxygen species3,5,6.
Key species are superoxide and the highly reactive singlet oxygen3,4,5,6,7, which
may evolve from superoxide. However, the factors determining the formation of
singlet oxygen, rather than the relatively unreactive triplet oxygen, are unknown.
Here we report that the release of triplet or singlet oxygen is governed by individual
Marcus normal and inverted region behaviour. We found that as the driving force
for the reaction increases, the initially dominant evolution of triplet oxygen
slows down, and singlet oxygen evolution becomes predominant with higher maximum
kinetics. This behaviour also applies to the widely observed superoxide disproportionation,
in which one superoxide is oxidized by another, in both non-aqueous and aqueous
systems, with Lewis and Brønsted acidity controlling the driving forces. Singlet
oxygen yields governed by these conditions are relevant, for example, in batteries
or cellular organelles in which superoxide forms. Our findings suggest ways to
understand and control spin states and kinetics in oxygen redox chemistry, with
implications for fields, including life sciences, pure chemistry and energy storage.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
- _id: M-Shop
- _id: ScienComp
acknowledgement: S.A.F. thanks the Institute of Science and Technology Austria (ISTA)
for the support. The Scientific Service Units of ISTA supported this research through
resources provided by the Imaging and Optics Facility, the Lab Support Facility,
the Miba Machine Shop and Scientific Computing. This research was partly funded
by the Austrian Science Fund (FWF) (10.55776/P37169 and 10.55776/COE5). For open
access purposes, the author has applied for a CC BY public copyright licence to
any author-accepted manuscript version arising from this submission. R.H. acknowledges
funding through CZI grant DAF2020-225401 (10.37921/120055ratwvi) from the Chan Zuckerberg
Initiative DAF, an advised fund of Silicon Valley Community Foundation (10.13039/100014989).
H.T.K.N. acknowledges funding by the European Commission Erasmus Mundus Joint Masters
programme. We thank M. Sixt and M. Chinon for the discussions about O-redox in life
and R. Jethwa for proofreading. Open access funding was provided by ISTA.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Soumyadip
full_name: Mondal, Soumyadip
id: d25d21ef-dc8d-11ea-abe3-ec4576307f48
last_name: Mondal
- first_name: Huyen T.K.
full_name: Nguyen, Huyen T.K.
last_name: Nguyen
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: Mondal S, Nguyen HTK, Hauschild R, Freunberger SA. Marcus kinetics control
singlet and triplet oxygen evolving from superoxide. Nature. 2025;646(8085):601–605.
doi:10.1038/s41586-025-09587-7
apa: Mondal, S., Nguyen, H. T. K., Hauschild, R., & Freunberger, S. A. (2025).
Marcus kinetics control singlet and triplet oxygen evolving from superoxide. Nature.
Springer Nature. https://doi.org/10.1038/s41586-025-09587-7
chicago: Mondal, Soumyadip, Huyen T.K. Nguyen, Robert Hauschild, and Stefan Alexander
Freunberger. “Marcus Kinetics Control Singlet and Triplet Oxygen Evolving from
Superoxide.” Nature. Springer Nature, 2025. https://doi.org/10.1038/s41586-025-09587-7.
ieee: S. Mondal, H. T. K. Nguyen, R. Hauschild, and S. A. Freunberger, “Marcus kinetics
control singlet and triplet oxygen evolving from superoxide,” Nature, vol.
646, no. 8085. Springer Nature, pp. 601–605, 2025.
ista: Mondal S, Nguyen HTK, Hauschild R, Freunberger SA. 2025. Marcus kinetics control
singlet and triplet oxygen evolving from superoxide. Nature. 646(8085), 601–605.
mla: Mondal, Soumyadip, et al. “Marcus Kinetics Control Singlet and Triplet Oxygen
Evolving from Superoxide.” Nature, vol. 646, no. 8085, Springer Nature,
2025, pp. 601–605, doi:10.1038/s41586-025-09587-7.
short: S. Mondal, H.T.K. Nguyen, R. Hauschild, S.A. Freunberger, Nature 646 (2025)
601–605.
corr_author: '1'
date_created: 2024-08-29T10:40:23Z
date_published: 2025-10-16T00:00:00Z
date_updated: 2026-04-28T13:18:33Z
day: '16'
ddc:
- '540'
department:
- _id: StFr
- _id: Bio
doi: 10.1038/s41586-025-09587-7
external_id:
isi:
- '001586378900001'
pmid:
- '41044415'
file:
- access_level: open_access
checksum: b507ddd23df0388aa65d04dc9b00fe3d
content_type: application/pdf
creator: dernst
date_created: 2025-10-20T10:26:13Z
date_updated: 2025-10-20T10:26:13Z
file_id: '20500'
file_name: 2025_Nature_Mondal.pdf
file_size: 3809247
relation: main_file
success: 1
file_date_updated: 2025-10-20T10:26:13Z
has_accepted_license: '1'
intvolume: ' 646'
isi: 1
issue: '8085'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 601–605
pmid: 1
project:
- _id: 8df062be-16d5-11f0-9cad-f559b6612c7e
grant_number: P37169
name: Singlet oxygen in non-aqueous oxygen redox chemistry
- _id: c08e9ad1-5a5b-11eb-8a69-9d1cf3b07473
grant_number: CZI01
name: Tools for automation and feedback microscopy
publication: Nature
publication_identifier:
eissn:
- 1476-4687
issn:
- 0028-0836
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: News on ISTA website
relation: press_release
url: https://ista.ac.at/en/news/taming-the-bad-oxygen/
scopus_import: '1'
status: public
title: Marcus kinetics control singlet and triplet oxygen evolving from superoxide
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: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 646
year: '2025'
...
---
APC_amount: 12348 EUR
OA_place: publisher
OA_type: hybrid
_id: '17884'
abstract:
- lang: eng
text: Human T cell leukemia virus type 1 (HTLV-1) immature particles differ in morphology
from other retroviruses, suggesting a distinct way of assembly. Here we report
the results of cryo-electron tomography studies of HTLV-1 virus-like particles
assembled in vitro, as well as derived from cells. This work shows that HTLV-1
uses a distinct mechanism of Gag–Gag interactions to form the immature viral lattice.
Analysis of high-resolution structural information from immature capsid (CA) tubular
arrays reveals that the primary stabilizing component in HTLV-1 is the N-terminal
domain of CA. Mutagenesis analysis supports this observation. This distinguishes
HTLV-1 from other retroviruses, in which the stabilization is provided primarily
by the C-terminal domain of CA. These results provide structural details of the
quaternary arrangement of Gag for an immature deltaretrovirus and this helps explain
why HTLV-1 particles are morphologically distinct.
acknowledged_ssus:
- _id: ScienComp
- _id: LifeSc
- _id: EM-Fac
acknowledgement: This work was funded by the Institute of Science and Technology Austria
(ISTA) and the Austrian Science Fund (grant P31445 to F.K.M.S.). Access to high-resolution
cryo-ET data acquisition at European Molecular Biology Laboratory (EMBL) Heidelberg
was supported through the EMBL cryo-EM platform. We thank V.-V. Hodirnau at ISTA
and W. Hagen and F. Weis at EMBL Heidelberg for support in cryo-ET data acquisition.
This research was also supported by the scientific service units of ISTA through
resources provided by Scientific Computing, the Life Science Facility, and the EM
Facility. L.M.M. was supported by National Institutes of Health grants R01 GM151775
and R21 DE032878 and by the University of Minnesota Masonic Cancer Center. D.P.
was supported by the DOC doctoral fellowship program of the Austrian Academy of
Sciences. R.A.D was supported by the National Institute of Allergy and Infectious
Diseases (grant R01AI147890). The funders had no role in study design, data collection
and analysis, decision to publish or preparation of the manuscript. Specifically,
we also want to thank A. Schlögl for computational support and J. Hansen and V.
Vogt for critical comments on the manuscript. We also thank the other members of
the Schur lab for helpful discussions and experimental advice.
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Martin
full_name: Obr, Martin
id: 4741CA5A-F248-11E8-B48F-1D18A9856A87
last_name: Obr
orcid: 0000-0003-1756-6564
- first_name: Mathias
full_name: Percipalle, Mathias
id: 4986e21c-eb97-11eb-a6c2-a4ef0b629971
last_name: Percipalle
- first_name: Darya
full_name: Chernikova, Darya
id: 7dbaf460-fa9e-11eb-b0ca-bc7c7ff21ad0
last_name: Chernikova
- first_name: Huixin
full_name: Yang, Huixin
last_name: Yang
- first_name: Andreas
full_name: Thader, Andreas
id: 3A18A7B8-F248-11E8-B48F-1D18A9856A87
last_name: Thader
- first_name: Gergely
full_name: Pinke, Gergely
id: 4D5303E6-F248-11E8-B48F-1D18A9856A87
last_name: Pinke
- first_name: Dario J
full_name: Porley, Dario J
id: 2FD6EA6C-F248-11E8-B48F-1D18A9856A87
last_name: Porley
- first_name: Louis M.
full_name: Mansky, Louis M.
last_name: Mansky
- first_name: Robert A.
full_name: Dick, Robert A.
last_name: Dick
- first_name: Florian KM
full_name: Schur, Florian KM
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
citation:
ama: Obr M, Percipalle M, Chernikova D, et al. Distinct stabilization of the human
T cell leukemia virus type 1 immature Gag lattice. Nature Structural &
Molecular Biology. 2025;32:268-276. doi:10.1038/s41594-024-01390-8
apa: Obr, M., Percipalle, M., Chernikova, D., Yang, H., Thader, A., Pinke, G., …
Schur, F. K. (2025). Distinct stabilization of the human T cell leukemia virus
type 1 immature Gag lattice. Nature Structural & Molecular Biology.
Springer Nature. https://doi.org/10.1038/s41594-024-01390-8
chicago: Obr, Martin, Mathias Percipalle, Darya Chernikova, Huixin Yang, Andreas
Thader, Gergely Pinke, Darío Porley Esteves, Louis M. Mansky, Robert A. Dick,
and Florian KM Schur. “Distinct Stabilization of the Human T Cell Leukemia Virus
Type 1 Immature Gag Lattice.” Nature Structural & Molecular Biology.
Springer Nature, 2025. https://doi.org/10.1038/s41594-024-01390-8.
ieee: M. Obr et al., “Distinct stabilization of the human T cell leukemia
virus type 1 immature Gag lattice,” Nature Structural & Molecular Biology,
vol. 32. Springer Nature, pp. 268–276, 2025.
ista: Obr M, Percipalle M, Chernikova D, Yang H, Thader A, Pinke G, Porley Esteves
D, Mansky LM, Dick RA, Schur FK. 2025. Distinct stabilization of the human T cell
leukemia virus type 1 immature Gag lattice. Nature Structural & Molecular
Biology. 32, 268–276.
mla: Obr, Martin, et al. “Distinct Stabilization of the Human T Cell Leukemia Virus
Type 1 Immature Gag Lattice.” Nature Structural & Molecular Biology,
vol. 32, Springer Nature, 2025, pp. 268–76, doi:10.1038/s41594-024-01390-8.
short: M. Obr, M. Percipalle, D. Chernikova, H. Yang, A. Thader, G. Pinke, D. Porley
Esteves, L.M. Mansky, R.A. Dick, F.K. Schur, Nature Structural & Molecular
Biology 32 (2025) 268–276.
corr_author: '1'
date_created: 2024-09-08T10:29:06Z
date_published: 2025-02-01T00:00:00Z
date_updated: 2026-03-16T12:55:18Z
day: '01'
ddc:
- '570'
department:
- _id: FlSc
- _id: LeSa
doi: 10.1038/s41594-024-01390-8
external_id:
isi:
- '001306564000001'
oaworkid:
- W4402316284
pmid:
- '39242978'
file:
- access_level: open_access
checksum: c641ad94afb28917b20425db676fc3ee
content_type: application/pdf
creator: dernst
date_created: 2025-04-23T07:02:33Z
date_updated: 2025-04-23T07:02:33Z
file_id: '19608'
file_name: 2025_NatureStrucBio_Obr.pdf
file_size: 13724041
relation: main_file
success: 1
file_date_updated: 2025-04-23T07:02:33Z
has_accepted_license: '1'
intvolume: ' 32'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
oaworkid: 1
page: 268-276
pmid: 1
project:
- _id: 26736D6A-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P31445
name: Structural conservation and diversity in retroviral capsid
- _id: 9B9C98E0-BA93-11EA-9121-9846C619BF3A
grant_number: '25762'
name: Structural characterization of spumavirus capsid assemblies to understand
conserved Ortervirales assembly mechanisms
publication: Nature Structural & Molecular Biology
publication_identifier:
eissn:
- 1545-9985
issn:
- 1545-9993
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Distinct stabilization of the human T cell leukemia virus type 1 immature Gag
lattice
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: 32
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '18074'
abstract:
- lang: eng
text: The Aharonov–Casher theorem is a result on the number of the so-called zero
modes of a system described by the magnetic Pauli operator in R2. In this paper
we address the same question for the Dirac operator on a flat two-dimensional
manifold with boundary and Atiyah–Patodi–Singer boundary condition. More concretely
we are interested in the plane and a disc with a finite number of circular holes
cut out. We consider a smooth compactly supported magnetic field on the manifold
and an arbitrary magnetic field inside the holes.
acknowledgement: "First and foremost I am grateful to Jan Philip Solovej for fruitful
meetings during (and after) my PhD programme, when this work was done. Further I
would like to thank Joshua Hunt, Anna Sisak, Jakub Löwit, Błażej Ruba, Volodymir
Riabov, Lukas Schimmer and Georgios Koutentakis for valuable discussions. Many thanks
belong to Rafael Benguria for hosting my visit, during which some of the work has
been done. I am also grateful to Marina Prokhorova who first initiated the discussion
of this project topic and to Annemarie Luger for her valuable comments during my
PhD defence and in particular pointing out the qualitative difference in our two
main results. I would like to acknowledge support for research on this paper from
VILLUM FONDEN through the QMATH Centre of Excellence grant. nr. 10059. This project
also received funding from the European Union’s Horizon 2020 research and innovation
programme under the Marie Skłodowska-Curie grant agreement No 101034413. I am grateful
to the two reviewers for reading carefully my manuscript and pointing out several
issues contributing thus significantly to the readability and clarity of this paper.\r\nOpen
access funding provided by Institute of Science and Technology (IST Austria)."
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Marie
full_name: Fialova, Marie
id: e9c9844d-9e21-11ec-b482-f96fc09f7c4d
last_name: Fialova
citation:
ama: Fialova M. Aharonov–Casher theorems for Dirac operators on manifolds with boundary
and APS boundary condition. Annales Henri Poincare. 2025;26:2859-2900.
doi:10.1007/s00023-024-01482-7
apa: Fialova, M. (2025). Aharonov–Casher theorems for Dirac operators on manifolds
with boundary and APS boundary condition. Annales Henri Poincare. Springer
Nature. https://doi.org/10.1007/s00023-024-01482-7
chicago: Fialova, Marie. “Aharonov–Casher Theorems for Dirac Operators on Manifolds
with Boundary and APS Boundary Condition.” Annales Henri Poincare. Springer
Nature, 2025. https://doi.org/10.1007/s00023-024-01482-7.
ieee: M. Fialova, “Aharonov–Casher theorems for Dirac operators on manifolds with
boundary and APS boundary condition,” Annales Henri Poincare, vol. 26.
Springer Nature, pp. 2859–2900, 2025.
ista: Fialova M. 2025. Aharonov–Casher theorems for Dirac operators on manifolds
with boundary and APS boundary condition. Annales Henri Poincare. 26, 2859–2900.
mla: Fialova, Marie. “Aharonov–Casher Theorems for Dirac Operators on Manifolds
with Boundary and APS Boundary Condition.” Annales Henri Poincare, vol.
26, Springer Nature, 2025, pp. 2859–900, doi:10.1007/s00023-024-01482-7.
short: M. Fialova, Annales Henri Poincare 26 (2025) 2859–2900.
corr_author: '1'
date_created: 2024-09-15T22:01:42Z
date_published: 2025-08-01T00:00:00Z
date_updated: 2025-09-30T10:22:14Z
day: '01'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1007/s00023-024-01482-7
ec_funded: 1
external_id:
arxiv:
- '2304.13373'
isi:
- '001304370000001'
file:
- access_level: open_access
checksum: d8d2d6dbce293c9ee6eaa9262e597147
content_type: application/pdf
creator: dernst
date_created: 2025-08-05T11:24:25Z
date_updated: 2025-08-05T11:24:25Z
file_id: '20124'
file_name: 2025_AnnalesHenriPoincare_Fialova.pdf
file_size: 728124
relation: main_file
success: 1
file_date_updated: 2025-08-05T11:24:25Z
has_accepted_license: '1'
intvolume: ' 26'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 2859-2900
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Annales Henri Poincare
publication_identifier:
issn:
- 1424-0637
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Aharonov–Casher theorems for Dirac operators on manifolds with boundary and
APS boundary condition
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 26
year: '2025'
...
---
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
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: '18157'
abstract:
- lang: eng
text: "Interest in sliding block puzzles dates back to the 15-puzzle, seemingly
invented by Noyes Chapman in 1874 (see [23] for an account of the fascinating
history of the puzzle). The game consists of fifteen movable square blocks numbered
\r\n and arranged within a \r\n square box, leaving one empty space (see Figure
1). The task at hand is to start from a given configuration of the numbered blocks
and reach the desired target configuration, where the only allowed move is to
slide a numbered block into an adjacent empty space. This task seemed to be unpredictably
either very easy to accomplish, or completely impossible, and the puzzle turned
into a worldwide sensation in the spring of 1880. A particularly challenging instance,
known as the 13-15-14 puzzle, consisted of initial and target configurations that
differed by a single swap (historically this swap involved the blocks labeled
14 and 15). The craze of this puzzle was such that it consistently made newspaper
headlines in 1880, with an article in the New York Times lamenting that it was
“threatening our free institutions” [23, p. 9]. Various prizes were offered for
anyone who could solve this challenge, beginning with a $25 set of teeth and culminating
with Sam Loyd’s famous $1,000 cash prize."
acknowledgement: Open access funding provided by Copenhagen University.
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Florestan R
full_name: Brunck, Florestan R
id: 6ab6e556-f394-11eb-9cf6-9dfb78f00d8d
last_name: Brunck
- first_name: Matthew Alan
full_name: Kwan, Matthew Alan
id: 5fca0887-a1db-11eb-95d1-ca9d5e0453b3
last_name: Kwan
orcid: 0000-0002-4003-7567
citation:
ama: 'Brunck FR, Kwan MA. Books, Hallways, and social butterflies: A note on sliding
block puzzles. Mathematical Intelligencer. 2025;47:52-65. doi:10.1007/s00283-024-10358-x'
apa: 'Brunck, F. R., & Kwan, M. A. (2025). Books, Hallways, and social butterflies:
A note on sliding block puzzles. Mathematical Intelligencer. Springer Nature.
https://doi.org/10.1007/s00283-024-10358-x'
chicago: 'Brunck, Florestan R, and Matthew Alan Kwan. “Books, Hallways, and Social
Butterflies: A Note on Sliding Block Puzzles.” Mathematical Intelligencer.
Springer Nature, 2025. https://doi.org/10.1007/s00283-024-10358-x.'
ieee: 'F. R. Brunck and M. A. Kwan, “Books, Hallways, and social butterflies: A
note on sliding block puzzles,” Mathematical Intelligencer, vol. 47. Springer
Nature, pp. 52–65, 2025.'
ista: 'Brunck FR, Kwan MA. 2025. Books, Hallways, and social butterflies: A note
on sliding block puzzles. Mathematical Intelligencer. 47, 52–65.'
mla: 'Brunck, Florestan R., and Matthew Alan Kwan. “Books, Hallways, and Social
Butterflies: A Note on Sliding Block Puzzles.” Mathematical Intelligencer,
vol. 47, Springer Nature, 2025, pp. 52–65, doi:10.1007/s00283-024-10358-x.'
short: F.R. Brunck, M.A. Kwan, Mathematical Intelligencer 47 (2025) 52–65.
date_created: 2024-09-29T22:01:38Z
date_published: 2025-03-01T00:00:00Z
date_updated: 2025-05-19T14:00:09Z
day: '01'
ddc:
- '510'
department:
- _id: UlWa
- _id: MaKw
doi: 10.1007/s00283-024-10358-x
external_id:
arxiv:
- '2303.09459'
isi:
- '001318056000001'
file:
- access_level: open_access
checksum: c932ebe45c460d4a73f5b2dcca643db1
content_type: application/pdf
creator: dernst
date_created: 2025-04-08T11:17:45Z
date_updated: 2025-04-08T11:17:45Z
file_id: '19530'
file_name: 2025_MathIntelligencer_Brunck.pdf
file_size: 1760643
relation: main_file
success: 1
file_date_updated: 2025-04-08T11:17:45Z
has_accepted_license: '1'
intvolume: ' 47'
isi: 1
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 52-65
publication: Mathematical Intelligencer
publication_identifier:
issn:
- 0343-6993
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Books, Hallways, and social butterflies: A note on sliding block puzzles'
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: 47
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
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'
...