---
OA_place: repository
OA_type: green
_id: '20303'
abstract:
- lang: eng
text: Observational genome-wide association studies are now widely used for causal
inference in genetic epidemiology. To maintain privacy, such data is often only
publicly available as summary statistics, and often studies for the endogenous
covariates and the outcome are available separately. This has necessitated methods
tailored to two-sample summary statistics. Current state-of-the-art methods modify
linear instrumental variable (IV) regression---with genetic variants as instruments---to
account for unmeasured confounding. However, since the endogenous covariates can
be high dimensional, standard IV assumptions are generally insufficient to identify
all causal effects simultaneously. We ensure identifiability by assuming the causal
effects are sparse and propose a sparse causal effect two-sample IV estimator,
spaceTSIV, adapting the spaceIV estimator by Pfister and Peters (2022) for two-sample
summary statistics. We provide two methods, based on L0- and L1-penalization,
respectively. We prove identifiability of the sparse causal effects in the two-sample
setting and consistency of spaceTSIV. The performance of spaceTSIV is compared
with existing two-sample IV methods in simulations. Finally, we showcase our methods
using real proteomic and gene-expression data for drug-target discovery.
acknowledgement: "The authors would like to thank Stephen Burgess and Ashish Patel
for helpful discussions at\r\nthe start of this research project, and Anton Rask
Lundborg for helpful discussions on the\r\nuniform asymptotic results. This work
was partially completed during SH’s research visit at\r\nNovo Nordisk. The authors
would like to thank Jesper Ferkinghoff-Borg, Kang Li and Lewis\r\nMarsh for facilitating
this visit and for discussing necessary concepts and tools in statistical\r\ngenetics
at an early stage. SH and NP are supported by a research grant (0069071) from Novo\r\nNordisk
Fonden. JB is funded at the University of Exeter by research grant MR/X011372/1."
alternative_title:
- PMLR
article_processing_charge: No
arxiv: 1
author:
- first_name: Shimeng
full_name: Huang, Shimeng
id: 989c2a06-fb4e-11ef-a992-ab766442255b
last_name: Huang
orcid: 0000-0001-6919-821X
- first_name: Niklas
full_name: Pfister, Niklas
last_name: Pfister
- first_name: Jack
full_name: Bowden, Jack
last_name: Bowden
citation:
ama: 'Huang S, Pfister N, Bowden J. Sparse causal effect estimation using two-sample
summary statistics in the presence of unmeasured confounding. In: The 28th
International Conference on Artificial Intelligence and Statistics. Vol 258.
ML Research Press; 2025:3394-3402.'
apa: 'Huang, S., Pfister, N., & Bowden, J. (2025). Sparse causal effect estimation
using two-sample summary statistics in the presence of unmeasured confounding.
In The 28th International Conference on Artificial Intelligence and Statistics
(Vol. 258, pp. 3394–3402). Mai Khao, Thailand: ML Research Press.'
chicago: Huang, Shimeng, Niklas Pfister, and Jack Bowden. “Sparse Causal Effect
Estimation Using Two-Sample Summary Statistics in the Presence of Unmeasured Confounding.”
In The 28th International Conference on Artificial Intelligence and Statistics,
258:3394–3402. ML Research Press, 2025.
ieee: S. Huang, N. Pfister, and J. Bowden, “Sparse causal effect estimation using
two-sample summary statistics in the presence of unmeasured confounding,” in The
28th International Conference on Artificial Intelligence and Statistics, Mai
Khao, Thailand, 2025, vol. 258, pp. 3394–3402.
ista: 'Huang S, Pfister N, Bowden J. 2025. Sparse causal effect estimation using
two-sample summary statistics in the presence of unmeasured confounding. The 28th
International Conference on Artificial Intelligence and Statistics. AISTATS: Conference
on Artificial Intelligence and Statistics, PMLR, vol. 258, 3394–3402.'
mla: Huang, Shimeng, et al. “Sparse Causal Effect Estimation Using Two-Sample Summary
Statistics in the Presence of Unmeasured Confounding.” The 28th International
Conference on Artificial Intelligence and Statistics, vol. 258, ML Research
Press, 2025, pp. 3394–402.
short: S. Huang, N. Pfister, J. Bowden, in:, The 28th International Conference on
Artificial Intelligence and Statistics, ML Research Press, 2025, pp. 3394–3402.
conference:
end_date: 2025-05-05
location: Mai Khao, Thailand
name: 'AISTATS: Conference on Artificial Intelligence and Statistics'
start_date: 2025-05-03
date_created: 2025-09-07T22:01:35Z
date_published: 2025-05-01T00:00:00Z
date_updated: 2025-09-09T07:47:13Z
day: '01'
department:
- _id: FrLo
external_id:
arxiv:
- '2410.12300'
intvolume: ' 258'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2410.12300
month: '05'
oa: 1
oa_version: Preprint
page: 3394-3402
publication: The 28th International Conference on Artificial Intelligence and Statistics
publication_identifier:
eissn:
- 2640-3498
publication_status: published
publisher: ML Research Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Sparse causal effect estimation using two-sample summary statistics in the
presence of unmeasured confounding
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 258
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
_id: '20318'
abstract:
- lang: eng
text: Lipid membranes and membrane deformations are a long-standing area of research
in soft matter and biophysics. Computer simulations have complemented analytical
and experimental approaches as one of the pillars in the field. However, setting
up and using membrane simulations can come with barriers due to the multidisciplinary
effort involved and the vast choice of existing simulations models. In this review,
we introduce the non-expert reader to coarse-grained membrane simulations at the
mesoscale. Firstly, we give a concise overview of the modelling approaches to
study fluid membranes, together with guidance to more specialized references.
Secondly, we provide a conceptual guide on how to develop mesoscale membrane simulations.
Lastly, we construct a hands-on tutorial on how to apply mesoscale membrane simulations,
by providing a pedagogical examination of membrane tether pulling, shape and mechanics
of membrane tubes, and membrane fluctuations with three different membrane models,
and discussing them in terms of their scope and how resource-intensive they are.
To ease the reader's venture into the field, we provide a repository with ready-to-run
tutorials.
acknowledgement: We thank Oded Farago, Angelo Cacciuto, Jeriann Beiter and Pietro
Sillano for helpful discussions and a critical reading of the manuscript. MMB and
AP acknowledge funding by the European Unions Horizon 2020 research and innovation
programme under Marie Skłodowska-Curie Grant Agreement No. 101034413. FF acknowledges
financial support by the NOMIS foundation. BM and AŠ acknowledge funding by ERC
Starting Grant “NEPA” 802960. MA and AŠ acknowledge funding by the Volkswagen Foundation
Grant Az 96727.
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Maitane
full_name: Muñoz Basagoiti, Maitane
id: 1a8a7950-82cd-11ed-bd4f-9624c913a607
last_name: Muñoz Basagoiti
orcid: 0000-0003-1483-1457
- first_name: Felix F
full_name: Frey, Felix F
id: a0270b37-8f1a-11ec-95c7-8e710c59a4f3
last_name: Frey
orcid: 0000-0001-8501-6017
- first_name: Billie
full_name: Meadowcroft, Billie
id: a4725fd6-932b-11ed-81e2-c098c7f37ae1
last_name: Meadowcroft
orcid: 0000-0003-3441-1337
- first_name: Miguel
full_name: Santana de Freitas Amaral, Miguel
id: 4f2d02dd-47a9-11ec-ad10-82820ed3f501
last_name: Santana de Freitas Amaral
- first_name: Adam
full_name: Prada, Adam
id: a43ed60a-dd22-11ed-9bf7-b34133792ea9
last_name: Prada
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
citation:
ama: 'Muñoz Basagoiti M, Frey FF, Meadowcroft B, Santana de Freitas Amaral M, Prada
A, Šarić A. A tutorial for mesoscale computer simulations of lipid membranes:
Tether pulling, tubulation and fluctuations. Soft Matter. 2025;21(40):7736-7756.
doi:10.1039/d5sm00148j'
apa: 'Muñoz Basagoiti, M., Frey, F. F., Meadowcroft, B., Santana de Freitas Amaral,
M., Prada, A., & Šarić, A. (2025). A tutorial for mesoscale computer simulations
of lipid membranes: Tether pulling, tubulation and fluctuations. Soft Matter.
Royal Society of Chemistry. https://doi.org/10.1039/d5sm00148j'
chicago: 'Muñoz Basagoiti, Maitane, Felix F Frey, Billie Meadowcroft, Miguel Santana
de Freitas Amaral, Adam Prada, and Anđela Šarić. “A Tutorial for Mesoscale Computer
Simulations of Lipid Membranes: Tether Pulling, Tubulation and Fluctuations.”
Soft Matter. Royal Society of Chemistry, 2025. https://doi.org/10.1039/d5sm00148j.'
ieee: 'M. Muñoz Basagoiti, F. F. Frey, B. Meadowcroft, M. Santana de Freitas Amaral,
A. Prada, and A. Šarić, “A tutorial for mesoscale computer simulations of lipid
membranes: Tether pulling, tubulation and fluctuations,” Soft Matter, vol.
21, no. 40. Royal Society of Chemistry, pp. 7736–7756, 2025.'
ista: 'Muñoz Basagoiti M, Frey FF, Meadowcroft B, Santana de Freitas Amaral M, Prada
A, Šarić A. 2025. A tutorial for mesoscale computer simulations of lipid membranes:
Tether pulling, tubulation and fluctuations. Soft Matter. 21(40), 7736–7756.'
mla: 'Muñoz Basagoiti, Maitane, et al. “A Tutorial for Mesoscale Computer Simulations
of Lipid Membranes: Tether Pulling, Tubulation and Fluctuations.” Soft Matter,
vol. 21, no. 40, Royal Society of Chemistry, 2025, pp. 7736–56, doi:10.1039/d5sm00148j.'
short: M. Muñoz Basagoiti, F.F. Frey, B. Meadowcroft, M. Santana de Freitas Amaral,
A. Prada, A. Šarić, Soft Matter 21 (2025) 7736–7756.
corr_author: '1'
date_created: 2025-09-10T05:34:36Z
date_published: 2025-07-28T00:00:00Z
date_updated: 2025-12-30T10:16:52Z
day: '28'
ddc:
- '540'
department:
- _id: AnSa
doi: 10.1039/d5sm00148j
ec_funded: 1
external_id:
arxiv:
- '2502.09798'
isi:
- '001562846800001'
file:
- access_level: open_access
checksum: 590bedad19b6f6d40a7ee036a056a6d9
content_type: application/pdf
creator: dernst
date_created: 2025-12-30T10:16:40Z
date_updated: 2025-12-30T10:16:40Z
file_id: '20912'
file_name: 2025_SoftMatter_MunozBasagoiti.pdf
file_size: 4841140
relation: main_file
success: 1
file_date_updated: 2025-12-30T10:16:40Z
has_accepted_license: '1'
intvolume: ' 21'
isi: 1
issue: '40'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 7736-7756
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
- _id: eba2549b-77a9-11ec-83b8-a81e493eae4e
call_identifier: H2020
grant_number: '802960'
name: 'Non-Equilibrium Protein Assembly: from Building Blocks to Biological Machines'
- _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A
name: NOMIS Fellowship Program
- _id: eba0f67c-77a9-11ec-83b8-cc8501b3e222
grant_number: '96752'
name: 'The evolution of trafficking: from archaea to eukaryotes'
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling,
tubulation and fluctuations'
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 21
year: '2025'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '20319'
abstract:
- lang: eng
text: The time needed by deep convection to bring the atmosphere back to equilibrium
is called convective adjustment timescale or simply adjustment timescale, typically
denoted by . In the Community Atmospheric Model|Community Atmosphere Model (CAM), is
the convective available potential energy (CAPE) relaxation timescale and is 1 hr,
worldwide. Observational evidence suggests that is generally longer than 1 hr.
Further, continental and oceanic convection are different in terms of the vigor
of updrafts and can have different longevities. So using hour worldwide in CAM
has two potential caveats. A longer improves the simulation of the mean climate.
However, it does not address the land‐ocean heterogeneity of atmospheric deep
convection. We investigate the prescription of two different CAPE relaxation timescales
for land ( hr) and ocean ( to 4 hr). It is arguably an extremely crude parameterization
of boundary layer control on atmospheric convection. We contrast a suite of 5‐year‐long
simulations with two different for land and ocean to having one globally. The
choice of longer over ocean is guided by previous studies and inspired by observational
pieces of evidence. Nonetheless, to complement our variable experiments, we perform
a simulation with hr and hrs. Most importantly, our key findings are immune
to the exact values of prescribed and . The CAM model, with two values , improves
convective‐stratiform rainfall partitioning and the Madden–Julian oscillation
propagation characteristics.
acknowledged_ssus:
- _id: ScienComp
acknowledgement: The authors gratefully acknowledge funding from the European Research
Council (ERC) under the European Union's Horizon 2020 research and innovation program
(Project CLUSTER, Grant 805041). This research was supported by the Scientific Service
Units (SSU) of ISTA through resources provided by Scientific Computing (SciComp).
We would like to thank Prof. Courtney Schumacher and Dr. Aaron Funk of Texas A&M
University for their help in understanding the TRMM Radar data. The authors are
grateful to two anonymous reviewers who helped improve the quality of this paper.
article_number: e2025MS005035
article_processing_charge: Yes
article_type: original
author:
- first_name: BIDYUT B
full_name: GOSWAMI, BIDYUT B
id: 3a4ac09c-6d61-11ec-bf66-884cde66b64b
last_name: GOSWAMI
orcid: 0000-0001-8602-3083
- first_name: Andrea
full_name: Polesello, Andrea
id: 74c777f4-32da-11ee-b498-874db0835561
last_name: Polesello
- 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: GOSWAMI BB, Polesello A, Muller CJ. An assessment of representing land‐ocean
heterogeneity via CAPE relaxation timescale in the Community Atmospheric Model
6 (CAM6). Journal of Advances in Modeling Earth Systems. 2025;17(9). doi:10.1029/2025ms005035
apa: GOSWAMI, B. B., Polesello, A., & Muller, C. J. (2025). An assessment of
representing land‐ocean heterogeneity via CAPE relaxation timescale in the Community
Atmospheric Model 6 (CAM6). Journal of Advances in Modeling Earth Systems.
Wiley. https://doi.org/10.1029/2025ms005035
chicago: GOSWAMI, BIDYUT B, Andrea Polesello, and Caroline J Muller. “An Assessment
of Representing Land‐ocean Heterogeneity via CAPE Relaxation Timescale in the
Community Atmospheric Model 6 (CAM6).” Journal of Advances in Modeling Earth
Systems. Wiley, 2025. https://doi.org/10.1029/2025ms005035.
ieee: B. B. GOSWAMI, A. Polesello, and C. J. Muller, “An assessment of representing
land‐ocean heterogeneity via CAPE relaxation timescale in the Community Atmospheric
Model 6 (CAM6),” Journal of Advances in Modeling Earth Systems, vol. 17,
no. 9. Wiley, 2025.
ista: GOSWAMI BB, Polesello A, Muller CJ. 2025. An assessment of representing land‐ocean
heterogeneity via CAPE relaxation timescale in the Community Atmospheric Model
6 (CAM6). Journal of Advances in Modeling Earth Systems. 17(9), e2025MS005035.
mla: GOSWAMI, BIDYUT B., et al. “An Assessment of Representing Land‐ocean Heterogeneity
via CAPE Relaxation Timescale in the Community Atmospheric Model 6 (CAM6).” Journal
of Advances in Modeling Earth Systems, vol. 17, no. 9, e2025MS005035, Wiley,
2025, doi:10.1029/2025ms005035.
short: B.B. GOSWAMI, A. Polesello, C.J. Muller, Journal of Advances in Modeling
Earth Systems 17 (2025).
corr_author: '1'
date_created: 2025-09-10T05:36:16Z
date_published: 2025-09-01T00:00:00Z
date_updated: 2025-09-10T08:14:28Z
day: '01'
ddc:
- '550'
department:
- _id: CaMu
doi: 10.1029/2025ms005035
ec_funded: 1
file:
- access_level: open_access
checksum: 5961d6290432c5ac0e8587ef07f30c9b
content_type: application/pdf
creator: dernst
date_created: 2025-09-10T08:12:34Z
date_updated: 2025-09-10T08:12:34Z
file_id: '20338'
file_name: 2025_JAMES_Goswami.pdf
file_size: 2143025
relation: main_file
success: 1
file_date_updated: 2025-09-10T08:12:34Z
has_accepted_license: '1'
intvolume: ' 17'
issue: '9'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
project:
- _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: Journal of Advances in Modeling Earth Systems
publication_identifier:
eissn:
- 1942-2466
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: An assessment of representing land‐ocean heterogeneity via CAPE relaxation
timescale in the Community Atmospheric Model 6 (CAM6)
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: 17
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20320'
abstract:
- lang: eng
text: "The pseudoforest version of the Strong Nine Dragon Tree Conjecture states
that if a graph G has maximum average degree mad(G) = 2 maxH⊆G e(H)/v(H) at most
2(k + d/d+k+1), then it has a decomposition into k + 1 pseudoforests where in
one pseudoforest F the components of F have at most d edges. This was proven in
2020 in Grout and Moore (2020). We strengthen this\r\ntheorem by showing that
we can find such a decomposition where additionally F is acyclic, the diameter
of the components of F is at most 2ℓ + 2, where ℓ =⌊d−1/k+1⌋, and at most 2ℓ +
1 if\r\nd ≡ 1 mod (k + 1). Furthermore, for any component K of F and any z ∈ N,
we have diam(K) ≤ 2z if e(K) ≥ d − z(k − 1) + 1. We also show that both diameter
bounds are best possible as an\r\nextension for both the Strong Nine Dragon Tree
Conjecture for pseudoforests and its original conjecture for forests. In fact,
they are still optimal even if we only enforce F to have any constant maximum
degree, instead of enforcing every component of F to have at most d edges."
acknowledgement: This work was completed while Benjamin Moore was a postdoc at Charles
University, supported by project 22-17398S (Flows and cycles in graphs on surfaces)
of Czech Science Foundation, Czechia.
article_number: '104214'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Sebastian
full_name: Mies, Sebastian
last_name: Mies
- first_name: Benjamin
full_name: Moore, Benjamin
id: 6dc1a1be-bf1c-11ed-8d2b-d044840f49d6
last_name: Moore
- first_name: Evelyne
full_name: Smith-Roberge, Evelyne
last_name: Smith-Roberge
citation:
ama: Mies S, Moore B, Smith-Roberge E. Beyond the pseudoforest strong Nine Dragon
Tree theorem. European Journal of Combinatorics. 2025;130(12). doi:10.1016/j.ejc.2025.104214
apa: Mies, S., Moore, B., & Smith-Roberge, E. (2025). Beyond the pseudoforest
strong Nine Dragon Tree theorem. European Journal of Combinatorics. Elsevier.
https://doi.org/10.1016/j.ejc.2025.104214
chicago: Mies, Sebastian, Benjamin Moore, and Evelyne Smith-Roberge. “Beyond the
Pseudoforest Strong Nine Dragon Tree Theorem.” European Journal of Combinatorics.
Elsevier, 2025. https://doi.org/10.1016/j.ejc.2025.104214.
ieee: S. Mies, B. Moore, and E. Smith-Roberge, “Beyond the pseudoforest strong Nine
Dragon Tree theorem,” European Journal of Combinatorics, vol. 130, no.
12. Elsevier, 2025.
ista: Mies S, Moore B, Smith-Roberge E. 2025. Beyond the pseudoforest strong Nine
Dragon Tree theorem. European Journal of Combinatorics. 130(12), 104214.
mla: Mies, Sebastian, et al. “Beyond the Pseudoforest Strong Nine Dragon Tree Theorem.”
European Journal of Combinatorics, vol. 130, no. 12, 104214, Elsevier,
2025, doi:10.1016/j.ejc.2025.104214.
short: S. Mies, B. Moore, E. Smith-Roberge, European Journal of Combinatorics 130
(2025).
corr_author: '1'
date_created: 2025-09-10T05:36:50Z
date_published: 2025-12-01T00:00:00Z
date_updated: 2025-12-30T10:19:10Z
day: '01'
ddc:
- '500'
department:
- _id: MaKw
doi: 10.1016/j.ejc.2025.104214
external_id:
arxiv:
- '2310.00931'
isi:
- '001529769300002'
file:
- access_level: open_access
checksum: b1536e9256c4510a0e21452032e43a26
content_type: application/pdf
creator: dernst
date_created: 2025-12-30T10:18:56Z
date_updated: 2025-12-30T10:18:56Z
file_id: '20913'
file_name: 2025_EuropJournCombinatorics_Mies.pdf
file_size: 737845
relation: main_file
success: 1
file_date_updated: 2025-12-30T10:18:56Z
has_accepted_license: '1'
intvolume: ' 130'
isi: 1
issue: '12'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
publication: European Journal of Combinatorics
publication_identifier:
issn:
- 0195-6698
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Beyond the pseudoforest strong Nine Dragon Tree theorem
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: 130
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20321'
abstract:
- lang: eng
text: Microsecond-to-millisecond motions are instrumental for many biomolecular
functions, including enzymatic activity and ligand binding. Bloch-McConnell Relaxation
Dispersion (BMRD) Nuclear Magnetic Resonance (NMR) spectroscopy is a key technique
for studying these dynamic processes. While BMRD experiments are routinely used
to probe protein motions in solution, the experiment is more demanding in the
solid state, where dipolar couplings complicate the spin dynamics. It is believed
that high deuteration levels are required and sufficient to obtain accurate and
quantitative data. Here we show that even under fast magic-angle spinning and
high levels of deuteration artifactual “bumps” in 15N R1ρ BMRD profiles are common.
The origin of these artifacts is identified as a second-order three-spin Mixed
Rotational and Rotary Resonance (MIRROR) recoupling condition. These artifacts
are found to be a significant confounding factor for the accurate quantification
of microsecond protein dynamics using BMRD in the solid state. We show that the
application of low-power continuous wave (CW) decoupling simultaneously with the
15N spin-lock leads to the suppression of these conditions and enables quantitative
measurements of microsecond exchange in the solid state. Remarkably, the application
of decoupling allows the measurement of accurate BMRD even in fully protonated
proteins at 100 kHz MAS, thus extending the scope of μs dynamics measurements
in MAS NMR.
acknowledged_ssus:
- _id: NMR
- _id: LifeSc
acknowledgement: The authors thank Alexey Krushelnitsky for useful discussions. C.P.J.
thanks NSF (MCB-2303862) and NIH (R35GM156238 and S10OD012303) for funding. This
research was supported by the Scientific Service Units (SSU) of Institute of Science
and Technology Austria (ISTA) through resources provided by the Nuclear Magnetic
Resonance and the Lab Support Facilities.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Benjamin
full_name: Tatman, Benjamin
id: 71cda2f3-e604-11ee-a1df-da10587eda3f
last_name: Tatman
- first_name: Vidhyalakshmi
full_name: Sridharan, Vidhyalakshmi
last_name: Sridharan
- first_name: Motilal
full_name: Uttarkabat, Motilal
last_name: Uttarkabat
- first_name: Christopher P.
full_name: Jaroniec, Christopher P.
last_name: Jaroniec
- first_name: Matthias
full_name: Ernst, Matthias
last_name: Ernst
- first_name: Petra
full_name: Rovo, Petra
id: c316e53f-b965-11eb-b128-bb26acc59c00
last_name: Rovo
orcid: 0000-0001-8729-7326
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
citation:
ama: 'Tatman B, Sridharan V, Uttarkabat M, et al. Bumps on the road: The way to
clean relaxation dispersion magic-angle spinning NMR. Journal of the American
Chemical Society. 2025;147(32):29315-29326. doi:10.1021/jacs.5c09057'
apa: 'Tatman, B., Sridharan, V., Uttarkabat, M., Jaroniec, C. P., Ernst, M., Rovo,
P., & Schanda, P. (2025). Bumps on the road: The way to clean relaxation dispersion
magic-angle spinning NMR. Journal of the American Chemical Society. American
Chemical Society. https://doi.org/10.1021/jacs.5c09057'
chicago: 'Tatman, Benjamin, Vidhyalakshmi Sridharan, Motilal Uttarkabat, Christopher
P. Jaroniec, Matthias Ernst, Petra Rovo, and Paul Schanda. “Bumps on the Road:
The Way to Clean Relaxation Dispersion Magic-Angle Spinning NMR.” Journal of
the American Chemical Society. American Chemical Society, 2025. https://doi.org/10.1021/jacs.5c09057.'
ieee: 'B. Tatman et al., “Bumps on the road: The way to clean relaxation
dispersion magic-angle spinning NMR,” Journal of the American Chemical Society,
vol. 147, no. 32. American Chemical Society, pp. 29315–29326, 2025.'
ista: 'Tatman B, Sridharan V, Uttarkabat M, Jaroniec CP, Ernst M, Rovo P, Schanda
P. 2025. Bumps on the road: The way to clean relaxation dispersion magic-angle
spinning NMR. Journal of the American Chemical Society. 147(32), 29315–29326.'
mla: 'Tatman, Benjamin, et al. “Bumps on the Road: The Way to Clean Relaxation Dispersion
Magic-Angle Spinning NMR.” Journal of the American Chemical Society, vol.
147, no. 32, American Chemical Society, 2025, pp. 29315–26, doi:10.1021/jacs.5c09057.'
short: B. Tatman, V. Sridharan, M. Uttarkabat, C.P. Jaroniec, M. Ernst, P. Rovo,
P. Schanda, Journal of the American Chemical Society 147 (2025) 29315–29326.
corr_author: '1'
date_created: 2025-09-10T05:37:19Z
date_published: 2025-08-01T00:00:00Z
date_updated: 2026-01-28T12:36:30Z
day: '01'
ddc:
- '540'
department:
- _id: PaSc
- _id: NMR
doi: 10.1021/jacs.5c09057
external_id:
isi:
- '001542746200001'
pmid:
- '40748291'
file:
- access_level: open_access
checksum: b350d56ddddefea96cebd62c277c0ff5
content_type: application/pdf
creator: dernst
date_created: 2025-09-10T07:53:10Z
date_updated: 2025-09-10T07:53:10Z
file_id: '20337'
file_name: 2025_JACS_Tatman.pdf
file_size: 5235353
relation: main_file
success: 1
file_date_updated: 2025-09-10T07:53:10Z
has_accepted_license: '1'
intvolume: ' 147'
isi: 1
issue: '32'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 29315-29326
pmid: 1
publication: Journal of the American Chemical Society
publication_identifier:
eissn:
- 1520-5126
issn:
- 0002-7863
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
related_material:
record:
- id: '19696'
relation: used_in_publication
status: public
scopus_import: '1'
status: public
title: 'Bumps on the road: The way to clean relaxation dispersion magic-angle spinning
NMR'
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: 147
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20323'
abstract:
- lang: eng
text: We establish several results combining discrete Morse theory and microlocal
sheaf theory in the setting of finite posets and simplicial complexes. Our primary
tool is a computationally tractable description of the bounded derived category
of sheaves on a poset with the Alexandrov topology. We prove that each bounded
complex of sheaves on a finite poset admits a unique (up to isomorphism of complexes)
minimal injective resolution, and we provide algorithms for computing minimal
injective resolution of an injective complex, as well as several useful functors
between derived categories of sheaves. For the constant sheaf on a simplicial
complex, we give asymptotically tight bounds on the complexity of computing the
minimal injective resolution using those algorithms. Our main result is a novel
definition of the discrete microsupport of a bounded complex of sheaves on a finite
poset. We detail several foundational properties of the discrete microsupport,
as well as a microlocal generalization of the discrete homological Morse theorem
and Morse inequalities.
acknowledgement: This project has received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation programme,
grant no. 788183, from the Wittgenstein Prize, Austrian Science Fund (FWF), grant
no. Z342-N31, and from the DFG Collaborative Research Center TRR 109, ‘Discretization
in Geometry and Dynamics’, Austrian Science Fund (FWF), grant no. I 02979-N35
article_number: '108068'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Adam
full_name: Brown, Adam
id: 70B7FDF6-608D-11E9-9333-8535E6697425
last_name: Brown
- first_name: Ondrej
full_name: Draganov, Ondrej
id: 2B23F01E-F248-11E8-B48F-1D18A9856A87
last_name: Draganov
orcid: 0000-0003-0464-3823
citation:
ama: Brown A, Draganov O. Discrete microlocal Morse theory. Journal of Pure and
Applied Algebra. 2025;229(10). doi:10.1016/j.jpaa.2025.108068
apa: Brown, A., & Draganov, O. (2025). Discrete microlocal Morse theory. Journal
of Pure and Applied Algebra. Elsevier. https://doi.org/10.1016/j.jpaa.2025.108068
chicago: Brown, Adam, and Ondrej Draganov. “Discrete Microlocal Morse Theory.” Journal
of Pure and Applied Algebra. Elsevier, 2025. https://doi.org/10.1016/j.jpaa.2025.108068.
ieee: A. Brown and O. Draganov, “Discrete microlocal Morse theory,” Journal of
Pure and Applied Algebra, vol. 229, no. 10. Elsevier, 2025.
ista: Brown A, Draganov O. 2025. Discrete microlocal Morse theory. Journal of Pure
and Applied Algebra. 229(10), 108068.
mla: Brown, Adam, and Ondrej Draganov. “Discrete Microlocal Morse Theory.” Journal
of Pure and Applied Algebra, vol. 229, no. 10, 108068, Elsevier, 2025, doi:10.1016/j.jpaa.2025.108068.
short: A. Brown, O. Draganov, Journal of Pure and Applied Algebra 229 (2025).
corr_author: '1'
date_created: 2025-09-10T05:40:09Z
date_published: 2025-10-01T00:00:00Z
date_updated: 2025-12-30T07:55:21Z
day: '01'
ddc:
- '510'
department:
- _id: HeEd
doi: 10.1016/j.jpaa.2025.108068
ec_funded: 1
external_id:
arxiv:
- '2209.14993'
file:
- access_level: open_access
checksum: 39bcad462278c9322ef810af7db67f56
content_type: application/pdf
creator: dernst
date_created: 2025-12-30T07:55:08Z
date_updated: 2025-12-30T07:55:08Z
file_id: '20886'
file_name: 2025_JourPureAppliedAlgebra_Brown.pdf
file_size: 3090836
relation: main_file
success: 1
file_date_updated: 2025-12-30T07:55:08Z
has_accepted_license: '1'
intvolume: ' 229'
issue: '10'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 266A2E9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '788183'
name: Alpha Shape Theory Extended
- _id: 268116B8-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00342
name: Mathematics, Computer Science
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I02979-N35
name: Persistence and stability of geometric complexes
publication: Journal of Pure and Applied Algebra
publication_identifier:
issn:
- 0022-4049
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '18981'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Discrete microlocal Morse theory
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: 229
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20324'
abstract:
- lang: eng
text: We report relaxation oscillations in a one-dimensional array of Josephson
junctions, wherein the array dynamically switches between low-current and high-current
states. The oscillations are current-voltage dual to those ordinarily observed
in single junctions. The current-voltage dual circuit quantitatively accounts
for temporal dynamics of the array, including the dependence on biasing conditions.
Injection locking of the oscillations results in well-developed current plateaux.
A thermal model explains the self-consistent reduction of the superconducting
gap due to overheating of the array in the high-current state. Our work suggests
that overheating determines the switching from the high-current state to the low-current
state.
acknowledged_ssus:
- _id: M-Shop
- _id: NanoFab
acknowledgement: We gratefully acknowledge support from the Miba Machine Shop and
the Nanofabrictation Facility at IST Austria. This work was supported by the Austrian
FWF under Grant No. P33692-N (S.M., J.S., and A.P.H.), the European Union’s Horizon
2020 research and innovation program under Marie Skłodowska-Curie Grant Agreement
No. 754411 (J.S.), and a NOMIS Foundation research grant (A.P.H.).
article_number: '014035'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Soham
full_name: Mukhopadhyay, Soham
id: FDE60288-A89D-11E9-947F-1AF6E5697425
last_name: Mukhopadhyay
orcid: 0000-0001-5263-5559
- first_name: Diego A
full_name: Lancheros Naranjo, Diego A
id: 6c55e976-15b2-11ec-abd3-d790e8937fde
last_name: Lancheros Naranjo
- first_name: Jorden L
full_name: Senior, Jorden L
id: 5479D234-2D30-11EA-89CC-40953DDC885E
last_name: Senior
orcid: 0000-0002-0672-9295
- first_name: Andrew P
full_name: Higginbotham, Andrew P
id: 4AD6785A-F248-11E8-B48F-1D18A9856A87
last_name: Higginbotham
orcid: 0000-0003-2607-2363
citation:
ama: Mukhopadhyay S, Lancheros Naranjo DA, Senior JL, Higginbotham AP. Dual relaxation
oscillations in a Josephson-junction array. Physical Review Applied. 2025;24.
doi:10.1103/qvls-7s3q
apa: Mukhopadhyay, S., Lancheros Naranjo, D. A., Senior, J. L., & Higginbotham,
A. P. (2025). Dual relaxation oscillations in a Josephson-junction array. Physical
Review Applied. American Physical Society. https://doi.org/10.1103/qvls-7s3q
chicago: Mukhopadhyay, Soham, Diego A Lancheros Naranjo, Jorden L Senior, and Andrew
P Higginbotham. “Dual Relaxation Oscillations in a Josephson-Junction Array.”
Physical Review Applied. American Physical Society, 2025. https://doi.org/10.1103/qvls-7s3q.
ieee: S. Mukhopadhyay, D. A. Lancheros Naranjo, J. L. Senior, and A. P. Higginbotham,
“Dual relaxation oscillations in a Josephson-junction array,” Physical Review
Applied, vol. 24. American Physical Society, 2025.
ista: Mukhopadhyay S, Lancheros Naranjo DA, Senior JL, Higginbotham AP. 2025. Dual
relaxation oscillations in a Josephson-junction array. Physical Review Applied.
24, 014035.
mla: Mukhopadhyay, Soham, et al. “Dual Relaxation Oscillations in a Josephson-Junction
Array.” Physical Review Applied, vol. 24, 014035, American Physical Society,
2025, doi:10.1103/qvls-7s3q.
short: S. Mukhopadhyay, D.A. Lancheros Naranjo, J.L. Senior, A.P. Higginbotham,
Physical Review Applied 24 (2025).
corr_author: '1'
date_created: 2025-09-10T05:41:30Z
date_published: 2025-07-17T00:00:00Z
date_updated: 2025-12-11T10:47:34Z
day: '17'
ddc:
- '530'
department:
- _id: GradSch
- _id: AnHi
doi: 10.1103/qvls-7s3q
ec_funded: 1
external_id:
arxiv:
- '2408.07829 '
isi:
- '001537333100001'
file:
- access_level: open_access
checksum: 6cc3c9beeb7c0a88ee0a072c9a32b78b
content_type: application/pdf
creator: dernst
date_created: 2025-09-10T07:29:06Z
date_updated: 2025-09-10T07:29:06Z
file_id: '20335'
file_name: 2025_PhysReviewAppl_Mukhopadhyay.pdf
file_size: 1370466
relation: main_file
success: 1
file_date_updated: 2025-09-10T07:29:06Z
has_accepted_license: '1'
intvolume: ' 24'
isi: 1
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 0aa3608a-070f-11eb-9043-e9cd8a2bd931
grant_number: P33692
name: Cavity electromechanics across a quantum phase transition
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
- _id: eb9b30ac-77a9-11ec-83b8-871f581d53d2
name: Protected states of quantum matter
publication: Physical Review Applied
publication_identifier:
issn:
- 2331-7019
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
related_material:
record:
- id: '18057'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Dual relaxation oscillations in a Josephson-junction array
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: 24
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
_id: '20325'
abstract:
- lang: eng
text: Inferring genealogical relationships of wild populations is useful because
it gives direct estimates of mating patterns and variance in reproductive success.
Inference can be improved by including information about parentage shared between
siblings, or by modelling phenotypes or population data related to mating. However,
we currently lack a framework to infer parent–offspring relationships, sibships
and population parameters in a single analysis. To address this, we here extend
a previous method, Fractional Analysis of Paternity and Sibships, to include population
data for the case where one parent is known. We illustrate this with the example
of pollen dispersal in a natural hybrid zone population of the snapdragon Antirrhinum
majus. Pollen dispersal is leptokurtic, with half of mating events occurring within
30 m, but with a long tail of mating events up to 859 m. Using simulations, we
find that both sibship and population information substantially improve pedigree
reconstruction, and that we can expect to resolve median dispersal distances with
high accuracy.
acknowledgement: 'We thank a large number of field volunteers for maintaining the
population sampling, and Tom White for assistance with seed collection. We thank
Sylvia Rebel for plating tissue for DNA extraction, as well as Sean Stankowski and
two anonymous reviewers for feedback on the manuscript. '
article_number: e70051
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Thomas
full_name: Ellis, Thomas
id: 3153D6D4-F248-11E8-B48F-1D18A9856A87
last_name: Ellis
orcid: 0000-0002-8511-0254
- first_name: David
full_name: Field, David
id: 419049E2-F248-11E8-B48F-1D18A9856A87
last_name: Field
orcid: 0000-0002-4014-8478
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: Ellis T, Field D, Barton NH. Joint estimation of paternity, sibships and pollen
dispersal in a snapdragon hybrid zone. Molecular Ecology. 2025;34(15).
doi:10.1111/mec.70051
apa: Ellis, T., Field, D., & Barton, N. H. (2025). Joint estimation of paternity,
sibships and pollen dispersal in a snapdragon hybrid zone. Molecular Ecology.
Wiley. https://doi.org/10.1111/mec.70051
chicago: Ellis, Thomas, David Field, and Nicholas H Barton. “Joint Estimation of
Paternity, Sibships and Pollen Dispersal in a Snapdragon Hybrid Zone.” Molecular
Ecology. Wiley, 2025. https://doi.org/10.1111/mec.70051.
ieee: T. Ellis, D. Field, and N. H. Barton, “Joint estimation of paternity, sibships
and pollen dispersal in a snapdragon hybrid zone,” Molecular Ecology, vol.
34, no. 15. Wiley, 2025.
ista: Ellis T, Field D, Barton NH. 2025. Joint estimation of paternity, sibships
and pollen dispersal in a snapdragon hybrid zone. Molecular Ecology. 34(15), e70051.
mla: Ellis, Thomas, et al. “Joint Estimation of Paternity, Sibships and Pollen Dispersal
in a Snapdragon Hybrid Zone.” Molecular Ecology, vol. 34, no. 15, e70051,
Wiley, 2025, doi:10.1111/mec.70051.
short: T. Ellis, D. Field, N.H. Barton, Molecular Ecology 34 (2025).
corr_author: '1'
date_created: 2025-09-10T05:42:23Z
date_published: 2025-09-02T00:00:00Z
date_updated: 2025-12-30T10:12:34Z
day: '02'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/mec.70051
external_id:
isi:
- '001542913000001'
pmid:
- '40751392'
file:
- access_level: open_access
checksum: 5059ad4d74e6327b84b5282a39d36774
content_type: application/pdf
creator: dernst
date_created: 2025-12-30T10:12:17Z
date_updated: 2025-12-30T10:12:17Z
file_id: '20911'
file_name: 2025_MolecularEcology_Ellis.pdf
file_size: 1698605
relation: main_file
success: 1
file_date_updated: 2025-12-30T10:12:17Z
has_accepted_license: '1'
intvolume: ' 34'
isi: 1
issue: '15'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
publication: Molecular Ecology
publication_identifier:
eissn:
- 1365-294X
issn:
- 0962-1083
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Joint estimation of paternity, sibships and pollen dispersal in a snapdragon
hybrid zone
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: 34
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20327'
abstract:
- lang: eng
text: Confinement is a prominent phenomenon in condensed-matter and high-energy
physics that has recently become the focus of quantum-simulation experiments of
lattice gauge theories (LGTs). As such, a theoretical understanding of the effect
of confinement on LGT dynamics is not only of fundamental importance but also
can lend itself to upcoming experiments. Here we show how confinement in a Z2
LGT can be avoided by proximity to a resonance between the fermion mass and the
electric field strength. Furthermore, we show that this local deconfinement can
become global for certain initial conditions, where information transport occurs
over the entire chain. In addition, we show how this can lead to strong quantum
many-body scarring starting in different initial states. Our findings provide
deeper insights into the nature of confinement in Z2 LGTs and can be tested on
current and near-term quantum devices.
acknowledgement: The authors are grateful to Fiona Burnell, Gaurav Gyawali, Zlatko
Papić, Elliot Rosenberg, Pedram Roushan, Michael Schecter, and Una Šlanka for insightful
discussions. J.-Y.D. acknowledges funding from the European Union's Horizon 2020
research and innovation programme under the Marie Skłodowska-Curie Grant No. 101034413.
T.I. acknowledges support from the National Science Foundation under Grant No. DMR-2143635.
J.C.H. acknowledges funding by the Emmy Noether Programme of the German Research
Foundation (DFG) under Grant No. HA 8206/1-1.s, the Max Planck Society, the Deutsche
Forschungsgemeinschaft (DFG, German Research Foundation) under Germany's Excellence
Strategy–EXC-2111–390814868, and the European Research Council (ERC) under the European
Union's Horizon Europe research and innovation program (Grant Agreement No. 101165667)
ERC Starting Grant QuSiGauge. This work is part of the Quantum Computing for High-Energy
Physics (QC4HEP) working group.
article_number: '014301'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Jean-Yves Marc
full_name: Desaules, Jean-Yves Marc
id: 6c292945-a610-11ed-9eec-c3be1ad62a80
last_name: Desaules
orcid: 0000-0002-3749-6375
- first_name: Thomas
full_name: Iadecola, Thomas
last_name: Iadecola
- first_name: Jad C.
full_name: Halimeh, Jad C.
last_name: Halimeh
citation:
ama: Desaules J-YM, Iadecola T, Halimeh JC. Mass-assisted local deconfinement in
a confined Z2 lattice gauge theory. Physical Review B. 2025;112(1). doi:10.1103/mfg2-t6gb
apa: Desaules, J.-Y. M., Iadecola, T., & Halimeh, J. C. (2025). Mass-assisted
local deconfinement in a confined Z2 lattice gauge theory. Physical Review
B. American Physical Society. https://doi.org/10.1103/mfg2-t6gb
chicago: Desaules, Jean-Yves Marc, Thomas Iadecola, and Jad C. Halimeh. “Mass-Assisted
Local Deconfinement in a Confined Z2 Lattice Gauge Theory.” Physical Review
B. American Physical Society, 2025. https://doi.org/10.1103/mfg2-t6gb.
ieee: J.-Y. M. Desaules, T. Iadecola, and J. C. Halimeh, “Mass-assisted local deconfinement
in a confined Z2 lattice gauge theory,” Physical Review B, vol. 112, no.
1. American Physical Society, 2025.
ista: Desaules J-YM, Iadecola T, Halimeh JC. 2025. Mass-assisted local deconfinement
in a confined Z2 lattice gauge theory. Physical Review B. 112(1), 014301.
mla: Desaules, Jean-Yves Marc, et al. “Mass-Assisted Local Deconfinement in a Confined
Z2 Lattice Gauge Theory.” Physical Review B, vol. 112, no. 1, 014301, American
Physical Society, 2025, doi:10.1103/mfg2-t6gb.
short: J.-Y.M. Desaules, T. Iadecola, J.C. Halimeh, Physical Review B 112 (2025).
corr_author: '1'
date_created: 2025-09-10T05:44:47Z
date_published: 2025-07-01T00:00:00Z
date_updated: 2025-09-30T14:34:43Z
day: '01'
ddc:
- '530'
department:
- _id: MaSe
doi: 10.1103/mfg2-t6gb
ec_funded: 1
external_id:
arxiv:
- '2404.11645'
isi:
- '001530465500007'
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creator: dernst
date_created: 2025-09-10T06:47:23Z
date_updated: 2025-09-10T06:47:23Z
file_id: '20333'
file_name: 2025_PhysReviewB_Desaules.pdf
file_size: 3458424
relation: main_file
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file_date_updated: 2025-09-10T06:47:23Z
has_accepted_license: '1'
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language:
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month: '07'
oa: 1
oa_version: Published Version
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Physical Review B
publication_identifier:
eissn:
- 2469-9969
issn:
- 2469-9950
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
related_material:
record:
- id: '19791'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Mass-assisted local deconfinement in a confined Z2 lattice gauge theory
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: 112
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20329'
abstract:
- lang: eng
text: Nanocrystals (NCs) of various compositions have made important contributions
to science and technology, with their impact recognized by the 2023 Nobel Prize
in Chemistry for the discovery and synthesis of semiconductor quantum dots (QDs).
Over four decades of research into NCs has led to numerous advancements in diverse
fields, such as optoelectronics, catalysis, energy, medicine, and recently, quantum
information and computing. The last 10 years since the predecessor perspective
“Prospect of Nanoscience with Nanocrystals” was published in ACS Nano have seen
NC research continuously evolve, yielding critical advances in fundamental understanding
and practical applications. Mechanistic insights into NC formation have translated
into precision control over NC size, shape, and composition. Emerging synthesis
techniques have broadened the landscape of compounds obtainable in colloidal NC
form. Sophistication in surface chemistry, jointly bolstered by theoretical models
and experimental findings, has facilitated refined control over NC properties
and represents a trusted gateway to enhanced NC stability and processability.
The assembly of NCs into superlattices, along with two-dimensional (2D) photolithography
and three-dimensional (3D) printing, has expanded their utility in creating materials
with tailored properties. Applications of NCs are also flourishing, consolidating
progress in fields targeted early on, such as optoelectronics and catalysis, and
extending into areas ranging from quantum technology to phase-change memories.
In this perspective, we review the extensive progress in research on NCs over
the past decade and highlight key areas where future research may bring further
breakthroughs.
acknowledgement: This article was inspired by the discussions and presentations at
the NaNaX10 (Nanoscience with Nanocrystals) conference held in the Institute of
Science and Technology of Austria (ISTA), July 3–7, 2023. M.I. acknowledges financial
support from the Werner Siemens Foundation (WSS) and Abayomi Lawal, Christine Fiedler,
Ihor Cherniukh, Francesco Milillo, Navita Jakhar, and Magali Lorion for all their
help in editing this manuscript. M.I. would also like to acknowledge Christine Fiedler
for the design of the TOC. S.C.B. acknowledges Dr. Dmitry Dirin for proofreading
and the Weizmann-ETH Zurich Bridge Program for financial support. A.C. thanks Linlin
Yang for drafting Figure 6 and acknowledges support from the project Sydecat with
reference PID2022-136883OB-C22 under MCIN/AEI/10.13039/501100011033/FEDER, UE, and
to the Departament de Recerca i Universitats of the Generalitat de Catalunya (2021
SGR 01581). M.C. acknowledges support from the Sloan Foundation, BASF Corporation,
the Novo Nordisk Foundation CO2 Research Center (CORC), and the US Department of
Energy, Chemical Sciences, Geosciences and Biosciences Division of the Office of
Basic Energy Sciences, via the SUNCAT Center for Interface Science and Catalysis.
D.V.T. acknowledges support from the U.S. National Science Foundation under Grant
Number CHE-2404291. V.I.K. acknowledges support by the Solar Photochemistry Program
of the Chemical Sciences, Biosciences and Geosciences Division, Office of Basic
Energy Sciences, Office of Science, U.S. Department of Energy (overview of studies
of spin-exchange interactions in Mn-doped QDs) and the Laboratory Directed Research
and Development (LDRD) program at Los Alamos National Laboratory under project 20250443ER
(overview of QD optical gain and lasing studies). E.L. acknowledges financial from
the ERC grant blackQD (grant no. 756225) and AQDtive (grant no. 101086358), and
from French state funds managed by the ANR through the grants Bright (ANR-21-CE24-0012-02),
MixDferro (ANR-21-CE09-0029), Quicktera (ANR-22-CE09-0018), E-map (ANR-23-CE50-0025),
DIRAC (ANR-24-ASM1-0001), camIR (ANR-24-CE42-2757), and Piquant (ANR-24-CE09-0786).
L.P. acknowledges financial support from SOLAR NL, funded by the National Growth
Fund in The Netherlands. G.R. acknowledges funding from the Swiss National Science
Foundation (Grant No. 200021_192308, “Q-Light─Engineered Quantum Light Sources with
Nanocrystal Assemblies”). P.R. acknowledges funding from European Union’s Horizon
research and innovation program under grant agreement 101135704 (HortiQD project)
and from the French Research Agency ANR (grant ANR-24-CE09-0786-01 PIQUANT). A.L.R.
acknowledges financial support from the Innovation and Technology Commission of
Hong Kong (ITS/027/22MX), and from the Research Grant Council of Hong Kong SAR through
the RGC Senior Research Fellow Scheme (SRFS 2324-1S04). J.S.S. acknowledges financial
support from the National Research Foundation of Korea (NRF) grant funded by the
Ministry of Science and ICT (2022R1A2C3009129). X.Y. acknowledges support from the
U.S. National Science Foundation under awards DMR-2102526 and CBET-2223453. Y.W.
acknowledges the support from the Science and Technology Program in Jiangsu Province
(BK20232041) and the National Natural Science Foundation of China (22171132 and
52472165). M.Y. acknowledges funding by the European Research Council (ERC) under
the European Union’s Horizon 2020 research and innovation programme, grant agreement
No. 852751. I.I., Z.H. and M.K acknowledge the European Commission for funding (MSCA-DN
Track The Twin, grant agreement 101168820). Z.H. acknowledges funding from the FWO-Vlaanderen
(research projects G0B2921N and G0C5723N) and Ghent University (BOF-GOA 01G02124).
H.Z. acknowledges W. Liu for editing Figure 19 and the financial support from Beijing
Natural Science Foundation (JQ24003).
article_processing_charge: Yes (via OA deal)
article_type: review
author:
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
- first_name: Simon C.
full_name: Boehme, Simon C.
last_name: Boehme
- first_name: Raffaella
full_name: Buonsanti, Raffaella
last_name: Buonsanti
- first_name: Jonathan
full_name: De Roo, Jonathan
last_name: De Roo
- first_name: Delia J.
full_name: Milliron, Delia J.
last_name: Milliron
- first_name: Sandrine
full_name: Ithurria, Sandrine
last_name: Ithurria
- first_name: Andrey L.
full_name: Rogach, Andrey L.
last_name: Rogach
- first_name: Andreu
full_name: Cabot, Andreu
last_name: Cabot
- first_name: Maksym
full_name: Yarema, Maksym
last_name: Yarema
- first_name: Brandi M.
full_name: Cossairt, Brandi M.
last_name: Cossairt
- first_name: Peter
full_name: Reiss, Peter
last_name: Reiss
- first_name: Dmitri V.
full_name: Talapin, Dmitri V.
last_name: Talapin
- first_name: Loredana
full_name: Protesescu, Loredana
last_name: Protesescu
- first_name: Zeger
full_name: Hens, Zeger
last_name: Hens
- first_name: Ivan
full_name: Infante, Ivan
last_name: Infante
- first_name: Maryna I.
full_name: Bodnarchuk, Maryna I.
last_name: Bodnarchuk
- first_name: Xingchen
full_name: Ye, Xingchen
last_name: Ye
- first_name: Yuanyuan
full_name: Wang, Yuanyuan
last_name: Wang
- first_name: Hao
full_name: Zhang, Hao
last_name: Zhang
- first_name: Emmanuel
full_name: Lhuillier, Emmanuel
last_name: Lhuillier
- first_name: Victor I.
full_name: Klimov, Victor I.
last_name: Klimov
- first_name: Hendrik
full_name: Utzat, Hendrik
last_name: Utzat
- first_name: Gabriele
full_name: Rainò, Gabriele
last_name: Rainò
- first_name: Cherie R.
full_name: Kagan, Cherie R.
last_name: Kagan
- first_name: Matteo
full_name: Cargnello, Matteo
last_name: Cargnello
- first_name: Jae Sung
full_name: Son, Jae Sung
last_name: Son
- first_name: Maksym V.
full_name: Kovalenko, Maksym V.
last_name: Kovalenko
citation:
ama: 'Ibáñez M, Boehme SC, Buonsanti R, et al. Prospects of nanoscience with nanocrystals:
2025 edition. ACS Nano. 2025;19(36):31969–32051. doi:10.1021/acsnano.5c07838'
apa: 'Ibáñez, M., Boehme, S. C., Buonsanti, R., De Roo, J., Milliron, D. J., Ithurria,
S., … Kovalenko, M. V. (2025). Prospects of nanoscience with nanocrystals: 2025
edition. ACS Nano. American Chemical Society. https://doi.org/10.1021/acsnano.5c07838'
chicago: 'Ibáñez, Maria, Simon C. Boehme, Raffaella Buonsanti, Jonathan De Roo,
Delia J. Milliron, Sandrine Ithurria, Andrey L. Rogach, et al. “Prospects of Nanoscience
with Nanocrystals: 2025 Edition.” ACS Nano. American Chemical Society,
2025. https://doi.org/10.1021/acsnano.5c07838.'
ieee: 'M. Ibáñez et al., “Prospects of nanoscience with nanocrystals: 2025
edition,” ACS Nano, vol. 19, no. 36. American Chemical Society, pp. 31969–32051,
2025.'
ista: 'Ibáñez M, Boehme SC, Buonsanti R, De Roo J, Milliron DJ, Ithurria S, Rogach
AL, Cabot A, Yarema M, Cossairt BM, Reiss P, Talapin DV, Protesescu L, Hens Z,
Infante I, Bodnarchuk MI, Ye X, Wang Y, Zhang H, Lhuillier E, Klimov VI, Utzat
H, Rainò G, Kagan CR, Cargnello M, Son JS, Kovalenko MV. 2025. Prospects of nanoscience
with nanocrystals: 2025 edition. ACS Nano. 19(36), 31969–32051.'
mla: 'Ibáñez, Maria, et al. “Prospects of Nanoscience with Nanocrystals: 2025 Edition.”
ACS Nano, vol. 19, no. 36, American Chemical Society, 2025, pp. 31969–32051,
doi:10.1021/acsnano.5c07838.'
short: M. Ibáñez, S.C. Boehme, R. Buonsanti, J. De Roo, D.J. Milliron, S. Ithurria,
A.L. Rogach, A. Cabot, M. Yarema, B.M. Cossairt, P. Reiss, D.V. Talapin, L. Protesescu,
Z. Hens, I. Infante, M.I. Bodnarchuk, X. Ye, Y. Wang, H. Zhang, E. Lhuillier,
V.I. Klimov, H. Utzat, G. Rainò, C.R. Kagan, M. Cargnello, J.S. Son, M.V. Kovalenko,
ACS Nano 19 (2025) 31969–32051.
corr_author: '1'
date_created: 2025-09-10T05:47:13Z
date_published: 2025-09-03T00:00:00Z
date_updated: 2025-12-30T09:35:54Z
day: '03'
ddc:
- '540'
department:
- _id: MaIb
doi: 10.1021/acsnano.5c07838
external_id:
isi:
- '001562960800001'
pmid:
- '40902118'
file:
- access_level: open_access
checksum: 81144f848478a130721e9ffa87b6831e
content_type: application/pdf
creator: dernst
date_created: 2025-12-30T09:35:44Z
date_updated: 2025-12-30T09:35:44Z
file_id: '20909'
file_name: 2025_ACSNano_Ibanez.pdf
file_size: 10956272
relation: main_file
success: 1
file_date_updated: 2025-12-30T09:35:44Z
has_accepted_license: '1'
intvolume: ' 19'
isi: 1
issue: '36'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: ' 31969–32051'
pmid: 1
project:
- _id: 9B8F7476-BA93-11EA-9121-9846C619BF3A
name: 'HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of
Semiconductors for Waste Heat Recovery'
publication: ACS Nano
publication_identifier:
eissn:
- 1936-086X
issn:
- 1936-0851
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Prospects of nanoscience with nanocrystals: 2025 edition'
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: 19
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20330'
abstract:
- lang: eng
text: The evolution of sexual dimorphism (the difference in average trait values
between females and males, SD), is often thought to be constrained by shared genetic
architecture between the sexes. Indeed, it is commonly expected that SD should
negatively correlate with the intersex correlation (the genetic correlation between
effects of segregating variants in females and males, r fm), either because (1)
traits with ancestrally low r fm are less constrained in their ability to respond
to sex-specific selection and thus evolve to be more dimorphic, or because (2)
sex-specific selection, driving sexual dimorphism evolution, also acts to reduce
r fm. Despite the intuitive appeal and prominence of these ideas, their generality
and the conditions in which they hold remain unclear. Here, we develop models
incorporating sex-specific stabilizing selection, mutation and genetic drift to
examine the relationship between r fm and SD. We show that the two commonly-discussed
mechanisms with the potential to generate a negative correlation between SD and
r fm could just as easily generate a positive association, since the standard
line of reasoning hinges on a hidden assumption that sex-specific adaptation more
frequently favors increased dimorphism than reduced dimorphism. Our results provide,
to our knowledge, the first mechanistic framework for understanding the conditions
under which a correlation between r fm and SD may arise and offer a compelling
explanation for inconsistent empirical evidence. We also make the intriguing observation
that—even when selection between the two sexes is identical—drift generates nonzero
SD. We quantify this effect and discuss its significance.
acknowledgement: We thank Tim Connallon for useful discussions and correspondence,
Himani Sachdeva and Nick Barton for comments on the manuscript and the Scientific
Computing unit at ISTA for technical support. GP is the recipient of a DOC Fellowship
of the Austrian Academy of Sciences at the Institute of Science and Technology Austria
(DOC 25817) and received funding from the European Union’s Horizon 2020 research
and innovation program under the Marie Skłodowska-Curie Grant (agreement no. 665385).
LH received funding from the European Research Council, under the HaplotypeStructure
Grant (grant no. 101055327) to Nick Barton.
article_number: iyaf175
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Gemma
full_name: Puixeu Sala, Gemma
id: 33AB266C-F248-11E8-B48F-1D18A9856A87
last_name: Puixeu Sala
orcid: 0000-0001-8330-1754
- first_name: Laura
full_name: Hayward, Laura
id: fc885ee5-24bf-11eb-ad7b-bcc5104c0c1b
last_name: Hayward
citation:
ama: 'Puixeu Sala G, Hayward L. The relationship between sexual dimorphism and intersex
correlation: Do models support intuition? Genetics. 2025;231(3). doi:10.1093/genetics/iyaf175'
apa: 'Puixeu Sala, G., & Hayward, L. (2025). The relationship between sexual
dimorphism and intersex correlation: Do models support intuition? Genetics.
Oxford University Press. https://doi.org/10.1093/genetics/iyaf175'
chicago: 'Puixeu Sala, Gemma, and Laura Hayward. “The Relationship between Sexual
Dimorphism and Intersex Correlation: Do Models Support Intuition?” Genetics.
Oxford University Press, 2025. https://doi.org/10.1093/genetics/iyaf175.'
ieee: 'G. Puixeu Sala and L. Hayward, “The relationship between sexual dimorphism
and intersex correlation: Do models support intuition?,” Genetics, vol.
231, no. 3. Oxford University Press, 2025.'
ista: 'Puixeu Sala G, Hayward L. 2025. The relationship between sexual dimorphism
and intersex correlation: Do models support intuition? Genetics. 231(3), iyaf175.'
mla: 'Puixeu Sala, Gemma, and Laura Hayward. “The Relationship between Sexual Dimorphism
and Intersex Correlation: Do Models Support Intuition?” Genetics, vol.
231, no. 3, iyaf175, Oxford University Press, 2025, doi:10.1093/genetics/iyaf175.'
short: G. Puixeu Sala, L. Hayward, Genetics 231 (2025).
corr_author: '1'
date_created: 2025-09-10T05:48:04Z
date_published: 2025-11-01T00:00:00Z
date_updated: 2026-01-05T13:04:07Z
day: '01'
ddc:
- '570'
department:
- _id: BeVi
- _id: NiBa
doi: 10.1093/genetics/iyaf175
ec_funded: 1
external_id:
isi:
- '001598595000001'
file:
- access_level: open_access
checksum: bbb73bbf8617812d4d8db4af92be9538
content_type: application/pdf
creator: dernst
date_created: 2026-01-05T13:03:18Z
date_updated: 2026-01-05T13:03:18Z
file_id: '20946'
file_name: 2025_Genetics_Puixeu.pdf
file_size: 1550562
relation: main_file
success: 1
file_date_updated: 2026-01-05T13:03:18Z
has_accepted_license: '1'
intvolume: ' 231'
isi: 1
issue: '3'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
project:
- _id: 9B9DFC9E-BA93-11EA-9121-9846C619BF3A
grant_number: '25817'
name: 'Sexual conflict: resolution, constraints and biomedical implications'
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: bd6958e0-d553-11ed-ba76-86eba6a76c00
grant_number: '101055327'
name: Understanding the evolution of continuous genomes
publication: Genetics
publication_identifier:
issn:
- 1943-2631
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'The relationship between sexual dimorphism and intersex correlation: Do models
support intuition?'
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: 231
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20331'
abstract:
- lang: eng
text: Here, we present a foundational investigation of charge transport through
three BODIPY-based molecules using the scanning tunneling microscope–break junction
(STM-BJ) technique. We demonstrate that molecular conductance through the BODIPY
core can be measured by introducing aurophilic linkers at the 2,6-positions. By
varying these linkers, we systematically modulate the frontier molecular orbital
energies and fine-tune transport behavior. Our experimental results are supported
by DFT-based calculations, which feature a new computationally efficient correction
to standard PBE-level transmission predictions. Together, these findings establish
the viability of BODIPY-based systems for molecular junction applications and
lay the groundwork for future studies of their single-molecule optoelectronic
properties.
acknowledged_ssus:
- _id: LifeSc
acknowledgement: We thank the National Science Foundation (No. NSF-DMR 2241180) for
supporting this research. Synthetic work at Columbia was funded in part by the Air
Force Office of Scientific Research (AFOSR), under Grant No. FA9550-22-1-0389. The
cryoprobe on the 500 MHz NMR instrument used in this research at Columbia was purchased
through the NIH Award No. S10OD026749. This work was supported in part by the Institute
of Science and Technology Austria. HRMS sample preparation, analysis, and data evaluation
were performed by Aikaterina Paraskevopoulou, Mass Spec Service, LSF, ISTA.
article_processing_charge: Yes (via OA deal)
article_type: letter_note
author:
- first_name: Emma
full_name: York, Emma
id: 08dde91e-8e0a-11f0-9d7d-9e8d80864f16
last_name: York
- first_name: Ilana
full_name: Stone, Ilana
last_name: Stone
- first_name: Wanzhuo
full_name: Shi, Wanzhuo
id: a3010425-87c8-11f0-8106-bec32bea74da
last_name: Shi
- first_name: Xavier
full_name: Roy, Xavier
last_name: Roy
- first_name: Latha
full_name: Venkataraman, Latha
id: 9ebb78a5-cc0d-11ee-8322-fae086a32caf
last_name: Venkataraman
orcid: 0000-0002-6957-6089
citation:
ama: York E, Stone I, Shi W, Roy X, Venkataraman L. Tuning conductance in BODIPY-based
single-molecule junctions. Nano Letters. 2025;25(36):13697-13702. doi:10.1021/acs.nanolett.5c03764
apa: York, E., Stone, I., Shi, W., Roy, X., & Venkataraman, L. (2025). Tuning
conductance in BODIPY-based single-molecule junctions. Nano Letters. American
Chemical Society. https://doi.org/10.1021/acs.nanolett.5c03764
chicago: York, Emma, Ilana Stone, Wanzhuo Shi, Xavier Roy, and Latha Venkataraman.
“Tuning Conductance in BODIPY-Based Single-Molecule Junctions.” Nano Letters.
American Chemical Society, 2025. https://doi.org/10.1021/acs.nanolett.5c03764.
ieee: E. York, I. Stone, W. Shi, X. Roy, and L. Venkataraman, “Tuning conductance
in BODIPY-based single-molecule junctions,” Nano Letters, vol. 25, no.
36. American Chemical Society, pp. 13697–13702, 2025.
ista: York E, Stone I, Shi W, Roy X, Venkataraman L. 2025. Tuning conductance in
BODIPY-based single-molecule junctions. Nano Letters. 25(36), 13697–13702.
mla: York, Emma, et al. “Tuning Conductance in BODIPY-Based Single-Molecule Junctions.”
Nano Letters, vol. 25, no. 36, American Chemical Society, 2025, pp. 13697–702,
doi:10.1021/acs.nanolett.5c03764.
short: E. York, I. Stone, W. Shi, X. Roy, L. Venkataraman, Nano Letters 25 (2025)
13697–13702.
corr_author: '1'
date_created: 2025-09-10T05:48:29Z
date_published: 2025-08-25T00:00:00Z
date_updated: 2025-12-30T09:39:55Z
day: '25'
ddc:
- '540'
department:
- _id: LaVe
doi: 10.1021/acs.nanolett.5c03764
external_id:
isi:
- '001557017200001'
pmid:
- '40855728'
file:
- access_level: open_access
checksum: bac881601e1f33c3cf8f51d50b958e68
content_type: application/pdf
creator: dernst
date_created: 2025-12-30T09:39:44Z
date_updated: 2025-12-30T09:39:44Z
file_id: '20910'
file_name: 2025_NanoLetters_York.pdf
file_size: 3144989
relation: main_file
success: 1
file_date_updated: 2025-12-30T09:39:44Z
has_accepted_license: '1'
intvolume: ' 25'
isi: 1
issue: '36'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 13697-13702
pmid: 1
publication: Nano Letters
publication_identifier:
eissn:
- 1530-6992
issn:
- 1530-6984
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Tuning conductance in BODIPY-based single-molecule junctions
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 25
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20349'
abstract:
- lang: eng
text: Oogenesis – the formation and development of an oocyte – is fundamental to
reproduction and embryonic development. Due to its accessibility to genetic manipulations
and the ability to culture and experimentally manipulate oocytes ex vivo, zebrafish
has emerged as a powerful vertebrate model system for studying oogenesis. In this
review, we provide a comprehensive overview of zebrafish oogenesis, from early
germ cell formation to oocyte maturation and fertilization. We discuss recent
advances in uncovering the molecular and cellular mechanisms driving this complex
process and highlight key knowledge gaps that remain to be addressed.
acknowledgement: We thank Carolina Camelo for making schematics for this review.
article_number: '103650'
article_processing_charge: Yes (via OA deal)
article_type: review
author:
- first_name: Laura
full_name: Hofmann, Laura
id: b88d43f2-dc74-11ea-a0a7-e41b7912e031
last_name: Hofmann
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: 'Hofmann L, Heisenberg C-PJ. Decoding zebrafish oogenesis: From primordial
germ cell development to fertilization. Seminars in Cell and Developmental
Biology. 2025;175. doi:10.1016/j.semcdb.2025.103650'
apa: 'Hofmann, L., & Heisenberg, C.-P. J. (2025). Decoding zebrafish oogenesis:
From primordial germ cell development to fertilization. Seminars in Cell and
Developmental Biology. Elsevier. https://doi.org/10.1016/j.semcdb.2025.103650'
chicago: 'Hofmann, Laura, and Carl-Philipp J Heisenberg. “Decoding Zebrafish Oogenesis:
From Primordial Germ Cell Development to Fertilization.” Seminars in Cell and
Developmental Biology. Elsevier, 2025. https://doi.org/10.1016/j.semcdb.2025.103650.'
ieee: 'L. Hofmann and C.-P. J. Heisenberg, “Decoding zebrafish oogenesis: From primordial
germ cell development to fertilization,” Seminars in Cell and Developmental
Biology, vol. 175. Elsevier, 2025.'
ista: 'Hofmann L, Heisenberg C-PJ. 2025. Decoding zebrafish oogenesis: From primordial
germ cell development to fertilization. Seminars in Cell and Developmental Biology.
175, 103650.'
mla: 'Hofmann, Laura, and Carl-Philipp J. Heisenberg. “Decoding Zebrafish Oogenesis:
From Primordial Germ Cell Development to Fertilization.” Seminars in Cell and
Developmental Biology, vol. 175, 103650, Elsevier, 2025, doi:10.1016/j.semcdb.2025.103650.'
short: L. Hofmann, C.-P.J. Heisenberg, Seminars in Cell and Developmental Biology
175 (2025).
corr_author: '1'
date_created: 2025-09-14T22:01:32Z
date_published: 2025-12-01T00:00:00Z
date_updated: 2025-12-30T10:21:13Z
day: '01'
ddc:
- '570'
department:
- _id: CaHe
doi: 10.1016/j.semcdb.2025.103650
external_id:
isi:
- '001567260100001'
pmid:
- '40913907'
file:
- access_level: open_access
checksum: 80ea6cbb004853bb1e87db3422a74aca
content_type: application/pdf
creator: dernst
date_created: 2025-12-30T10:21:00Z
date_updated: 2025-12-30T10:21:00Z
file_id: '20914'
file_name: 2025_SemCellDevBiology_Hofmann.pdf
file_size: 2778561
relation: main_file
success: 1
file_date_updated: 2025-12-30T10:21:00Z
has_accepted_license: '1'
intvolume: ' 175'
isi: 1
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
publication: Seminars in Cell and Developmental Biology
publication_identifier:
eissn:
- 1096-3634
issn:
- 1084-9521
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Decoding zebrafish oogenesis: From primordial germ cell development to fertilization'
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: 175
year: '2025'
...
---
OA_place: publisher
OA_type: diamond
PlanS_conform: '1'
_id: '20350'
abstract:
- lang: eng
text: "Context. Rotation plays an important role in stellar evolution. However,
the mechanisms behind the transport of angular momentum in stars at various stages
of their evolution are not well understood. To improve our understanding of these
processes, it is necessary to measure and validate the internal rotation profiles
of stars across different stages of evolution and mass regimes.\r\nAims. Our aim
is to constrain the internal rotation profile of the 12-M⊙ β Cep pulsator HD 192575
from the observed pulsational multiplets and the asymmetries of their component
frequencies.\r\nMethods. We updated the forward asteroseismic modelling of HD
192575 based on new TESS observations. We inverted the rotation profile from the
symmetric part of the splittings and computed the multiplet asymmetries due to
the Coriolis force and stellar deformation, which we treated perturbatively. We
compared the computed asymmetries with the observed asymmetries.\r\nResults. Our
new forward asteroseismic modelling is in agreement with previous results but
with increased uncertainties, partially due to increased frequency precision,
which required us to relax certain constraints. Ambiguity in the mode identification
is the main source of the uncertainty, which also affects the inferred rotation
profiles. Almost all acceptable rotation profiles occur in the regime below 0.4
d−1 and favour weak radial differential rotation, with a ratio of core to envelope
rotation of less than 2. We find that the quality of the match between the observed
and theoretically predicted mode asymmetries is strongly dependent on the mode
identification and the internal structure of the star.\r\nConclusions. Our results
offer the first detailed rotation inversion for a β Cep pulsator. They show that
the rotation profile and the mode asymmetries provide a valuable tool for further
constraining the evolutionary properties of HD 192575, and in particular the details
of angular momentum transport in massive stars."
acknowledgement: "The authors appreciated the critical comments from the\r\nreferee,
which encouraged V.V. to embark upon a new code development\r\nsprint. V.V. gratefully
acknowledges support from the Research Foundation\r\nFlanders (FWO) under grant
agreement N◦1156923N (PhD Fellowship) and\r\nN\r\n◦K233724N (Travel grant). D.M.B.
gratefully acknowledges support from\r\nthe Research Foundation Flanders (FWO; grant
number: 1286521N), and UK\r\nResearch and Innovation (UKRI) in the form of a Frontier
Research grant under\r\nthe UK government’s ERC Horizon Europe funding guarantee
(SYMPHONY;\r\ngrant number: EP/Y031059/1), and a Royal Society University Research
Fellowship (URF; grant number: URF\\R1\\231631). S.B.D. acknowledges funding from\r\nthe
European Union’s Horizon 2020 research and innovation programme under\r\nthe Marie
Skłodowska-Curie grant agreement No 101034413. L.B. gratefully\r\nacknowledges support
from the European Research Council (ERC) under the\r\nHorizon Europe programme (Calcifer;
Starting Grant agreement N◦101165631).\r\nS.M. acknowledges support from the PLATO
CNES grant at CEA/DAp.C.A.\r\nacknowledges financial support from the Research Foundation
Flanders (FWO)\r\nunder grant K802922N (Sabbatical leave); she is grateful for the
kind hospitality\r\noffered by CEA/Saclay during her sabbatical work visits in the
spring of 2023.\r\nThe research leading to these results has received funding from
the European\r\nResearch Council (ERC) under the Horizon Europe programme (Synergy
Grant\r\nagreement N◦101071505: 4D-STAR). While funded by the European Union,\r\nviews
and opinions expressed are however those of the author(s) only and do\r\nnot necessarily
reflect those of the European Union or the European Research\r\nCouncil. Neither
the European Union nor the granting authority can be held\r\nresponsible for them.
The TESS data presented in this paper were obtained from\r\nthe Mikulski Archive
for Space Telescopes (MAST) at the Space Telescope Science Institute (STScI), which
is operated by the Association of Universities for\r\nResearch in Astronomy, Inc.,
under NASA contract NAS5-26555. Support to\r\nMAST for these data is provided by
the NASA Office of Space Science via grant\r\nNAG5-7584 and by other grants and
contracts. Funding for the TESS mission\r\nwas provided by the NASA Explorer Program."
article_number: A5
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: V.
full_name: Vanlaer, V.
last_name: Vanlaer
- first_name: D. M.
full_name: Bowman, D. M.
last_name: Bowman
- first_name: S.
full_name: Burssens, S.
last_name: Burssens
- first_name: Srijan B
full_name: Das, Srijan B
id: 9ce7c423-dacf-11ed-8942-e09c6cb27149
last_name: Das
orcid: 0000-0003-0896-7972
- first_name: Lisa Annabelle
full_name: Bugnet, Lisa Annabelle
id: d9edb345-f866-11ec-9b37-d119b5234501
last_name: Bugnet
orcid: 0000-0003-0142-4000
- first_name: S.
full_name: Mathis, S.
last_name: Mathis
- first_name: C.
full_name: Aerts, C.
last_name: Aerts
citation:
ama: Vanlaer V, Bowman DM, Burssens S, et al. Interior rotation modelling of the
β Cep pulsator HD 192575 including multiplet asymmetries. Astronomy & Astrophysics.
2025;701. doi:10.1051/0004-6361/202452885
apa: Vanlaer, V., Bowman, D. M., Burssens, S., Das, S. B., Bugnet, L. A., Mathis,
S., & Aerts, C. (2025). Interior rotation modelling of the β Cep pulsator
HD 192575 including multiplet asymmetries. Astronomy & Astrophysics.
EDP Sciences. https://doi.org/10.1051/0004-6361/202452885
chicago: Vanlaer, V., D. M. Bowman, S. Burssens, Srijan B Das, Lisa Annabelle Bugnet,
S. Mathis, and C. Aerts. “Interior Rotation Modelling of the β Cep Pulsator HD
192575 Including Multiplet Asymmetries.” Astronomy & Astrophysics.
EDP Sciences, 2025. https://doi.org/10.1051/0004-6361/202452885.
ieee: V. Vanlaer et al., “Interior rotation modelling of the β Cep pulsator
HD 192575 including multiplet asymmetries,” Astronomy & Astrophysics,
vol. 701. EDP Sciences, 2025.
ista: Vanlaer V, Bowman DM, Burssens S, Das SB, Bugnet LA, Mathis S, Aerts C. 2025.
Interior rotation modelling of the β Cep pulsator HD 192575 including multiplet
asymmetries. Astronomy & Astrophysics. 701, A5.
mla: Vanlaer, V., et al. “Interior Rotation Modelling of the β Cep Pulsator HD 192575
Including Multiplet Asymmetries.” Astronomy & Astrophysics, vol. 701,
A5, EDP Sciences, 2025, doi:10.1051/0004-6361/202452885.
short: V. Vanlaer, D.M. Bowman, S. Burssens, S.B. Das, L.A. Bugnet, S. Mathis, C.
Aerts, Astronomy & Astrophysics 701 (2025).
date_created: 2025-09-14T22:01:32Z
date_published: 2025-09-01T00:00:00Z
date_updated: 2026-02-16T12:12:53Z
day: '01'
ddc:
- '520'
department:
- _id: LiBu
doi: 10.1051/0004-6361/202452885
ec_funded: 1
external_id:
arxiv:
- '2506.19948'
isi:
- '001561561200007'
file:
- access_level: open_access
checksum: 9ee9f34cf86305602d6cb3e07a1cc1a6
content_type: application/pdf
creator: dernst
date_created: 2025-09-15T06:58:09Z
date_updated: 2025-09-15T06:58:09Z
file_id: '20354'
file_name: 2025_AstronomyAstrophysics_Vanlaer.pdf
file_size: 3175077
relation: main_file
success: 1
file_date_updated: 2025-09-15T06:58:09Z
has_accepted_license: '1'
intvolume: ' 701'
isi: 1
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
- _id: 914d8549-16d5-11f0-9cad-bbe6324c93a9
grant_number: '101165631'
name: 'Unveiling the mysteries of stellar dynamics: a pioneering journey in magnetoasteroseismology'
publication: Astronomy & Astrophysics
publication_identifier:
eissn:
- 1432-0746
issn:
- 0004-6361
publication_status: published
publisher: EDP Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: Interior rotation modelling of the β Cep pulsator HD 192575 including multiplet
asymmetries
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: 701
year: '2025'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
PlanS_conform: '1'
_id: '20351'
abstract:
- lang: eng
text: Rab GTPases organize intracellular trafficking and provide identity to organelles.
Their spatiotemporal activation by guanine nucleotide exchange factors (GEFs)
is tightly controlled to ensure fidelity. Our structural and functional comparison
of the tri-longin domain RabGEFs Mon1-Ccz1 and Fuzzy-Inturned reveals the molecular
basis for their target specificity. Both complexes rely on a conserved sequence
motif of their substrate GTPases for the catalytic mechanism, while secondary
interactions allow discrimination between targets. We also find that dimeric Mon1-Ccz1
from fungi and the metazoan homologs with the additional third subunit RMC1/Bulli
bind membranes through electrostatic interactions via distinct interfaces. Protein-lipid
interaction studies and functional characterization in flies reveal an essential
function of RMC1/Bulli as mediator of GEF complex membrane recruitment. In the
case of Fuzzy-Inturned, reconstitution experiments demonstrate that the BAR (Bin-Amphiphysin-Rvs)
domain protein CiBAR1 can support membrane recruitment of the GEF. Collectively,
our study demonstrates the molecular basis for the adaptation of TLD-RabGEFs to
different cellular functions.
acknowledgement: 'We thank A.-M. Lawrence-Dörner and B. Berkenfeld for technical assistance
and the members of the Kümmel Lab for constructive feedback. We are grateful to
C. Ungermann and L. Langemeyer for insightful discussions and to F. Barr for providing
plasmids encoding Fuzzy, Inturned, Rab23, and Rsg1. The template clone Flag-ciBAR1
was a gift from K.-I. Takemaru (Addgene, plasmid #200440). We thank the Bloomington
Drosophila Stock center (BDSC) and DSHB for providing fly stocks and antibodies.
This work was supported by the German Research Foundation (DFG) through the grants
SFB1557-P10 (D.K.), SFB1557-P11 (A.M.), and SFB1577-P6, PA517/12-2, PA517/14-1,
PA517/15-1, and PA517/16-1 (A.P.). Cryo-EM data were collected at the infrastructure
of the University of Osnabrück, funded by the DFG (project number 455249646). J.-H.S.
was supported by the Friedrich-Ebert Foundation. M.L. acknowledges funding from
the European Research Council (ERC) under the European Union’s Horizon 2020 research
and innovation program (grant agreement number 101045340).'
article_processing_charge: Yes
article_type: original
author:
- first_name: Stephan
full_name: Wilmes, Stephan
last_name: Wilmes
- first_name: Jesse
full_name: Tönjes, Jesse
last_name: Tönjes
- first_name: Maik
full_name: Drechsler, Maik
last_name: Drechsler
- first_name: Anita
full_name: Ruf, Anita
last_name: Ruf
- first_name: Jan Hannes
full_name: Schäfer, Jan Hannes
last_name: Schäfer
- first_name: Anna
full_name: Lürick, Anna
last_name: Lürick
- first_name: Dovile
full_name: Januliene, Dovile
last_name: Januliene
- first_name: Steven
full_name: Apelt, Steven
last_name: Apelt
- first_name: Daniele
full_name: Di Iorio, Daniele
last_name: Di Iorio
- first_name: Seraphine V.
full_name: Wegner, Seraphine V.
last_name: Wegner
- first_name: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
- first_name: Arne
full_name: Moeller, Arne
last_name: Moeller
- first_name: Achim
full_name: Paululat, Achim
last_name: Paululat
- first_name: Daniel
full_name: Kümmel, Daniel
last_name: Kümmel
citation:
ama: Wilmes S, Tönjes J, Drechsler M, et al. Mechanistic adaptation of the metazoan
RabGEFs Mon1-Ccz1 and Fuzzy-Inturned. Science Advances. 2025;11(35):eadx2893.
doi:10.1126/sciadv.adx2893
apa: Wilmes, S., Tönjes, J., Drechsler, M., Ruf, A., Schäfer, J. H., Lürick, A.,
… Kümmel, D. (2025). Mechanistic adaptation of the metazoan RabGEFs Mon1-Ccz1
and Fuzzy-Inturned. Science Advances. AAAS. https://doi.org/10.1126/sciadv.adx2893
chicago: Wilmes, Stephan, Jesse Tönjes, Maik Drechsler, Anita Ruf, Jan Hannes Schäfer,
Anna Lürick, Dovile Januliene, et al. “Mechanistic Adaptation of the Metazoan
RabGEFs Mon1-Ccz1 and Fuzzy-Inturned.” Science Advances. AAAS, 2025. https://doi.org/10.1126/sciadv.adx2893.
ieee: S. Wilmes et al., “Mechanistic adaptation of the metazoan RabGEFs Mon1-Ccz1
and Fuzzy-Inturned,” Science Advances, vol. 11, no. 35. AAAS, p. eadx2893,
2025.
ista: Wilmes S, Tönjes J, Drechsler M, Ruf A, Schäfer JH, Lürick A, Januliene D,
Apelt S, Di Iorio D, Wegner SV, Loose M, Moeller A, Paululat A, Kümmel D. 2025.
Mechanistic adaptation of the metazoan RabGEFs Mon1-Ccz1 and Fuzzy-Inturned. Science
Advances. 11(35), eadx2893.
mla: Wilmes, Stephan, et al. “Mechanistic Adaptation of the Metazoan RabGEFs Mon1-Ccz1
and Fuzzy-Inturned.” Science Advances, vol. 11, no. 35, AAAS, 2025, p.
eadx2893, doi:10.1126/sciadv.adx2893.
short: S. Wilmes, J. Tönjes, M. Drechsler, A. Ruf, J.H. Schäfer, A. Lürick, D. Januliene,
S. Apelt, D. Di Iorio, S.V. Wegner, M. Loose, A. Moeller, A. Paululat, D. Kümmel,
Science Advances 11 (2025) eadx2893.
date_created: 2025-09-14T22:01:32Z
date_published: 2025-08-29T00:00:00Z
date_updated: 2025-09-30T14:40:27Z
day: '29'
ddc:
- '570'
department:
- _id: MaLo
doi: 10.1126/sciadv.adx2893
external_id:
isi:
- '001559806100033'
pmid:
- '40864718'
file:
- access_level: open_access
checksum: a3de801f3c6c1deadd7099d965db799a
content_type: application/pdf
creator: dernst
date_created: 2025-09-15T07:23:12Z
date_updated: 2025-09-15T07:23:12Z
file_id: '20355'
file_name: 2025_ScienceAdvance_Wilmes.pdf
file_size: 3434827
relation: main_file
success: 1
file_date_updated: 2025-09-15T07:23:12Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
issue: '35'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: eadx2893
pmid: 1
project:
- _id: bd6ae2ca-d553-11ed-ba76-a4aa239da5ee
grant_number: '101045340'
name: Synthetic and structural biology of Rab GTPase networks
publication: Science Advances
publication_identifier:
eissn:
- 2375-2548
publication_status: published
publisher: AAAS
quality_controlled: '1'
scopus_import: '1'
status: public
title: Mechanistic adaptation of the metazoan RabGEFs Mon1-Ccz1 and Fuzzy-Inturned
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: 11
year: '2025'
...
---
OA_place: repository
OA_type: green
_id: '20352'
abstract:
- lang: eng
text: "At high metallicity, a majority of massive stars have at least one close
stellar companion. The evolution of such binaries is subject to strong interaction
processes, which heavily impact the characteristics of their life-ending supernova
and compact remnants. For the low-metallicity environments of high-redshift galaxies,
constraints on the multiplicity properties of massive stars over the separation
range leading to binary interaction are crucially missing. Here we show that the
presence of massive stars in close binaries is ubiquitous, even at low metallicity.
Using the Very Large Telescope, we obtained multi-epoch radial velocity measurements
of a representative sample of 139 massive O-type stars across the Small Magellanic
Cloud, which has a metal content of about one-fifth of the solar value. We find
that 45% of them show radial velocity variations that demonstrate that they are
members of close binary systems, and predominantly have orbital periods shorter
than 1 year. Correcting for observational biases indicates that at least 70+11−6
% of the O stars in our sample are in close binaries, and that at least 68+7\r\n−8%
of all O stars interact with a companion star during their lifetime. We found
no evidence supporting a statistically significant trend of the multiplicity properties
with metallicity. Our results indicate that multiplicity and binary interactions
govern the evolution of massive stars and determine their cosmic feedback and
explosive fates."
acknowledgement: 'Based on data collected at the European Southern Observatory (ESO)
under programme ID 112.25R7. The research leading to these results has received
funding from the European Research Council (ERC) under the European Union’s Horizon
2020 and Horizon Europe research and innovation programme (grant agreement numbers
772225: MULTIPLES, 772086: ASSESS and 945806: TEL-STARS, ADG101054731: Stellar-BHs-SDSS-V,
and 101164755: METAL). This research was supported by the Israel Science Foundation
(ISF) under grant number 0603225041. We acknowledge support from the Science and
Technology Facilities Council (research grant ST/V000853/1 and ST/V000233/1), UK
Research and Innovation (UKRI) and the UK government’s ERC Horizon Europe funding
guarantee (grant number EP/Y031059/1), a Royal Society University Research Fellowship
(grant number URF\R1\231631), a Royal Society–Science Foundation Ireland University
Research Fellowship, the German Deutsche Forschungsgemeinschaft (Project-ID 496854903,
445674056 and 443790621, Germany’s Excellence Strategy EXC 2181/1-390900948), the
Klaus Tschira Foundation, the JSPS Kakenhi Grant-in-Aid for Scientific Research
(23K19071) and international fellowships (at the Graduate school of Science, Tokyo
University), the Australian Research Council (ARC) Centre of Excellence for Gravitational
Wave Discovery (OzGrav; project number CE230100016), the Deutsches Zentrum für Luft
und Raumfahrt (DLR) grants FKZ 50OR2005 and 50OR2306, Agencia Española de Investigación
(AEI) of the Spanish Ministerio de Ciencia Innovación y Universidades (MICIU) and
the European Regional Development Fund, FEDER and Severo Ochoa Programme (grants
PID2021-122397NB-C21 and CEX2019-000920-S), the NextGeneration EU/PRTR and MIU (UNI/551/2021)
trough grant Margarita Salas-UL, the CAPES-Br and FAPERJ/DSC-10 (SEI-260003/001630/2023),
MCIN/AEI/10.13039/501100011033 by ‘ERDF A way of making Europe’ (grants PID2019-105552RB-C41
and PID2022-137779OB-C41, PID2021-125485NB-C22, CEX2019-000918-M) funded by MCIN/AEI/10.13039/501100011033
(State Agency for Research of the Spanish Ministry of Science and Innovation) and
SGR-2021-01069 (AGAUR), the Spanish Government Ministerio de Ciencia e Innovación
and Agencia Estatal de Investigación (10.13 039/501 100 011 033; grant PID2022-136
640 NB-C22), the Consejo Superior de Investigaciones Científicas (CSIC; grant 2022-AEP
005), the Polish National Agency for Academic Exchange (BEKKER fellowship BPN/BEK/2022/1/00106)
and National Science Center (NCN, Poland; grant number OPUS 2021/41/B/ST9/00757),
the ‘La Caixa’ Foundation (ID 100010434) under the fellowship code LCF/BQ/PI23/11970035,
the Research foundation Flanders (FWO) PhD fellowship under project 11E1721N and
senior postdoctoral fellowship under number 12ZY523N, and the Netherlands Research
Council NWO (VIDI 203.061 grant).'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: H.
full_name: Sana, H.
last_name: Sana
- first_name: T.
full_name: Shenar, T.
last_name: Shenar
- first_name: J.
full_name: Bodensteiner, J.
last_name: Bodensteiner
- first_name: N.
full_name: Britavskiy, N.
last_name: Britavskiy
- first_name: N.
full_name: Langer, N.
last_name: Langer
- first_name: D. J.
full_name: Lennon, D. J.
last_name: Lennon
- first_name: L.
full_name: Mahy, L.
last_name: Mahy
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full_name: Mandel, I.
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full_name: De Mink, S. E.
last_name: De Mink
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last_name: Dirickx
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full_name: Abdul-Masih, M.
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last_name: Gräfener
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full_name: Götberg, Ylva Louise Linsdotter
id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d
last_name: Götberg
orcid: 0000-0002-6960-6911
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full_name: Hawcroft, C.
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- first_name: J.
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- first_name: B.
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- first_name: L. M.
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last_name: Pauli
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- first_name: V.
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last_name: Ramachandran
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full_name: Renzo, M.
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- first_name: A. A.C.
full_name: Sander, A. A.C.
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- first_name: F. R.N.
full_name: Schneider, F. R.N.
last_name: Schneider
- first_name: A.
full_name: Schootemeijer, A.
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- first_name: E. C.
full_name: Schösser, E. C.
last_name: Schösser
- first_name: C.
full_name: Schürmann, C.
last_name: Schürmann
- first_name: K.
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- first_name: S.
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last_name: Shahaf
- first_name: S.
full_name: Simón-Díaz, S.
last_name: Simón-Díaz
- first_name: L. A.C.
full_name: Van Son, L. A.C.
last_name: Van Son
- first_name: M.
full_name: Stoop, M.
last_name: Stoop
- first_name: S.
full_name: Toonen, S.
last_name: Toonen
- first_name: F.
full_name: Tramper, F.
last_name: Tramper
- first_name: R.
full_name: Valli, R.
last_name: Valli
- first_name: A.
full_name: Vigna-Gómez, A.
last_name: Vigna-Gómez
- first_name: J. S.
full_name: Vink, J. S.
last_name: Vink
- first_name: C.
full_name: Wang, C.
last_name: Wang
- first_name: R.
full_name: Willcox, R.
last_name: Willcox
citation:
ama: Sana H, Shenar T, Bodensteiner J, et al. A high fraction of close massive binary
stars at low metallicity. Nature Astronomy. 2025;9:1337-1346. doi:10.1038/s41550-025-02610-x
apa: Sana, H., Shenar, T., Bodensteiner, J., Britavskiy, N., Langer, N., Lennon,
D. J., … Willcox, R. (2025). A high fraction of close massive binary stars at
low metallicity. Nature Astronomy. Springer Nature. https://doi.org/10.1038/s41550-025-02610-x
chicago: Sana, H., T. Shenar, J. Bodensteiner, N. Britavskiy, N. Langer, D. J. Lennon,
L. Mahy, et al. “A High Fraction of Close Massive Binary Stars at Low Metallicity.”
Nature Astronomy. Springer Nature, 2025. https://doi.org/10.1038/s41550-025-02610-x.
ieee: H. Sana et al., “A high fraction of close massive binary stars at low
metallicity,” Nature Astronomy, vol. 9. Springer Nature, pp. 1337–1346,
2025.
ista: Sana H, Shenar T, Bodensteiner J, Britavskiy N, Langer N, Lennon DJ, Mahy
L, Mandel I, De Mink SE, Patrick LR, Villaseñor JI, Dirickx M, Abdul-Masih M,
Almeida LA, Backs F, Berlanas SR, Bernini-Peron M, Bowman DM, Bronner VA, Crowther
PA, Deshmukh K, Evans CJ, Fabry M, Gieles M, Gilkis A, González-Torà G, Gräfener
G, Götberg YLL, Hawcroft C, Hénault-Brunet V, Herrero A, Holgado G, Izzard RG,
De Koter A, Janssens S, Johnston C, Josiek J, Justham S, Kalari VM, Klencki J,
Kubát J, Kubátová B, Lefever RR, Van Loon JT, Ludwig B, Mackey J, Maíz Apellániz
J, Maravelias G, Marchant P, Mazeh T, Menon A, Moe M, Najarro F, Oskinova LM,
Ovadia R, Pauli D, Pawlak M, Ramachandran V, Renzo M, Rocha DF, Sander AAC, Schneider
FRN, Schootemeijer A, Schösser EC, Schürmann C, Sen K, Shahaf S, Simón-Díaz S,
Van Son LAC, Stoop M, Toonen S, Tramper F, Valli R, Vigna-Gómez A, Vink JS, Wang
C, Willcox R. 2025. A high fraction of close massive binary stars at low metallicity.
Nature Astronomy. 9, 1337–1346.
mla: Sana, H., et al. “A High Fraction of Close Massive Binary Stars at Low Metallicity.”
Nature Astronomy, vol. 9, Springer Nature, 2025, pp. 1337–46, doi:10.1038/s41550-025-02610-x.
short: H. Sana, T. Shenar, J. Bodensteiner, N. Britavskiy, N. Langer, D.J. Lennon,
L. Mahy, I. Mandel, S.E. De Mink, L.R. Patrick, J.I. Villaseñor, M. Dirickx, M.
Abdul-Masih, L.A. Almeida, F. Backs, S.R. Berlanas, M. Bernini-Peron, D.M. Bowman,
V.A. Bronner, P.A. Crowther, K. Deshmukh, C.J. Evans, M. Fabry, M. Gieles, A.
Gilkis, G. González-Torà, G. Gräfener, Y.L.L. Götberg, C. Hawcroft, V. Hénault-Brunet,
A. Herrero, G. Holgado, R.G. Izzard, A. De Koter, S. Janssens, C. Johnston, J.
Josiek, S. Justham, V.M. Kalari, J. Klencki, J. Kubát, B. Kubátová, R.R. Lefever,
J.T. Van Loon, B. Ludwig, J. Mackey, J. Maíz Apellániz, G. Maravelias, P. Marchant,
T. Mazeh, A. Menon, M. Moe, F. Najarro, L.M. Oskinova, R. Ovadia, D. Pauli, M.
Pawlak, V. Ramachandran, M. Renzo, D.F. Rocha, A.A.C. Sander, F.R.N. Schneider,
A. Schootemeijer, E.C. Schösser, C. Schürmann, K. Sen, S. Shahaf, S. Simón-Díaz,
L.A.C. Van Son, M. Stoop, S. Toonen, F. Tramper, R. Valli, A. Vigna-Gómez, J.S.
Vink, C. Wang, R. Willcox, Nature Astronomy 9 (2025) 1337–1346.
date_created: 2025-09-14T22:01:32Z
date_published: 2025-09-02T00:00:00Z
date_updated: 2025-12-30T10:27:05Z
day: '02'
department:
- _id: YlGo
doi: 10.1038/s41550-025-02610-x
external_id:
arxiv:
- '2509.12488'
isi:
- '001568077900001'
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language:
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page: 1337-1346
publication: Nature Astronomy
publication_identifier:
eissn:
- 2397-3366
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: A high fraction of close massive binary stars at low metallicity
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20367'
abstract:
- lang: eng
text: We prove upper and lower bounds on the number of pairs of commuting n x n
matrices with integer entries in [-T, T], as T -> . Our work uses Fourier analysis
and leads to an analysis of exponential sums involving matrices over finite fields.
These are bounded by combining a stratification result of Fouvry and Katz with
a new result about the flatness of the commutator Lie bracket.
acknowledgement: The authors are very grateful to Alina Ostafe, Matthew Satriano and
Igor Shparlinski for drawing their attention to this problem and for useful comments,
and to Michael Larsen and Peter Sarnak for their helpful correspondence. We also
thank the referee for their valuable input. While working on this paper the first
author was supported by a FWF grant (DOI 10.55776/P36278), the second author by
a Sloan Research Fellowship, and the third author by the European Union’s Horizon
2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement
No. 101034413. 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: Timothy D
full_name: Browning, Timothy D
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
- first_name: Will
full_name: Sawin, Will
last_name: Sawin
- first_name: Victor
full_name: Wang, Victor
id: 76096395-aea4-11ed-a680-ab8ebbd3f1b9
last_name: Wang
orcid: 0000-0002-0704-7026
citation:
ama: Browning TD, Sawin W, Wang V. Pairs of commuting integer matrices. Mathematische
Annalen. 2025;393:1863–1880. doi:10.1007/s00208-025-03285-5
apa: Browning, T. D., Sawin, W., & Wang, V. (2025). Pairs of commuting integer
matrices. Mathematische Annalen. Springer Nature. https://doi.org/10.1007/s00208-025-03285-5
chicago: Browning, Timothy D, Will Sawin, and Victor Wang. “Pairs of Commuting Integer
Matrices.” Mathematische Annalen. Springer Nature, 2025. https://doi.org/10.1007/s00208-025-03285-5.
ieee: T. D. Browning, W. Sawin, and V. Wang, “Pairs of commuting integer matrices,”
Mathematische Annalen, vol. 393. Springer Nature, pp. 1863–1880, 2025.
ista: Browning TD, Sawin W, Wang V. 2025. Pairs of commuting integer matrices. Mathematische
Annalen. 393, 1863–1880.
mla: Browning, Timothy D., et al. “Pairs of Commuting Integer Matrices.” Mathematische
Annalen, vol. 393, Springer Nature, 2025, pp. 1863–1880, doi:10.1007/s00208-025-03285-5.
short: T.D. Browning, W. Sawin, V. Wang, Mathematische Annalen 393 (2025) 1863–1880.
corr_author: '1'
date_created: 2025-09-21T22:01:31Z
date_published: 2025-10-01T00:00:00Z
date_updated: 2026-01-05T13:15:53Z
day: '01'
ddc:
- '510'
department:
- _id: TiBr
doi: 10.1007/s00208-025-03285-5
ec_funded: 1
external_id:
arxiv:
- '2409.01920'
isi:
- '001567740200001'
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checksum: 1e94da1a67306e03c8e0086518faf4bc
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creator: dernst
date_created: 2026-01-05T13:15:44Z
date_updated: 2026-01-05T13:15:44Z
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month: '10'
oa: 1
oa_version: Published Version
page: 1863–1880
project:
- _id: bd8a4fdc-d553-11ed-ba76-80a0167441a3
grant_number: P36278
name: Rational curves via function field analytic number theory
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Mathematische Annalen
publication_identifier:
eissn:
- 1432-1807
issn:
- 0025-5831
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Pairs of commuting integer matrices
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: 393
year: '2025'
...
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abstract:
- lang: eng
text: The Huntingtin protein (HTT), named for its role in Huntington’s disease,
has been best understood as a scaffolding protein that promotes vesicle transport
by molecular motors along microtubules. Here, we show that HTT also interacts
with the actin cytoskeleton, and its loss of function disturbs the morphology
and function of the axonal growth cone. We demonstrate that HTT organizes F-actin
into bundles. Cryo–electron tomography (cryo-ET) and subtomogram averaging (STA)
structural analyses reveal that HTT’s N-terminal HEAT and Bridge domains wrap
around F-actin, while the C-terminal HEAT domain is displaced; furthermore, HTT
dimerizes via the N-HEAT domain to bridge parallel actin filaments separated by
~20 nanometers. Our study provides the structural basis for understanding how
HTT interacts with and organizes the actin cytoskeleton.
acknowledgement: 'We thank C. Cuveillier, J. Delaroche, T. Ferraro, and A. Zanchi
for help with TIRF experiments, electron microscopy preparation, data analysis,
and cell cultures, respectively; A. Antkowiak, C. Bosc, C. Fassier, A. Fourest-Lieuvin,
and V. Brandt for helpful discussions. We acknowledge the contribution of the Photonic
Imaging Center of Grenoble Institute Neuroscience which is part of the ISdV core
facility and certified by the IBiSA label and ICM.Quant (RRID:SCR_026393) core facility
of the Paris Brain Institute (ICM); the AniRA lentivector production facility from
the CELPHEDIA Infrastructure and SFR Biosciences (UAR3444/CNRS, US8/Inserm, ENS
de Lyon, UCBL); the Scientific Service Units (SSUs) of ISTA through resources provided
by Scientific Computing (SciComp, A. Schloegl and S. Elefante); and the Electron
Microscopy Facility (EMF, V.V. Hodirnau). The software programs used for the processing
were supported by SBGrid (www.sbgrid.org). This work was supported by the Agence
Nationale pour la Recherche (AXYON: ANR-18-CE16-0009-01, S.H.), Austrian Science
Fund (FWF) grants (P33367, F.K.M.S.; E435, J.M.H.), ChanZuckerberg Initiative (CZI)
grant (DAF2021-234754, F.K.M.S.), Hereditary Disease Foundation Research Grant (HDF
990846, M.C.), European Union (ERC: ActinID 101076260, F.K.M.S.), Fondation pour
la Recherche Médicale (FRM: équipe labellisée DEQ202203014675, S.H.; PhD fellowship,
FDT202001010865, R.C.), Korea Health Industry Development Institute (KHIDI) (Korea-Switzerland
global research support grant: RS-2023-00266300, J.-J.S.), National Research Foundation
(NRF) of Korea (Korea-Austria collaborative grant NRF-2019K1A3A1A181160, J.-J.S.
and F.K.M.S.; NRF-2020R1A2B5B03001517 and RS-2024-00333346 and RS-2024-00436173,
J.-J.S.; 2021R1C1C1006700, D.K.).'
article_number: eadw4124
article_processing_charge: Yes
article_type: original
author:
- first_name: Rémi
full_name: Carpentier, Rémi
last_name: Carpentier
- first_name: Jaesung
full_name: Kim, Jaesung
last_name: Kim
- first_name: Mariacristina
full_name: Capizzi, Mariacristina
last_name: Capizzi
- first_name: Hyeongju
full_name: Kim, Hyeongju
last_name: Kim
- first_name: Florian
full_name: Fäßler, Florian
id: 404F5528-F248-11E8-B48F-1D18A9856A87
last_name: Fäßler
orcid: 0000-0001-7149-769X
- first_name: Jesse
full_name: Hansen, Jesse
id: 1063c618-6f9b-11ec-9123-f912fccded63
last_name: Hansen
orcid: 0000-0001-7967-2085
- first_name: Min Jeong
full_name: Kim, Min Jeong
last_name: Kim
- first_name: Eric
full_name: Denarier, Eric
last_name: Denarier
- first_name: Béatrice
full_name: Blot, Béatrice
last_name: Blot
- first_name: Marine
full_name: Degennaro, Marine
last_name: Degennaro
- first_name: Sophia
full_name: Labou, Sophia
last_name: Labou
- first_name: Isabelle
full_name: Arnal, Isabelle
last_name: Arnal
- first_name: Maria J.
full_name: Marcaida, Maria J.
last_name: Marcaida
- first_name: Matteo Dal
full_name: Peraro, Matteo Dal
last_name: Peraro
- first_name: Doory
full_name: Kim, Doory
last_name: Kim
- first_name: Florian KM
full_name: Schur, Florian KM
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
- first_name: Ji-Joon
full_name: Song, Ji-Joon
last_name: Song
- first_name: Sandrine
full_name: Humbert, Sandrine
last_name: Humbert
citation:
ama: Carpentier R, Kim J, Capizzi M, et al. Structure of the Huntingtin F-actin
complex reveals its role in cytoskeleton organization. Science Advances.
2025;11(38). doi:10.1126/sciadv.adw4124
apa: Carpentier, R., Kim, J., Capizzi, M., Kim, H., Fäßler, F., Hansen, J., … Humbert,
S. (2025). Structure of the Huntingtin F-actin complex reveals its role in cytoskeleton
organization. Science Advances. AAAS. https://doi.org/10.1126/sciadv.adw4124
chicago: Carpentier, Rémi, Jaesung Kim, Mariacristina Capizzi, Hyeongju Kim, Florian
Fäßler, Jesse Hansen, Min Jeong Kim, et al. “Structure of the Huntingtin F-Actin
Complex Reveals Its Role in Cytoskeleton Organization.” Science Advances.
AAAS, 2025. https://doi.org/10.1126/sciadv.adw4124.
ieee: R. Carpentier et al., “Structure of the Huntingtin F-actin complex
reveals its role in cytoskeleton organization,” Science Advances, vol.
11, no. 38. AAAS, 2025.
ista: Carpentier R, Kim J, Capizzi M, Kim H, Fäßler F, Hansen J, Kim MJ, Denarier
E, Blot B, Degennaro M, Labou S, Arnal I, Marcaida MJ, Peraro MD, Kim D, Schur
FK, Song J-J, Humbert S. 2025. Structure of the Huntingtin F-actin complex reveals
its role in cytoskeleton organization. Science Advances. 11(38), eadw4124.
mla: Carpentier, Rémi, et al. “Structure of the Huntingtin F-Actin Complex Reveals
Its Role in Cytoskeleton Organization.” Science Advances, vol. 11, no.
38, eadw4124, AAAS, 2025, doi:10.1126/sciadv.adw4124.
short: R. Carpentier, J. Kim, M. Capizzi, H. Kim, F. Fäßler, J. Hansen, M.J. Kim,
E. Denarier, B. Blot, M. Degennaro, S. Labou, I. Arnal, M.J. Marcaida, M.D. Peraro,
D. Kim, F.K. Schur, J.-J. Song, S. Humbert, Science Advances 11 (2025).
corr_author: '1'
date_created: 2025-09-22T08:00:52Z
date_published: 2025-09-19T00:00:00Z
date_updated: 2026-02-16T11:45:54Z
day: '19'
ddc:
- '570'
department:
- _id: FlSc
doi: 10.1126/sciadv.adw4124
external_id:
isi:
- '001575751700013'
pmid:
- '40971423'
file:
- access_level: open_access
checksum: 4e2407bdabf8d53f399eb8a20d86218e
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creator: dernst
date_created: 2025-09-23T07:57:51Z
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file_id: '20372'
file_name: 2025_ScienceAdvance_Carpentier.pdf
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has_accepted_license: '1'
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month: '09'
oa: 1
oa_version: Published Version
pmid: 1
project:
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grant_number: P33367
name: Structure and isoform diversity of the Arp2/3 complex
- _id: 7bd318a1-9f16-11ee-852c-cc9217763180
grant_number: E435
name: In Situ Actin Structures via Hybrid Cryo-electron Microscopy
- _id: 62909c6f-2b32-11ec-9570-e1476aab5308
grant_number: CZI01
name: CryoMinflux-guided in-situ molecular census and structure determination
- _id: bd980d18-d553-11ed-ba76-ceaa645c97eb
grant_number: '101076260'
name: A molecular atlas of Actin filament IDentities in the cell motility machinery
publication: Science Advances
publication_identifier:
issn:
- 2375-2548
publication_status: published
publisher: AAAS
quality_controlled: '1'
scopus_import: '1'
status: public
title: Structure of the Huntingtin F-actin complex reveals its role in cytoskeleton
organization
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 11
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20374'
abstract:
- lang: eng
text: Pioneer transcription factors (TFs) engage chromatinized DNA motifs. However,
it is unclear how the resultant TF-nucleosome complexes are decoded by co-factors.
In humans, the TF p53 regulates cell-cycle progression, apoptosis, and the DNA
damage response, with a large fraction of p53-bound sites residing in nucleosome-harboring
inaccessible chromatin. We examined the interaction of chromatin-bound p53 with
co-factors belonging to the ubiquitin proteasome system (UPS). At two distinct
motif locations on the nucleosome (super-helical location [SHL]−5.7 and SHL+5.9),
the E3 ubiquitin ligase E6-E6AP was unable to bind nucleosome-engaged p53. The
deubiquitinase USP7, on the other hand, readily engages nucleosome-bound p53 in
vitro and in cells. A corresponding cryo-electron microscopy (cryo-EM) structure
shows USP7 engaged with p53 and nucleosomes. Our work illustrates how chromatin
imposes a co-factor-selective barrier for p53 interactors, whereby flexibly tethered
interaction domains of co-factors and TFs govern compatibility between co-factors,
TFs, and chromatin.
acknowledgement: We thank M. Schütz for laboratory management, organization, and assistance
with manuscript editing. We are grateful to all Thomä and Schübeler lab members.
We thank Ulrich Hassiepen from Novartis for his support and insightful discussions
on the kinetic analysis. This work was supported by funding from the European Research
Council (ERC), under the European Union’s H2020 research program (NucEM, grant no.
884331); the Swiss National Science Foundation (SNF, grant no. 310030_301206 and
310030_214852); Krebsforschung (KFS, grant no. KFS-5933-08-2023); Novartis Research
Foundation (to N.H.T.); the Novartis Freenovation (grant no. FN23-0000000514 to
C.R.S.); the National Health and Medical Research Council CJ Martin Fellowship (APP1148380);
the EU Horizon 2020 Research and Innovation Program under the Marie Sklodowska-Curie
grant (grant no. 748760); the South Australian immunoGENomics Cancer Institute grant
funding from the Australian Government; and the Sylvia and Charles Viertel Charitable
Foundation Senior Medical Research Fellowship (to L.I.).
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Deyasini
full_name: Chakraborty, Deyasini
last_name: Chakraborty
- first_name: Colby R.
full_name: Sandate, Colby R.
last_name: Sandate
- first_name: Luke
full_name: Isbel, Luke
last_name: Isbel
- first_name: Georg
full_name: Kempf, Georg
last_name: Kempf
- first_name: Joscha
full_name: Weiss, Joscha
last_name: Weiss
- first_name: Simone
full_name: Cavadini, Simone
last_name: Cavadini
- first_name: Lukas
full_name: Kater, Lukas
last_name: Kater
- first_name: Jan
full_name: Seebacher, Jan
last_name: Seebacher
- first_name: Zuzanna
full_name: Kozicka, Zuzanna
last_name: Kozicka
- first_name: Lisa
full_name: Stoos, Lisa
last_name: Stoos
- first_name: Ralph S.
full_name: Grand, Ralph S.
last_name: Grand
- first_name: Dirk
full_name: Schübeler, Dirk
last_name: Schübeler
- first_name: Alicia
full_name: Michael, Alicia
id: 6437c950-2a03-11ee-914d-d6476dd7b75c
last_name: Michael
orcid: 0000-0002-6080-839X
- first_name: Nicolas H.
full_name: Thomä, Nicolas H.
last_name: Thomä
citation:
ama: Chakraborty D, Sandate CR, Isbel L, et al. Nucleosomes specify co-factor access
to p53. Molecular Cell. 2025;85(15):2919-2936.e12. doi:10.1016/j.molcel.2025.06.027
apa: Chakraborty, D., Sandate, C. R., Isbel, L., Kempf, G., Weiss, J., Cavadini,
S., … Thomä, N. H. (2025). Nucleosomes specify co-factor access to p53. Molecular
Cell. Elsevier. https://doi.org/10.1016/j.molcel.2025.06.027
chicago: Chakraborty, Deyasini, Colby R. Sandate, Luke Isbel, Georg Kempf, Joscha
Weiss, Simone Cavadini, Lukas Kater, et al. “Nucleosomes Specify Co-Factor Access
to P53.” Molecular Cell. Elsevier, 2025. https://doi.org/10.1016/j.molcel.2025.06.027.
ieee: D. Chakraborty et al., “Nucleosomes specify co-factor access to p53,”
Molecular Cell, vol. 85, no. 15. Elsevier, p. 2919–2936.e12, 2025.
ista: Chakraborty D, Sandate CR, Isbel L, Kempf G, Weiss J, Cavadini S, Kater L,
Seebacher J, Kozicka Z, Stoos L, Grand RS, Schübeler D, Michael AK, Thomä NH.
2025. Nucleosomes specify co-factor access to p53. Molecular Cell. 85(15), 2919–2936.e12.
mla: Chakraborty, Deyasini, et al. “Nucleosomes Specify Co-Factor Access to P53.”
Molecular Cell, vol. 85, no. 15, Elsevier, 2025, p. 2919–2936.e12, doi:10.1016/j.molcel.2025.06.027.
short: D. Chakraborty, C.R. Sandate, L. Isbel, G. Kempf, J. Weiss, S. Cavadini,
L. Kater, J. Seebacher, Z. Kozicka, L. Stoos, R.S. Grand, D. Schübeler, A.K. Michael,
N.H. Thomä, Molecular Cell 85 (2025) 2919–2936.e12.
date_created: 2025-09-23T08:56:13Z
date_published: 2025-08-07T00:00:00Z
date_updated: 2025-09-24T08:21:55Z
day: '07'
ddc:
- '570'
department:
- _id: AlMi
doi: 10.1016/j.molcel.2025.06.027
file:
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checksum: e60390ca629b350af3221d4718ca6534
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creator: dernst
date_created: 2025-09-24T07:54:03Z
date_updated: 2025-09-24T07:54:03Z
file_id: '20386'
file_name: 2025_MolecularCell_Chakraborty.pdf
file_size: 41813494
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success: 1
file_date_updated: 2025-09-24T07:54:03Z
has_accepted_license: '1'
intvolume: ' 85'
issue: '15'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 2919-2936.e12
publication: Molecular Cell
publication_identifier:
issn:
- 1097-2765
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Nucleosomes specify co-factor access to p53
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: 85
year: '2025'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
PlanS_conform: '1'
_id: '20402'
abstract:
- lang: eng
text: The recent classification of the onset of turbulence as a directed percolation
(DP) phase transition has been applied to all major shear flows including pipe,
channel, Couette and boundary layer flows. A cornerstone of the DP analogy is
the memoryless (Poisson) property of turbulent sites. We here show that, for the
classic case of channel flow, neither the decay nor the proliferation of turbulent
stripes is memoryless. As demonstrated by a standard analysis of the respective
survival curves, isolated channel stripes, in the immediate vicinity of the critical
point, age. Consequently, the one to one mapping between turbulent stripes and
active DP-sites is not fulfilled in this low Reynolds number regime. In addition,
the interpretation of turbulence as a chaotic saddle with supertransient properties,
the basis of recent theoretical progress, does not apply to individual localized
stripes. The discrepancy between channel flow and the transition models established
for pipe and Couette flow, illustrates that seemingly minor geometrical differences
between flows can give rise to instabilities and growth mechanisms that fundamentally
alter the nature of the transition to turbulence.
acknowledgement: This work was supported by a grant from the Simons Foundation (662960,
BH). We thank Yohann Duguet for helpful discussions, Baofang Song for the initial
adaptation of openpipeflow57 to the channel geometry, and Ashley P. Willis for openpipeflow57.
article_number: '8447'
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: Mukund
full_name: Vasudevan, Mukund
id: 3C5A959A-F248-11E8-B48F-1D18A9856A87
last_name: Vasudevan
- first_name: Chaitanya S
full_name: Paranjape, Chaitanya S
id: 3D85B7C4-F248-11E8-B48F-1D18A9856A87
last_name: Paranjape
- first_name: Michael Philip
full_name: Sitte, Michael Philip
id: 0ba0f1f2-9cfe-11f0-bee6-f95318d225b0
last_name: Sitte
- first_name: Gökhan
full_name: Yalniz, Gökhan
id: 66E74FA2-D8BF-11E9-8249-8DE2E5697425
last_name: Yalniz
orcid: 0000-0002-8490-9312
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Vasudevan M, Paranjape CS, Sitte MP, Yalniz G, Hof B. Aging and memory of transitional
turbulence. Nature Communications. 2025;16. doi:10.1038/s41467-025-63044-7
apa: Vasudevan, M., Paranjape, C. S., Sitte, M. P., Yalniz, G., & Hof, B. (2025).
Aging and memory of transitional turbulence. Nature Communications. Springer
Nature. https://doi.org/10.1038/s41467-025-63044-7
chicago: Vasudevan, Mukund, Chaitanya S Paranjape, Michael Philip Sitte, Gökhan
Yalniz, and Björn Hof. “Aging and Memory of Transitional Turbulence.” Nature
Communications. Springer Nature, 2025. https://doi.org/10.1038/s41467-025-63044-7.
ieee: M. Vasudevan, C. S. Paranjape, M. P. Sitte, G. Yalniz, and B. Hof, “Aging
and memory of transitional turbulence,” Nature Communications, vol. 16.
Springer Nature, 2025.
ista: Vasudevan M, Paranjape CS, Sitte MP, Yalniz G, Hof B. 2025. Aging and memory
of transitional turbulence. Nature Communications. 16, 8447.
mla: Vasudevan, Mukund, et al. “Aging and Memory of Transitional Turbulence.” Nature
Communications, vol. 16, 8447, Springer Nature, 2025, doi:10.1038/s41467-025-63044-7.
short: M. Vasudevan, C.S. Paranjape, M.P. Sitte, G. Yalniz, B. Hof, Nature Communications
16 (2025).
corr_author: '1'
date_created: 2025-09-27T13:27:31Z
date_published: 2025-09-26T00:00:00Z
date_updated: 2025-12-01T12:40:27Z
day: '26'
ddc:
- '532'
department:
- _id: BjHo
doi: 10.1038/s41467-025-63044-7
external_id:
arxiv:
- '2112.06537'
isi:
- '001582555200041'
file:
- access_level: open_access
checksum: 945926ead9cde464435d456427e2869e
content_type: application/pdf
creator: gyalniz
date_created: 2025-09-27T13:32:03Z
date_updated: 2025-09-27T13:32:03Z
file_id: '20403'
file_name: s41467-025-63044-7.pdf
file_size: 2226082
relation: main_file
file_date_updated: 2025-09-27T13:32:03Z
has_accepted_license: '1'
intvolume: ' 16'
isi: 1
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: 238598C6-32DE-11EA-91FC-C7463DDC885E
grant_number: '662960'
name: Revisiting the Turbulence Problem Using Statistical Mechanics
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Aging and memory of transitional turbulence
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'
...