---
OA_place: repository
OA_type: green
_id: '21042'
abstract:
- lang: eng
text: "Many blockchains such as Ethereum execute all incoming transactions sequentially
significantly limiting the potential throughput. A common approach to scale execution
is parallel execution engines that fully utilize modern multi-core architectures.
Parallel execution is then either done optimistically, by executing transactions
in parallel and detecting conflicts on the fly, or guided, by requiring exhaustive
client transaction hints and scheduling transactions accordingly.\r\n\r\nHowever,
recent studies have shown that the performance of parallel execution engines depends
on the nature of the underlying workload. In fact, in some cases, only a 60% speed-up
compared to sequential execution could be obtained. This is the case, as transactions
that access the same resources must be executed sequentially. For example, if
10% of the transactions in a block access the same resource, the execution cannot
meaningfully scale beyond 10 cores. Therefore, a single popular application can
bottleneck the execution and limit the potential throughput.\r\n\r\nIn this paper,
we introduce Anthemius, a block construction algorithm that optimizes parallel
transaction execution throughput. We evaluate Anthemius exhaustively under a range
of workloads, and show that Anthemius enables the underlying parallel execution
engine to process over twice as many transactions."
acknowledgement: This work was supported by the Austrian Science Fund (FWF) SFB project
SpyCoDe F8502 and the Vienna Science and Technology Fund (WWTF) project SCALE2 CT22-045.
alternative_title:
- LNCS
article_processing_charge: No
arxiv: 1
author:
- first_name: Ray
full_name: Neiheiser, Ray
id: f09651b9-fec0-11ec-b5d8-934aff0e52a4
last_name: Neiheiser
orcid: 0000-0001-7227-8309
- first_name: Eleftherios
full_name: Kokoris Kogias, Eleftherios
id: f5983044-d7ef-11ea-ac6d-fd1430a26d30
last_name: Kokoris Kogias
orcid: 0000-0002-8827-3382
citation:
ama: 'Neiheiser R, Kokoris Kogias E. Anthemius: Efficient and modular block assembly
for concurrent execution. In: 29th International Conference on Financial Cryptography
and Data Security. Vol 15751. Springer Nature; 2026:307-323. doi:10.1007/978-3-032-07024-1_18'
apa: 'Neiheiser, R., & Kokoris Kogias, E. (2026). Anthemius: Efficient and modular
block assembly for concurrent execution. In 29th International Conference on
Financial Cryptography and Data Security (Vol. 15751, pp. 307–323). Miyakojima,
Japan: Springer Nature. https://doi.org/10.1007/978-3-032-07024-1_18'
chicago: 'Neiheiser, Ray, and Eleftherios Kokoris Kogias. “Anthemius: Efficient
and Modular Block Assembly for Concurrent Execution.” In 29th International
Conference on Financial Cryptography and Data Security, 15751:307–23. Springer
Nature, 2026. https://doi.org/10.1007/978-3-032-07024-1_18.'
ieee: 'R. Neiheiser and E. Kokoris Kogias, “Anthemius: Efficient and modular block
assembly for concurrent execution,” in 29th International Conference on Financial
Cryptography and Data Security, Miyakojima, Japan, 2026, vol. 15751, pp. 307–323.'
ista: 'Neiheiser R, Kokoris Kogias E. 2026. Anthemius: Efficient and modular block
assembly for concurrent execution. 29th International Conference on Financial
Cryptography and Data Security. FC: Financial Cryptography and Data Security,
LNCS, vol. 15751, 307–323.'
mla: 'Neiheiser, Ray, and Eleftherios Kokoris Kogias. “Anthemius: Efficient and Modular
Block Assembly for Concurrent Execution.” 29th International Conference on
Financial Cryptography and Data Security, vol. 15751, Springer Nature, 2026,
pp. 307–23, doi:10.1007/978-3-032-07024-1_18.'
short: R. Neiheiser, E. Kokoris Kogias, in:, 29th International Conference on Financial
Cryptography and Data Security, Springer Nature, 2026, pp. 307–323.
conference:
end_date: 2025-04-18
location: Miyakojima, Japan
name: 'FC: Financial Cryptography and Data Security'
start_date: 2025-04-14
corr_author: '1'
date_created: 2026-01-25T23:01:40Z
date_published: 2026-01-01T00:00:00Z
date_updated: 2026-02-12T13:39:07Z
day: '01'
department:
- _id: KrPi
doi: 10.1007/978-3-032-07024-1_18
external_id:
arxiv:
- '2502.10074'
intvolume: ' 15751'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2502.10074
month: '01'
oa: 1
oa_version: Preprint
page: 307-323
project:
- _id: 34a1b658-11ca-11ed-8bc3-c75229f0241e
grant_number: F8502
name: Interface Theory for Security and Privacy
- _id: 7bdd2f70-9f16-11ee-852c-b7950bc6d277
grant_number: ICT22-045
name: SeCure, privAte, and interoperabLe layEr 2
publication: 29th International Conference on Financial Cryptography and Data Security
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783032070234'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Anthemius: Efficient and modular block assembly for concurrent execution'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15751
year: '2026'
...
---
OA_place: repository
OA_type: green
_id: '21044'
abstract:
- lang: eng
text: 'Scalability is a crucial requirement for modern large-scale systems, enabling
elasticity and ensuring responsiveness under varying load. While cloud systems
have achieved scalable architectures, blockchain systems remain constrained by
the need to over-provision validator machines to handle peak load. This leads
to resource inefficiency, poor cost scaling, and limits on performance. To address
these challenges, we introduce Pilotfish, the first scale-out transaction execution
engine for blockchains. Pilotfish enables validators to scale horizontally by
distributing transaction execution across multiple worker machines, allowing elasticity
without compromising consistency or determinism. It integrates seamlessly with
the lazy blockchain architecture, completing the missing piece of execution elasticity.
To achieve this, Pilotfish tackles several key challenges: ensuring scalable and
strongly consistent distributed transactions, handling partial crash recovery
with lightweight replication, and maintaining concurrency with a novel versioned-queue
scheduling algorithm. Our evaluation shows that Pilotfish scales linearly up to
at least eight workers per validator for compute-bound workloads, while maintaining
low latency. By solving scalable execution, Pilotfish brings blockchains closer
to achieving end-to-end elasticity, unlocking new possibilities for efficient
and adaptable blockchain systems.'
alternative_title:
- LNCS
article_processing_charge: No
arxiv: 1
author:
- first_name: Quentin
full_name: Kniep, Quentin
last_name: Kniep
- first_name: Eleftherios
full_name: Kokoris Kogias, Eleftherios
id: f5983044-d7ef-11ea-ac6d-fd1430a26d30
last_name: Kokoris Kogias
orcid: 0000-0002-8827-3382
- first_name: Alberto
full_name: Sonnino, Alberto
last_name: Sonnino
- first_name: Igor
full_name: Zablotchi, Igor
last_name: Zablotchi
- first_name: Nuda
full_name: Zhang, Nuda
last_name: Zhang
citation:
ama: 'Kniep Q, Kokoris Kogias E, Sonnino A, Zablotchi I, Zhang N. Pilotfish: Distributed
execution for scalable blockchains. In: 29th International Conference on Financial
Cryptography and Data Security. Vol 15751. Springer Nature; 2026:287-306.
doi:10.1007/978-3-032-07024-1_17'
apa: 'Kniep, Q., Kokoris Kogias, E., Sonnino, A., Zablotchi, I., & Zhang, N.
(2026). Pilotfish: Distributed execution for scalable blockchains. In 29th
International Conference on Financial Cryptography and Data Security (Vol.
15751, pp. 287–306). Miyakojima, Japan: Springer Nature. https://doi.org/10.1007/978-3-032-07024-1_17'
chicago: 'Kniep, Quentin, Eleftherios Kokoris Kogias, Alberto Sonnino, Igor Zablotchi,
and Nuda Zhang. “Pilotfish: Distributed Execution for Scalable Blockchains.” In
29th International Conference on Financial Cryptography and Data Security,
15751:287–306. Springer Nature, 2026. https://doi.org/10.1007/978-3-032-07024-1_17.'
ieee: 'Q. Kniep, E. Kokoris Kogias, A. Sonnino, I. Zablotchi, and N. Zhang, “Pilotfish:
Distributed execution for scalable blockchains,” in 29th International Conference
on Financial Cryptography and Data Security, Miyakojima, Japan, 2026, vol.
15751, pp. 287–306.'
ista: 'Kniep Q, Kokoris Kogias E, Sonnino A, Zablotchi I, Zhang N. 2026. Pilotfish:
Distributed execution for scalable blockchains. 29th International Conference
on Financial Cryptography and Data Security. FC: Financial Cryptography and Data
Security, LNCS, vol. 15751, 287–306.'
mla: 'Kniep, Quentin, et al. “Pilotfish: Distributed Execution for Scalable Blockchains.”
29th International Conference on Financial Cryptography and Data Security,
vol. 15751, Springer Nature, 2026, pp. 287–306, doi:10.1007/978-3-032-07024-1_17.'
short: Q. Kniep, E. Kokoris Kogias, A. Sonnino, I. Zablotchi, N. Zhang, in:, 29th
International Conference on Financial Cryptography and Data Security, Springer
Nature, 2026, pp. 287–306.
conference:
end_date: 2025-04-18
location: Miyakojima, Japan
name: 'FC: Financial Cryptography and Data Security'
start_date: 2025-04-14
date_created: 2026-01-25T23:01:41Z
date_published: 2026-01-01T00:00:00Z
date_updated: 2026-02-16T07:56:09Z
day: '01'
doi: 10.1007/978-3-032-07024-1_17
external_id:
arxiv:
- '2401.16292'
intvolume: ' 15751'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2401.16292
month: '01'
oa: 1
oa_version: Preprint
page: 287-306
publication: 29th International Conference on Financial Cryptography and Data Security
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783032070234'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Pilotfish: Distributed execution for scalable blockchains'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15751
year: '2026'
...
---
OA_place: publisher
OA_type: diamond
PlanS_conform: '1'
_id: '21045'
abstract:
- lang: eng
text: 'The abundant population of little red dots (LRDs), compact objects with red
UV to optical colors and broad Balmer lines at high redshift, is revealing new
insights into the properties of early active galactic nuclei (AGN). Perhaps the
most surprising features of this population are the presence of Balmer absorption
and ubiquitous strong Balmer breaks. Recent models link these features to an active
supermassive black hole (SMBH) cocooned in very dense gas (NH ∼ 1024 cm−2). We
present a stringent test of such models using VLT/MUSE observations of A2744-45924,
the most luminous LRD known to date (LHα ≈ 1044 erg s−1), located behind the Abell-2744
lensing cluster at z = 4.464 (μ = 1.8). We detect a moderately extended Lyα nebula
(h ≈ 5.7 pkpc), spatially offset from the point-like Hα seen by JWST by ≈1.6 pkpc.
The Lyα emission is narrow (FWHM = 270 ± 15 km s−1), and faint (Lyα = 0.07Hα)
compared to Lyα nebulae typically observed around quasars of similar luminosity.
We detect compact N IV]λ1486 emission, spatially aligned with Hα, and a spatial
shift in the far-UV continuum matching the Lyα offset. We discuss that Hα and
Lyα have distinct physical origins: Hα originates from the AGN, while Lyα is powered
by star formation. In the environment of A2744-45924, we identified four extended
Lyα halos (Δz < 0.02, Δr < 100 pkpc). Their Lyα luminosities match the expectations
based on Hα emission, and show no evidence for radiation from A2744-45924 affecting
its surroundings. The lack of strong, compact, and broad Lyα and the absence of
a luminous extended halo, suggest that the UV AGN light is obscured by dense gas
cloaking the SMBH with a covering factor close to unity.'
acknowledgement: 'We thank the anonymous referee for constructive and useful comments.
We thank Sebastiano Cantalupo for comments on the draft. Based on observations collected
at the European Organisation for Astronomical Research in the Southern Hemisphere
under ESO programme 114.27M6.001. Funded by the European Union (ERC, AGENTS, 101076224).
Views and opinions expressed are however those of the author(s) only and do not
necessarily reflect those of the European Union or the European Research Council.
Neither the European Union nor the granting authority can be held responsible for
them. We acknowledge funding from JWST program GO-3516. This work is based in part
on observations made with the NASA/ESA/CSA James Webb Space Telescope. The data
were obtained from the Mikulski Archive for Space Telescopes at the Space Telescope
Science Institute, which is operated by the Association of Universities for Research
in Astronomy, Inc., under NASA contract NAS 5-03127 for JWST. These observations
are associated with program #3516. MG thanks the Max Planck Society for support
through the MPRG. FDE acknowledges support by the Science and Technology Facilities
Council (STFC), by the ERC through Advanced Grant 695671 “QUENCH”, and by the UKRI
Frontier Research grant RISEandFALL. TU acknowledges funding from the ERC-AdG grant
SPECMAP-CGM, GA 101020943. GK acknowledges support from the MERAC foundation.'
article_number: A147
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Alberto
full_name: Torralba Torregrosa, Alberto
id: 018f0249-0e87-11f0-b167-cbce08fbd541
last_name: Torralba Torregrosa
orcid: 0000-0001-5586-6950
- first_name: Jorryt J
full_name: Matthee, Jorryt J
id: 7439a258-f3c0-11ec-9501-9df22fe06720
last_name: Matthee
orcid: 0000-0003-2871-127X
- first_name: Gabriele
full_name: Pezzulli, Gabriele
last_name: Pezzulli
- first_name: Tanya
full_name: Urrutia, Tanya
last_name: Urrutia
- first_name: Max
full_name: Gronke, Max
last_name: Gronke
- first_name: Sara
full_name: Mascia, Sara
id: edaf889c-c7cd-11ef-ab1b-bb28c431bd29
last_name: Mascia
- first_name: Francesco
full_name: D’Eugenio, Francesco
last_name: D’Eugenio
- first_name: Claudia
full_name: Di Cesare, Claudia
id: 2d002343-372f-11ef-98ec-a164d20427cb
last_name: Di Cesare
- first_name: Anna Christina
full_name: Eilers, Anna Christina
last_name: Eilers
- first_name: Jenny E.
full_name: Greene, Jenny E.
last_name: Greene
- first_name: Edoardo
full_name: Iani, Edoardo
id: 4053390a-6b68-11ef-9828-a3b8adef8d0a
last_name: Iani
orcid: 0000-0001-8386-3546
- first_name: Yuzo
full_name: Ishikawa, Yuzo
last_name: Ishikawa
- first_name: Ruari
full_name: Mackenzie, Ruari
last_name: Mackenzie
- first_name: Rohan P.
full_name: Naidu, Rohan P.
last_name: Naidu
- first_name: Benjamín
full_name: Navarrete, Benjamín
id: aa14a535-50c9-11ef-b52e-e0c373d10148
last_name: Navarrete
- first_name: Gauri
full_name: Kotiwale, Gauri
id: 1438afc8-1ff6-11ee-9fa6-cd4a75d66875
last_name: Kotiwale
citation:
ama: Torralba Torregrosa A, Matthee JJ, Pezzulli G, et al. A weak Ly α halo for
an extremely bright little red dot. Indications of enshrouded supermassive black
hole growth. Astronomy and Astrophysics. 2026;705. doi:10.1051/0004-6361/202555596
apa: Torralba Torregrosa, A., Matthee, J. J., Pezzulli, G., Urrutia, T., Gronke,
M., Mascia, S., … Kotiwale, G. (2026). A weak Ly α halo for an extremely bright
little red dot. Indications of enshrouded supermassive black hole growth. Astronomy
and Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/202555596
chicago: Torralba Torregrosa, Alberto, Jorryt J Matthee, Gabriele Pezzulli, Tanya
Urrutia, Max Gronke, Sara Mascia, Francesco D’Eugenio, et al. “A Weak Ly α Halo
for an Extremely Bright Little Red Dot. Indications of Enshrouded Supermassive
Black Hole Growth.” Astronomy and Astrophysics. EDP Sciences, 2026. https://doi.org/10.1051/0004-6361/202555596.
ieee: A. Torralba Torregrosa et al., “A weak Ly α halo for an extremely bright
little red dot. Indications of enshrouded supermassive black hole growth,” Astronomy
and Astrophysics, vol. 705. EDP Sciences, 2026.
ista: Torralba Torregrosa A, Matthee JJ, Pezzulli G, Urrutia T, Gronke M, Mascia
S, D’Eugenio F, Di Cesare C, Eilers AC, Greene JE, Iani E, Ishikawa Y, Mackenzie
R, Naidu RP, Navarrete B, Kotiwale G. 2026. A weak Ly α halo for an extremely
bright little red dot. Indications of enshrouded supermassive black hole growth.
Astronomy and Astrophysics. 705, A147.
mla: Torralba Torregrosa, Alberto, et al. “A Weak Ly α Halo for an Extremely Bright
Little Red Dot. Indications of Enshrouded Supermassive Black Hole Growth.” Astronomy
and Astrophysics, vol. 705, A147, EDP Sciences, 2026, doi:10.1051/0004-6361/202555596.
short: A. Torralba Torregrosa, J.J. Matthee, G. Pezzulli, T. Urrutia, M. Gronke,
S. Mascia, F. D’Eugenio, C. Di Cesare, A.C. Eilers, J.E. Greene, E. Iani, Y. Ishikawa,
R. Mackenzie, R.P. Naidu, B. Navarrete, G. Kotiwale, Astronomy and Astrophysics
705 (2026).
corr_author: '1'
date_created: 2026-01-25T23:01:41Z
date_published: 2026-01-14T00:00:00Z
date_updated: 2026-02-16T07:46:53Z
day: '14'
ddc:
- '520'
department:
- _id: JoMa
- _id: GradSch
doi: 10.1051/0004-6361/202555596
external_id:
arxiv:
- '2505.09542'
file:
- access_level: open_access
checksum: 3782e03bc0843438aae8487f6af779c5
content_type: application/pdf
creator: dernst
date_created: 2026-02-16T07:35:03Z
date_updated: 2026-02-16T07:35:03Z
file_id: '21224'
file_name: 2026_AstronomyAstrophysics_Torralba.pdf
file_size: 2259914
relation: main_file
success: 1
file_date_updated: 2026-02-16T07:35:03Z
has_accepted_license: '1'
intvolume: ' 705'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: bd9b2118-d553-11ed-ba76-db24564edfea
grant_number: '101076224'
name: Young galaxies as tracers and agents of cosmic reionization
publication: Astronomy and Astrophysics
publication_identifier:
eissn:
- 1432-0746
issn:
- 0004-6361
publication_status: published
publisher: EDP Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: A weak Ly α halo for an extremely bright little red dot. Indications of enshrouded
supermassive black hole growth
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: 705
year: '2026'
...
---
OA_place: repository
OA_type: green
_id: '21056'
abstract:
- lang: eng
text: "In this work, we introduce and study what we believe is an intriguing, and,
to the best of our knowledge, previously unknown connection between two fundamental
areas in computational topology, namely topological data analysis (TDA) and knot
theory. Given a function from a topological space to ℝ, TDA provides tools to
simplify and study the importance of topological features: in particular, the
\U0001D459^\U0001D461ℎ-dimensional persistence diagram encodes the topological
changes (or \U0001D459-homology) in the sublevel set as the function value increases
into a set of points in the plane. Given a continuous one parameter family of
such functions, we can combine the persistence diagrams into an object known as
a vineyard, which tracks the evolution of points in the persistence diagram as
the function changes. If we further restrict that family of functions to be periodic,
we identify the two ends of the vineyard, yielding a closed vineyard. This allows
the study of monodromy, which in this context means that following the family
of functions for a period permutes the set of points in a non-trivial way. Recent
work has studied monodromy in the directional persistent homology transform, demonstrating
some interesting connections between an input shape and monodromy in the persistent
homology transform for 0-dimensional homology embedded in ℝ^2.\r\nIn this work,
given a link and a value \U0001D459, we construct a topological space (based on
the given link) and periodic family of functions on this space (based on the Euclidean
distance function), such that the closed \U0001D459-vineyard contains this link.
This shows that vineyards are topologically as rich as one could possibly hope,
suggesting many future directions of work. Importantly, it has at least two immediate
consequences we explicitly point out:\r\n1.\tMonodromy of any periodicity can
occur in a \U0001D459-vineyard for any \U0001D459. This answers a variant of a
question by Arya and collaborators. To exhibit this as a consequence of our first
main result we also reformulate monodromy in a more geometric way, which may be
of interest in itself.\r\n2.\tTopologically distinguishing closed vineyards is
likely to be difficult (from a complexity theory as well as from a practical perspective)
because of the difficulty of knot and link recognition, which have strong connections
to many NP-hard problems."
acknowledgement: We thank the reviewers for both SODA and ATMCS for their comments,
whichimproved the exposition. We thank Kate Turner for discussion and Clément Maria
for pointing out thatAlexander’s theorem was already (well) known. Mathijs Wintraecken
would like to express his gratitude tothe administrative support he received from
University of Notre Dame during his visit and from Sophie Honnoratand Stephanie
Verdonck at Inria in general.This work has been supported by the ANR grant StratMesh,
ANR-24-CE48-1899, by NSF award 2444309, andthe welcome package from IDEX of the
Université Côte d’Azur, ANR-15-IDEX-01.
article_processing_charge: No
arxiv: 1
author:
- first_name: Erin W.
full_name: Chambers, Erin W.
last_name: Chambers
- first_name: Christopher D
full_name: Fillmore, Christopher D
id: 35638A5C-AAC7-11E9-B0BF-5503E6697425
last_name: Fillmore
- first_name: Elizabeth R
full_name: Stephenson, Elizabeth R
id: 2D04F932-F248-11E8-B48F-1D18A9856A87
last_name: Stephenson
orcid: 0000-0002-6862-208X
- first_name: Mathijs
full_name: Wintraecken, Mathijs
id: 307CFBC8-F248-11E8-B48F-1D18A9856A87
last_name: Wintraecken
orcid: 0000-0002-7472-2220
citation:
ama: 'Chambers EW, Fillmore CD, Stephenson ER, Wintraecken M. Braiding Vineyards.
In: Green Larsen K, Saha B, eds. Proceedings of the 2026 Annual ACM-SIAM Symposium
on Discrete Algorithms. Philadelphia, PA, United States: Society for Industrial
and Applied Mathematics; 2026:6240-6263. doi:10.1137/1.9781611978971.225'
apa: 'Chambers, E. W., Fillmore, C. D., Stephenson, E. R., & Wintraecken, M.
(2026). Braiding Vineyards. In K. Green Larsen & B. Saha (Eds.), Proceedings
of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms (pp. 6240–6263).
Philadelphia, PA, United States: Society for Industrial and Applied Mathematics.
https://doi.org/10.1137/1.9781611978971.225'
chicago: 'Chambers, Erin W., Christopher D Fillmore, Elizabeth R Stephenson, and
Mathijs Wintraecken. “Braiding Vineyards.” In Proceedings of the 2026 Annual
ACM-SIAM Symposium on Discrete Algorithms, edited by Kasper Green Larsen and
Barna Saha, 6240–63. Philadelphia, PA, United States: Society for Industrial and
Applied Mathematics, 2026. https://doi.org/10.1137/1.9781611978971.225.'
ieee: 'E. W. Chambers, C. D. Fillmore, E. R. Stephenson, and M. Wintraecken, “Braiding
Vineyards,” in Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete
Algorithms, K. Green Larsen and B. Saha, Eds. Philadelphia, PA, United States:
Society for Industrial and Applied Mathematics, 2026, pp. 6240–6263.'
ista: 'Chambers EW, Fillmore CD, Stephenson ER, Wintraecken M. 2026.Braiding Vineyards.
In: Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms.
, 6240–6263.'
mla: Chambers, Erin W., et al. “Braiding Vineyards.” Proceedings of the 2026
Annual ACM-SIAM Symposium on Discrete Algorithms, edited by Kasper Green Larsen
and Barna Saha, Society for Industrial and Applied Mathematics, 2026, pp. 6240–63,
doi:10.1137/1.9781611978971.225.
short: E.W. Chambers, C.D. Fillmore, E.R. Stephenson, M. Wintraecken, in:, K. Green
Larsen, B. Saha (Eds.), Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete
Algorithms, Society for Industrial and Applied Mathematics, Philadelphia, PA,
United States, 2026, pp. 6240–6263.
date_created: 2026-01-28T12:58:16Z
date_published: 2026-01-07T00:00:00Z
date_updated: 2026-02-16T08:06:23Z
day: '07'
department:
- _id: HeEd
doi: 10.1137/1.9781611978971.225
editor:
- first_name: Kasper
full_name: Green Larsen, Kasper
last_name: Green Larsen
- first_name: Barna
full_name: Saha, Barna
last_name: Saha
external_id:
arxiv:
- '2504.11203'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2504.11203
month: '01'
oa: 1
oa_version: Preprint
page: 6240-6263
place: Philadelphia, PA, United States
publication: Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms
publication_identifier:
eisbn:
- '9781611978971'
publication_status: published
publisher: Society for Industrial and Applied Mathematics
quality_controlled: '1'
related_material:
record:
- id: '21051'
relation: earlier_version
status: public
status: public
title: Braiding Vineyards
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2026'
...
---
OA_place: publisher
OA_type: gold
_id: '21113'
abstract:
- lang: eng
text: 'Causal discovery from i.i.d. observational data is known to be generally
ill-posed. We demonstrate that if we have access to the distribution induced by
a structural causal model, and additional data from (in the best case) only two
environments that sufficiently differ in the noise statistics, the unique causal
graph is identifiable. Notably, this is the first result in the literature that
guarantees the entire causal graph recovery with a constant number of environments
and arbitrary nonlinear mechanisms. Our only constraint is the Gaussianity of
the noise terms; however, we propose potential ways to relax this requirement.
Of interest on its own, we expand on the well-known duality between independent
component analysis (ICA) and causal discovery; recent advancements have shown
that nonlinear ICA can be solved from multiple environments, at least as many
as the number of sources: we show that the same can be achieved for causal discovery
while having access to much less auxiliary information.'
article_processing_charge: No
arxiv: 1
author:
- first_name: Francesco
full_name: Montagna, Francesco
id: 353afc8e-19f4-11f0-9db9-811f1723c83f
last_name: Montagna
citation:
ama: 'Montagna F. On the identifiability of causal graphs with multiple environments.
In: The 14th International Conference on Learning Representations. OpenReview.'
apa: 'Montagna, F. (n.d.). On the identifiability of causal graphs with multiple
environments. In The 14th International Conference on Learning Representations.
Rio de Janeiro, Brazil: OpenReview.'
chicago: Montagna, Francesco. “On the Identifiability of Causal Graphs with Multiple
Environments.” In The 14th International Conference on Learning Representations.
OpenReview, n.d.
ieee: F. Montagna, “On the identifiability of causal graphs with multiple environments,”
in The 14th International Conference on Learning Representations, Rio de
Janeiro, Brazil.
ista: 'Montagna F. On the identifiability of causal graphs with multiple environments.
The 14th International Conference on Learning Representations. ICLR: International
Conference on Learning Representations.'
mla: Montagna, Francesco. “On the Identifiability of Causal Graphs with Multiple
Environments.” The 14th International Conference on Learning Representations,
OpenReview.
short: F. Montagna, in:, The 14th International Conference on Learning Representations,
OpenReview, n.d.
conference:
end_date: 2026-04-27
location: Rio de Janeiro, Brazil
name: 'ICLR: International Conference on Learning Representations'
start_date: 2026-04-23
corr_author: '1'
date_created: 2026-01-30T08:16:25Z
date_published: 2026-02-11T00:00:00Z
date_updated: 2026-02-16T08:15:11Z
day: '11'
ddc:
- '000'
department:
- _id: FrLo
external_id:
arxiv:
- '2510.13583'
has_accepted_license: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2510.13583
month: '02'
oa: 1
oa_version: Published Version
publication: The 14th International Conference on Learning Representations
publication_status: accepted
publisher: OpenReview
status: public
title: On the identifiability of causal graphs with multiple environments
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2026'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
PlanS_conform: '1'
_id: '21115'
abstract:
- lang: eng
text: Quantifying cell morphology is central to understanding cellular regulation,
fate, and heterogeneity, yet conventional image-based analyses often struggle
with diverse or irregular shapes. We present a computational framework that uses
topological data analysis to characterise and compare single-cell morphologies
from fluorescence microscopy. Each cell is represented by its contour together
with the position of its nucleus, from which we construct a filtration based on
a radial distance function and derive a persistence diagram encoding the shape’s
topological evolution. The similarity between two cells is quantified using the
2-Wasserstein distance between their diagrams, yielding a shape distance we call
the PH distance. We apply this method to two representative experimental systems—primary
human mesenchymal stem cells (hMSCs) and HeLa cells—and show that PH distances
enable the detection of outliers in those systems, the identification of sub-populations,
and the quantification of shape heterogeneity. We benchmark PH against three established
contour-based distances (aspect ratio, Fourier descriptors, and elastic shape
analysis) and show that PH offers better separation between cell types and greater
robustness when clustering heterogeneous populations. Together, these results
demonstrate that persistent-homology-based signatures provide a principled and
sensitive approach for analysing cell morphology in settings where traditional
geometric or image-based descriptors are insufficient.
acknowledgement: We thank Stephan Huckemann, Katharine Turner, Benjamin Eltzner, Stephan
Tillmann, Fariza Rashid, Vanessa Robins, and Lamiae Azizi for many useful discussions
at various stages of this project. FR and PY gratefully acknowledge Matthias Weiss
(Experimental Physics I, University of Bayreuth, Germany) for granting access to
cell culture and laboratories, as well as funding consumables and the fruitful discussion
that contributed to this work. For open access purposes, the author has applied
a CC BY public copyright license to any author-accepted manuscript version arising
from this submission.
article_number: e1013890
article_processing_charge: Yes
article_type: original
author:
- first_name: Yossi
full_name: Bleile, Yossi
id: 920a7385-7995-11ef-9bfd-8c434cd8f3c2
last_name: Bleile
orcid: 0000-0002-4861-9174
- first_name: Pooja
full_name: Yadav, Pooja
last_name: Yadav
- first_name: Patrice
full_name: Koehl, Patrice
last_name: Koehl
- first_name: Florian
full_name: Rehfeldt, Florian
last_name: Rehfeldt
citation:
ama: 'Bleile Y, Yadav P, Koehl P, Rehfeldt F. Persistence diagrams as morphological
signatures of cells: A method to measure and compare cells within a population.
PLoS Computational Biology. 2026;22. doi:10.1371/journal.pcbi.1013890'
apa: 'Bleile, Y., Yadav, P., Koehl, P., & Rehfeldt, F. (2026). Persistence diagrams
as morphological signatures of cells: A method to measure and compare cells within
a population. PLoS Computational Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1013890'
chicago: 'Bleile, Yossi, Pooja Yadav, Patrice Koehl, and Florian Rehfeldt. “Persistence
Diagrams as Morphological Signatures of Cells: A Method to Measure and Compare
Cells within a Population.” PLoS Computational Biology. Public Library
of Science, 2026. https://doi.org/10.1371/journal.pcbi.1013890.'
ieee: 'Y. Bleile, P. Yadav, P. Koehl, and F. Rehfeldt, “Persistence diagrams as
morphological signatures of cells: A method to measure and compare cells within
a population,” PLoS Computational Biology, vol. 22. Public Library of Science,
2026.'
ista: 'Bleile Y, Yadav P, Koehl P, Rehfeldt F. 2026. Persistence diagrams as morphological
signatures of cells: A method to measure and compare cells within a population.
PLoS Computational Biology. 22, e1013890.'
mla: 'Bleile, Yossi, et al. “Persistence Diagrams as Morphological Signatures of
Cells: A Method to Measure and Compare Cells within a Population.” PLoS Computational
Biology, vol. 22, e1013890, Public Library of Science, 2026, doi:10.1371/journal.pcbi.1013890.'
short: Y. Bleile, P. Yadav, P. Koehl, F. Rehfeldt, PLoS Computational Biology 22
(2026).
corr_author: '1'
date_created: 2026-01-30T10:36:32Z
date_published: 2026-01-28T00:00:00Z
date_updated: 2026-02-12T14:23:54Z
day: '28'
ddc:
- '000'
department:
- _id: HeEd
doi: 10.1371/journal.pcbi.1013890
external_id:
pmid:
- '41604421'
file:
- access_level: open_access
checksum: 3899d929ee9be0453c95524e49992d72
content_type: application/pdf
creator: dernst
date_created: 2026-02-10T07:13:06Z
date_updated: 2026-02-10T07:13:06Z
file_id: '21204'
file_name: 2026_PloSCompBio_Bleile.pdf
file_size: 8908746
relation: main_file
success: 1
file_date_updated: 2026-02-10T07:13:06Z
has_accepted_license: '1'
intvolume: ' 22'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: PLoS Computational Biology
publication_identifier:
issn:
- 1553-7358
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/yossibokorbleile/correa
scopus_import: '1'
status: public
title: 'Persistence diagrams as morphological signatures of cells: A method to measure
and compare cells within a population'
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: 22
year: '2026'
...
---
_id: '21116'
abstract:
- lang: eng
text: Sex-chromosome systems are highly variable across animals, but how they transition
from one to another is not well understood. Diptera have undergone multiple sex-chromosome
turnovers and expansions while maintaining their general chromosomal content,
which makes them an ideal clade to study such transitions. We analyzed more than
100 dipteran whole-genome assemblies and identified 4 new lineages that underwent
sex-chromosome turnover (in addition to the 5 previously reported). We find that
the majority of turnovers happened in the group Schizophora, which tend to have
fewer genes on Muller element F (the chromosome homologous to the ancestral insect
X chromosome) than lower dipterans, a factor previously hypothesized to facilitate
turnover. Most derived X chromosomes have higher GC content than autosomes, consistent
with a high prevalence of male achiasmy in Diptera. In addition, an excess of
gene movement out of the X is detected for most of these new X chromosomes, and
many of these moved genes have high testis expression in Drosophila, suggesting
that out-of-X gene movement contributes to the long-term demasculinization of
X chromosomes.
article_processing_charge: No
author:
- first_name: Lorena Alexandra
full_name: Layana Franco, Lorena Alexandra
id: 02814589-eb8f-11eb-b029-a70074f3f18f
last_name: Layana Franco
orcid: 0000-0002-1253-6297
- first_name: Melissa A
full_name: Toups, Melissa A
id: 4E099E4E-F248-11E8-B48F-1D18A9856A87
last_name: Toups
orcid: 0000-0002-9752-7380
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Layana Franco LA, Toups MA, Vicoso B. Research Data for “Causes and consequences
of sex-chromosome turnovers in Diptera.” 2026. doi:10.15479/AT-ISTA-21116
apa: Layana Franco, L. A., Toups, M. A., & Vicoso, B. (2026). Research Data
for “Causes and consequences of sex-chromosome turnovers in Diptera.” Institute
of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-21116
chicago: Layana Franco, Lorena Alexandra, Melissa A Toups, and Beatriz Vicoso. “Research
Data for ‘Causes and Consequences of Sex-Chromosome Turnovers in Diptera.’” Institute
of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-21116.
ieee: L. A. Layana Franco, M. A. Toups, and B. Vicoso, “Research Data for ‘Causes
and consequences of sex-chromosome turnovers in Diptera.’” Institute of Science
and Technology Austria, 2026.
ista: Layana Franco LA, Toups MA, Vicoso B. 2026. Research Data for ‘Causes and
consequences of sex-chromosome turnovers in Diptera’, Institute of Science and
Technology Austria, 10.15479/AT-ISTA-21116.
mla: Layana Franco, Lorena Alexandra, et al. Research Data for “Causes and Consequences
of Sex-Chromosome Turnovers in Diptera.” Institute of Science and Technology
Austria, 2026, doi:10.15479/AT-ISTA-21116.
short: L.A. Layana Franco, M.A. Toups, B. Vicoso, (2026).
corr_author: '1'
date_created: 2026-01-30T11:04:14Z
date_published: 2026-01-02T00:00:00Z
date_updated: 2026-02-12T12:58:00Z
day: '2'
department:
- _id: BeVi
doi: 10.15479/AT-ISTA-21116
file:
- access_level: open_access
checksum: 0b79be6229f2ad9ac117ef00fc4f5c0e
content_type: text/plain
creator: llayanaf
date_created: 2026-01-30T11:00:24Z
date_updated: 2026-01-30T11:00:24Z
file_id: '21117'
file_name: README.txt
file_size: 1201
relation: main_file
success: 1
- access_level: open_access
checksum: a3cda72e4177fa1e5d3f0f6a88f8a79b
content_type: application/zip
creator: llayanaf
date_created: 2026-01-30T11:00:36Z
date_updated: 2026-01-30T11:00:36Z
file_id: '21118'
file_name: Supplementary_Tables.zip
file_size: 572403
relation: main_file
success: 1
- access_level: open_access
checksum: efb5b64698d6ca9e7b675204f6fc1c29
content_type: application/zip
creator: llayanaf
date_created: 2026-01-30T11:00:48Z
date_updated: 2026-01-30T11:00:48Z
file_id: '21119'
file_name: Supplementary_Datasets.zip
file_size: 19054553
relation: main_file
success: 1
- access_level: open_access
checksum: 254e050f648e9783ba8fe11adb3b49db
content_type: application/zip
creator: llayanaf
date_created: 2026-01-30T11:00:56Z
date_updated: 2026-01-30T11:00:56Z
file_id: '21120'
file_name: Perl_scripts.zip
file_size: 4575
relation: main_file
success: 1
file_date_updated: 2026-01-30T11:00:56Z
has_accepted_license: '1'
keyword:
- Schizophora
- sex chromosomes
- sex-chromosome turnover
- Diptera
- genomic features
- out-of-X movement.
month: '01'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Research Data for "Causes and consequences of sex-chromosome turnovers in Diptera"
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: research_data
user_id: 68b8ca59-c5b3-11ee-8790-cd641c68093d
year: '2026'
...
---
OA_place: repository
OA_type: green
_id: '21132'
abstract:
- lang: eng
text: We unify the variational hypocoercivity framework established by D. Albritton,
S. Armstrong, J.-C. Mourrat, and M. Novack [2], with the notion of second-order
lifts of reversible diffusion processes, recently introduced by A. Eberle and
the second author [30]. We give an abstract, yet fully constructive, presentation
of the theory, so that it can be applied to a large class of linear kinetic equations.
As this hypocoercivity technique does not twist the reference norm, we can recover
accurate and sharp convergence rates in various models. Among those, adaptive
Langevin dynamics (ALD) is discussed in full detail and we show that for near-quadratic
potentials, with suitable choices of parameters, it is a near-optimal second-order
lift of the overdamped Langevin dynamics. As a further consequence, we observe
that the Generalised Langevin Equation (GLE) is also a second-order lift, as the
standard (kinetic) Langevin dynamics are, of the overdamped Langevin dynamics.
Then, convergence of (GLE) cannot exceed ballistic speed, i.e. the square root
of the rate of the overdamped regime. We illustrate this phenomenon with explicit
computations in a benchmark Gaussian case.
acknowledgement: "We would like to thank Andreas Eberle and Gabriel Stoltz for many
helpful discussions. GB\r\nhas received funding from the European Union Horizon
2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement
No 101034413. FL wurde gefördert durch die Deutsche Forschungsgemeinschaft (DFG)
im Rahmen der Exzellenzstrategie des Bundes und der Länder – GZ2047/1, Projekt-ID
390685813. LW is supported by the National Science Foundation via grant DMS-2407166.
He is also indebted to the Mathematical Sciences department at Carnegie Mellon University
for partly supporting his visit to Europe in July 2024. Part of this work was completed
when GB and LW were visiting the Institute for Applied Mathematics in Bonn. GB and
LW would like to thank IAM for their hospitality."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Giovanni
full_name: Brigati, Giovanni
id: 63ff57e8-1fbb-11ee-88f2-f558ffc59cf1
last_name: Brigati
- first_name: Francis
full_name: Lörler, Francis
last_name: Lörler
- first_name: Lihan
full_name: Wang, Lihan
last_name: Wang
citation:
ama: Brigati G, Lörler F, Wang L. Hypocoercivity meets lifts. Kinetic and Related
Models. 2026;20:34-55. doi:10.3934/krm.2025020
apa: Brigati, G., Lörler, F., & Wang, L. (2026). Hypocoercivity meets lifts.
Kinetic and Related Models. American Institute of Mathematical Sciences.
https://doi.org/10.3934/krm.2025020
chicago: Brigati, Giovanni, Francis Lörler, and Lihan Wang. “Hypocoercivity Meets
Lifts.” Kinetic and Related Models. American Institute of Mathematical
Sciences, 2026. https://doi.org/10.3934/krm.2025020.
ieee: G. Brigati, F. Lörler, and L. Wang, “Hypocoercivity meets lifts,” Kinetic
and Related Models, vol. 20. American Institute of Mathematical Sciences,
pp. 34–55, 2026.
ista: Brigati G, Lörler F, Wang L. 2026. Hypocoercivity meets lifts. Kinetic and
Related Models. 20, 34–55.
mla: Brigati, Giovanni, et al. “Hypocoercivity Meets Lifts.” Kinetic and Related
Models, vol. 20, American Institute of Mathematical Sciences, 2026, pp. 34–55,
doi:10.3934/krm.2025020.
short: G. Brigati, F. Lörler, L. Wang, Kinetic and Related Models 20 (2026) 34–55.
date_created: 2026-02-01T23:01:43Z
date_published: 2026-02-01T00:00:00Z
date_updated: 2026-02-16T10:02:47Z
day: '01'
department:
- _id: JaMa
doi: 10.3934/krm.2025020
ec_funded: 1
external_id:
arxiv:
- '2412.10890'
intvolume: ' 20'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2412.10890
month: '02'
oa: 1
oa_version: Preprint
page: 34-55
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Kinetic and Related Models
publication_identifier:
eissn:
- 1937-5077
issn:
- 1937-5093
publication_status: epub_ahead
publisher: American Institute of Mathematical Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: Hypocoercivity meets lifts
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 20
year: '2026'
...
---
OA_place: publisher
OA_type: gold
_id: '21133'
abstract:
- lang: eng
text: "Data structures based on trees and tree traversals are ubiquitous in computer
systems. Many low-level programs, including some implementations of critical systems
like page tables and the web browser DOM, rely on generic tree-traversal functions
that traverse tree nodes in a pre-determined order, applying a client-provided
operation to each visited node. Developing a general approach to specifying and
verifying such traversals is tricky since the client-provided per-node operation
can be stateful and may potentially depend on or modify the structure of the tree
being traversed.\r\nIn this paper, we present a recipe for (semi-)automated verification
of such generic, stateful tree traversals. Our recipe is (a) general: it applies
to a range of tree traversals, in particular, pre-, post- and in-order depth-first
traversals; (b) modular: parts of a traversal’s proof can be reused in verifying
other similar traversals; (c) expressive: using the specification of a tree traversal,
we can verify clients that use the traversal in a variety of different ways; and
(d) automatable: many proof obligations can be discharged automatically.\r\nAt
the heart of our recipe is a novel use of tree zippers to represent a logical
abstraction of the tree traversal state, and zipper transitions as an abstraction
of traversal steps. We realize our recipe in the RefinedC framework in Rocq, which
allows us to verify a number of different tree traversals and their clients written
in C."
acknowledgement: We thank the anonymous reviewers for their insightful suggestions.
This research is supported in part by generous awards from Android Security’s ASPIRE
program and from Google Research. The third author is supported, in part, by ERC
grant COCONUT (grant no. 101171349), funded by the European Union. Views and opinions
expressed are however those of the author(s) only and do not necessarily reflect
those of the European Union or the European Research Council Executive Agency. Neither
the European Union nor the granting authority can be held responsible for them.
article_processing_charge: No
author:
- first_name: Laila
full_name: Elbeheiry, Laila
last_name: Elbeheiry
- first_name: Michael Joachim
full_name: Sammler, Michael Joachim
id: 510d3901-2a03-11ee-914d-d9ae9011f0a7
last_name: Sammler
- first_name: Robbert
full_name: Krebbers, Robbert
last_name: Krebbers
- first_name: Derek
full_name: Dreyer, Derek
last_name: Dreyer
- first_name: Deepak
full_name: Garg, Deepak
last_name: Garg
citation:
ama: 'Elbeheiry L, Sammler MJ, Krebbers R, Dreyer D, Garg D. A recipe for modular
verification of generic tree traversals. In: Proceedings of the 15th ACM SIGPLAN
International Conference on Certified Programs and Proofs. Association for
Computing Machinery; 2026:339-352. doi:10.1145/3779031.3779110'
apa: 'Elbeheiry, L., Sammler, M. J., Krebbers, R., Dreyer, D., & Garg, D. (2026).
A recipe for modular verification of generic tree traversals. In Proceedings
of the 15th ACM SIGPLAN International Conference on Certified Programs and Proofs
(pp. 339–352). Rennes, France: Association for Computing Machinery. https://doi.org/10.1145/3779031.3779110'
chicago: Elbeheiry, Laila, Michael Joachim Sammler, Robbert Krebbers, Derek Dreyer,
and Deepak Garg. “A Recipe for Modular Verification of Generic Tree Traversals.”
In Proceedings of the 15th ACM SIGPLAN International Conference on Certified
Programs and Proofs, 339–52. Association for Computing Machinery, 2026. https://doi.org/10.1145/3779031.3779110.
ieee: L. Elbeheiry, M. J. Sammler, R. Krebbers, D. Dreyer, and D. Garg, “A recipe
for modular verification of generic tree traversals,” in Proceedings of the
15th ACM SIGPLAN International Conference on Certified Programs and Proofs,
Rennes, France, 2026, pp. 339–352.
ista: 'Elbeheiry L, Sammler MJ, Krebbers R, Dreyer D, Garg D. 2026. A recipe for
modular verification of generic tree traversals. Proceedings of the 15th ACM SIGPLAN
International Conference on Certified Programs and Proofs. CPP: Conference on
Certified Programs and Proofs, 339–352.'
mla: Elbeheiry, Laila, et al. “A Recipe for Modular Verification of Generic Tree
Traversals.” Proceedings of the 15th ACM SIGPLAN International Conference on
Certified Programs and Proofs, Association for Computing Machinery, 2026,
pp. 339–52, doi:10.1145/3779031.3779110.
short: L. Elbeheiry, M.J. Sammler, R. Krebbers, D. Dreyer, D. Garg, in:, Proceedings
of the 15th ACM SIGPLAN International Conference on Certified Programs and Proofs,
Association for Computing Machinery, 2026, pp. 339–352.
conference:
end_date: 2026-01-13
location: Rennes, France
name: 'CPP: Conference on Certified Programs and Proofs'
start_date: 2026-01-12
date_created: 2026-02-01T23:01:43Z
date_published: 2026-01-08T00:00:00Z
date_updated: 2026-02-16T08:43:24Z
day: '08'
ddc:
- '000'
department:
- _id: MiSa
doi: 10.1145/3779031.3779110
file:
- access_level: open_access
checksum: 7df99991493e907d83a197151f378e3e
content_type: application/pdf
creator: dernst
date_created: 2026-02-16T08:40:29Z
date_updated: 2026-02-16T08:40:29Z
file_id: '21225'
file_name: 2026_CPP_Elbeheiry.pdf
file_size: 811872
relation: main_file
success: 1
file_date_updated: 2026-02-16T08:40:29Z
has_accepted_license: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 339-352
publication: Proceedings of the 15th ACM SIGPLAN International Conference on Certified
Programs and Proofs
publication_identifier:
isbn:
- '9798400723414'
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
scopus_import: '1'
status: public
title: A recipe for modular verification of generic tree traversals
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2026'
...
---
OA_place: repository
OA_type: green
_id: '21135'
abstract:
- lang: eng
text: Three-dimensional (3D) microscopy data is often anisotropic with significantly
lower resolution (up to 8x) along the z axis than along the xy axes. Computationally
generating plausible isotropic resolution from anisotropic imaging data would
benefit the visual analysis of large-scale volumes. This paper proposes niiv,
a self-supervised method for isotropic reconstruction of 3D microscopy data that
can quickly produce images at arbitrary output resolutions. The representation
embeds a learned latent code within a neural field that describes the implicit
higher-resolution isotropic image region. We use an attention-guided latent interpolation
approach, which allows flexible information exchange over a local latent neighborhood.
Under isotropic volume assumptions, we self-supervise this representation on low-/high-resolution
lateral image pairs to reconstruct an isotropic volume from low-resolution axial
images. We evaluate our method on simulated and real anisotropic electron (EM)
and light microscopy (LM) data. Compared to diffusion-based baselines, niiv shows
improved reconstruction quality (+1 dB PSNR) and is over three orders of magnitude
faster (1,000x) to infer. Specifically, niiv reconstructs a 128^3 voxel volume
in 2/10th of a second, renderable at varying (continuous) high resolutions for
display. Our code is available at https://github.com/jakobtroidl/niiv-miccai.
acknowledgement: This work was supported by NIH grants 1U01NS132158 and R01HD104969.
We thank the reviewers for their constructive feedback.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Jakob
full_name: Troidl, Jakob
last_name: Troidl
- first_name: Yiqing
full_name: Liang, Yiqing
last_name: Liang
- first_name: Johanna
full_name: Beyer, Johanna
last_name: Beyer
- first_name: Mojtaba
full_name: Tavakoli, Mojtaba
id: 3A0A06F4-F248-11E8-B48F-1D18A9856A87
last_name: Tavakoli
orcid: 0000-0002-7667-6854
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Markus
full_name: Hadwiger, Markus
last_name: Hadwiger
- first_name: Hanspeter
full_name: Pfister, Hanspeter
last_name: Pfister
- first_name: James
full_name: Tompkin, James
last_name: Tompkin
citation:
ama: 'Troidl J, Liang Y, Beyer J, et al. niiv: Interactive Self-supervised Neural
Implicit Isotropic Volume Reconstruction. In: 1st International Workshop on
Efficient Medical Artificial Intelligence. Vol 16318. Springer Nature; 2026:257-267.
doi:10.1007/978-3-032-13961-0_26'
apa: 'Troidl, J., Liang, Y., Beyer, J., Tavakoli, M., Danzl, J. G., Hadwiger, M.,
… Tompkin, J. (2026). niiv: Interactive Self-supervised Neural Implicit Isotropic
Volume Reconstruction. In 1st International Workshop on Efficient Medical Artificial
Intelligence (Vol. 16318, pp. 257–267). Daejeon, South Korea: Springer Nature.
https://doi.org/10.1007/978-3-032-13961-0_26'
chicago: 'Troidl, Jakob, Yiqing Liang, Johanna Beyer, Mojtaba Tavakoli, Johann G
Danzl, Markus Hadwiger, Hanspeter Pfister, and James Tompkin. “Niiv: Interactive
Self-Supervised Neural Implicit Isotropic Volume Reconstruction.” In 1st International
Workshop on Efficient Medical Artificial Intelligence, 16318:257–67. Springer
Nature, 2026. https://doi.org/10.1007/978-3-032-13961-0_26.'
ieee: 'J. Troidl et al., “niiv: Interactive Self-supervised Neural Implicit
Isotropic Volume Reconstruction,” in 1st International Workshop on Efficient
Medical Artificial Intelligence, Daejeon, South Korea, 2026, vol. 16318, pp.
257–267.'
ista: 'Troidl J, Liang Y, Beyer J, Tavakoli M, Danzl JG, Hadwiger M, Pfister H,
Tompkin J. 2026. niiv: Interactive Self-supervised Neural Implicit Isotropic Volume
Reconstruction. 1st International Workshop on Efficient Medical Artificial Intelligence.
EMA4MICCAI: Efficient Medical Artificial Intelligence, LNCS, vol. 16318, 257–267.'
mla: 'Troidl, Jakob, et al. “Niiv: Interactive Self-Supervised Neural Implicit Isotropic
Volume Reconstruction.” 1st International Workshop on Efficient Medical Artificial
Intelligence, vol. 16318, Springer Nature, 2026, pp. 257–67, doi:10.1007/978-3-032-13961-0_26.'
short: J. Troidl, Y. Liang, J. Beyer, M. Tavakoli, J.G. Danzl, M. Hadwiger, H. Pfister,
J. Tompkin, in:, 1st International Workshop on Efficient Medical Artificial Intelligence,
Springer Nature, 2026, pp. 257–267.
conference:
end_date: 2025-09-23
location: Daejeon, South Korea
name: 'EMA4MICCAI: Efficient Medical Artificial Intelligence'
start_date: 2025-09-23
date_created: 2026-02-01T23:01:44Z
date_published: 2026-01-03T00:00:00Z
date_updated: 2026-02-16T08:50:50Z
day: '03'
department:
- _id: JoDa
doi: 10.1007/978-3-032-13961-0_26
intvolume: ' 16318'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2024.09.07.611785
month: '01'
oa: 1
oa_version: Preprint
page: 257-267
publication: 1st International Workshop on Efficient Medical Artificial Intelligence
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783032139603'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/jakobtroidl/niiv-miccai
scopus_import: '1'
status: public
title: 'niiv: Interactive Self-supervised Neural Implicit Isotropic Volume Reconstruction'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 16318
year: '2026'
...
---
OA_place: repository
OA_type: green
_id: '21140'
abstract:
- lang: eng
text: 'We consider several problems related to packing forests in graphs. The first
one is to find k edge-disjoint forests in a directed graph G of maximal size such
that the indegree of each vertex in these forests is at most k. We describe a
min-max characterization for this problem and show that it can be solved in almost
linear time for fixed k, extending the algorithm of [Gabow, 1995]. Specifically,
the complexity is O(kδm log n), where n, m are the number of vertices and edges
in G respectively, and δ = max{1, k − kG}, where kG is the edge connectivity of
the graph. Using our solution to this problem, we improve complexities for two
existing applications:(1) k-forest problem: find k forests in an undirected graph
G maximizing the number of edges in their union. We show how to solve this problem
in O(k3 min{kn, m} log2 n + k · MAXFLOW(m, m) log n) time, breaking the Ok(n3/2)
complexity barrier of previously known approaches.(2) Directed edge-connectivity
augmentation problem: find a smallest set of directed edges whose addition to
the given directed graph makes it strongly k-connected. We improve the deterministic
complexity for this problem from O(kδ(m + δn) log n) [Gabow, STOC 1994] to O(kδm
log n). A similar approach with the same complexity also works for the undirected
version of the problem.'
article_processing_charge: No
arxiv: 1
author:
- first_name: Pavel
full_name: Arkhipov, Pavel
id: b25f2ab2-1fed-11ee-8599-fe02d211784f
last_name: Arkhipov
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
citation:
ama: 'Arkhipov P, Kolmogorov V. Faster algorithms for packing forests in graphs
and related problems. In: Proceedings of the 2026 Annual ACM-SIAM Symposium
on Discrete Algorithms. Society for Industrial and Applied Mathematics; 2026:4023-4042.
doi:10.1137/1.9781611978971.148'
apa: 'Arkhipov, P., & Kolmogorov, V. (2026). Faster algorithms for packing forests
in graphs and related problems. In Proceedings of the 2026 Annual ACM-SIAM
Symposium on Discrete Algorithms (pp. 4023–4042). Vancouver, Canada: Society
for Industrial and Applied Mathematics. https://doi.org/10.1137/1.9781611978971.148'
chicago: Arkhipov, Pavel, and Vladimir Kolmogorov. “Faster Algorithms for Packing
Forests in Graphs and Related Problems.” In Proceedings of the 2026 Annual
ACM-SIAM Symposium on Discrete Algorithms, 4023–42. Society for Industrial
and Applied Mathematics, 2026. https://doi.org/10.1137/1.9781611978971.148.
ieee: P. Arkhipov and V. Kolmogorov, “Faster algorithms for packing forests in graphs
and related problems,” in Proceedings of the 2026 Annual ACM-SIAM Symposium
on Discrete Algorithms, Vancouver, Canada, 2026, pp. 4023–4042.
ista: 'Arkhipov P, Kolmogorov V. 2026. Faster algorithms for packing forests in
graphs and related problems. Proceedings of the 2026 Annual ACM-SIAM Symposium
on Discrete Algorithms. SODA: Symposium on Discrete Algorithms, 4023–4042.'
mla: Arkhipov, Pavel, and Vladimir Kolmogorov. “Faster Algorithms for Packing Forests
in Graphs and Related Problems.” Proceedings of the 2026 Annual ACM-SIAM Symposium
on Discrete Algorithms, Society for Industrial and Applied Mathematics, 2026,
pp. 4023–42, doi:10.1137/1.9781611978971.148.
short: P. Arkhipov, V. Kolmogorov, in:, Proceedings of the 2026 Annual ACM-SIAM
Symposium on Discrete Algorithms, Society for Industrial and Applied Mathematics,
2026, pp. 4023–4042.
conference:
end_date: 2026-01-14
location: Vancouver, Canada
name: 'SODA: Symposium on Discrete Algorithms'
start_date: 2026-01-11
corr_author: '1'
date_created: 2026-02-05T10:51:34Z
date_published: 2026-01-07T00:00:00Z
date_updated: 2026-02-16T09:18:33Z
day: '07'
department:
- _id: VlKo
doi: 10.1137/1.9781611978971.148
external_id:
arxiv:
- '2409.20314'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2409.20314
month: '01'
oa: 1
oa_version: Preprint
page: 4023-4042
publication: Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms
publication_identifier:
eisbn:
- '9781611978971'
publication_status: published
publisher: Society for Industrial and Applied Mathematics
quality_controlled: '1'
status: public
title: Faster algorithms for packing forests in graphs and related problems
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2026'
...
---
_id: '21145'
abstract:
- lang: eng
text: 'Protein conformational energy landscapes are shaped not only by intramolecular
interactions but also by their environment. In protein crystals and protein-protein
complexes, intermolecular contacts alter this energy landscape, but the exact
nature of this alteration is difficult to decipher. Understanding how the crystal
lattice affects protein dynamics is crucial for crystallography-based studies
of motion, yet its influence on collective motions remains unclear. Aromatic ring
flips in the hydrophobic core represent sensitive probes of such dynamics. Here,
we compare the kinetics of aromatic ring flips in the protein GB1 in crystals,
in complex with its binding partner IgG, and in solution, combining advanced isotope
labeling with quantitative NMR methods. We show that rings in the core flip nearly
a thousand times less frequently in crystals than in solution. Enhanced-sampling
molecular dynamics simulations, based on a new crystal structure, reproduce these
elevated barriers and reveal how the crystal restrains motions. '
acknowledged_ssus:
- _id: NMR
- _id: LifeSc
acknowledgement: "We thank Nikolai R. Skrynnikov and Olga O. Lebedenko (St. Petersburg)
for insightful discussions and for performing exploratory MD simulations. We are
grateful to Tobias Schubeis (Lyon) for advice with GB1 crystallization, and Rebecca
Schmid for initial crystallization trials.\r\nWe thank Sebastian Falkner for assistance
with constructing the structural model of the IgG:GB1 complex.\r\nThis 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. We thank Petra Rovó and Margarita Valhondo Falcón
for excellent support of the NMR facility.\r\nLea M. Becker is recipient of a DOC
fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology
Austria (grant no. PR10660EAW01). Christophe Chipot acknowledges the European Research
Council (grant project 101097272 ``MilliInMicro'') and the Métropole du Grand Nancy
(grant project ``ARC''). BM07-FIP2 is supported by the French ANR PIA3 (France 2030)
EquipEx+ project MAGNIFIX under grant agreement ANR-21-ESRE-0011."
article_processing_charge: No
author:
- first_name: Lea Marie
full_name: Becker, Lea Marie
id: 36336939-eb97-11eb-a6c2-c83f1214ca79
last_name: Becker
orcid: 0000-0002-6401-5151
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- first_name: Christophe
full_name: Chipot, Christophe
last_name: Chipot
citation:
ama: Becker LM, Schanda P, Chipot C. Additional Data for “Aromatic Ring Flips Reveal
Reshaping of Protein Dynamics in Crystals and Complexes.” 2026. doi:10.15479/AT-ISTA-21145
apa: Becker, L. M., Schanda, P., & Chipot, C. (2026). Additional Data for “Aromatic
Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” Institute
of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-21145
chicago: Becker, Lea Marie, Paul Schanda, and Christophe Chipot. “Additional Data
for ‘Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and
Complexes.’” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-21145.
ieee: L. M. Becker, P. Schanda, and C. Chipot, “Additional Data for ‘Aromatic Ring
Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.’” Institute
of Science and Technology Austria, 2026.
ista: Becker LM, Schanda P, Chipot C. 2026. Additional Data for ‘Aromatic Ring Flips
Reveal Reshaping of Protein Dynamics in Crystals and Complexes’, Institute of
Science and Technology Austria, 10.15479/AT-ISTA-21145.
mla: Becker, Lea Marie, et al. Additional Data for “Aromatic Ring Flips Reveal
Reshaping of Protein Dynamics in Crystals and Complexes.” Institute of Science
and Technology Austria, 2026, doi:10.15479/AT-ISTA-21145.
short: L.M. Becker, P. Schanda, C. Chipot, (2026).
contributor:
- contributor_type: researcher
first_name: Haohao
last_name: Fu
- contributor_type: researcher
first_name: Benjamin
id: 71cda2f3-e604-11ee-a1df-da10587eda3f
last_name: Tatman
- contributor_type: researcher
first_name: Matthias
last_name: Dreydoppel
- contributor_type: researcher
first_name: Anna
id: 9fb2a840-89e1-11ee-a8b7-cc5c7ba62471
last_name: Kapitonova
- contributor_type: researcher
first_name: Daniel
id: 302BADF6-85FC-11EA-9E3B-B9493DDC885E
last_name: Balazs
orcid: 0000-0001-7597-043X
- contributor_type: researcher
first_name: Ulrich
last_name: Weininger
- contributor_type: researcher
first_name: Sylvain
last_name: Engilberge
corr_author: '1'
date_created: 2026-02-05T13:54:39Z
date_published: 2026-02-09T00:00:00Z
date_updated: 2026-02-18T10:04:44Z
day: '09'
ddc:
- '572'
department:
- _id: GradSch
- _id: PaSc
doi: 10.15479/AT-ISTA-21145
file:
- access_level: open_access
checksum: 02a419cce8cea450bc952f35488d2df5
content_type: text/plain
creator: lbecker
date_created: 2026-02-05T13:52:37Z
date_updated: 2026-02-05T13:52:37Z
file_id: '21146'
file_name: README.txt
file_size: 4263
relation: table_of_contents
- access_level: open_access
checksum: b0b82b1aa73985b0b308a3fa52d21aea
content_type: application/zip
creator: lbecker
date_created: 2026-02-05T13:52:41Z
date_updated: 2026-02-05T13:52:41Z
file_id: '21147'
file_name: Research_Data.zip
file_size: 50647107
relation: main_file
success: 1
file_date_updated: 2026-02-05T13:52:41Z
has_accepted_license: '1'
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 7be609c4-9f16-11ee-852c-85015ce2b9b0
grant_number: '26777'
name: Exploring protein dynamics by solid-state MAS NMR through specific labeling
approaches
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '20641'
relation: earlier_version
status: public
status: public
title: Additional Data for "Aromatic Ring Flips Reveal Reshaping of Protein Dynamics
in Crystals and Complexes"
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2026'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '21149'
abstract:
- lang: eng
text: We present a general theoretical framework for helical dichroism (HD), establishing
an explicit link between chiral resolution and orbital angular momentum (OAM)
exchange in light–matter interaction. Tracing microscopic mechanisms of the OAM
transfer, we derive rotational selection rules, which establish that HD emerges
only from the spin–orbit coupling of light, even for beams without the far-field
OAM. Our findings refine the conditions for observing HD, provide a tool to re-examine
the outcome of prior experiments, and guide future designs for chiral sensing
with structured light.
acknowledgement: This research was funded in whole or in part by the Austrian Science
Fund (FWF) [10.55776/F1004].
article_number: '053204'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Mateja
full_name: Hrast, Mateja
id: 48dbb294-2a9c-11ef-905d-f56be71f0e5d
last_name: Hrast
- first_name: Georgios
full_name: Koutentakis, Georgios
id: d7b23d3a-9e21-11ec-b482-f76739596b95
last_name: Koutentakis
- first_name: Mikhail
full_name: Maslov, Mikhail
id: 2E65BB0E-F248-11E8-B48F-1D18A9856A87
last_name: Maslov
orcid: 0000-0003-4074-2570
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
citation:
ama: Hrast M, Koutentakis G, Maslov M, Lemeshko M. Bottom-up analysis of rovibrational
helical dichroism. Physical Review Letters. 2026;136(5). doi:10.1103/fkf1-1jml
apa: Hrast, M., Koutentakis, G., Maslov, M., & Lemeshko, M. (2026). Bottom-up
analysis of rovibrational helical dichroism. Physical Review Letters. American
Physical Society. https://doi.org/10.1103/fkf1-1jml
chicago: Hrast, Mateja, Georgios Koutentakis, Mikhail Maslov, and Mikhail Lemeshko.
“Bottom-up Analysis of Rovibrational Helical Dichroism.” Physical Review Letters.
American Physical Society, 2026. https://doi.org/10.1103/fkf1-1jml.
ieee: M. Hrast, G. Koutentakis, M. Maslov, and M. Lemeshko, “Bottom-up analysis
of rovibrational helical dichroism,” Physical Review Letters, vol. 136,
no. 5. American Physical Society, 2026.
ista: Hrast M, Koutentakis G, Maslov M, Lemeshko M. 2026. Bottom-up analysis of
rovibrational helical dichroism. Physical Review Letters. 136(5), 053204.
mla: Hrast, Mateja, et al. “Bottom-up Analysis of Rovibrational Helical Dichroism.”
Physical Review Letters, vol. 136, no. 5, 053204, American Physical Society,
2026, doi:10.1103/fkf1-1jml.
short: M. Hrast, G. Koutentakis, M. Maslov, M. Lemeshko, Physical Review Letters
136 (2026).
corr_author: '1'
date_created: 2026-02-06T10:53:17Z
date_published: 2026-02-05T00:00:00Z
date_updated: 2026-02-10T11:30:37Z
day: '05'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.1103/fkf1-1jml
external_id:
arxiv:
- '2505.16393'
file:
- access_level: open_access
checksum: 805c929fff9fd4d0e733293eaace67b8
content_type: application/pdf
creator: dernst
date_created: 2026-02-10T11:25:46Z
date_updated: 2026-02-10T11:25:46Z
file_id: '21210'
file_name: 2026_PhysicalReviewLetters_Hrast.pdf
file_size: 511312
relation: main_file
success: 1
file_date_updated: 2026-02-10T11:25:46Z
has_accepted_license: '1'
intvolume: ' 136'
issue: '5'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 7c040762-9f16-11ee-852c-dd79eeee4ab3
grant_number: F100403
name: Coherent Optical Metrology Beyond Electric-Dipole-Allowed Transitions
publication: Physical Review Letters
publication_identifier:
eissn:
- 1079-7114
issn:
- 0031-9007
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Bottom-up analysis of rovibrational helical dichroism
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: 136
year: '2026'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
PlanS_conform: '1'
_id: '21158'
abstract:
- lang: eng
text: Vernalization-regulated flowering is vital for wheat yield and geographical
distribution, and the diversity of flowering time genes is essential for the breeding
of climate-resilient varieties. Sugars have long been recognized in regulating
flowering; however, the intrinsic connection between carbohydrate metabolism and
vernalization response remains largely unexplored. Here, we identify a fructose
1,6-bisphosphate aldolase (FBA) encoding gene, HtL1/FBA10, as a modulator of heading
time variation based on a genome-wide association study utilizing wheat core germplasm
collections. Evolutionary analysis shows a decrease in the proportion of haplotype-2
of HtL1, which is linked to delayed flowering, in Chinese and American wheat varieties
compared to landraces. Vernalization reduces HtL1/FBA10 phosphorylation levels
and increases its O-GlcNAcylation, which in turn enhances its enzymatic activity
and facilitates VERNALIZATION 1 (VRN1) transcription by regulating histone acetylation
at the VRN1 locus. Our findings provide mechanistic insights into the interplay
between glucose metabolism and the epigenetic regulation of vernalization in winter
wheat.
acknowledgement: This work was supported by the Basic Science Center Project of National
Natural Science Foundation of China (32388201) to K.C and the National Natural Science
Foundation of China (31970331) to L.X. We thank Dr. Zhuang Lu, Dr. Bin Han and Ms.
Jingquan Li (Plant Science Facility of the Institute of Botany, Chinese Academy
of Sciences) for their technical assistance in LC-MS/MS assay, small molecule compound
analysis and the subcellular localization assay, respectively. We thank Dr. Wei
Luo and Dr. Dongfeng Liu for helpful discussions.
article_number: '999'
article_processing_charge: Yes
article_type: original
author:
- first_name: Pengfang
full_name: Yang, Pengfang
last_name: Yang
- first_name: Yangyang
full_name: Liu, Yangyang
last_name: Liu
- first_name: Qi
full_name: Dong, Qi
last_name: Dong
- first_name: Yuting
full_name: Miao, Yuting
last_name: Miao
- first_name: Jianlong
full_name: Zhang, Jianlong
last_name: Zhang
- first_name: Shujuan
full_name: Xu, Shujuan
id: 9724dd9d-f591-11ee-bd51-e97ed0652286
last_name: Xu
- first_name: Hong
full_name: Zhao, Hong
last_name: Zhao
- first_name: Yuda
full_name: Niu, Yuda
last_name: Niu
- first_name: Xueyong
full_name: Zhang, Xueyong
last_name: Zhang
- first_name: Yunyuan
full_name: Xu, Yunyuan
last_name: Xu
- first_name: Zifeng
full_name: Guo, Zifeng
last_name: Guo
- first_name: Lijing
full_name: Xing, Lijing
last_name: Xing
- first_name: Kang
full_name: Chong, Kang
last_name: Chong
citation:
ama: Yang P, Liu Y, Dong Q, et al. O-GlcNAc and phosphorylation modifications on
HtL1/FBA10 regulate wheat vernalization for flowering. Nature Communications.
2026;17. doi:10.1038/s41467-025-67734-0
apa: Yang, P., Liu, Y., Dong, Q., Miao, Y., Zhang, J., Xu, S., … Chong, K. (2026).
O-GlcNAc and phosphorylation modifications on HtL1/FBA10 regulate wheat vernalization
for flowering. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-025-67734-0
chicago: Yang, Pengfang, Yangyang Liu, Qi Dong, Yuting Miao, Jianlong Zhang, Shujuan
Xu, Hong Zhao, et al. “O-GlcNAc and Phosphorylation Modifications on HtL1/FBA10
Regulate Wheat Vernalization for Flowering.” Nature Communications. Springer
Nature, 2026. https://doi.org/10.1038/s41467-025-67734-0.
ieee: P. Yang et al., “O-GlcNAc and phosphorylation modifications on HtL1/FBA10
regulate wheat vernalization for flowering,” Nature Communications, vol.
17. Springer Nature, 2026.
ista: Yang P, Liu Y, Dong Q, Miao Y, Zhang J, Xu S, Zhao H, Niu Y, Zhang X, Xu Y,
Guo Z, Xing L, Chong K. 2026. O-GlcNAc and phosphorylation modifications on HtL1/FBA10
regulate wheat vernalization for flowering. Nature Communications. 17, 999.
mla: Yang, Pengfang, et al. “O-GlcNAc and Phosphorylation Modifications on HtL1/FBA10
Regulate Wheat Vernalization for Flowering.” Nature Communications, vol.
17, 999, Springer Nature, 2026, doi:10.1038/s41467-025-67734-0.
short: P. Yang, Y. Liu, Q. Dong, Y. Miao, J. Zhang, S. Xu, H. Zhao, Y. Niu, X. Zhang,
Y. Xu, Z. Guo, L. Xing, K. Chong, Nature Communications 17 (2026).
date_created: 2026-02-08T23:02:48Z
date_published: 2026-01-27T00:00:00Z
date_updated: 2026-02-12T14:34:24Z
day: '27'
ddc:
- '580'
department:
- _id: XiFe
doi: 10.1038/s41467-025-67734-0
external_id:
pmid:
- '41455723'
file:
- access_level: open_access
checksum: 9ae170ec70ba1ab56b6f1ffe67d1de7f
content_type: application/pdf
creator: dernst
date_created: 2026-02-12T14:33:14Z
date_updated: 2026-02-12T14:33:14Z
file_id: '21223'
file_name: 2026_NatureComm_Yang.pdf
file_size: 4685882
relation: main_file
success: 1
file_date_updated: 2026-02-12T14:33:14Z
has_accepted_license: '1'
intvolume: ' 17'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: O-GlcNAc and phosphorylation modifications on HtL1/FBA10 regulate wheat vernalization
for flowering
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: 17
year: '2026'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '21159'
abstract:
- lang: eng
text: "One of the foundational theorems of extremal graph theory is Dirac’s theorem,
which\r\nsays that if an n-vertex graph G has minimum degree at least n/2, then
G has a\r\nHamilton cycle, and therefore a perfect matching (if n is even). Later
work by Sárközy,\r\nSelkow and Szemerédi showed that in fact Dirac graphs have
many Hamilton cycles\r\nand perfect matchings, culminating in a result of Cuckler
and Kahn that gives a precise\r\ndescription of the numbers of Hamilton cycles
and perfect matchings in a Dirac graph\r\nG (in terms of an entropy-like parameter
of G). In this paper we extend Cuckler\r\nand Kahn’s result to perfect matchings
in hypergraphs. For positive integers d < k,\r\nand for n divisible by k, let
md (k, n) be the minimum d-degree that ensures the\r\nexistence of a perfect matching
in an n-vertex k-uniform hypergraph. In general, it is\r\nan open question to
determine (even asymptotically) the values of md (k, n), but we are\r\nnonetheless
able to prove an analogue of the Cuckler–Kahn theorem, showing that if\r\nan n-vertex
k-uniform hypergraph G has minimum d-degree at least (1+γ )md (k, n)\r\n(for any
constantγ > 0), then the number of perfect matchings in G is controlled by\r\nan
entropy-like parameter of G. This strengthens cruder estimates arising from work\r\nof
Kang–Kelly–Kühn–Osthus–Pfenninger and Pham–Sah–Sawhney–Simkin."
acknowledgement: We would like to thank the referees for a number of helpful comments
and suggestions, which have substantially improved the paper. Open access funding
provided by Institute of Science and Technology (IST Austria).
article_number: '5'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Matthew Alan
full_name: Kwan, Matthew Alan
id: 5fca0887-a1db-11eb-95d1-ca9d5e0453b3
last_name: Kwan
orcid: 0000-0002-4003-7567
- first_name: Roodabeh
full_name: Safavi Hemami, Roodabeh
id: 72ed2640-8972-11ed-ae7b-f9c81ec75154
last_name: Safavi Hemami
- first_name: Yiting
full_name: Wang, Yiting
id: 1917d194-076e-11ed-97cd-837255f88785
last_name: Wang
orcid: 0000-0002-2856-767X
citation:
ama: Kwan MA, Safavi Hemami R, Wang Y. Counting perfect matchings in Dirac hypergraphs.
Combinatorica. 2026;46. doi:10.1007/s00493-025-00194-8
apa: Kwan, M. A., Safavi Hemami, R., & Wang, Y. (2026). Counting perfect matchings
in Dirac hypergraphs. Combinatorica. Springer Nature. https://doi.org/10.1007/s00493-025-00194-8
chicago: Kwan, Matthew Alan, Roodabeh Safavi Hemami, and Yiting Wang. “Counting
Perfect Matchings in Dirac Hypergraphs.” Combinatorica. Springer Nature,
2026. https://doi.org/10.1007/s00493-025-00194-8.
ieee: M. A. Kwan, R. Safavi Hemami, and Y. Wang, “Counting perfect matchings in
Dirac hypergraphs,” Combinatorica, vol. 46. Springer Nature, 2026.
ista: Kwan MA, Safavi Hemami R, Wang Y. 2026. Counting perfect matchings in Dirac
hypergraphs. Combinatorica. 46, 5.
mla: Kwan, Matthew Alan, et al. “Counting Perfect Matchings in Dirac Hypergraphs.”
Combinatorica, vol. 46, 5, Springer Nature, 2026, doi:10.1007/s00493-025-00194-8.
short: M.A. Kwan, R. Safavi Hemami, Y. Wang, Combinatorica 46 (2026).
corr_author: '1'
date_created: 2026-02-08T23:02:49Z
date_published: 2026-02-01T00:00:00Z
date_updated: 2026-02-16T09:55:17Z
day: '01'
ddc:
- '510'
department:
- _id: MaKw
- _id: MoHe
doi: 10.1007/s00493-025-00194-8
external_id:
arxiv:
- '2408.09589'
file:
- access_level: open_access
checksum: 47b0031d90b0e6b9a843f422a1486089
content_type: application/pdf
creator: dernst
date_created: 2026-02-16T09:52:38Z
date_updated: 2026-02-16T09:52:38Z
file_id: '21228'
file_name: 2026_Combinatorica_Kwan.pdf
file_size: 539646
relation: main_file
success: 1
file_date_updated: 2026-02-16T09:52:38Z
has_accepted_license: '1'
intvolume: ' 46'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: Combinatorica
publication_identifier:
eissn:
- 1439-6912
issn:
- 0209-9683
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Counting perfect matchings in Dirac hypergraphs
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: 46
year: '2026'
...
---
OA_place: publisher
OA_type: diamond
PlanS_conform: '1'
_id: '21160'
abstract:
- lang: eng
text: "Context. AM Canum Venaticorum (AM CVn) stars are ultra-compact binary systems
composed of a white dwarf primary accreting from a hydrogen-deficient donor. They
play a crucial role in astrophysics as potential progenitors of Type Ia supernovae
and as laboratories for gravitational wave studies. However, their formation and
evolutionary history remain incomplete. Three formation channels have been discussed
in the literature: the white dwarf, He-star, and cataclysmic variable channels.\r\n\r\nAims.
The chemical composition of the accretor atmosphere reflects the material transferred
from the donor. In this work we took the first accurate measurements of the fundamental
parameters of the accreting white dwarf in ZTF J225237.05−051917.4, including
the abundances of key elements such as carbon, nitrogen, and silicon, by analysing
ultraviolet spectra obtained with the Hubble Space Telescope (HST). These measurements
provide new insight into the evolutionary history of the system and, together
with existing optical observations, establish it as a benchmark to develop our
pipeline, paving the way for its application to a larger sample of AM CVn systems.\r\n\r\nMethods.
We determined the binary parameters through photometric analysis and constrained
the atmospheric parameters of the white dwarf accretor, including its effective
temperature, surface gravity, and chemical abundances, by fitting the HST ultraviolet
spectrum with synthetic spectral models. We then inferred the system’s formation
channel by comparing the results with theoretical evolutionary models.\r\n\r\nResults.
According to our measurements, the accretor’s effective temperature (Teff) is
23 300 ± 600 K and the surface gravity (log g) is 8.4 ± 0.3, which imply an accretor
mass (MWD) of 0.86 ± 0.16 M⊙. We find a high nitrogen-to-carbon abundance ratio
by mass of > 153.\r\n\r\nConclusions. The accretor is significantly hotter than
previous estimates based on simplified blackbody fits to the spectral energy distribution,
underscoring the importance of detailed spectral modelling for accurately determining
system parameters. Our results show that ultraviolet spectroscopy is well suited
to constraining the formation channels of AM CVn systems. Of the three proposed
formation channels, the He-star channel can be excluded given the high nitrogen-to-carbon
ratio. Our results are consistent with both the white dwarf and cataclysmic variable
channels."
acknowledgement: "We thank Lars Bildsten for valuable insights and discussions. We
acknowledge with thanks the variable star observations from the\r\nAAVSO International
Database contributed by observers worldwide and used in this research. We thank
the members of the Spanish Observers of Supernovae\r\n(ObSN) group for their valuable
photometric contributions. This research was\r\nsupported by Deutsche Forschungsgemeinschaft
(DFG, German Research Foundation) under Germany’s Excellence Strategy – EXC 2121
“Quantum Universe”\r\n– 390833306. Co-funded by the European Union (ERC, CompactBINARIES,\r\n101078773).
Views and opinions expressed are however those of the author(s)\r\nonly and do not
necessarily reflect those of the European Union or the European Research Council.
Neither the European Union nor the granting authority\r\ncan be held responsible
for them. DB acknowledges support from the São Paulo\r\nResearch Foundation (FAPESP),
Brazil, Process Numbers #2024/03736-2 and\r\n#2025/00817-4. MRS is supported by
Fondecyt (grant 1221059). MJG acknowledges support from the European Research Council
through ERC Advanced\r\nGrant No. 101054731, from the National Aeronautics and Space
Administration under grants 80NSSC24K0436, 80NSSC22K0479, and 80NSSC24K0380,\r\nand
from the National Science Foundation under grant AST-2205736. PJG\r\nis supported
by NRF SARChI grant 111692. PR-G acknowledges support by\r\nthe Agencia Estatal
de Investigación del Ministerio de Ciencia e Innovación\r\n(MCIN/AEI) and the European
Regional Development Fund (ERDF) under grant\r\nPID2021–124879NB–I00. DS is supported
by the UK Science and Technology Facilities Council (STFC, grant numbers ST/T007184/1,
ST/T003103/1,\r\nand ST/T000406/1). OT acknowledges Proyectos Internos USM 2025,
PI-LII2025-03. GT was supported by grants IN109723 from the Programa de Apoyo a\r\nProyectos
de Investigación e Innovación Tecnológica (PAPIIT). This project has\r\nreceived
funding from the European Research Council (ERC) under the European Union’s Horizon
2020 research and innovation programme (Grant agreement No. 101020057)."
article_number: A14
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: W.
full_name: Yu, W.
last_name: Yu
- first_name: A. F.
full_name: Pala, A. F.
last_name: Pala
- first_name: T.
full_name: Kupfer, T.
last_name: Kupfer
- first_name: B. T.
full_name: Gänsicke, B. T.
last_name: Gänsicke
- first_name: D.
full_name: Koester, D.
last_name: Koester
- first_name: D.
full_name: Belloni, D.
last_name: Belloni
- first_name: T. L.S.
full_name: Wong, T. L.S.
last_name: Wong
- first_name: M. R.
full_name: Schreiber, M. R.
last_name: Schreiber
- first_name: Joannes C
full_name: van Roestel, Joannes C
id: 4d122fc8-6083-11f0-87a5-97d68b860333
last_name: van Roestel
- first_name: A. J.
full_name: Brown, A. J.
last_name: Brown
- first_name: E. O.
full_name: Waagen, E. O.
last_name: Waagen
- first_name: J. L.
full_name: González-Carballo, J. L.
last_name: González-Carballo
- first_name: S.
full_name: Bednarz, S.
last_name: Bednarz
- first_name: K.
full_name: Bernacki, K.
last_name: Bernacki
- first_name: D.
full_name: De Martino, D.
last_name: De Martino
- first_name: E.
full_name: Fernández Mañanes, E.
last_name: Fernández Mañanes
- first_name: R.
full_name: González Farfán, R.
last_name: González Farfán
- first_name: M. J.
full_name: Green, M. J.
last_name: Green
- first_name: P. J.
full_name: Groot, P. J.
last_name: Groot
- first_name: F. J.
full_name: Hambsch, F. J.
last_name: Hambsch
- first_name: C.
full_name: Knigge, C.
last_name: Knigge
- first_name: J. L.
full_name: Martin-Velasco, J. L.
last_name: Martin-Velasco
- first_name: M.
full_name: Morales-Aimar, M.
last_name: Morales-Aimar
- first_name: G.
full_name: Myers, G.
last_name: Myers
- first_name: R.
full_name: Naves Nogues, R.
last_name: Naves Nogues
- first_name: R.
full_name: Poggiani, R.
last_name: Poggiani
- first_name: A.
full_name: Popowicz, A.
last_name: Popowicz
- first_name: G.
full_name: Ramsay, G.
last_name: Ramsay
- first_name: E.
full_name: Reina-Lorenz, E.
last_name: Reina-Lorenz
- first_name: P.
full_name: Rodríguez-Gil, P.
last_name: Rodríguez-Gil
- first_name: J. L.
full_name: Salto-González, J. L.
last_name: Salto-González
- first_name: E. M.
full_name: Sion, E. M.
last_name: Sion
- first_name: D.
full_name: Steeghs, D.
last_name: Steeghs
- first_name: P.
full_name: Szkody, P.
last_name: Szkody
- first_name: O.
full_name: Toloza, O.
last_name: Toloza
- first_name: G.
full_name: Tovmassian, G.
last_name: Tovmassian
citation:
ama: 'Yu W, Pala AF, Kupfer T, et al. The evolutionary history of ultra-compact
accreting binaries: I. Chemical abundances and the formation channel of the eclipsing
AM CVn system ZTF J225237.05-051917.4 from HST spectroscopy. Astronomy and
Astrophysics. 2026;706. doi:10.1051/0004-6361/202557568'
apa: 'Yu, W., Pala, A. F., Kupfer, T., Gänsicke, B. T., Koester, D., Belloni, D.,
… Tovmassian, G. (2026). The evolutionary history of ultra-compact accreting binaries:
I. Chemical abundances and the formation channel of the eclipsing AM CVn system
ZTF J225237.05-051917.4 from HST spectroscopy. Astronomy and Astrophysics.
EDP Sciences. https://doi.org/10.1051/0004-6361/202557568'
chicago: 'Yu, W., A. F. Pala, T. Kupfer, B. T. Gänsicke, D. Koester, D. Belloni,
T. L.S. Wong, et al. “The Evolutionary History of Ultra-Compact Accreting Binaries:
I. Chemical Abundances and the Formation Channel of the Eclipsing AM CVn System
ZTF J225237.05-051917.4 from HST Spectroscopy.” Astronomy and Astrophysics.
EDP Sciences, 2026. https://doi.org/10.1051/0004-6361/202557568.'
ieee: 'W. Yu et al., “The evolutionary history of ultra-compact accreting
binaries: I. Chemical abundances and the formation channel of the eclipsing AM
CVn system ZTF J225237.05-051917.4 from HST spectroscopy,” Astronomy and Astrophysics,
vol. 706. EDP Sciences, 2026.'
ista: 'Yu W, Pala AF, Kupfer T, Gänsicke BT, Koester D, Belloni D, Wong TLS, Schreiber
MR, van Roestel JC, Brown AJ, Waagen EO, González-Carballo JL, Bednarz S, Bernacki
K, De Martino D, Fernández Mañanes E, González Farfán R, Green MJ, Groot PJ, Hambsch
FJ, Knigge C, Martin-Velasco JL, Morales-Aimar M, Myers G, Naves Nogues R, Poggiani
R, Popowicz A, Ramsay G, Reina-Lorenz E, Rodríguez-Gil P, Salto-González JL, Sion
EM, Steeghs D, Szkody P, Toloza O, Tovmassian G. 2026. The evolutionary history
of ultra-compact accreting binaries: I. Chemical abundances and the formation
channel of the eclipsing AM CVn system ZTF J225237.05-051917.4 from HST spectroscopy.
Astronomy and Astrophysics. 706, A14.'
mla: 'Yu, W., et al. “The Evolutionary History of Ultra-Compact Accreting Binaries:
I. Chemical Abundances and the Formation Channel of the Eclipsing AM CVn System
ZTF J225237.05-051917.4 from HST Spectroscopy.” Astronomy and Astrophysics,
vol. 706, A14, EDP Sciences, 2026, doi:10.1051/0004-6361/202557568.'
short: W. Yu, A.F. Pala, T. Kupfer, B.T. Gänsicke, D. Koester, D. Belloni, T.L.S.
Wong, M.R. Schreiber, J.C. van Roestel, A.J. Brown, E.O. Waagen, J.L. González-Carballo,
S. Bednarz, K. Bernacki, D. De Martino, E. Fernández Mañanes, R. González Farfán,
M.J. Green, P.J. Groot, F.J. Hambsch, C. Knigge, J.L. Martin-Velasco, M. Morales-Aimar,
G. Myers, R. Naves Nogues, R. Poggiani, A. Popowicz, G. Ramsay, E. Reina-Lorenz,
P. Rodríguez-Gil, J.L. Salto-González, E.M. Sion, D. Steeghs, P. Szkody, O. Toloza,
G. Tovmassian, Astronomy and Astrophysics 706 (2026).
date_created: 2026-02-08T23:02:49Z
date_published: 2026-02-01T00:00:00Z
date_updated: 2026-02-16T09:36:24Z
day: '01'
ddc:
- '520'
department:
- _id: IlCa
doi: 10.1051/0004-6361/202557568
external_id:
arxiv:
- '2512.04147'
file:
- access_level: open_access
checksum: 2faec710fd04f927aa43deb57e35c9b2
content_type: application/pdf
creator: dernst
date_created: 2026-02-16T09:33:56Z
date_updated: 2026-02-16T09:33:56Z
file_id: '21227'
file_name: 2026_AstronomyAstrophysics_Yu.pdf
file_size: 4020466
relation: main_file
success: 1
file_date_updated: 2026-02-16T09:33:56Z
has_accepted_license: '1'
intvolume: ' 706'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: Astronomy and Astrophysics
publication_identifier:
eissn:
- 1432-0746
issn:
- 0004-6361
publication_status: published
publisher: EDP Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'The evolutionary history of ultra-compact accreting binaries: I. Chemical
abundances and the formation channel of the eclipsing AM CVn system ZTF J225237.05-051917.4
from HST spectroscopy'
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: 706
year: '2026'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '21161'
abstract:
- lang: eng
text: In many species, sex-biased expression is widespread and thought to contribute
to sexual dimorphism. While bulk RNA-sequencing has been instrumental in identifying
strongly sex-biased genes, it lacks resolution to assess variation across cell-types
and tissue compartments. Using single-nucleus expression data from the Fly Cell
Atlas, we investigate sex differences in adult Drosophila melanogaster. We find
that differences in cell-type composition between the sexes are not a major source
of sex-bias, as for the vast majority of genes, the degree of sex-bias is similar
regardless of whether sex differences in cell-type composition are controlled
for or not. Our analysis confirms a deficit of X-linked male-biased genes in the
body’s somatic tissues that is widespread across cell-types. We also find the
excess of X-linked female-biased genes to be associated with nervous system cells
in the head but with epithelial cells in the body’s somatic tissues, showing that
single-nucleus data crucially resolves sex-bias at the cell-type level. We investigate
dosage compensation (DC) across 15 tissues and 17 cell-types. We observe that
it varies throughout the body. Surprisingly, we observe a lack of DC in a cluster
of main cells within the male accessory glands. This result highlights the importance
of understanding context-dependent DC.
acknowledged_ssus:
- _id: ScienComp
- _id: Bio
acknowledgement: This work was partly funded by an Austrian Science Foundation FWF
ESPRIT fellowship (10.55776/ESP6331524) to C.B. We would like to thank the Vicoso
group for their invaluable input and discussions throughout this work. We thank
Filip Ruzicka for his insightful comments on the manuscript. All computational resources
were provided by the Scientific Computing Unit at ISTA. This research was also supported
through resources provided by the Imaging & Optics Facility (IOF) at ISTA.
article_number: '20252471'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Carolina
full_name: De Castro Barbosa Rodrigues Barata, Carolina
id: 20565186-803f-11ed-ab7e-96a4ff7694ef
last_name: De Castro Barbosa Rodrigues Barata
orcid: 0000-0003-1945-2245
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: de Castro Barbosa Rodrigues Barata C, Vicoso B. Single-nucleus resolution of
sex-biased expression and dosage compensation in Drosophila melanogaster. Proceedings
of the Royal Society B Biological Sciences. 2026;293(2063). doi:10.1098/rspb.2025.2471
apa: de Castro Barbosa Rodrigues Barata, C., & Vicoso, B. (2026). Single-nucleus
resolution of sex-biased expression and dosage compensation in Drosophila melanogaster.
Proceedings of the Royal Society B Biological Sciences. Royal Society of
London. https://doi.org/10.1098/rspb.2025.2471
chicago: Castro Barbosa Rodrigues Barata, Carolina de, and Beatriz Vicoso. “Single-Nucleus
Resolution of Sex-Biased Expression and Dosage Compensation in Drosophila Melanogaster.”
Proceedings of the Royal Society B Biological Sciences. Royal Society of
London, 2026. https://doi.org/10.1098/rspb.2025.2471.
ieee: C. de Castro Barbosa Rodrigues Barata and B. Vicoso, “Single-nucleus resolution
of sex-biased expression and dosage compensation in Drosophila melanogaster,”
Proceedings of the Royal Society B Biological Sciences, vol. 293, no. 2063.
Royal Society of London, 2026.
ista: de Castro Barbosa Rodrigues Barata C, Vicoso B. 2026. Single-nucleus resolution
of sex-biased expression and dosage compensation in Drosophila melanogaster. Proceedings
of the Royal Society B Biological Sciences. 293(2063), 20252471.
mla: de Castro Barbosa Rodrigues Barata, Carolina, and Beatriz Vicoso. “Single-Nucleus
Resolution of Sex-Biased Expression and Dosage Compensation in Drosophila Melanogaster.”
Proceedings of the Royal Society B Biological Sciences, vol. 293, no. 2063,
20252471, Royal Society of London, 2026, doi:10.1098/rspb.2025.2471.
short: C. de Castro Barbosa Rodrigues Barata, B. Vicoso, Proceedings of the Royal
Society B Biological Sciences 293 (2026).
corr_author: '1'
date_created: 2026-02-08T23:02:49Z
date_published: 2026-01-28T00:00:00Z
date_updated: 2026-02-16T09:27:33Z
day: '28'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1098/rspb.2025.2471
external_id:
pmid:
- '41592777'
file:
- access_level: open_access
checksum: d76afebca0a6f112df0146ae2d929f36
content_type: application/pdf
creator: dernst
date_created: 2026-02-16T09:26:02Z
date_updated: 2026-02-16T09:26:02Z
file_id: '21226'
file_name: 2026_RoyalSocPubProceedingsB_Barata.pdf
file_size: 2230841
relation: main_file
success: 1
file_date_updated: 2026-02-16T09:26:02Z
has_accepted_license: '1'
intvolume: ' 293'
issue: '2063'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 90ef7108-16d5-11f0-9cad-e6e116913473
grant_number: ESP 6331524
name: Does genetic drift set a limit on the adaptive evolution of sex-biased expression?
publication: Proceedings of the Royal Society B Biological Sciences
publication_identifier:
eissn:
- 1471-2954
publication_status: published
publisher: Royal Society of London
quality_controlled: '1'
scopus_import: '1'
status: public
title: Single-nucleus resolution of sex-biased expression and dosage compensation
in Drosophila melanogaster
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: 293
year: '2026'
...
---
_id: '21164'
abstract:
- lang: eng
text: 'Global emission inventories often fail to capture the complexities of vehicular
pollution in regions with unique fuel mixes, such as Brazil’s extensive biofuel
use, leading to significant uncertainties in atmospheric modeling. This study
presents a century-long (1960–2100) bottom-up vehicular emission inventory for
Brazil, leveraging locally derived emission factors. Our estimates reveal substantial
discrepancies in magnitude, timing, and speciation of non-CO2 pollutants (CO,
NMHC, PM2.5) compared to leading global inventories (EDGAR, CEDS, CAMS), highlighting
critical inaccuracies in widely used data sets. More critically, future projections
under Shared Socioeconomic Pathways (SSPs) uncover a novel positive feedback mechanism:
rising temperatures significantly enhance vehicular evaporative nonmethane hydrocarbon
(NMHC) emissions. This temperature-dependent increase and subsequent NMHC oxidation
to CO2 suggest an overlooked pathway that could amplify climate warming and air
pollution globally, particularly after a breakpoint around 2050 (p < 0.05). While
historical emissions peaked in the 1990s–2000s, nonexhaust PM becomes increasingly
important. Air quality simulations using our inventory in the MUSICA model show
good regional PM2.5 agreement but highlight challenges in resolving local primary
pollutant peaks. This comprehensive inventory provides crucial data for Brazil
and uncovers globally relevant climate–chemistry interactions, urging a re-evaluation
of regional specificities in global emission assessments.'
acknowledgement: Part of this material is based upon work supported by the NSF National
Center for Atmospheric Research, which is a major facility sponsored by the National
Science Foundation under Cooperative Agreement No. 1852977. Casallas was supported
by the European Union’s Horizon 2020 research and innovation program under the Marie
Skłodowska-Curie grant agreement No. 101034413. E. D. Freitas thanks the support
provided by the National Council for Scientific and Technological Development (CNPq,
Process number 313210/2022–5). Silva gratefully acknowledges the financial support
from the National Council for Scientific and Technological Development (CNPq), process
number 140512/2021–7. P. Lichtig was supported by base funding from the National
Commission for Atomic Energy (CNEA, Arg.) and by NSF NCAR. R.Y. Ynoue thanks the
support provided by the National Council for Scientific and Technological Development
(CNPq, Process number 406728/2022–4). M. A. Franco thanks the support provided by
the National Council for Scientific and Technological Development (CNPq, Process
number 407752/2023–4). G. M. Pereira thanks the support by the Fundação de Amparo
à Pesquisa do Estado de São Paulo (FAPESP; Process numbers 2018/07848–9, 2016/18438–0,
and 2019/01316–80) and Coordenação de Aperfeiçoamento de Pessoal de Nível Superior
(CAPES; Process number 88887.103225/2025–00). M.F. Andrade thanks the support by
FAPESP (Process number 2016/18438–0) and CNPQ (Klimapolis INCT).
article_number: 5c08400
article_processing_charge: No
article_type: original
author:
- first_name: Sergio
full_name: Ibarra-Espinosa, Sergio
last_name: Ibarra-Espinosa
- first_name: Edmilson
full_name: Dias de Freitas, Edmilson
last_name: Dias de Freitas
- first_name: Benjamin
full_name: Gaubert, Benjamin
last_name: Gaubert
- first_name: Pablo
full_name: Lichtig, Pablo
last_name: Lichtig
- first_name: Karl
full_name: Ropkins, Karl
last_name: Ropkins
- first_name: Iara
full_name: da Silva, Iara
last_name: da Silva
- first_name: Guilherme
full_name: Martins Pereira, Guilherme
last_name: Martins Pereira
- first_name: Daniel
full_name: Schuch, Daniel
last_name: Schuch
- first_name: Janaina
full_name: Nascimento, Janaina
last_name: Nascimento
- first_name: Leonardo
full_name: Hoinaski, Leonardo
last_name: Hoinaski
- first_name: Leila Droprinchinski
full_name: Martins, Leila Droprinchinski
last_name: Martins
- first_name: Mario
full_name: Gavidia-Calderón, Mario
last_name: Gavidia-Calderón
- first_name: Angel
full_name: Vara-Vela, Angel
last_name: Vara-Vela
- first_name: Taciana
full_name: Toledo de Almeida Albuquerque, Taciana
last_name: Toledo de Almeida Albuquerque
- first_name: Rita Yuri
full_name: Ynoue, Rita Yuri
last_name: Ynoue
- first_name: Sebastian
full_name: Diez, Sebastian
last_name: Diez
- first_name: Zamir
full_name: Mera, Zamir
last_name: Mera
- first_name: Alejandro
full_name: Casallas Garcia, Alejandro
id: 92081129-2d75-11ef-a48d-b04dd7a2385a
last_name: Casallas Garcia
orcid: 0000-0002-1988-5035
- first_name: Fidel
full_name: Vallejo, Fidel
last_name: Vallejo
- first_name: Valeria
full_name: Diaz, Valeria
last_name: Diaz
- first_name: Rizzieri
full_name: Pedruzzi, Rizzieri
last_name: Pedruzzi
- first_name: Rosana
full_name: Abrutzky, Rosana
last_name: Abrutzky
- first_name: Marco A.
full_name: Franco, Marco A.
last_name: Franco
- first_name: Nicolas
full_name: Huneeus, Nicolas
last_name: Huneeus
- first_name: Hector
full_name: Jorquera, Hector
last_name: Jorquera
- first_name: Luis Carlos
full_name: Belalcázar-Cerón, Luis Carlos
last_name: Belalcázar-Cerón
- first_name: Néstor Y.
full_name: Rojas, Néstor Y.
last_name: Rojas
- first_name: Maria
full_name: de Fatima Andrade, Maria
last_name: de Fatima Andrade
- first_name: Louisa
full_name: Emmons, Louisa
last_name: Emmons
- first_name: Guy
full_name: Brasseur, Guy
last_name: Brasseur
citation:
ama: 'Ibarra-Espinosa S, Dias de Freitas E, Gaubert B, et al. A century of vehicular
emissions in Brazil: Unveiling the impacts of unique fuel mix on air quality.
Environmental Science & Technology. 2026. doi:10.1021/acs.est.5c08400'
apa: 'Ibarra-Espinosa, S., Dias de Freitas, E., Gaubert, B., Lichtig, P., Ropkins,
K., da Silva, I., … Brasseur, G. (2026). A century of vehicular emissions in Brazil:
Unveiling the impacts of unique fuel mix on air quality. Environmental Science
& Technology. American Chemical Society. https://doi.org/10.1021/acs.est.5c08400'
chicago: 'Ibarra-Espinosa, Sergio, Edmilson Dias de Freitas, Benjamin Gaubert, Pablo
Lichtig, Karl Ropkins, Iara da Silva, Guilherme Martins Pereira, et al. “A Century
of Vehicular Emissions in Brazil: Unveiling the Impacts of Unique Fuel Mix on
Air Quality.” Environmental Science & Technology. American Chemical
Society, 2026. https://doi.org/10.1021/acs.est.5c08400.'
ieee: 'S. Ibarra-Espinosa et al., “A century of vehicular emissions in Brazil:
Unveiling the impacts of unique fuel mix on air quality,” Environmental Science
& Technology. American Chemical Society, 2026.'
ista: 'Ibarra-Espinosa S, Dias de Freitas E, Gaubert B, Lichtig P, Ropkins K, da
Silva I, Martins Pereira G, Schuch D, Nascimento J, Hoinaski L, Martins LD, Gavidia-Calderón
M, Vara-Vela A, Toledo de Almeida Albuquerque T, Ynoue RY, Diez S, Mera Z, Casallas
Garcia A, Vallejo F, Diaz V, Pedruzzi R, Abrutzky R, Franco MA, Huneeus N, Jorquera
H, Belalcázar-Cerón LC, Rojas NY, de Fatima Andrade M, Emmons L, Brasseur G. 2026.
A century of vehicular emissions in Brazil: Unveiling the impacts of unique fuel
mix on air quality. Environmental Science & Technology., 5c08400.'
mla: 'Ibarra-Espinosa, Sergio, et al. “A Century of Vehicular Emissions in Brazil:
Unveiling the Impacts of Unique Fuel Mix on Air Quality.” Environmental Science
& Technology, 5c08400, American Chemical Society, 2026, doi:10.1021/acs.est.5c08400.'
short: S. Ibarra-Espinosa, E. Dias de Freitas, B. Gaubert, P. Lichtig, K. Ropkins,
I. da Silva, G. Martins Pereira, D. Schuch, J. Nascimento, L. Hoinaski, L.D. Martins,
M. Gavidia-Calderón, A. Vara-Vela, T. Toledo de Almeida Albuquerque, R.Y. Ynoue,
S. Diez, Z. Mera, A. Casallas Garcia, F. Vallejo, V. Diaz, R. Pedruzzi, R. Abrutzky,
M.A. Franco, N. Huneeus, H. Jorquera, L.C. Belalcázar-Cerón, N.Y. Rojas, M. de
Fatima Andrade, L. Emmons, G. Brasseur, Environmental Science & Technology
(2026).
date_created: 2026-02-09T06:54:10Z
date_published: 2026-02-04T00:00:00Z
date_updated: 2026-02-16T10:33:07Z
day: '04'
ddc:
- '550'
department:
- _id: CaMu
doi: 10.1021/acs.est.5c08400
ec_funded: 1
external_id:
pmid:
- '41636708'
has_accepted_license: '1'
language:
- iso: eng
month: '02'
oa_version: None
pmid: 1
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Environmental Science & Technology
publication_identifier:
eissn:
- 1520-5851
issn:
- 0013-936X
publication_status: epub_ahead
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'A century of vehicular emissions in Brazil: Unveiling the impacts of unique
fuel mix on air quality'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2026'
...
---
OA_place: repository
OA_type: green
_id: '21212'
abstract:
- lang: eng
text: "Malignant glioma is incurable. Using a mouse genetic mosaic system to generate
sporadic Trp53,Nf1-null OPCs, we previously identified oligodendrocyte precursor
cell (OPC) as a cell-of-origin of glioma. Here, we report that pre-malignant Trp53,Nf1-null
OPCs outcompete wildtype counterparts during their expansion. Blocking competition
by mutating/strengthening wildtype OPCs impeded both pre-malignant progression
and malignant expansion of glioma.\r\n\r\n“In-tissue” phosphoproteomic profiling
revealed an enrichment of phosphopeptides related to RNA splicing and protein
translation at the peak of cell competition, suggesting that competitiveness may
stem from unique protein species. Among candidates was mTORC1, whose pharmacological
inhibition or genetic disruption resulted in a loss of competitiveness in our
mouse model. Finally, analysis of patient biopsies and interrogating the role
of individual gliomagenic mutations in OPC competition supported its relevance
in human gliomas. Together, these findings identified the driving role of competitive
interactions among OPCs in gliomagenesis, and suggest unconventional therapeutic
strategies to target this process."
acknowledgement: "We thank Dr. Wenjie Liu for providing critical feedback on the manuscript.
We also thank Dr.\r\nPat Pramoonjago at the Biorepository and Tissue Research Facility,
and Hope Davis at the\r\nvivarium for their assistance on the project. These Core
Facilities are supported by UVA Cancer\r\nCenter grant #P30-CA044579. We are grateful
to Dr. Jonathan A. Epstein for providing the\r\nNf1GRD/+ mouse strain (https://pubmed.ncbi.nlm.nih.gov/26460546/).
This work was partly\r\nsupported by the National Institute of Neurological Diseases
and Stroke R21 NS125479-01A1\r\n(H.Z.), American Cancer Society Institutional Research
Grant to the University of Virginia\r\n(Y.J.), the National Natural Science Foundation
of China #82072787 (M.Y.), the National\r\nCancer Institute U54 CA238114 (F.W.),
U01 CA284193 (K.M.N.), and U54 CA274499 (K.A.J.,\r\nM.F-S.), the National institute
of General Medical Sciences R35 GM133404 (M.F-S.), the Dr.\r\nMiriam and Sheldon
G. Adelson Medical Research Foundation (H.I.K., S.A.G.), the National\r\nCenter
for Advancing Translational Sciences KL2TR001882 (K.S.P.), Tower Cancer Career Development
Grant (K.S.P.), McKnight Neurobiology of Brain Disorders Grant (K.S.P.). The\r\ncontent
is solely the responsibility of the authors and does not necessarily represent the
official\r\nviews of the National Institutes of Health. Illustrations in this manuscript
were created with\r\nBioRender (BioRender.com)."
article_processing_charge: No
author:
- first_name: Ying
full_name: Jiang, Ying
last_name: Jiang
- first_name: Ryuhjin
full_name: Ahn, Ryuhjin
last_name: Ahn
- first_name: Arthur
full_name: Huang, Arthur
last_name: Huang
- first_name: Phillippe P.
full_name: Gonzalez, Phillippe P.
last_name: Gonzalez
- first_name: Jungeun
full_name: Kim, Jungeun
last_name: Kim
- first_name: Guoxin
full_name: Zhang, Guoxin
last_name: Zhang
- first_name: Zihao
full_name: Liu, Zihao
last_name: Liu
- first_name: Zhenqiang
full_name: He, Zhenqiang
last_name: He
- first_name: Lindsey
full_name: Dudley, Lindsey
last_name: Dudley
- first_name: Kunal S.
full_name: Patel, Kunal S.
last_name: Patel
- first_name: Godfrey A.
full_name: Dzhivhuho, Godfrey A.
last_name: Dzhivhuho
- first_name: Sam
full_name: Crowl, Sam
last_name: Crowl
- first_name: Piotr
full_name: Przanowski, Piotr
last_name: Przanowski
- first_name: Luisa Quesada
full_name: Camacho, Luisa Quesada
last_name: Camacho
- first_name: Sijie
full_name: Hao, Sijie
last_name: Hao
- first_name: Jianhao
full_name: Zeng, Jianhao
last_name: Zeng
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: Mohammad
full_name: Fallahi-Sichani, Mohammad
last_name: Fallahi-Sichani
- first_name: Kevin A.
full_name: Janes, Kevin A.
last_name: Janes
- first_name: Kristen M.
full_name: Naegle, Kristen M.
last_name: Naegle
- first_name: Marie-Louise
full_name: Hammarskjold, Marie-Louise
last_name: Hammarskjold
- first_name: Steven A.
full_name: Goldman, Steven A.
last_name: Goldman
- first_name: Harley I.
full_name: Kornblum, Harley I.
last_name: Kornblum
- first_name: Maojin
full_name: Yao, Maojin
last_name: Yao
- first_name: Forest
full_name: White, Forest
last_name: White
- first_name: Hui
full_name: Zong, Hui
last_name: Zong
citation:
ama: Jiang Y, Ahn R, Huang A, et al. Critical role of cell competition in gliomagenesis.
bioRxiv. 2026. doi:10.64898/2026.01.15.699808
apa: Jiang, Y., Ahn, R., Huang, A., Gonzalez, P. P., Kim, J., Zhang, G., … Zong,
H. (2026). Critical role of cell competition in gliomagenesis. bioRxiv.
https://doi.org/10.64898/2026.01.15.699808
chicago: Jiang, Ying, Ryuhjin Ahn, Arthur Huang, Phillippe P. Gonzalez, Jungeun
Kim, Guoxin Zhang, Zihao Liu, et al. “Critical Role of Cell Competition in Gliomagenesis.”
BioRxiv, 2026. https://doi.org/10.64898/2026.01.15.699808.
ieee: Y. Jiang et al., “Critical role of cell competition in gliomagenesis,”
bioRxiv. 2026.
ista: Jiang Y, Ahn R, Huang A, Gonzalez PP, Kim J, Zhang G, Liu Z, He Z, Dudley
L, Patel KS, Dzhivhuho GA, Crowl S, Przanowski P, Camacho LQ, Hao S, Zeng J, Hippenmeyer
S, Fallahi-Sichani M, Janes KA, Naegle KM, Hammarskjold M-L, Goldman SA, Kornblum
HI, Yao M, White F, Zong H. 2026. Critical role of cell competition in gliomagenesis.
bioRxiv, 10.64898/2026.01.15.699808.
mla: Jiang, Ying, et al. “Critical Role of Cell Competition in Gliomagenesis.” BioRxiv,
2026, doi:10.64898/2026.01.15.699808.
short: Y. Jiang, R. Ahn, A. Huang, P.P. Gonzalez, J. Kim, G. Zhang, Z. Liu, Z. He,
L. Dudley, K.S. Patel, G.A. Dzhivhuho, S. Crowl, P. Przanowski, L.Q. Camacho,
S. Hao, J. Zeng, S. Hippenmeyer, M. Fallahi-Sichani, K.A. Janes, K.M. Naegle,
M.-L. Hammarskjold, S.A. Goldman, H.I. Kornblum, M. Yao, F. White, H. Zong, BioRxiv
(2026).
date_created: 2026-02-10T12:55:55Z
date_published: 2026-01-16T00:00:00Z
date_updated: 2026-02-16T10:12:42Z
day: '16'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.64898/2026.01.15.699808
has_accepted_license: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.64898/2026.01.15.699808
month: '01'
oa: 1
oa_version: Preprint
publication: bioRxiv
publication_status: published
status: public
title: Critical role of cell competition in gliomagenesis
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2026'
...
---
OA_place: publisher
OA_type: hybrid
_id: '21217'
abstract:
- lang: eng
text: This study investigates the mechanisms driving clustered convection and the
breakdown of the Intertropical Convergence Zone (ITCZ) over the Western Pacific
Warm Pool using high‐resolution cloud‐resolving simulations and machine‐learning
sensitivity experiments. Results show that ITCZ breakdown episodes, marked by
spatially homogeneous convection and weakened meridional moisture gradients, are
triggered primarily by anomalous moisture advection linked to the equatorial Rossby‐wave
activity. While large‐scale moisture advection regulates the background convective
state strongly, it is the surface and low‐level meridional winds that dominate
transitions between clustered and random convection. Simulations demonstrate that
moisture alone can sustain convective clustering, but breakdown episodes are more
persistent and widespread when coupled with southerly meridional advection. These
findings confirm that wave‐driven advection acts as a regulatory mechanism, periodically
disrupting convective clustering and reshaping the meridional moisture gradient.
This modulation of organization by wave‐induced breakdown events is critical for
understanding tropical convection variability and its implications for the climate
system.
acknowledgement: This article is based on chapter 5 of the PhD thesis of A. Casallas.
The authors thank Graziano Giuliani for discussions on the boundary-condition experiments.
A. Casallas was supported by a PhD fellowship awarded by the Abdus Salam International
Centre for Theoretical Physics. A. Casallas also acknowledges support by the European
Union's Horizon 2020 research and innovation program under the Marie Skłodowska-Curie
grant agreement No 101034413. C. Muller acknowledges funding from the European Research
Council (ERC) under the European Union's Horizon 2020 research and innovation program
(Project CLUSTER, Grant Agreement No. 805041). The authors gratefully acknowledge
Daniel Hernández-Deckers, Lokahith Agasthya, Chris Holloway, and Paolina Cerlini
for their valuable feedback and insightful discussions. They are especially thankful
to Bety Pechacova for suggesting the use of SHAP to complement their analysis. They
also thank the two anonymous reviewers for their constructive comments, which improved
the quality and clarity of the article significantly. Open Access funding provided
by Institute of Science and Technology Austria/KEMÖ.
article_number: e70131
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Alejandro
full_name: Casallas Garcia, Alejandro
id: 92081129-2d75-11ef-a48d-b04dd7a2385a
last_name: Casallas Garcia
orcid: 0000-0002-1988-5035
- first_name: Adrian
full_name: Mark Tompkins, Adrian
last_name: Mark Tompkins
- 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: Casallas Garcia A, Mark Tompkins A, Muller CJ. Moisture and wind effects of
Rossby waves on Western Pacific Intertropical Convergence Zone breakdown events.
Quarterly Journal of the Royal Meteorological Society. 2026. doi:10.1002/qj.70131
apa: Casallas Garcia, A., Mark Tompkins, A., & Muller, C. J. (2026). Moisture
and wind effects of Rossby waves on Western Pacific Intertropical Convergence
Zone breakdown events. Quarterly Journal of the Royal Meteorological Society.
Wiley. https://doi.org/10.1002/qj.70131
chicago: Casallas Garcia, Alejandro, Adrian Mark Tompkins, and Caroline J Muller.
“Moisture and Wind Effects of Rossby Waves on Western Pacific Intertropical Convergence
Zone Breakdown Events.” Quarterly Journal of the Royal Meteorological Society.
Wiley, 2026. https://doi.org/10.1002/qj.70131.
ieee: A. Casallas Garcia, A. Mark Tompkins, and C. J. Muller, “Moisture and wind
effects of Rossby waves on Western Pacific Intertropical Convergence Zone breakdown
events,” Quarterly Journal of the Royal Meteorological Society. Wiley,
2026.
ista: Casallas Garcia A, Mark Tompkins A, Muller CJ. 2026. Moisture and wind effects
of Rossby waves on Western Pacific Intertropical Convergence Zone breakdown events.
Quarterly Journal of the Royal Meteorological Society., e70131.
mla: Casallas Garcia, Alejandro, et al. “Moisture and Wind Effects of Rossby Waves
on Western Pacific Intertropical Convergence Zone Breakdown Events.” Quarterly
Journal of the Royal Meteorological Society, e70131, Wiley, 2026, doi:10.1002/qj.70131.
short: A. Casallas Garcia, A. Mark Tompkins, C.J. Muller, Quarterly Journal of the
Royal Meteorological Society (2026).
corr_author: '1'
date_created: 2026-02-12T10:13:02Z
date_published: 2026-02-12T00:00:00Z
date_updated: 2026-02-16T10:19:52Z
day: '12'
ddc:
- '550'
department:
- _id: CaMu
doi: 10.1002/qj.70131
ec_funded: 1
has_accepted_license: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1002/qj.70131
month: '02'
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: 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: Quarterly Journal of the Royal Meteorological Society
publication_identifier:
eissn:
- 1477-870X
issn:
- 0035-9009
publication_status: epub_ahead
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Moisture and wind effects of Rossby waves on Western Pacific Intertropical
Convergence Zone breakdown events
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
year: '2026'
...