---
_id: '17284'
abstract:
- lang: eng
text: Platelet homeostasis is essential for vascular integrity and immune defence1,2.
Although the process of platelet formation by fragmenting megakaryocytes (MKs;
thrombopoiesis) has been extensively studied, the cellular and molecular mechanisms
required to constantly replenish the pool of MKs by their progenitor cells (megakaryopoiesis)
remains unclear3,4. Here we use intravital imaging to track the cellular dynamics
of megakaryopoiesis over days. We identify plasmacytoid dendritic cells (pDCs)
as homeostatic sensors that monitor the bone marrow for apoptotic MKs and deliver
IFNα to the MK niche triggering local on-demand proliferation and maturation of
MK progenitors. This pDC-dependent feedback loop is crucial for MK and platelet
homeostasis at steady state and under stress. pDCs are best known for their ability
to function as vigilant detectors of viral infection5. We show that virus-induced
activation of pDCs interferes with their function as homeostatic sensors of megakaryopoiesis.
Consequently, activation of pDCs by SARS-CoV-2 leads to excessive megakaryopoiesis.
Together, we identify a pDC-dependent homeostatic circuit that involves innate
immune sensing and demand-adapted release of inflammatory mediators to maintain
homeostasis of the megakaryocytic lineage.
acknowledgement: 'We thank S. Helmer, N. Blount, E. Raatz and Z. Sisic for technical
assistance. This work was funded by the Deutsche Forschungsgemeinschaft (DFG, German
Research Foundation) SFB 1123 (S.M. project B06); SFB 914 (S.M. projects B02 and
Z01, H.I.-A. project Z01, S.S. project A06, K.S. project B02, C. Schulz project
A10, B.W. project A02, C. Scheiermann project B09); SFB 1054 (T.B. project B03);
FOR2033 (F.G., R.A.J.O., S.M.); Individual research grant project ID: 514478744
(F.G.); Heisenberg Programme project ID: 514477451 (F.G.); the DZHK (German Center
for Cardiovascular Research) (MHA 1.4VD (S.M.), Postdoc Start-up Grant, 81×3600213
(F.G.)); and LMUexcellence NFF (F.G.). W.F. received funding from China Scholarship
Council (CSC, no. 201306270012). P.B. is supported by the German Research Foundation
(DFG, project IDs 322900939, 432698239 and 445703531), European Research Council
(ERC Consolidator grant no. 101001791) and the Federal Ministry of Education and
Research (BMBF, STOP-FSGS-01GM2202C and NATON within the framework of the Network
of University Medicine, no. 01KX2121). S.v.S. is supported by the START-Program
of the Faculty of Medicine of the RWTH Aachen University (AZ 125/17). A.D. and S.E.
are supported by the German Research Foundation (SFB TRR 267); S.E. by the BMBF
in the framework of the Cluster4future program (CNATM—Cluster for Nucleic Acid Therapeutics
Munich). This project has received funding from the European Research Council (ERC)
under the European Union’s Horizon 2020 research and innovation programme (grant
agreement no. 833440 to S.M.). F.G. received funding from the European Union’s Horizon
2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement
no. 747687. The project is funded by the European Union (ERC, MEKanics, 101078110).
Views and opinions expressed are 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: Yes (in subscription journal)
article_type: original
author:
- first_name: Florian R
full_name: Gärtner, Florian R
id: 397A88EE-F248-11E8-B48F-1D18A9856A87
last_name: Gärtner
orcid: 0000-0001-6120-3723
- first_name: Hellen
full_name: Ishikawa-Ankerhold, Hellen
last_name: Ishikawa-Ankerhold
- first_name: Susanne
full_name: Stutte, Susanne
last_name: Stutte
- first_name: Wenwen
full_name: Fu, Wenwen
last_name: Fu
- first_name: Jutta
full_name: Weitz, Jutta
last_name: Weitz
- first_name: Anne
full_name: Dueck, Anne
last_name: Dueck
- first_name: Bhavishya
full_name: Nelakuditi, Bhavishya
last_name: Nelakuditi
- first_name: Valeria
full_name: Fumagalli, Valeria
last_name: Fumagalli
- first_name: Dominic
full_name: Van Den Heuvel, Dominic
last_name: Van Den Heuvel
- first_name: Larissa
full_name: Belz, Larissa
last_name: Belz
- first_name: Gulnoza
full_name: Sobirova, Gulnoza
last_name: Sobirova
- first_name: Zhe
full_name: Zhang, Zhe
last_name: Zhang
- first_name: Anna
full_name: Titova, Anna
last_name: Titova
- first_name: Alejandro Martinez
full_name: Navarro, Alejandro Martinez
last_name: Navarro
- first_name: Kami
full_name: Pekayvaz, Kami
last_name: Pekayvaz
- first_name: Michael
full_name: Lorenz, Michael
last_name: Lorenz
- first_name: Louisa
full_name: Von Baumgarten, Louisa
last_name: Von Baumgarten
- first_name: Jan
full_name: Kranich, Jan
last_name: Kranich
- first_name: Tobias
full_name: Straub, Tobias
last_name: Straub
- first_name: Bastian
full_name: Popper, Bastian
last_name: Popper
- first_name: Vanessa
full_name: Zheden, Vanessa
id: 39C5A68A-F248-11E8-B48F-1D18A9856A87
last_name: Zheden
orcid: 0000-0002-9438-4783
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Chenglong
full_name: Guo, Chenglong
last_name: Guo
- first_name: Guido
full_name: Piontek, Guido
last_name: Piontek
- first_name: Saskia
full_name: Von Stillfried, Saskia
last_name: Von Stillfried
- first_name: Peter
full_name: Boor, Peter
last_name: Boor
- first_name: Marco
full_name: Colonna, Marco
last_name: Colonna
- first_name: Sebastian
full_name: Clauß, Sebastian
last_name: Clauß
- first_name: Christian
full_name: Schulz, Christian
last_name: Schulz
- first_name: Thomas
full_name: Brocker, Thomas
last_name: Brocker
- first_name: Barbara
full_name: Walzog, Barbara
last_name: Walzog
- first_name: Christoph
full_name: Scheiermann, Christoph
last_name: Scheiermann
- first_name: William C.
full_name: Aird, William C.
last_name: Aird
- first_name: Claus
full_name: Nerlov, Claus
last_name: Nerlov
- first_name: Konstantin
full_name: Stark, Konstantin
last_name: Stark
- first_name: Tobias
full_name: Petzold, Tobias
last_name: Petzold
- first_name: Stefan
full_name: Engelhardt, Stefan
last_name: Engelhardt
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Martina
full_name: Rudelius, Martina
last_name: Rudelius
- first_name: Robert A.J.
full_name: Oostendorp, Robert A.J.
last_name: Oostendorp
- first_name: Matteo
full_name: Iannacone, Matteo
last_name: Iannacone
- first_name: Matthias
full_name: Heinig, Matthias
last_name: Heinig
- first_name: Steffen
full_name: Massberg, Steffen
last_name: Massberg
citation:
ama: Gärtner FR, Ishikawa-Ankerhold H, Stutte S, et al. Plasmacytoid dendritic cells
control homeostasis of megakaryopoiesis. Nature. 2024;631:645-653. doi:10.1038/s41586-024-07671-y
apa: Gärtner, F. R., Ishikawa-Ankerhold, H., Stutte, S., Fu, W., Weitz, J., Dueck,
A., … Massberg, S. (2024). Plasmacytoid dendritic cells control homeostasis of
megakaryopoiesis. Nature. Springer Nature. https://doi.org/10.1038/s41586-024-07671-y
chicago: Gärtner, Florian R, Hellen Ishikawa-Ankerhold, Susanne Stutte, Wenwen Fu,
Jutta Weitz, Anne Dueck, Bhavishya Nelakuditi, et al. “Plasmacytoid Dendritic
Cells Control Homeostasis of Megakaryopoiesis.” Nature. Springer Nature,
2024. https://doi.org/10.1038/s41586-024-07671-y.
ieee: F. R. Gärtner et al., “Plasmacytoid dendritic cells control homeostasis
of megakaryopoiesis,” Nature, vol. 631. Springer Nature, pp. 645–653, 2024.
ista: Gärtner FR, Ishikawa-Ankerhold H, Stutte S, Fu W, Weitz J, Dueck A, Nelakuditi
B, Fumagalli V, Van Den Heuvel D, Belz L, Sobirova G, Zhang Z, Titova A, Navarro
AM, Pekayvaz K, Lorenz M, Von Baumgarten L, Kranich J, Straub T, Popper B, Zheden
V, Kaufmann W, Guo C, Piontek G, Von Stillfried S, Boor P, Colonna M, Clauß S,
Schulz C, Brocker T, Walzog B, Scheiermann C, Aird WC, Nerlov C, Stark K, Petzold
T, Engelhardt S, Sixt MK, Hauschild R, Rudelius M, Oostendorp RAJ, Iannacone M,
Heinig M, Massberg S. 2024. Plasmacytoid dendritic cells control homeostasis of
megakaryopoiesis. Nature. 631, 645–653.
mla: Gärtner, Florian R., et al. “Plasmacytoid Dendritic Cells Control Homeostasis
of Megakaryopoiesis.” Nature, vol. 631, Springer Nature, 2024, pp. 645–53,
doi:10.1038/s41586-024-07671-y.
short: F.R. Gärtner, H. Ishikawa-Ankerhold, S. Stutte, W. Fu, J. Weitz, A. Dueck,
B. Nelakuditi, V. Fumagalli, D. Van Den Heuvel, L. Belz, G. Sobirova, Z. Zhang,
A. Titova, A.M. Navarro, K. Pekayvaz, M. Lorenz, L. Von Baumgarten, J. Kranich,
T. Straub, B. Popper, V. Zheden, W. Kaufmann, C. Guo, G. Piontek, S. Von Stillfried,
P. Boor, M. Colonna, S. Clauß, C. Schulz, T. Brocker, B. Walzog, C. Scheiermann,
W.C. Aird, C. Nerlov, K. Stark, T. Petzold, S. Engelhardt, M.K. Sixt, R. Hauschild,
M. Rudelius, R.A.J. Oostendorp, M. Iannacone, M. Heinig, S. Massberg, Nature 631
(2024) 645–653.
corr_author: '1'
date_created: 2024-07-21T22:01:02Z
date_published: 2024-07-18T00:00:00Z
date_updated: 2025-09-08T08:14:25Z
day: '18'
ddc:
- '570'
department:
- _id: EM-Fac
- _id: MiSi
- _id: Bio
doi: 10.1038/s41586-024-07671-y
ec_funded: 1
external_id:
isi:
- '001281636500020'
pmid:
- '38987596'
file:
- access_level: open_access
checksum: aa004afc72d2489f0fb0fcbc9919fbbd
content_type: application/pdf
creator: dernst
date_created: 2024-07-22T06:16:11Z
date_updated: 2024-07-22T06:16:11Z
file_id: '17286'
file_name: 2024_Nature_Gaertner.pdf
file_size: 15704819
relation: main_file
success: 1
file_date_updated: 2024-07-22T06:16:11Z
has_accepted_license: '1'
intvolume: ' 631'
isi: 1
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '07'
oa: 1
oa_version: Published Version
page: 645-653
pmid: 1
project:
- _id: 260AA4E2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '747687'
name: Mechanical Adaptation of Lamellipodial Actin Networks in Migrating Cells
publication: Nature
publication_identifier:
eissn:
- 1476-4687
issn:
- 0028-0836
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/heiniglab/gaertner_megakaryocytes
scopus_import: '1'
status: public
title: Plasmacytoid dendritic cells control homeostasis of megakaryopoiesis
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 631
year: '2024'
...
---
OA_place: repository
OA_type: green
_id: '17285'
abstract:
- lang: eng
text: Winter plants rely on vernalization, a crucial process for adapting to cold
conditions and ensuring successful reproduction. However, understanding the role
of histone modifications in guiding the vernalization process in winter wheat
remains limited. In this study, we investigated the transcriptome and chromatin
dynamics in the shoot apex throughout the life cycle of winter wheat in the field.
Two core histone modifications, H3K27me3 and H3K36me3, exhibited opposite patterns
on the key vernalization gene VERNALIZATION1 (VRN1), correlating with its induction
during cold exposure. Moreover, the H3K36me3 level remained high at VRN1 after
cold exposure, which may maintain its active state. Mutations in FERTILIZATION-INDEPENDENT
ENDOSPERM (TaFIE) and SET DOMAIN GROUP 8/EARLY FLOWERING IN SHORT DAYS (TaSDG8/TaEFS),
components of the writer complex for H3K27me3 and H3K36me3, respectively, affected
flowering time. Intriguingly, VRN1 lost its high expression after the cold exposure
memory in the absence of H3K36me3. During embryo development, VRN1 was silenced
with the removal of active histone modifications in both winter and spring wheat,
with selective restoration of H3K27me3 in winter wheat. The mutant of Tafie-cr-87,
a component of H3K27me3 “writer” complex, did not influence the silence of VRN1
during embryo development, but rather attenuated the cold exposure requirement
of winter wheat. Integrating gene expression with H3K27me3 and H3K36me3 patterns
identified potential regulators of flowering. This study unveils distinct roles
of H3K27me3 and H3K36me3 in controlling vernalization response, maintenance, and
resetting in winter wheat.
acknowledgement: We thank Prof. Kang Chong from Institute of Botany, the Chinese Academy
of Science for valuable comments, Dr. Haoran Li for the help with western blot of
H3K36me3 in Tasdg8-cr lines. This research was supported by National Natural Science
Foundation (31970529), Beijing Natural Science Foundation Outstanding Youth Project
(JQ23026), National Key Research and Development Program of China (2021YFD1201500),
and the Major Basic Research Program of Shandong Natural Science Foundation (ZR2019ZD15).
article_processing_charge: No
article_type: original
author:
- first_name: Xuemei
full_name: Liu, Xuemei
last_name: Liu
- first_name: Min
full_name: Deng, Min
last_name: Deng
- first_name: Bingxin
full_name: Shi, Bingxin
last_name: Shi
- first_name: Kehui
full_name: Zhu, Kehui
last_name: Zhu
- first_name: Jinchao
full_name: Chen, Jinchao
last_name: Chen
- first_name: Shujuan
full_name: Xu, Shujuan
id: 9724dd9d-f591-11ee-bd51-e97ed0652286
last_name: Xu
- first_name: Xiaomin
full_name: Bie, Xiaomin
last_name: Bie
- first_name: Xiansheng
full_name: Zhang, Xiansheng
last_name: Zhang
- first_name: Xuelei
full_name: Lin, Xuelei
last_name: Lin
- first_name: Jun
full_name: Xiao, Jun
last_name: Xiao
citation:
ama: Liu X, Deng M, Shi B, et al. Distinct roles of H3K27me3 and H3K36me3 in vernalization
response, maintenance, and resetting in winter wheat. Science China Life Sciences.
2024;67:2251-2266. doi:10.1007/s11427-024-2664-0
apa: Liu, X., Deng, M., Shi, B., Zhu, K., Chen, J., Xu, S., … Xiao, J. (2024). Distinct
roles of H3K27me3 and H3K36me3 in vernalization response, maintenance, and resetting
in winter wheat. Science China Life Sciences. Springer Nature. https://doi.org/10.1007/s11427-024-2664-0
chicago: Liu, Xuemei, Min Deng, Bingxin Shi, Kehui Zhu, Jinchao Chen, Shujuan Xu,
Xiaomin Bie, Xiansheng Zhang, Xuelei Lin, and Jun Xiao. “Distinct Roles of H3K27me3
and H3K36me3 in Vernalization Response, Maintenance, and Resetting in Winter Wheat.”
Science China Life Sciences. Springer Nature, 2024. https://doi.org/10.1007/s11427-024-2664-0.
ieee: X. Liu et al., “Distinct roles of H3K27me3 and H3K36me3 in vernalization
response, maintenance, and resetting in winter wheat,” Science China Life Sciences,
vol. 67. Springer Nature, pp. 2251–2266, 2024.
ista: Liu X, Deng M, Shi B, Zhu K, Chen J, Xu S, Bie X, Zhang X, Lin X, Xiao J.
2024. Distinct roles of H3K27me3 and H3K36me3 in vernalization response, maintenance,
and resetting in winter wheat. Science China Life Sciences. 67, 2251–2266.
mla: Liu, Xuemei, et al. “Distinct Roles of H3K27me3 and H3K36me3 in Vernalization
Response, Maintenance, and Resetting in Winter Wheat.” Science China Life Sciences,
vol. 67, Springer Nature, 2024, pp. 2251–66, doi:10.1007/s11427-024-2664-0.
short: X. Liu, M. Deng, B. Shi, K. Zhu, J. Chen, S. Xu, X. Bie, X. Zhang, X. Lin,
J. Xiao, Science China Life Sciences 67 (2024) 2251–2266.
date_created: 2024-07-21T22:01:02Z
date_published: 2024-10-01T00:00:00Z
date_updated: 2025-09-08T08:15:08Z
day: '01'
department:
- _id: XiFe
doi: 10.1007/s11427-024-2664-0
external_id:
isi:
- '001268807700002'
pmid:
- '38987431'
intvolume: ' 67'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2023.12.19.572364
month: '10'
oa: 1
oa_version: Preprint
page: 2251-2266
pmid: 1
publication: Science China Life Sciences
publication_identifier:
eissn:
- 1869-1889
issn:
- 1674-7305
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Distinct roles of H3K27me3 and H3K36me3 in vernalization response, maintenance,
and resetting in winter wheat
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 67
year: '2024'
...
---
OA_place: publisher
OA_type: hybrid
_id: '17291'
abstract:
- lang: eng
text: Bacterial cell walls are gigadalton-large cross-linked polymers with a wide
range of motional amplitudes, including rather rigid as well as highly flexible
parts. Magic-angle spinning NMR is a powerful method to obtain atomic-level information
about intact cell walls. Here we investigate sensitivity and information content
of different homonuclear 13Csingle bond13C and heteronuclear 1Hsingle bond15N,
1Hsingle bond13C and 15Nsingle bond13C correlation experiments. We demonstrate
that a CPMAS CryoProbe yields ca. 8-fold increased signal-to-noise over a room-temperature
probe, or a ca. 3–4-fold larger per-mass sensitivity. The increased sensitivity
allowed to obtain high-resolution spectra even on intact bacteria. Moreover, we
compare resolution and sensitivity of 1H MAS experiments obtained at 100 kHz vs.
55 kHz. Our study provides useful hints for choosing experiments to extract atomic-level
details on cell-wall samples.
acknowledgement: "This research was supported by the French Agence Nationale de la
Recherche (\r\nANR-16-CE11-0030-12, TransPepNMR). This work used the platforms of
the Grenoble Instruct-ERIC center (ISBG; UAR 3518 CNRS-CEA-UGA-EMBL) within the
Grenoble Partnership for Structural Biology (PSB), supported by FRISBI, France (ANR-10-INBS-0005-02\r\n)
and GRAL, financed within the University Grenoble Alpes graduate school (Ecoles
Universitaires de Recherche), CBH-EUR-GS (ANR-17-EURE-0003). Financial support from
the IR INFRANALYTICS FR2054 for conducting the research and intramural funding by
the Institute of Science and Technology Austria (ISTA) are gratefully acknowledged."
article_number: '107708'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Alicia
full_name: Vallet, Alicia
last_name: Vallet
- first_name: Isabel
full_name: Ayala, Isabel
last_name: Ayala
- first_name: Barbara
full_name: Perrone, Barbara
last_name: Perrone
- first_name: Alia
full_name: Hassan, Alia
last_name: Hassan
- first_name: Jean-Pierre
full_name: Simorre, Jean-Pierre
last_name: Simorre
- first_name: Catherine
full_name: Bougault, Catherine
last_name: Bougault
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
citation:
ama: 'Vallet A, Ayala I, Perrone B, et al. MAS NMR experiments of corynebacterial
cell walls: Complementary 1H- and CPMAS CryoProbe-enhanced 13C-detected experiments.
Journal of Magnetic Resonance. 2024;364. doi:10.1016/j.jmr.2024.107708'
apa: 'Vallet, A., Ayala, I., Perrone, B., Hassan, A., Simorre, J.-P., Bougault,
C., & Schanda, P. (2024). MAS NMR experiments of corynebacterial cell walls:
Complementary 1H- and CPMAS CryoProbe-enhanced 13C-detected experiments. Journal
of Magnetic Resonance. Elsevier. https://doi.org/10.1016/j.jmr.2024.107708'
chicago: 'Vallet, Alicia, Isabel Ayala, Barbara Perrone, Alia Hassan, Jean-Pierre
Simorre, Catherine Bougault, and Paul Schanda. “MAS NMR Experiments of Corynebacterial
Cell Walls: Complementary 1H- and CPMAS CryoProbe-Enhanced 13C-Detected Experiments.”
Journal of Magnetic Resonance. Elsevier, 2024. https://doi.org/10.1016/j.jmr.2024.107708.'
ieee: 'A. Vallet et al., “MAS NMR experiments of corynebacterial cell walls:
Complementary 1H- and CPMAS CryoProbe-enhanced 13C-detected experiments,” Journal
of Magnetic Resonance, vol. 364. Elsevier, 2024.'
ista: 'Vallet A, Ayala I, Perrone B, Hassan A, Simorre J-P, Bougault C, Schanda
P. 2024. MAS NMR experiments of corynebacterial cell walls: Complementary 1H-
and CPMAS CryoProbe-enhanced 13C-detected experiments. Journal of Magnetic Resonance.
364, 107708.'
mla: 'Vallet, Alicia, et al. “MAS NMR Experiments of Corynebacterial Cell Walls:
Complementary 1H- and CPMAS CryoProbe-Enhanced 13C-Detected Experiments.” Journal
of Magnetic Resonance, vol. 364, 107708, Elsevier, 2024, doi:10.1016/j.jmr.2024.107708.'
short: A. Vallet, I. Ayala, B. Perrone, A. Hassan, J.-P. Simorre, C. Bougault, P.
Schanda, Journal of Magnetic Resonance 364 (2024).
corr_author: '1'
date_created: 2024-07-22T07:44:10Z
date_published: 2024-07-01T00:00:00Z
date_updated: 2025-09-09T12:01:41Z
day: '01'
ddc:
- '570'
department:
- _id: PaSc
doi: 10.1016/j.jmr.2024.107708
external_id:
isi:
- '001259302800001'
pmid:
- '38901173'
file:
- access_level: open_access
checksum: 4b59f4f0c287ecbafd808da1212ced38
content_type: application/pdf
creator: dernst
date_created: 2024-07-23T06:23:51Z
date_updated: 2024-07-23T06:23:51Z
file_id: '17316'
file_name: 2024_JourMagneticResonance_Vallet.pdf
file_size: 2236665
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success: 1
file_date_updated: 2024-07-23T06:23:51Z
has_accepted_license: '1'
intvolume: ' 364'
isi: 1
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
publication: Journal of Magnetic Resonance
publication_identifier:
issn:
- 1090-7807
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '17042'
relation: research_data
status: public
scopus_import: '1'
status: public
title: 'MAS NMR experiments of corynebacterial cell walls: Complementary 1H- and CPMAS
CryoProbe-enhanced 13C-detected experiments'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 364
year: '2024'
...
---
OA_place: repository
OA_type: green
_id: '17302'
abstract:
- lang: eng
text: The mountain cryosphere and groundwater play pivotal roles in shaping the
hydrological cycle, yet their connectivity remains incompletely understood. Current
knowledge on meltwater recharge and consequent groundwater discharge processes
is better developed for snow–groundwater connectivity than for glacier–groundwater
connectivity. Estimates of meltwater recharge vary considerably, which is probably
a function of not only inherent catchment characteristics but also of the different
spatio-temporal scales involved and the uncertainties in the methods used. This
hinders a comprehensive understanding of the mountain water cycle. As glaciers
retreat, permafrost thaws and snowpack diminishes, the relative importance of
mountain groundwater is expected to increase. However, shifting and declining
recharge from the cryosphere may decrease absolute groundwater amounts and fluxes
with as-yet unknown effects on catchment-scale hydrological processes. We therefore
stress the need to better quantify mountain cryosphere–groundwater connectivity
to predict climate change impacts on mountain water supply and to support sustainable
water resource management of downstream socio-ecological systems.
acknowledgement: 'We acknowledge the Mountain Research Initiative (MRI) for sponsoring
the workshop ‘Cryosphere-groundwater Interactions: A Missing Link in Mountain Water
Research’ via their funding from the Swiss Academy of Sciences (SCNAT) under project
no. FNW0004 004-2019-00. M.v.T. was supported by a Walter Benjamin fellowship from
the German Research Foundation (DFG) under project no. 510684314. C.A.-W. was supported
by the Banting Postdoctoral Fellowships programme, administered by the government
of Canada. G.C. acknowledges the support of the DFG research unit (FOR2793/2) investigating
the ‘Sensitivity of High Alpine Geosystems to Climate Change since 1850’ (SEHAG)
under grant CH981/3-2. F.D. acknowledges funding from the Dirección de Fomento de
la Investigación at PUCP. I.d.G. acknowledges funding from the European Research
Council (ERC) under grant agreement GROW-101041110. V.Y. was supported by Nazarbayev
University under CRP research grant no. 021220CRP2122. We thank D. Masovic of VAW,
ETH Zurich, for drawing Fig. 1.'
article_processing_charge: No
article_type: original
author:
- first_name: Marit
full_name: van Tiel, Marit
last_name: van Tiel
- first_name: Caroline
full_name: Aubry-Wake, Caroline
last_name: Aubry-Wake
- first_name: Lauren
full_name: Somers, Lauren
last_name: Somers
- first_name: Christoff
full_name: Andermann, Christoff
last_name: Andermann
- first_name: Francesco
full_name: Avanzi, Francesco
last_name: Avanzi
- first_name: Michel
full_name: Baraer, Michel
last_name: Baraer
- first_name: Gabriele
full_name: Chiogna, Gabriele
last_name: Chiogna
- first_name: Clémence
full_name: Daigre, Clémence
last_name: Daigre
- first_name: Soumik
full_name: Das, Soumik
last_name: Das
- first_name: Fabian
full_name: Drenkhan, Fabian
last_name: Drenkhan
- first_name: Daniel
full_name: Farinotti, Daniel
last_name: Farinotti
- first_name: Catriona Louise
full_name: Fyffe, Catriona Louise
id: 001b0422-8d15-11ed-bc51-cab6c037a228
last_name: Fyffe
- first_name: Inge
full_name: de Graaf, Inge
last_name: de Graaf
- first_name: Sarah
full_name: Hanus, Sarah
last_name: Hanus
- first_name: Walter
full_name: Immerzeel, Walter
last_name: Immerzeel
- first_name: Franziska
full_name: Koch, Franziska
last_name: Koch
- first_name: Jeffrey M.
full_name: McKenzie, Jeffrey M.
last_name: McKenzie
- first_name: Tom
full_name: Müller, Tom
last_name: Müller
- first_name: Andrea L.
full_name: Popp, Andrea L.
last_name: Popp
- first_name: Zarina
full_name: Saidaliyeva, Zarina
last_name: Saidaliyeva
- first_name: Bettina
full_name: Schaefli, Bettina
last_name: Schaefli
- first_name: Oliver S.
full_name: Schilling, Oliver S.
last_name: Schilling
- first_name: Kapiolani
full_name: Teagai, Kapiolani
last_name: Teagai
- first_name: James M.
full_name: Thornton, James M.
last_name: Thornton
- first_name: Vadim
full_name: Yapiyev, Vadim
last_name: Yapiyev
citation:
ama: van Tiel M, Aubry-Wake C, Somers L, et al. Cryosphere–groundwater connectivity
is a missing link in the mountain water cycle. Nature Water. 2024;2:624-637.
doi:10.1038/s44221-024-00277-8
apa: van Tiel, M., Aubry-Wake, C., Somers, L., Andermann, C., Avanzi, F., Baraer,
M., … Yapiyev, V. (2024). Cryosphere–groundwater connectivity is a missing link
in the mountain water cycle. Nature Water. Springer Nature. https://doi.org/10.1038/s44221-024-00277-8
chicago: Tiel, Marit van, Caroline Aubry-Wake, Lauren Somers, Christoff Andermann,
Francesco Avanzi, Michel Baraer, Gabriele Chiogna, et al. “Cryosphere–Groundwater
Connectivity Is a Missing Link in the Mountain Water Cycle.” Nature Water.
Springer Nature, 2024. https://doi.org/10.1038/s44221-024-00277-8.
ieee: M. van Tiel et al., “Cryosphere–groundwater connectivity is a missing
link in the mountain water cycle,” Nature Water, vol. 2. Springer Nature,
pp. 624–637, 2024.
ista: van Tiel M, Aubry-Wake C, Somers L, Andermann C, Avanzi F, Baraer M, Chiogna
G, Daigre C, Das S, Drenkhan F, Farinotti D, Fyffe CL, de Graaf I, Hanus S, Immerzeel
W, Koch F, McKenzie JM, Müller T, Popp AL, Saidaliyeva Z, Schaefli B, Schilling
OS, Teagai K, Thornton JM, Yapiyev V. 2024. Cryosphere–groundwater connectivity
is a missing link in the mountain water cycle. Nature Water. 2, 624–637.
mla: van Tiel, Marit, et al. “Cryosphere–Groundwater Connectivity Is a Missing Link
in the Mountain Water Cycle.” Nature Water, vol. 2, Springer Nature, 2024,
pp. 624–37, doi:10.1038/s44221-024-00277-8.
short: M. van Tiel, C. Aubry-Wake, L. Somers, C. Andermann, F. Avanzi, M. Baraer,
G. Chiogna, C. Daigre, S. Das, F. Drenkhan, D. Farinotti, C.L. Fyffe, I. de Graaf,
S. Hanus, W. Immerzeel, F. Koch, J.M. McKenzie, T. Müller, A.L. Popp, Z. Saidaliyeva,
B. Schaefli, O.S. Schilling, K. Teagai, J.M. Thornton, V. Yapiyev, Nature Water
2 (2024) 624–637.
date_created: 2024-07-22T09:46:52Z
date_published: 2024-07-19T00:00:00Z
date_updated: 2025-12-02T13:42:28Z
day: '19'
department:
- _id: FrPe
doi: 10.1038/s44221-024-00277-8
external_id:
isi:
- '001390137500016'
intvolume: ' 2'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://insu.hal.science/insu-04674297
month: '07'
oa: 1
oa_version: Submitted Version
page: 624-637
publication: Nature Water
publication_identifier:
issn:
- 2731-6084
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Cryosphere–groundwater connectivity is a missing link in the mountain water
cycle
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2024'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '17322'
abstract:
- lang: eng
text: Machine learning interatomic potentials are revolutionizing large-scale, accurate
atomistic modeling in material science and chemistry. Many potentials use atomic
cluster expansion or equivariant message-passing frameworks. Such frameworks typically
use spherical harmonics as angular basis functions, followed by Clebsch-Gordan
contraction to maintain rotational symmetry. We propose a mathematically equivalent
and simple alternative that performs all operations in the Cartesian coordinates.
This approach provides a complete set of polynormially independent features of
atomic environments while maintaining interaction body orders. Additionally, we
integrate low-dimensional embeddings of various chemical elements, trainable radial
channel coupling, and inter-atomic message passing. The resulting potential, named
Cartesian Atomic Cluster Expansion (CACE), exhibits good accuracy, stability,
and generalizability. We validate its performance in diverse systems, including
bulk water, small molecules, and 25-element high-entropy alloys.
acknowledgement: B.C. thanks Ralf Drautz and Ngoc Cuong Nguyen for illuminating discussions.
article_number: '157'
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: Bingqing
full_name: Cheng, Bingqing
id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
last_name: Cheng
orcid: 0000-0002-3584-9632
citation:
ama: Cheng B. Cartesian atomic cluster expansion for machine learning interatomic
potentials. npj Computational Materials. 2024;10. doi:10.1038/s41524-024-01332-4
apa: Cheng, B. (2024). Cartesian atomic cluster expansion for machine learning interatomic
potentials. Npj Computational Materials. Springer Nature. https://doi.org/10.1038/s41524-024-01332-4
chicago: Cheng, Bingqing. “Cartesian Atomic Cluster Expansion for Machine Learning
Interatomic Potentials.” Npj Computational Materials. Springer Nature,
2024. https://doi.org/10.1038/s41524-024-01332-4.
ieee: B. Cheng, “Cartesian atomic cluster expansion for machine learning interatomic
potentials,” npj Computational Materials, vol. 10. Springer Nature, 2024.
ista: Cheng B. 2024. Cartesian atomic cluster expansion for machine learning interatomic
potentials. npj Computational Materials. 10, 157.
mla: Cheng, Bingqing. “Cartesian Atomic Cluster Expansion for Machine Learning Interatomic
Potentials.” Npj Computational Materials, vol. 10, 157, Springer Nature,
2024, doi:10.1038/s41524-024-01332-4.
short: B. Cheng, Npj Computational Materials 10 (2024).
corr_author: '1'
date_created: 2024-07-28T22:01:08Z
date_published: 2024-07-18T00:00:00Z
date_updated: 2025-09-08T08:43:34Z
day: '18'
ddc:
- '000'
department:
- _id: BiCh
doi: 10.1038/s41524-024-01332-4
external_id:
arxiv:
- '2402.07472'
isi:
- '001271730700001'
file:
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checksum: e6b4d1a45a9ef1e9be35b313d96ebd6f
content_type: application/pdf
creator: dernst
date_created: 2025-01-09T12:36:48Z
date_updated: 2025-01-09T12:36:48Z
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file_name: 2024_npjComputationalMaterials_Cheng.pdf
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oa_version: Published Version
publication: npj Computational Materials
publication_identifier:
eissn:
- 2057-3960
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Cartesian atomic cluster expansion for machine learning interatomic potentials
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 10
year: '2024'
...
---
_id: '17325'
abstract:
- lang: eng
text: Bacterial ion fluxes are involved in the generation of energy, transport,
and motility. As such, bacterial electrophysiology is fundamentally important
for the bacterial life cycle, but it is often neglected and consequently, by and
large, not understood. Arguably, the two main reasons for this are the complexity
of measuring relevant variables in small cells with a cell envelope that contains
the cell wall and the fact that, in a unicellular organism, relevant variables
become intertwined in a nontrivial manner. To help give bacterial electrophysiology
studies a firm footing, in this review, we go back to basics. We look first at
the biophysics of bacterial membrane potential, and then at the approaches and
models developed mostly for the study of neurons and eukaryotic mitochondria.
We discuss their applicability to bacterial cells. Finally, we connect bacterial
membrane potential with other relevant (electro)physiological variables and summarize
methods that can be used to both measure and influence bacterial electrophysiology.
acknowledgement: We would like to thank all members of the Pilizota lab, as well as
Calin Guet, Orkun Soyer, Munehiro Asally, Peter Swain, and in particular Matt Scott
and Ariel Amir, for their support, comments, and useful discussions. T.P. and W.-C.L.
were supported by the Leverhulme Trust, grant RPG-2019-187, and T.P. is supported
by EPSRC Fellowship EP/V03264X/1. E.K. was supported by a European Molecular Biology
Organization Long-Term Postdoctoral Fellowship, ALTF 44-2021.
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Wei Chang
full_name: Lo, Wei Chang
last_name: Lo
- first_name: Ekaterina
full_name: Krasnopeeva, Ekaterina
id: 1F1EE44A-BF83-11EA-B3C1-BB9CC619BF3A
last_name: Krasnopeeva
- first_name: Teuta
full_name: Pilizota, Teuta
last_name: Pilizota
citation:
ama: Lo WC, Krasnopeeva E, Pilizota T. Bacterial Electrophysiology. Annual Review
of Biophysics. 2024;53:487-510. doi:10.1146/annurev-biophys-030822-032215
apa: Lo, W. C., Krasnopeeva, E., & Pilizota, T. (2024). Bacterial Electrophysiology.
Annual Review of Biophysics. Annual Reviews. https://doi.org/10.1146/annurev-biophys-030822-032215
chicago: Lo, Wei Chang, Ekaterina Krasnopeeva, and Teuta Pilizota. “Bacterial Electrophysiology.”
Annual Review of Biophysics. Annual Reviews, 2024. https://doi.org/10.1146/annurev-biophys-030822-032215.
ieee: W. C. Lo, E. Krasnopeeva, and T. Pilizota, “Bacterial Electrophysiology,”
Annual Review of Biophysics, vol. 53. Annual Reviews, pp. 487–510, 2024.
ista: Lo WC, Krasnopeeva E, Pilizota T. 2024. Bacterial Electrophysiology. Annual
Review of Biophysics. 53, 487–510.
mla: Lo, Wei Chang, et al. “Bacterial Electrophysiology.” Annual Review of Biophysics,
vol. 53, Annual Reviews, 2024, pp. 487–510, doi:10.1146/annurev-biophys-030822-032215.
short: W.C. Lo, E. Krasnopeeva, T. Pilizota, Annual Review of Biophysics 53 (2024)
487–510.
date_created: 2024-07-28T22:01:09Z
date_published: 2024-07-01T00:00:00Z
date_updated: 2025-09-08T08:34:43Z
day: '01'
ddc:
- '570'
department:
- _id: CaGu
doi: 10.1146/annurev-biophys-030822-032215
external_id:
isi:
- '001278237500021'
pmid:
- '38382113'
file:
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checksum: e0505553b3cee624fa865f0cc5a99ecc
content_type: application/pdf
creator: dernst
date_created: 2024-07-29T10:56:01Z
date_updated: 2024-07-29T10:56:01Z
file_id: '17339'
file_name: 2024_AnnualReviewBiophys_Lo.pdf
file_size: 1276645
relation: main_file
success: 1
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has_accepted_license: '1'
intvolume: ' 53'
isi: 1
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 487-510
pmid: 1
project:
- _id: eb872896-77a9-11ec-83b8-f59a38ec17f8
grant_number: ALTF 44-2021
name: 'Bacterial cytoplasm glass transition: passive physiological switch or active
survival strategy'
publication: Annual Review of Biophysics
publication_identifier:
eissn:
- 1936-1238
issn:
- 1936-122X
publication_status: published
publisher: Annual Reviews
quality_controlled: '1'
scopus_import: '1'
status: public
title: Bacterial Electrophysiology
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 53
year: '2024'
...
---
DOAJ_listed: '1'
_id: '17326'
abstract:
- lang: eng
text: Magnetic fields in the stellar interiors are key candidates to explain observed
core rotation rates inside solar-like stars along their evolution. Recently, asteroseismic
estimates of radial magnetic field amplitudes near the hydrogen-burning shell
(H-shell) inside about 24 red giants (RGs) have been obtained by measuring frequency
splittings from their power spectra. Using general Lorentz-stress (magnetic) kernels,
we investigated the potential for detectability of near-surface magnetism in a
1.3 M⊙ star of supersolar metallicity as it evolves from a mid subgiant to a late
subgiant into an RG. Based on these sensitivity kernels, we decompose an RG into
three zones—deep core, H-shell, and near-surface. The subgiants instead required
decomposition into an inner core, an outer core, and a near-surface layer. Additionally,
we find that for a low-frequency g-dominated dipolar mode in the presence of a
typical stable magnetic field, ∼25% of the frequency shift comes from the H-shell
and the remaining from deeper layers. The ratio of the subsurface tangential field
to the radial field in the H-burning shell decides if subsurface fields may be
potentially detectable. For p-dominated dipole modes close to vmax, this ratio
is around two orders of magnitude smaller in subgiant phases than the corresponding
RG. Further, with the availability of magnetic kernels, we propose lower limits
of field strengths in crucial layers in our stellar model during its evolutionary
phases. The theoretical prescription outlined here provides the first formal way
to devise inverse problems for stellar magnetism and can be seamlessly employed
for slow rotators.
acknowledgement: "This project has received funding from the European Union's Horizon
2020 research and innovation program under the Marie Skłodowska-Curie grant agreement
No. 101034413. S.\r\nB.D. acknowledges Prof. Jeroen Tromp at Princeton University
for supporting a part of this work. S.M.H., S.B., and S.P. acknowledge support from
the Department of Atomic Energy,\r\nGovernment of India, under Project Identification
No. RTI 4002. The authors would like to thank the reviewer(s) and data editor for
their constructive comments and suggestions. The\r\ngeneration of the stellar models
was done using the Modules for Experiments in Stellar Astrophysics (MESA Paxton
et al. 2011, 2013, 2015, 2018, 2019; we have used MESA version\r\nr22.05.1 for RG
and r23.05.1 for SG models, MESA-SDK version x86_64-linux-22.6.1). The eigenfrequencies
and eigenfunctions for this model were calculated using the GYRE\r\n(Townsend &
Teitler 2013) code. The code to calculate the kernels and the splittings has been
written completely in Python 3.8.16."
article_number: '42'
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: Shatanik
full_name: Bhattacharya, Shatanik
last_name: Bhattacharya
- first_name: Srijan B
full_name: Das, Srijan B
id: 9ce7c423-dacf-11ed-8942-e09c6cb27149
last_name: Das
orcid: 0000-0003-0896-7972
- first_name: Lisa Annabelle
full_name: Bugnet, Lisa Annabelle
id: d9edb345-f866-11ec-9b37-d119b5234501
last_name: Bugnet
orcid: 0000-0003-0142-4000
- first_name: Subrata
full_name: Panda, Subrata
last_name: Panda
- first_name: Shravan M.
full_name: Hanasoge, Shravan M.
last_name: Hanasoge
citation:
ama: Bhattacharya S, Das SB, Bugnet LA, Panda S, Hanasoge SM. Detectability of axisymmetric
magnetic fields from the core to the surface of oscillating post-main-sequence
stars. Astrophysical Journal. 2024;970(1). doi:10.3847/1538-4357/ad4708
apa: Bhattacharya, S., Das, S. B., Bugnet, L. A., Panda, S., & Hanasoge, S.
M. (2024). Detectability of axisymmetric magnetic fields from the core to the
surface of oscillating post-main-sequence stars. Astrophysical Journal.
IOP Publishing. https://doi.org/10.3847/1538-4357/ad4708
chicago: Bhattacharya, Shatanik, Srijan B Das, Lisa Annabelle Bugnet, Subrata Panda,
and Shravan M. Hanasoge. “Detectability of Axisymmetric Magnetic Fields from the
Core to the Surface of Oscillating Post-Main-Sequence Stars.” Astrophysical
Journal. IOP Publishing, 2024. https://doi.org/10.3847/1538-4357/ad4708.
ieee: S. Bhattacharya, S. B. Das, L. A. Bugnet, S. Panda, and S. M. Hanasoge, “Detectability
of axisymmetric magnetic fields from the core to the surface of oscillating post-main-sequence
stars,” Astrophysical Journal, vol. 970, no. 1. IOP Publishing, 2024.
ista: Bhattacharya S, Das SB, Bugnet LA, Panda S, Hanasoge SM. 2024. Detectability
of axisymmetric magnetic fields from the core to the surface of oscillating post-main-sequence
stars. Astrophysical Journal. 970(1), 42.
mla: Bhattacharya, Shatanik, et al. “Detectability of Axisymmetric Magnetic Fields
from the Core to the Surface of Oscillating Post-Main-Sequence Stars.” Astrophysical
Journal, vol. 970, no. 1, 42, IOP Publishing, 2024, doi:10.3847/1538-4357/ad4708.
short: S. Bhattacharya, S.B. Das, L.A. Bugnet, S. Panda, S.M. Hanasoge, Astrophysical
Journal 970 (2024).
date_created: 2024-07-28T22:01:09Z
date_published: 2024-07-15T00:00:00Z
date_updated: 2025-09-08T08:42:20Z
day: '15'
ddc:
- '520'
department:
- _id: LiBu
doi: 10.3847/1538-4357/ad4708
ec_funded: 1
external_id:
arxiv:
- '2404.17167'
isi:
- '001270972500001'
file:
- access_level: open_access
checksum: acb42a87deecbc9228fbbe6a48a37ec6
content_type: application/pdf
creator: dernst
date_created: 2024-07-29T11:02:48Z
date_updated: 2024-07-29T11:02:48Z
file_id: '17340'
file_name: 2024_AstrophysicalJourn_Bhattacharya.pdf
file_size: 3912290
relation: main_file
success: 1
file_date_updated: 2024-07-29T11:02:48Z
has_accepted_license: '1'
intvolume: ' 970'
isi: 1
issue: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Astrophysical Journal
publication_identifier:
eissn:
- 1538-4357
issn:
- 0004-637X
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Detectability of axisymmetric magnetic fields from the core to the surface
of oscillating post-main-sequence stars
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 970
year: '2024'
...
---
_id: '17327'
abstract:
- lang: eng
text: Sequential decision-making in probabilistic environments is a fundamental
problem with many applications in AI and economics. In this paper, we present
an algorithm for synthesizing sequential decision-making agents that optimize
statistical properties such as maximum and average response times. In the general
setting of sequential decision-making, the environment is modeled as a random
process that generates inputs. The agent responds to each input, aiming to maximize
rewards and minimize costs within a specified time horizon. The corresponding
synthesis problem is known to be PSPACE-hard. We consider the special case where
the input distribution, reward, and cost depend on input-output statistics specified
by counter automata. For such problems, this paper presents the first PTIME synthesis
algorithms. We introduce the notion of statistical abstraction, which clusters
statistically indistinguishable input-output sequences into equivalence classes.
This abstraction allows for a dynamic programming algorithm whose complexity grows
polynomially with the considered horizon, making the statistical case exponentially
more efficient than the general case. We evaluate our algorithm on three different
application scenarios of a client-server protocol, where multiple clients compete
via bidding to gain access to the service offered by the server. The synthesized
policies optimize profit while guaranteeing that none of the server’s clients
is disproportionately starved of the service.
acknowledgement: "This work is partly supported by the European Research Council under
Grant No.: ERC2020-AdG 101020093. It is also partially supported by the State Government
of Styria, Austria –\r\nDepartment Zukunftsfonds Steiermark."
alternative_title:
- LIPIcs
article_number: '2'
article_processing_charge: Yes
author:
- first_name: Filip
full_name: Cano, Filip
last_name: Cano
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
- first_name: Bettina
full_name: Könighofer, Bettina
last_name: Könighofer
- first_name: Konstantin
full_name: Kueffner, Konstantin
id: 8121a2d0-dc85-11ea-9058-af578f3b4515
last_name: Kueffner
orcid: 0000-0001-8974-2542
- first_name: Kaushik
full_name: Mallik, Kaushik
id: 0834ff3c-6d72-11ec-94e0-b5b0a4fb8598
last_name: Mallik
orcid: 0000-0001-9864-7475
citation:
ama: 'Cano F, Henzinger TA, Könighofer B, Kueffner K, Mallik K. Abstraction-based
decision making for statistical properties. In: 9th International Conference
on Formal Structures for Computation and Deduction. Vol 299. Schloss Dagstuhl
- Leibniz-Zentrum für Informatik; 2024. doi:10.4230/LIPIcs.FSCD.2024.2'
apa: 'Cano, F., Henzinger, T. A., Könighofer, B., Kueffner, K., & Mallik, K.
(2024). Abstraction-based decision making for statistical properties. In 9th
International Conference on Formal Structures for Computation and Deduction
(Vol. 299). Tallinn, Estonia: Schloss Dagstuhl - Leibniz-Zentrum für Informatik.
https://doi.org/10.4230/LIPIcs.FSCD.2024.2'
chicago: Cano, Filip, Thomas A Henzinger, Bettina Könighofer, Konstantin Kueffner,
and Kaushik Mallik. “Abstraction-Based Decision Making for Statistical Properties.”
In 9th International Conference on Formal Structures for Computation and Deduction,
Vol. 299. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024. https://doi.org/10.4230/LIPIcs.FSCD.2024.2.
ieee: F. Cano, T. A. Henzinger, B. Könighofer, K. Kueffner, and K. Mallik, “Abstraction-based
decision making for statistical properties,” in 9th International Conference
on Formal Structures for Computation and Deduction, Tallinn, Estonia, 2024,
vol. 299.
ista: 'Cano F, Henzinger TA, Könighofer B, Kueffner K, Mallik K. 2024. Abstraction-based
decision making for statistical properties. 9th International Conference on Formal
Structures for Computation and Deduction. FSCD: Conference on Formal Structures
for Computation and Deduction, LIPIcs, vol. 299, 2.'
mla: Cano, Filip, et al. “Abstraction-Based Decision Making for Statistical Properties.”
9th International Conference on Formal Structures for Computation and Deduction,
vol. 299, 2, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024, doi:10.4230/LIPIcs.FSCD.2024.2.
short: F. Cano, T.A. Henzinger, B. Könighofer, K. Kueffner, K. Mallik, in:, 9th
International Conference on Formal Structures for Computation and Deduction, Schloss
Dagstuhl - Leibniz-Zentrum für Informatik, 2024.
conference:
end_date: 2024-07-13
location: Tallinn, Estonia
name: 'FSCD: Conference on Formal Structures for Computation and Deduction'
start_date: 2024-07-10
corr_author: '1'
date_created: 2024-07-28T22:01:09Z
date_published: 2024-07-01T00:00:00Z
date_updated: 2025-12-02T13:43:50Z
day: '01'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.4230/LIPIcs.FSCD.2024.2
ec_funded: 1
external_id:
isi:
- '001587746100002'
file:
- access_level: open_access
checksum: cc6bb89be0eaa404a6ce019392cd293e
content_type: application/pdf
creator: dernst
date_created: 2024-07-29T11:15:59Z
date_updated: 2024-07-29T11:15:59Z
file_id: '17341'
file_name: 2024_LIPICs_Cano.pdf
file_size: 1391381
relation: main_file
success: 1
file_date_updated: 2024-07-29T11:15:59Z
has_accepted_license: '1'
intvolume: ' 299'
isi: 1
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: 9th International Conference on Formal Structures for Computation and
Deduction
publication_identifier:
isbn:
- '9783959773232'
issn:
- 1868-8969
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
scopus_import: '1'
status: public
title: Abstraction-based decision making for statistical properties
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 299
year: '2024'
...
---
_id: '17329'
abstract:
- lang: eng
text: 'We initiate the study of game dynamics in the population protocol model:
n agents each maintain a current local strategy and interact in pairs uniformly
at random. Upon each interaction, the agents play a two-person game and receive
a payoff from an underlying utility function, and they can subsequently update
their strategies according to a fixed local algorithm. In this setting, we ask
how the distribution over agent strategies evolves over a sequence of interactions,
and we introduce a new distributional equilibrium concept to quantify the quality
of such distributions. As an initial example, we study a class of repeated prisoner''s
dilemma games, and we consider a family of simple local update algorithms that
yield non-trivial dynamics over the distribution of agent strategies. We show
that these dynamics are related to a new class of high-dimensional Ehrenfest random
walks, and we derive exact characterizations of their stationary distributions,
bounds on their mixing times, and prove their convergence to approximate distributional
equilibria. Our results highlight trade-offs between the local state space of
each agent, and the convergence rate and approximation factor of the underlying
dynamics. Our approach opens the door towards the further characterization of
equilibrium computation for other classes of games and dynamics in the population
setting.'
acknowledgement: This work was supported in part by the ERC-2020-CoG 863818 (FoRM-SMArt)
grant. We thank James Aspnes and Thomas Sauerwald for several helpful discussions
on Ehrenfest random walks.
article_processing_charge: Yes (via OA deal)
author:
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Mehrdad
full_name: Karrabi, Mehrdad
id: 67638922-f394-11eb-9cf6-f20423e08757
last_name: Karrabi
- first_name: John M
full_name: Lazarsfeld, John M
id: 17ce3656-183e-11ef-84c3-8932383e1b23
last_name: Lazarsfeld
citation:
ama: 'Alistarh D-A, Chatterjee K, Karrabi M, Lazarsfeld JM. Game dynamics and equilibrium
computation in the population protocol model. In: Proceedings of the 43rd Annual
ACM Symposium on Principles of Distributed Computing. Association for Computing
Machinery; 2024:40-49. doi:10.1145/3662158.3662768'
apa: 'Alistarh, D.-A., Chatterjee, K., Karrabi, M., & Lazarsfeld, J. M. (2024).
Game dynamics and equilibrium computation in the population protocol model. In
Proceedings of the 43rd Annual ACM Symposium on Principles of Distributed Computing
(pp. 40–49). Nantes, France: Association for Computing Machinery. https://doi.org/10.1145/3662158.3662768'
chicago: Alistarh, Dan-Adrian, Krishnendu Chatterjee, Mehrdad Karrabi, and John
M Lazarsfeld. “Game Dynamics and Equilibrium Computation in the Population Protocol
Model.” In Proceedings of the 43rd Annual ACM Symposium on Principles of Distributed
Computing, 40–49. Association for Computing Machinery, 2024. https://doi.org/10.1145/3662158.3662768.
ieee: D.-A. Alistarh, K. Chatterjee, M. Karrabi, and J. M. Lazarsfeld, “Game dynamics
and equilibrium computation in the population protocol model,” in Proceedings
of the 43rd Annual ACM Symposium on Principles of Distributed Computing, Nantes,
France, 2024, pp. 40–49.
ista: 'Alistarh D-A, Chatterjee K, Karrabi M, Lazarsfeld JM. 2024. Game dynamics
and equilibrium computation in the population protocol model. Proceedings of the
43rd Annual ACM Symposium on Principles of Distributed Computing. PODC: Symposium
on Principles of Distributed Computing, 40–49.'
mla: Alistarh, Dan-Adrian, et al. “Game Dynamics and Equilibrium Computation in
the Population Protocol Model.” Proceedings of the 43rd Annual ACM Symposium
on Principles of Distributed Computing, Association for Computing Machinery,
2024, pp. 40–49, doi:10.1145/3662158.3662768.
short: D.-A. Alistarh, K. Chatterjee, M. Karrabi, J.M. Lazarsfeld, in:, Proceedings
of the 43rd Annual ACM Symposium on Principles of Distributed Computing, Association
for Computing Machinery, 2024, pp. 40–49.
conference:
end_date: 2024-06-21
location: Nantes, France
name: 'PODC: Symposium on Principles of Distributed Computing'
start_date: 2024-06-17
corr_author: '1'
date_created: 2024-07-28T22:01:10Z
date_published: 2024-06-17T00:00:00Z
date_updated: 2025-04-14T07:52:47Z
day: '17'
ddc:
- '000'
department:
- _id: DaAl
- _id: KrCh
doi: 10.1145/3662158.3662768
ec_funded: 1
file:
- access_level: open_access
checksum: 65a40437f83373fa79dd999d5287509e
content_type: application/pdf
creator: dernst
date_created: 2024-07-29T07:37:31Z
date_updated: 2024-07-29T07:37:31Z
file_id: '17335'
file_name: 2024_ACMPODC_Alistarh.pdf
file_size: 750908
relation: main_file
success: 1
file_date_updated: 2024-07-29T07:37:31Z
has_accepted_license: '1'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 40-49
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '863818'
name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
publication: Proceedings of the 43rd Annual ACM Symposium on Principles of Distributed
Computing
publication_identifier:
isbn:
- '9798400706684'
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
scopus_import: '1'
status: public
title: Game dynamics and equilibrium computation in the population protocol model
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: '2024'
...
---
OA_place: repository
OA_type: green
_id: '17330'
abstract:
- lang: eng
text: In this work we consider the list-decodability and list-recoverability of
arbitrary q -ary codes, for all integer values of q ⩾ 2. A code is called ( p
, L ) q -list-decodable if every radius pn Hamming ball contains less than L codewords;
( p , ℓ, L ) q -recoverability is a generalization where we place radius pn Hamming
balls on every point of a combinatorial rectangle with side length ℓ and again
stipulate that there be less than L codewords. Our main contribution is to precisely
calculate the maximum value of p for which there exist infinite families of positive
rate ( p , ℓ, L ) q -list-recoverable codes, the quantity we call the zero-rate
threshold . Denoting this value by p *, we in fact show that codes correcting
a p * + ε fraction of errors must have size O ε (1), i.e., independent of n .
Such a result is typically referred to as a “Plotkin bound.” To complement this,
a standard random code with expurgation construction shows that there exist positive
rate codes correcting a p * − ε fraction of errors. We also follow a classical
proof template (typically attributed to Elias and Bassalygo) to derive from the
zero-rate threshold other tradeoffs between rate and decoding radius for list-decoding
and list-recovery. Technically, proving the Plotkin bound boils down to demon-strating
the Schur convexity of a certain function defined on the q -simplex as well as
the convexity of a univariate function derived from it. We remark that an earlier
argument claimed similar results for q -ary list-decoding; however, we point out
that this earlier proof is flawed.
acknowledgement: Part of this work was done while Nicolas Resch was affiliated with
the Centrum Wiskunde & Informatica and supported in part by ERC H2020 grant No.74079
(ALGSTRONGCRYPTO). Chen Yuan is supported in part by the National Key Research and
Development Projects under Grant 2022YFA1004900 and Grant 2021YFE0109900, the National
Natural Science Foundation of China under Grant 12101403 and Grant 12031011.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Nicolas
full_name: Resch, Nicolas
last_name: Resch
- first_name: Chen
full_name: Yuan, Chen
last_name: Yuan
- first_name: Yihan
full_name: Zhang, Yihan
id: 2ce5da42-b2ea-11eb-bba5-9f264e9d002c
last_name: Zhang
orcid: 0000-0002-6465-6258
citation:
ama: Resch N, Yuan C, Zhang Y. Zero-rate thresholds and new capacity bounds for
list-decoding and list-recovery. IEEE Transactions on Information Theory.
2024;70(9):6211-6238. doi:10.1109/TIT.2024.3430842
apa: Resch, N., Yuan, C., & Zhang, Y. (2024). Zero-rate thresholds and new capacity
bounds for list-decoding and list-recovery. IEEE Transactions on Information
Theory. IEEE. https://doi.org/10.1109/TIT.2024.3430842
chicago: Resch, Nicolas, Chen Yuan, and Yihan Zhang. “Zero-Rate Thresholds and New
Capacity Bounds for List-Decoding and List-Recovery.” IEEE Transactions on
Information Theory. IEEE, 2024. https://doi.org/10.1109/TIT.2024.3430842.
ieee: N. Resch, C. Yuan, and Y. Zhang, “Zero-rate thresholds and new capacity bounds
for list-decoding and list-recovery,” IEEE Transactions on Information Theory,
vol. 70, no. 9. IEEE, pp. 6211–6238, 2024.
ista: Resch N, Yuan C, Zhang Y. 2024. Zero-rate thresholds and new capacity bounds
for list-decoding and list-recovery. IEEE Transactions on Information Theory.
70(9), 6211–6238.
mla: Resch, Nicolas, et al. “Zero-Rate Thresholds and New Capacity Bounds for List-Decoding
and List-Recovery.” IEEE Transactions on Information Theory, vol. 70, no.
9, IEEE, 2024, pp. 6211–38, doi:10.1109/TIT.2024.3430842.
short: N. Resch, C. Yuan, Y. Zhang, IEEE Transactions on Information Theory 70 (2024)
6211–6238.
corr_author: '1'
date_created: 2024-07-28T22:01:10Z
date_published: 2024-09-01T00:00:00Z
date_updated: 2025-09-08T08:31:53Z
day: '01'
department:
- _id: MaMo
doi: 10.1109/TIT.2024.3430842
external_id:
arxiv:
- '2210.07754'
isi:
- '001299623600019'
intvolume: ' 70'
isi: 1
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2210.07754
month: '09'
oa: 1
oa_version: Preprint
page: 6211-6238
publication: IEEE Transactions on Information Theory
publication_identifier:
eissn:
- 1557-9654
issn:
- 0018-9448
publication_status: published
publisher: IEEE
quality_controlled: '1'
related_material:
record:
- id: '14083'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Zero-rate thresholds and new capacity bounds for list-decoding and list-recovery
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 70
year: '2024'
...
---
OA_place: repository
OA_type: green
_id: '17331'
abstract:
- lang: eng
text: Amyloidosis are a group of diseases in which soluble proteins aggregate and
deposit in fibrillar conformation extracellularly in tissues. The effectiveness
of therapeutic strategies depends on the specific protein involved, being crucial
to accurately determine its nature. Moreover, following the diagnosis, the search
for the mutation within relatives allows the clinical advice. Here we report the
precise diagnosis and explored the possible reasons of the structural pathogenicity
for a renal amyloidosis related to a fibrinogen Aα-chain variant. Whole-exome
sequencing and GATK calling pipeline were leveraged to characterize the protein
variant present in a patient with kidney failure. Bioinformatics strategies were
applied to suggest potential explanations of the variants aggregation. Our pipeline
allowed the identification of a single-point variant of fibrinogen Aα-chain, which
opened the possibility of curative transplantation. In silico structural analysis
suggested that the pathogenicity of the variant may be attributed to a heightened
susceptibility to yield a peptide prone to deposit as an oligomer with a β-sheet
structure. Exploiting the comprehensive coverage of whole-genome sequencing, we
managed to fill a vacant stage in the diagnosis of hereditary amyloidosis and
to stimulate the advancement in biomedicine.
acknowledgement: The authors acknowledge Rosana del Cid for her help with English
corrections, Mario Ramos for the figure editions, and Gabriela Finarelli for technical
assistance. S.A. Rosú, N.A. Ramella, and M.A. Tricerri acknowledge support from
Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET) (Grant PIP
11220200102381), Agencia Nacional de Promoción Científica y Tecnológica (PICT 2019-03592),
Universidad Nacional de La Plata (UNLP) (Grants M234 and PPID M014), and Fundación
Florencio Fiorini. The authors warmly thank M.P. for her willingness to conduct
these studies.
article_processing_charge: No
article_type: original
author:
- first_name: Elizabeth R
full_name: Cattaneo, Elizabeth R
last_name: Cattaneo
- first_name: Romina A
full_name: Gisonno, Romina A
id: a9e08d76-6a98-11ec-8f7b-c777fe5ca519
last_name: Gisonno
- first_name: Martín C
full_name: Abba, Martín C
last_name: Abba
- first_name: Marianela
full_name: Santana, Marianela
last_name: Santana
- first_name: Silvana A
full_name: Rosú, Silvana A
last_name: Rosú
- first_name: Elsa
full_name: Nucifora, Elsa
last_name: Nucifora
- first_name: María A
full_name: Aguirre, María A
last_name: Aguirre
- first_name: María C
full_name: Giordani, María C
last_name: Giordani
- first_name: M. Alejandra
full_name: Tricerri, M. Alejandra
last_name: Tricerri
- first_name: Nahuel A
full_name: Ramella, Nahuel A
last_name: Ramella
citation:
ama: 'Cattaneo ER, Gisonno RA, Abba MC, et al. Hereditary amyloidosis: Insights
into a fibrinogen A variant protein. Proteins: Structure, Function and Bioinformatics.
2024;92(12):1366-1374. doi:10.1002/prot.26732'
apa: 'Cattaneo, E. R., Gisonno, R. A., Abba, M. C., Santana, M., Rosú, S. A., Nucifora,
E., … Ramella, N. A. (2024). Hereditary amyloidosis: Insights into a fibrinogen
A variant protein. Proteins: Structure, Function and Bioinformatics. Wiley.
https://doi.org/10.1002/prot.26732'
chicago: 'Cattaneo, Elizabeth R, Romina A Gisonno, Martín C Abba, Marianela Santana,
Silvana A Rosú, Elsa Nucifora, María A Aguirre, María C Giordani, M. Alejandra
Tricerri, and Nahuel A Ramella. “Hereditary Amyloidosis: Insights into a Fibrinogen
A Variant Protein.” Proteins: Structure, Function and Bioinformatics. Wiley,
2024. https://doi.org/10.1002/prot.26732.'
ieee: 'E. R. Cattaneo et al., “Hereditary amyloidosis: Insights into a fibrinogen
A variant protein,” Proteins: Structure, Function and Bioinformatics, vol.
92, no. 12. Wiley, pp. 1366–1374, 2024.'
ista: 'Cattaneo ER, Gisonno RA, Abba MC, Santana M, Rosú SA, Nucifora E, Aguirre
MA, Giordani MC, Tricerri MA, Ramella NA. 2024. Hereditary amyloidosis: Insights
into a fibrinogen A variant protein. Proteins: Structure, Function and Bioinformatics.
92(12), 1366–1374.'
mla: 'Cattaneo, Elizabeth R., et al. “Hereditary Amyloidosis: Insights into a Fibrinogen
A Variant Protein.” Proteins: Structure, Function and Bioinformatics, vol.
92, no. 12, Wiley, 2024, pp. 1366–74, doi:10.1002/prot.26732.'
short: 'E.R. Cattaneo, R.A. Gisonno, M.C. Abba, M. Santana, S.A. Rosú, E. Nucifora,
M.A. Aguirre, M.C. Giordani, M.A. Tricerri, N.A. Ramella, Proteins: Structure,
Function and Bioinformatics 92 (2024) 1366–1374.'
date_created: 2024-07-28T22:01:10Z
date_published: 2024-12-01T00:00:00Z
date_updated: 2025-09-08T08:33:53Z
day: '01'
department:
- _id: GaNo
doi: 10.1002/prot.26732
external_id:
isi:
- '001272128100001'
pmid:
- '39031927'
intvolume: ' 92'
isi: 1
issue: '12'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.22541/au.171804763.37967262/v1
month: '12'
oa: 1
oa_version: Preprint
page: 1366-1374
pmid: 1
publication: 'Proteins: Structure, Function and Bioinformatics'
publication_identifier:
eissn:
- 1097-0134
issn:
- 0887-3585
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Hereditary amyloidosis: Insights into a fibrinogen A variant protein'
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 92
year: '2024'
...
---
_id: '17332'
abstract:
- lang: eng
text: 'Tree data structures, such as red-black trees, quad trees, treaps, or tries,
are fundamental tools in computer science. A classical problem in concurrency
is to obtain expressive, efficient, and scalable versions of practical tree data
structures. We are interested in concurrent trees supporting range queries, i.e.,
queries that involve multiple consecutive data items. Existing implementations
with this capability can list keys in a specific range, but do not support aggregate
range queries: for instance, if we want to calculate the number of keys in a range,
the only choice is to retrieve a whole list and return its size. This is suboptimal:
in the sequential setting, one can augment a balanced search tree with counters
and, consequently, perform these aggregate requests in logarithmic rather than
linear time.In this paper, we propose a generic approach to implement a broad
class of range queries on concurrent trees in a way that is wait-free, asymptotically
efficient, and practically scalable. The key idea is a new mechanism for maintaining
metadata concurrently at tree nodes, which can be seen as a wait-free variant
of hand-over-hand locking (which we call hand-over-hand helping). We did a preliminary
implementation of the wait-free binary search tree and preliminary experiments
have indicated the soundness of our approach.'
acknowledgement: We thank Trevor Brown and Yuanhao Wei for the discussion and anonymous
reviewers for helping us to improve the paper. Also, we thank JetBrains and Huawei
for their support.
article_processing_charge: No
arxiv: 1
author:
- first_name: Ilya
full_name: Kokorin, Ilya
last_name: Kokorin
- first_name: Victor
full_name: Yudov, Victor
last_name: Yudov
- first_name: Vitaly
full_name: Aksenov, Vitaly
last_name: Aksenov
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
citation:
ama: 'Kokorin I, Yudov V, Aksenov V, Alistarh D-A. Wait-free trees with asymptotically-efficient
range queries. In: 2024 IEEE International Parallel and Distributed Processing
Symposium. IEEE; 2024:169-179. doi:10.1109/IPDPS57955.2024.00023'
apa: 'Kokorin, I., Yudov, V., Aksenov, V., & Alistarh, D.-A. (2024). Wait-free
trees with asymptotically-efficient range queries. In 2024 IEEE International
Parallel and Distributed Processing Symposium (pp. 169–179). San Francisco,
CA, United States: IEEE. https://doi.org/10.1109/IPDPS57955.2024.00023'
chicago: Kokorin, Ilya, Victor Yudov, Vitaly Aksenov, and Dan-Adrian Alistarh. “Wait-Free
Trees with Asymptotically-Efficient Range Queries.” In 2024 IEEE International
Parallel and Distributed Processing Symposium, 169–79. IEEE, 2024. https://doi.org/10.1109/IPDPS57955.2024.00023.
ieee: I. Kokorin, V. Yudov, V. Aksenov, and D.-A. Alistarh, “Wait-free trees with
asymptotically-efficient range queries,” in 2024 IEEE International Parallel
and Distributed Processing Symposium, San Francisco, CA, United States, 2024,
pp. 169–179.
ista: 'Kokorin I, Yudov V, Aksenov V, Alistarh D-A. 2024. Wait-free trees with asymptotically-efficient
range queries. 2024 IEEE International Parallel and Distributed Processing Symposium.
IPDPS: International Parallel and Distributed Processing Symposium, 169–179.'
mla: Kokorin, Ilya, et al. “Wait-Free Trees with Asymptotically-Efficient Range
Queries.” 2024 IEEE International Parallel and Distributed Processing Symposium,
IEEE, 2024, pp. 169–79, doi:10.1109/IPDPS57955.2024.00023.
short: I. Kokorin, V. Yudov, V. Aksenov, D.-A. Alistarh, in:, 2024 IEEE International
Parallel and Distributed Processing Symposium, IEEE, 2024, pp. 169–179.
conference:
end_date: 2024-05-31
location: San Francisco, CA, United States
name: 'IPDPS: International Parallel and Distributed Processing Symposium'
start_date: 2024-05-27
corr_author: '1'
date_created: 2024-07-28T22:01:11Z
date_published: 2024-07-08T00:00:00Z
date_updated: 2025-09-08T08:29:45Z
day: '08'
department:
- _id: DaAl
doi: 10.1109/IPDPS57955.2024.00023
external_id:
arxiv:
- '2310.05293'
isi:
- '001270389600078'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2310.05293
month: '07'
oa: 1
oa_version: Preprint
page: 169-179
publication: 2024 IEEE International Parallel and Distributed Processing Symposium
publication_identifier:
eissn:
- 1530-2075
isbn:
- '9798350337662'
publication_status: published
publisher: IEEE
quality_controlled: '1'
scopus_import: '1'
status: public
title: Wait-free trees with asymptotically-efficient range queries
type: conference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
year: '2024'
...
---
_id: '17333'
abstract:
- lang: eng
text: Aqueous zinc-ion batteries are attractive due to their low cost, environmental
friendliness, and exceptional performance, but the latter remains poorly understood.
Now, a fast catalytic step involved in oxygen redox catalysis is shown to contribute
to capacity at a high rate.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Soumyadip
full_name: Mondal, Soumyadip
id: d25d21ef-dc8d-11ea-abe3-ec4576307f48
last_name: Mondal
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: Mondal S, Freunberger SA. Catalysing rate and capacity. Nature Catalysis.
2024;7(7):759-760. doi:10.1038/s41929-024-01184-7
apa: Mondal, S., & Freunberger, S. A. (2024). Catalysing rate and capacity.
Nature Catalysis. Springer Nature. https://doi.org/10.1038/s41929-024-01184-7
chicago: Mondal, Soumyadip, and Stefan Alexander Freunberger. “Catalysing Rate and
Capacity.” Nature Catalysis. Springer Nature, 2024. https://doi.org/10.1038/s41929-024-01184-7.
ieee: S. Mondal and S. A. Freunberger, “Catalysing rate and capacity,” Nature
Catalysis, vol. 7, no. 7. Springer Nature, pp. 759–760, 2024.
ista: Mondal S, Freunberger SA. 2024. Catalysing rate and capacity. Nature Catalysis.
7(7), 759–760.
mla: Mondal, Soumyadip, and Stefan Alexander Freunberger. “Catalysing Rate and Capacity.”
Nature Catalysis, vol. 7, no. 7, Springer Nature, 2024, pp. 759–60, doi:10.1038/s41929-024-01184-7.
short: S. Mondal, S.A. Freunberger, Nature Catalysis 7 (2024) 759–760.
corr_author: '1'
date_created: 2024-07-29T07:05:33Z
date_published: 2024-07-26T00:00:00Z
date_updated: 2025-09-08T08:30:59Z
day: '26'
department:
- _id: StFr
doi: 10.1038/s41929-024-01184-7
external_id:
isi:
- '001278986700012'
intvolume: ' 7'
isi: 1
issue: '7'
language:
- iso: eng
month: '07'
oa_version: None
page: 759-760
publication: Nature Catalysis
publication_identifier:
issn:
- 2520-1158
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Catalysing rate and capacity
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 7
year: '2024'
...
---
OA_place: publisher
_id: '17336'
abstract:
- lang: eng
text: "This thesis deals with the study of stochastic processes and their ergodicity
properties. The\r\nvariety of problems encountered calls for a set of different
approaches, ranging from classical to\r\nmodern ones: a special place is held
by probabilistic methods based on couplings, by functional\r\ninequalities, and
by the theory of gradient flows in the space of measures.\r\n\r\nThe material
is organized as follows. Chapter 1 contains the introduction to this thesis, starting\r\nwith
a general presentation of some of the relevant topics. Section 1.1 is dedicated
to the\r\ntheory of gradient flows in metric spaces, and introduces the first
contribution of this thesis\r\n[DSMP24], which is presented in detail in Chapter
2. Section 1.2 moves to the topic of\r\ncurvature of Markov chains, concluding
with a brief description of our second contribution\r\n[Ped23], which is included
in Chapter 3. Section 1.3 discusses applications of stochastic\r\nprocesses to
the theory of sampling, in particular the recent framework of score-based diffusion\r\nmodels,
and our contribution [PMM24], which is contained in Chapter 4. Section 1.4 discusses\r\nsome
related problems, concerning the regularization properties of the heat flow. It
serves\r\nas a motivation for the work [BP24], which we report in Chapter 5. Finally,
Section 1.5\r\ndiscusses the last contribution of this thesis, which can be found
in Chapter 6. It deals with\r\nthe convergence to equilibrium of a particular
stochastic model from quantitative genetics:\r\nthis is established via some functional
inequalities, which we prove with probabilistic arguments\r\nbased on couplings.\r\n"
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Francesco
full_name: Pedrotti, Francesco
id: d3ac8ac6-dc8d-11ea-abe3-e2a9628c4c3c
last_name: Pedrotti
citation:
ama: Pedrotti F. Functional inequalities and convergence of stochastic processes.
2024. doi:10.15479/at:ista:17336
apa: Pedrotti, F. (2024). Functional inequalities and convergence of stochastic
processes. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:17336
chicago: Pedrotti, Francesco. “Functional Inequalities and Convergence of Stochastic
Processes.” Institute of Science and Technology Austria, 2024. https://doi.org/10.15479/at:ista:17336.
ieee: F. Pedrotti, “Functional inequalities and convergence of stochastic processes,”
Institute of Science and Technology Austria, 2024.
ista: Pedrotti F. 2024. Functional inequalities and convergence of stochastic processes.
Institute of Science and Technology Austria.
mla: Pedrotti, Francesco. Functional Inequalities and Convergence of Stochastic
Processes. Institute of Science and Technology Austria, 2024, doi:10.15479/at:ista:17336.
short: F. Pedrotti, Functional Inequalities and Convergence of Stochastic Processes,
Institute of Science and Technology Austria, 2024.
corr_author: '1'
date_created: 2024-07-29T09:14:14Z
date_published: 2024-07-31T00:00:00Z
date_updated: 2026-04-07T13:00:03Z
day: '31'
ddc:
- '500'
- '510'
- '515'
- '519'
degree_awarded: PhD
department:
- _id: GradSch
- _id: JaMa
doi: 10.15479/at:ista:17336
ec_funded: 1
file:
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checksum: 11650bab714ef85ad43a287060850523
content_type: application/pdf
creator: fpedrott
date_created: 2024-08-02T09:23:26Z
date_updated: 2024-08-02T09:23:26Z
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file_name: thesis_final.pdf
file_size: 2941599
relation: main_file
success: 1
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checksum: c30ba5611941226cf1bfc867c25b1e80
content_type: application/x-zip-compressed
creator: fpedrott
date_created: 2024-08-02T09:27:15Z
date_updated: 2024-08-02T09:27:15Z
file_id: '17367'
file_name: thesis_final_source.zip
file_size: 6293375
relation: source_file
file_date_updated: 2024-08-02T09:27:15Z
has_accepted_license: '1'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '07'
oa: 1
oa_version: Published Version
page: '183'
project:
- _id: 256E75B8-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '716117'
name: Optimal Transport and Stochastic Dynamics
- _id: fc31cba2-9c52-11eb-aca3-ff467d239cd2
grant_number: F6504
name: Taming Complexity in Partial Differential Systems
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
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relation: part_of_dissertation
status: public
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relation: part_of_dissertation
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- id: '17350'
relation: part_of_dissertation
status: public
- id: '17352'
relation: part_of_dissertation
status: public
- id: '17143'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Jan
full_name: Maas, Jan
id: 4C5696CE-F248-11E8-B48F-1D18A9856A87
last_name: Maas
orcid: 0000-0002-0845-1338
title: Functional inequalities and convergence of stochastic processes
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2024'
...
---
_id: '17344'
abstract:
- lang: eng
text: 'This file contains the Mathematica notebook associated with the paper Effect
of assortative mating and sexual selection on polygenic barriers to gene flow.
It contains the numerical approximations, analyses, and simulations used in the
study. '
acknowledged_ssus:
- _id: ScienComp
article_processing_charge: No
author:
- first_name: Parvathy
full_name: Surendranadh, Parvathy
id: 455235B8-F248-11E8-B48F-1D18A9856A87
last_name: Surendranadh
orcid: 0000-0001-6395-386X
- first_name: Himani
full_name: Sachdeva, Himani
last_name: Sachdeva
citation:
ama: Surendranadh P, Sachdeva H. Mathematica notebook for “Effect of assortative
mating and sexual selection on polygenic barriers to gene flow.” 2024. doi:10.15479/AT:ISTA:17344
apa: Surendranadh, P., & Sachdeva, H. (2024). Mathematica notebook for “Effect
of assortative mating and sexual selection on polygenic barriers to gene flow.”
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:17344
chicago: Surendranadh, Parvathy, and Himani Sachdeva. “Mathematica Notebook for
‘Effect of Assortative Mating and Sexual Selection on Polygenic Barriers to Gene
Flow.’” Institute of Science and Technology Austria, 2024. https://doi.org/10.15479/AT:ISTA:17344.
ieee: P. Surendranadh and H. Sachdeva, “Mathematica notebook for ‘Effect of assortative
mating and sexual selection on polygenic barriers to gene flow.’” Institute of
Science and Technology Austria, 2024.
ista: Surendranadh P, Sachdeva H. 2024. Mathematica notebook for ‘Effect of assortative
mating and sexual selection on polygenic barriers to gene flow’, Institute of
Science and Technology Austria, 10.15479/AT:ISTA:17344.
mla: Surendranadh, Parvathy, and Himani Sachdeva. Mathematica Notebook for “Effect
of Assortative Mating and Sexual Selection on Polygenic Barriers to Gene Flow.”
Institute of Science and Technology Austria, 2024, doi:10.15479/AT:ISTA:17344.
short: P. Surendranadh, H. Sachdeva, (2024).
date_created: 2024-07-29T14:01:43Z
date_published: 2024-07-01T00:00:00Z
date_updated: 2025-01-14T13:02:59Z
ddc:
- '576'
department:
- _id: GradSch
- _id: NiBa
doi: 10.15479/AT:ISTA:17344
file:
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checksum: 75bdbc7ad7cc6afe4459bc4a8824a302
content_type: application/octet-stream
creator: psurendr
date_created: 2024-07-29T13:51:11Z
date_updated: 2024-07-29T13:51:11Z
file_id: '17345'
file_name: Submission.nb
file_size: 726132
relation: main_file
success: 1
file_date_updated: 2024-07-29T13:51:11Z
has_accepted_license: '1'
month: '07'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Mathematica notebook for 'Effect of assortative mating and sexual selection
on polygenic barriers to gene flow'
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: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
OA_place: repository
_id: '17350'
abstract:
- lang: eng
text: "Score-based generative models (SGMs) are powerful tools to sample from\r\ncomplex
data distributions. Their underlying idea is to (i) run a forward\r\nprocess for
time $T_1$ by adding noise to the data, (ii) estimate its score\r\nfunction, and
(iii) use such estimate to run a reverse process. As the reverse\r\nprocess is
initialized with the stationary distribution of the forward one, the\r\nexisting
analysis paradigm requires $T_1\\to\\infty$. This is however\r\nproblematic: from
a theoretical viewpoint, for a given precision of the score\r\napproximation,
the convergence guarantee fails as $T_1$ diverges; from a\r\npractical viewpoint,
a large $T_1$ increases computational costs and leads to\r\nerror propagation.
This paper addresses the issue by considering a version of\r\nthe popular predictor-corrector
scheme: after running the forward process, we\r\nfirst estimate the final distribution
via an inexact Langevin dynamics and then\r\nrevert the process. Our key technical
contribution is to provide convergence\r\nguarantees which require to run the
forward process only for a fixed finite\r\ntime $T_1$. Our bounds exhibit a mild
logarithmic dependence on the input\r\ndimension and the subgaussian norm of the
target distribution, have minimal\r\nassumptions on the data, and require only
to control the $L^2$ loss on the\r\nscore approximation, which is the quantity
minimized in practice."
article_processing_charge: No
arxiv: 1
author:
- first_name: Francesco
full_name: Pedrotti, Francesco
id: d3ac8ac6-dc8d-11ea-abe3-e2a9628c4c3c
last_name: Pedrotti
- first_name: Jan
full_name: Maas, Jan
id: 4C5696CE-F248-11E8-B48F-1D18A9856A87
last_name: Maas
orcid: 0000-0002-0845-1338
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
citation:
ama: Pedrotti F, Maas J, Mondelli M. Improved convergence of score-based diffusion
models via prediction-correction. arXiv. doi:10.48550/arXiv.2305.14164
apa: Pedrotti, F., Maas, J., & Mondelli, M. (n.d.). Improved convergence of
score-based diffusion models via prediction-correction. arXiv. https://doi.org/10.48550/arXiv.2305.14164
chicago: Pedrotti, Francesco, Jan Maas, and Marco Mondelli. “Improved Convergence
of Score-Based Diffusion Models via Prediction-Correction.” ArXiv, n.d.
https://doi.org/10.48550/arXiv.2305.14164.
ieee: F. Pedrotti, J. Maas, and M. Mondelli, “Improved convergence of score-based
diffusion models via prediction-correction,” arXiv. .
ista: Pedrotti F, Maas J, Mondelli M. Improved convergence of score-based diffusion
models via prediction-correction. arXiv, 10.48550/arXiv.2305.14164.
mla: Pedrotti, Francesco, et al. “Improved Convergence of Score-Based Diffusion
Models via Prediction-Correction.” ArXiv, doi:10.48550/arXiv.2305.14164.
short: F. Pedrotti, J. Maas, M. Mondelli, ArXiv (n.d.).
corr_author: '1'
date_created: 2024-07-31T07:56:40Z
date_published: 2024-06-06T00:00:00Z
date_updated: 2026-04-07T13:00:02Z
day: '06'
department:
- _id: JaMa
- _id: MaMo
doi: 10.48550/arXiv.2305.14164
external_id:
arxiv:
- '2305.14164'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2305.14164
month: '06'
oa: 1
oa_version: Preprint
project:
- _id: fc31cba2-9c52-11eb-aca3-ff467d239cd2
grant_number: F6504
name: Taming Complexity in Partial Differential Systems
- _id: 059876FA-7A3F-11EA-A408-12923DDC885E
name: Prix Lopez-Loretta 2019 - Marco Mondelli
publication: arXiv
publication_status: draft
related_material:
record:
- id: '18897'
relation: later_version
status: public
- id: '17336'
relation: dissertation_contains
status: public
status: public
title: Improved convergence of score-based diffusion models via prediction-correction
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
OA_place: repository
_id: '17352'
abstract:
- lang: eng
text: "We prove upper bounds on the $L^\\infty$-Wasserstein distance from optimal\r\ntransport
between strongly log-concave probability densities and log-Lipschitz\r\nperturbations.
In the simplest setting, such a bound amounts to a\r\ntransport-information inequality
involving the $L^\\infty$-Wasserstein metric\r\nand the relative $L^\\infty$-Fisher
information. We show that this inequality\r\ncan be sharpened significantly in
situations where the involved densities are\r\nanisotropic. Our proof is based
on probabilistic techniques using Langevin\r\ndynamics. As an application of these
results, we obtain sharp exponential rates\r\nof convergence in Fisher's infinitesimal
model from quantitative genetics,\r\ngeneralising recent results by Calvez, Poyato,
and Santambrogio in dimension 1\r\nto arbitrary dimensions."
article_number: '2402.04151'
article_processing_charge: No
arxiv: 1
author:
- first_name: Kseniia
full_name: Khudiakova, Kseniia
id: 4E6DC800-AE37-11E9-AC72-31CAE5697425
last_name: Khudiakova
orcid: 0000-0002-6246-1465
- first_name: Jan
full_name: Maas, Jan
id: 4C5696CE-F248-11E8-B48F-1D18A9856A87
last_name: Maas
orcid: 0000-0002-0845-1338
- first_name: Francesco
full_name: Pedrotti, Francesco
id: d3ac8ac6-dc8d-11ea-abe3-e2a9628c4c3c
last_name: Pedrotti
citation:
ama: Khudiakova K, Maas J, Pedrotti F. L∞-optimal transport of anisotropic log-concave
measures and exponential convergence in Fisher’s infinitesimal model. arXiv.
doi:10.48550/arXiv.2402.04151
apa: Khudiakova, K., Maas, J., & Pedrotti, F. (n.d.). L∞-optimal transport of
anisotropic log-concave measures and exponential convergence in Fisher’s infinitesimal
model. arXiv. https://doi.org/10.48550/arXiv.2402.04151
chicago: Khudiakova, Kseniia, Jan Maas, and Francesco Pedrotti. “L∞-Optimal Transport
of Anisotropic Log-Concave Measures and Exponential Convergence in Fisher’s Infinitesimal
Model.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2402.04151.
ieee: K. Khudiakova, J. Maas, and F. Pedrotti, “L∞-optimal transport of anisotropic
log-concave measures and exponential convergence in Fisher’s infinitesimal model,”
arXiv. .
ista: Khudiakova K, Maas J, Pedrotti F. L∞-optimal transport of anisotropic log-concave
measures and exponential convergence in Fisher’s infinitesimal model. arXiv, 2402.04151.
mla: Khudiakova, Kseniia, et al. “L∞-Optimal Transport of Anisotropic Log-Concave
Measures and Exponential Convergence in Fisher’s Infinitesimal Model.” ArXiv,
2402.04151, doi:10.48550/arXiv.2402.04151.
short: K. Khudiakova, J. Maas, F. Pedrotti, ArXiv (n.d.).
corr_author: '1'
date_created: 2024-07-31T08:07:40Z
date_published: 2024-02-07T00:00:00Z
date_updated: 2026-04-07T13:00:02Z
day: '07'
department:
- _id: JaMa
doi: 10.48550/arXiv.2402.04151
external_id:
arxiv:
- '2402.04151'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2402.04151
month: '02'
oa: 1
oa_version: Preprint
project:
- _id: fc31cba2-9c52-11eb-aca3-ff467d239cd2
grant_number: F6504
name: Taming Complexity in Partial Differential Systems
- _id: 34d33d68-11ca-11ed-8bc3-ec13763c0ca8
grant_number: '26293'
name: The impact of deleterious mutations on small populations
publication: arXiv
publication_status: draft
related_material:
record:
- id: '20050'
relation: later_version
status: public
- id: '17336'
relation: dissertation_contains
status: public
status: public
title: L∞-optimal transport of anisotropic log-concave measures and exponential convergence
in Fisher's infinitesimal model
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
OA_place: repository
_id: '17353'
abstract:
- lang: eng
text: "In this paper we derive estimates for the Hessian of the logarithm\r\n(log-Hessian)
for solutions to the heat equation. For initial data in the form\r\nof log-Lipschitz
perturbation of strongly log-concave measures, the log-Hessian\r\nadmits an explicit,
uniform (in space) lower bound. This yields a new estimate\r\nfor the Lipschitz
constant of a transport map pushing forward the standard\r\nGaussian to a measure
in this class. Further connections are discussed with\r\nscore-based diffusion
models and improved Gaussian logarithmic Sobolev\r\ninequalities. Finally, we
show that assuming only fast decay of the tails of\r\nthe initial datum does not
suffice to guarantee uniform log-Hessian upper\r\nbounds."
article_number: '2404.15205'
article_processing_charge: No
arxiv: 1
author:
- first_name: Giovanni
full_name: Brigati, Giovanni
id: 63ff57e8-1fbb-11ee-88f2-f558ffc59cf1
last_name: Brigati
- first_name: Francesco
full_name: Pedrotti, Francesco
id: d3ac8ac6-dc8d-11ea-abe3-e2a9628c4c3c
last_name: Pedrotti
citation:
ama: Brigati G, Pedrotti F. Heat flow, log-concavity, and Lipschitz transport maps.
arXiv. doi:10.48550/arXiv.2404.15205
apa: Brigati, G., & Pedrotti, F. (n.d.). Heat flow, log-concavity, and Lipschitz
transport maps. arXiv. https://doi.org/10.48550/arXiv.2404.15205
chicago: Brigati, Giovanni, and Francesco Pedrotti. “Heat Flow, Log-Concavity, and
Lipschitz Transport Maps.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2404.15205.
ieee: G. Brigati and F. Pedrotti, “Heat flow, log-concavity, and Lipschitz transport
maps,” arXiv. .
ista: Brigati G, Pedrotti F. Heat flow, log-concavity, and Lipschitz transport maps.
arXiv, 2404.15205.
mla: Brigati, Giovanni, and Francesco Pedrotti. “Heat Flow, Log-Concavity, and Lipschitz
Transport Maps.” ArXiv, 2404.15205, doi:10.48550/arXiv.2404.15205.
short: G. Brigati, F. Pedrotti, ArXiv (n.d.).
corr_author: '1'
date_created: 2024-07-31T08:17:14Z
date_published: 2024-05-08T00:00:00Z
date_updated: 2026-04-07T13:00:02Z
day: '08'
department:
- _id: JaMa
doi: 10.48550/arXiv.2404.15205
external_id:
arxiv:
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language:
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url: https://doi.org/10.48550/arXiv.2404.15205
month: '05'
oa: 1
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publication: arXiv
publication_status: draft
related_material:
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relation: dissertation_contains
status: public
status: public
title: Heat flow, log-concavity, and Lipschitz transport maps
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
OA_place: repository
_id: '17361'
abstract:
- lang: eng
text: We present symplectic structures on the shape space of unparameterized space
curves that generalize the classical Marsden-Weinstein structure. Our method integrates
the Liouville 1-form of the Marsden-Weinstein structure with Riemannian structures
that have been introduced in mathematical shape analysis. We also derive Hamiltonian
vector fields for several classical Hamiltonian functions with respect to these
new symplectic structures.
acknowledgement: The authors are grateful to Boris Khesin for valuable comments on
the MW symplectic structure and S. Ishida thanks Albert Chern for insightful discussions
on space curves and Chris Wojtan for his continuous support. M. Bauer was partially
supported by NSF grant DMS-1953244 and by the Binational Science Foundation (BSF).
S. Ishida was partially supported by ERC Consolidator Grant 101045083 “CoDiNA” funded
by the European Research Council. Some figures were generated by the software Houdini
and its education license was provided by SideFX.
article_processing_charge: No
arxiv: 1
author:
- first_name: Martin
full_name: Bauer, Martin
last_name: Bauer
- first_name: Sadashige
full_name: Ishida, Sadashige
id: 6F7C4B96-A8E9-11E9-A7CA-09ECE5697425
last_name: Ishida
orcid: 0000-0002-3121-3100
- first_name: Peter W.
full_name: Michor, Peter W.
last_name: Michor
citation:
ama: Bauer M, Ishida S, Michor PW. Symplectic structures on the space of space curves.
arXiv. doi:10.48550/arXiv.2407.19908
apa: Bauer, M., Ishida, S., & Michor, P. W. (n.d.). Symplectic structures on
the space of space curves. arXiv. https://doi.org/10.48550/arXiv.2407.19908
chicago: Bauer, Martin, Sadashige Ishida, and Peter W. Michor. “Symplectic Structures
on the Space of Space Curves.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2407.19908.
ieee: M. Bauer, S. Ishida, and P. W. Michor, “Symplectic structures on the space
of space curves,” arXiv. .
ista: Bauer M, Ishida S, Michor PW. Symplectic structures on the space of space
curves. arXiv, 10.48550/arXiv.2407.19908.
mla: Bauer, Martin, et al. “Symplectic Structures on the Space of Space Curves.”
ArXiv, doi:10.48550/arXiv.2407.19908.
short: M. Bauer, S. Ishida, P.W. Michor, ArXiv (n.d.).
date_created: 2024-08-01T06:34:08Z
date_published: 2024-07-29T00:00:00Z
date_updated: 2026-04-28T09:59:01Z
day: '29'
department:
- _id: GradSch
- _id: ChWo
doi: 10.48550/arXiv.2407.19908
external_id:
arxiv:
- '2407.19908'
keyword:
- space of space curves
- symplectic stuctures
language:
- iso: eng
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url: https://doi.org/10.48550/arXiv.2407.19908
month: '07'
oa: 1
oa_version: Preprint
project:
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grant_number: '101045083'
name: Computational Discovery of Numerical Algorithms for Animation and Simulation
of Natural Phenomena
publication: arXiv
publication_status: draft
related_material:
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status: public
title: Symplectic structures on the space of space curves
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user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2024'
...
---
_id: '17362'
abstract:
- lang: eng
text: This is the supplementary data for the paper titled "Single-nucleus atlas
of the Artemia female reproductive system suggests germline repression of the
Z chromosome", where we described the generation and analysis of single-nucleus
expression and chromatin-accessibility data from the female reproductive system
of Artemia franciscana. We compared our dataset to the published Drosophila single-nucleus
data (over 400 million years of divergence) and highlighted the extreme conservation
of several of the molecular pathways of oogenesis and meiosis. We found evidence
of global transcriptional quiescence and chromatin condensation in late germ cells,
highlighting the conserved role of this repressive stage in arthropod oogenesis.
Additionally, we explored the expression patterns of the ZW sex chromosomes during
oogenesis. Our data shows that the Z-chromosome is consistently downregulated
in germline cells. While this is partly driven by a lack of dosage compensation
in the germline, a subset of cells show stronger repression of the Z chromosome.
acknowledged_ssus:
- _id: ScienComp
article_processing_charge: No
author:
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: 'Elkrewi MN, Vicoso B. Data for: “Single-nucleus atlas of the Artemia female
reproductive system suggests germline repression of the Z chromosome.” 2024. doi:10.15479/AT:ISTA:17362'
apa: 'Elkrewi, M. N., & Vicoso, B. (2024). Data for: “Single-nucleus atlas of
the Artemia female reproductive system suggests germline repression of the Z chromosome.”
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:17362'
chicago: 'Elkrewi, Marwan N, and Beatriz Vicoso. “Data for: ‘Single-Nucleus Atlas
of the Artemia Female Reproductive System Suggests Germline Repression of the
Z Chromosome.’” Institute of Science and Technology Austria, 2024. https://doi.org/10.15479/AT:ISTA:17362.'
ieee: 'M. N. Elkrewi and B. Vicoso, “Data for: ‘Single-nucleus atlas of the Artemia
female reproductive system suggests germline repression of the Z chromosome.’”
Institute of Science and Technology Austria, 2024.'
ista: 'Elkrewi MN, Vicoso B. 2024. Data for: ‘Single-nucleus atlas of the Artemia
female reproductive system suggests germline repression of the Z chromosome’,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:17362.'
mla: 'Elkrewi, Marwan N., and Beatriz Vicoso. Data for: “Single-Nucleus Atlas
of the Artemia Female Reproductive System Suggests Germline Repression of the
Z Chromosome.” Institute of Science and Technology Austria, 2024, doi:10.15479/AT:ISTA:17362.'
short: M.N. Elkrewi, B. Vicoso, (2024).
corr_author: '1'
date_created: 2024-08-02T07:27:45Z
date_published: 2024-08-05T00:00:00Z
date_updated: 2026-04-16T12:20:41Z
day: '05'
ddc:
- '576'
department:
- _id: GradSch
- _id: BeVi
doi: 10.15479/AT:ISTA:17362
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checksum: 26b5d41b3103f4284dd97d56e370a5b6
content_type: text/plain
creator: melkrewi
date_created: 2024-08-05T22:24:18Z
date_updated: 2024-08-05T22:24:18Z
file_id: '17394'
file_name: README.txt
file_size: 2465
relation: main_file
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checksum: 95adab5e36148015da313505e3910707
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creator: melkrewi
date_created: 2024-08-05T23:28:52Z
date_updated: 2024-08-05T23:28:52Z
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file_name: Data_artemia_single_nucleus_atlas.zip
file_size: 2526735400
relation: main_file
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file_date_updated: 2024-08-05T23:28:52Z
has_accepted_license: '1'
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 34ae1506-11ca-11ed-8bc3-c14f4c474396
grant_number: F8810
name: The highjacking of meiosis for asexual reproduction
publisher: Institute of Science and Technology Austria
related_material:
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relation: used_in_publication
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status: public
title: 'Data for: "Single-nucleus atlas of the Artemia female reproductive system
suggests germline repression of the Z chromosome"'
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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)
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