---
OA_place: repository
OA_type: green
_id: '18926'
abstract:
- lang: eng
text: 'We study weak solutions to mean curvature flow satisfying Young’s angle condition
for general contact angles α ∈ (0, π). First, we construct BV solutions by using
the Allen-Cahn approximation with boundary contact energy as proposed by Owen
and Sternberg. Second, we prove the weak-strong uniqueness and stability for this
solution concept. The main ingredient for both results is a relative energy, which
can also be interpreted as a tilt excess. '
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Sebastian
full_name: Hensel, Sebastian
id: 4D23B7DA-F248-11E8-B48F-1D18A9856A87
last_name: Hensel
orcid: 0000-0001-7252-8072
- first_name: Tim
full_name: Laux, Tim
last_name: Laux
citation:
ama: 'Hensel S, Laux T. BV solutions for mean curvature flow with constant angle:
Allen-Cahn approximation and weak-strong uniqueness. Indiana University Mathematics
Journal. 2024;73(1):111-148. doi:10.1512/iumj.2024.73.9701'
apa: 'Hensel, S., & Laux, T. (2024). BV solutions for mean curvature flow with
constant angle: Allen-Cahn approximation and weak-strong uniqueness. Indiana
University Mathematics Journal. Indiana University Mathematics Journal. https://doi.org/10.1512/iumj.2024.73.9701'
chicago: 'Hensel, Sebastian, and Tim Laux. “BV Solutions for Mean Curvature Flow
with Constant Angle: Allen-Cahn Approximation and Weak-Strong Uniqueness.” Indiana
University Mathematics Journal. Indiana University Mathematics Journal, 2024.
https://doi.org/10.1512/iumj.2024.73.9701.'
ieee: 'S. Hensel and T. Laux, “BV solutions for mean curvature flow with constant
angle: Allen-Cahn approximation and weak-strong uniqueness,” Indiana University
Mathematics Journal, vol. 73, no. 1. Indiana University Mathematics Journal,
pp. 111–148, 2024.'
ista: 'Hensel S, Laux T. 2024. BV solutions for mean curvature flow with constant
angle: Allen-Cahn approximation and weak-strong uniqueness. Indiana University
Mathematics Journal. 73(1), 111–148.'
mla: 'Hensel, Sebastian, and Tim Laux. “BV Solutions for Mean Curvature Flow with
Constant Angle: Allen-Cahn Approximation and Weak-Strong Uniqueness.” Indiana
University Mathematics Journal, vol. 73, no. 1, Indiana University Mathematics
Journal, 2024, pp. 111–48, doi:10.1512/iumj.2024.73.9701.'
short: S. Hensel, T. Laux, Indiana University Mathematics Journal 73 (2024) 111–148.
corr_author: '1'
date_created: 2025-01-27T15:20:19Z
date_published: 2024-01-01T00:00:00Z
date_updated: 2025-01-27T15:23:57Z
day: '01'
department:
- _id: JuFi
doi: 10.1512/iumj.2024.73.9701
external_id:
arxiv:
- '2112.11150'
intvolume: ' 73'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2112.11150
month: '01'
oa: 1
oa_version: Preprint
page: 111-148
publication: Indiana University Mathematics Journal
publication_identifier:
issn:
- 0022-2518
publication_status: published
publisher: Indiana University Mathematics Journal
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'BV solutions for mean curvature flow with constant angle: Allen-Cahn approximation
and weak-strong uniqueness'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 73
year: '2024'
...
---
OA_place: publisher
OA_type: gold
_id: '18928'
abstract:
- lang: eng
text: "Algorithms with predictions is a new research direction that leverages machine
learned predictions for algorithm design. So far a plethora of recent works have
incorporated predictions to improve on worst-case bounds for online problems.
In this paper, we initiate the study of complexity of dynamic data structures
with predictions, including dynamic graph algorithms. Unlike online algorithms,
the goal in dynamic data structures is to maintain the solution efficiently with
every update.\r\nWe investigate three natural models of prediction: (1) δ-accurate
predictions where each predicted request matches the true request with probability
δ, (2) list-accurate predictions where a true request comes from a list of possible
requests, and (3) bounded delay predictions where the true requests are a permutation
of the predicted requests. We give general reductions among the prediction models,
showing that bounded delay is the strongest prediction model, followed by list-accurate,
and δ-accurate.\r\nFurther, we identify two broad problem classes based on lower
bounds due to the Online Matrix Vector (OMv) conjecture. Specifically, we show
that locally correctable dynamic problems have strong conditional lower bounds
for list-accurate predictions that are equivalent to the non-prediction setting,
unless list-accurate predictions are perfect. Moreover, we show that locally reducible
dynamic problems have time complexity that degrades gracefully with the quality
of bounded delay predictions. We categorize problems with known OMv lower bounds
accordingly and give several upper bounds in the delay model that show that our
lower bounds are almost tight.\r\nWe note that concurrent work by v.d.Brand et
al. [SODA '24] and Liu and Srinivas [arXiv:2307.08890] independently study dynamic
graph algorithms with predictions, but their work is mostly focused on showing
upper bounds."
acknowledgement: "Henzinger, Monika: 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. 101019564) and the Austrian Science Fund (FWF) project
Z 422-N, project I 5982-N, and project P 33775-N, with additional funding from the
netidee SCIENCE Stiftung, 2020-2024.\r\nSaha, Barna: This project is partially supported
by NSF grants 1652303, 1909046, 2112533, and HDR TRIPODS Phase II grant 2217058.\r\nWe
would like to thank Andrea Lincoln for many helpful discussions and insightful comments."
alternative_title:
- LIPIcs
article_processing_charge: Yes
arxiv: 1
author:
- first_name: Monika H
full_name: Henzinger, Monika H
id: 540c9bbd-f2de-11ec-812d-d04a5be85630
last_name: Henzinger
orcid: 0000-0002-5008-6530
- first_name: Barna
full_name: Saha, Barna
last_name: Saha
- first_name: Martin P.
full_name: Seybold, Martin P.
last_name: Seybold
- first_name: Christopher
full_name: Ye, Christopher
last_name: Ye
citation:
ama: 'Henzinger M, Saha B, Seybold MP, Ye C. On the complexity of algorithms with
predictions for dynamic graph problems. In: 15th Innovations in Theoretical
Computer Science Conference. Vol 287. Schloss Dagstuhl - Leibniz-Zentrum für
Informatik; 2024:62:1-62:25. doi:10.4230/LIPIcs.ITCS.2024.62'
apa: 'Henzinger, M., Saha, B., Seybold, M. P., & Ye, C. (2024). On the complexity
of algorithms with predictions for dynamic graph problems. In 15th Innovations
in Theoretical Computer Science Conference (Vol. 287, p. 62:1-62:25). Berkeley,
CA, United States: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.ITCS.2024.62'
chicago: Henzinger, Monika, Barna Saha, Martin P. Seybold, and Christopher Ye. “On
the Complexity of Algorithms with Predictions for Dynamic Graph Problems.” In
15th Innovations in Theoretical Computer Science Conference, 287:62:1-62:25.
Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024. https://doi.org/10.4230/LIPIcs.ITCS.2024.62.
ieee: M. Henzinger, B. Saha, M. P. Seybold, and C. Ye, “On the complexity of algorithms
with predictions for dynamic graph problems,” in 15th Innovations in Theoretical
Computer Science Conference, Berkeley, CA, United States, 2024, vol. 287,
p. 62:1-62:25.
ista: 'Henzinger M, Saha B, Seybold MP, Ye C. 2024. On the complexity of algorithms
with predictions for dynamic graph problems. 15th Innovations in Theoretical Computer
Science Conference. ITCS: Innovations in Theoretical Computer Science, LIPIcs,
vol. 287, 62:1-62:25.'
mla: Henzinger, Monika, et al. “On the Complexity of Algorithms with Predictions
for Dynamic Graph Problems.” 15th Innovations in Theoretical Computer Science
Conference, vol. 287, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024,
p. 62:1-62:25, doi:10.4230/LIPIcs.ITCS.2024.62.
short: M. Henzinger, B. Saha, M.P. Seybold, C. Ye, in:, 15th Innovations in Theoretical
Computer Science Conference, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2024, p. 62:1-62:25.
conference:
end_date: 2024-02-02
location: Berkeley, CA, United States
name: 'ITCS: Innovations in Theoretical Computer Science'
start_date: 2024-01-30
corr_author: '1'
date_created: 2025-01-27T15:33:42Z
date_published: 2024-01-24T00:00:00Z
date_updated: 2025-09-09T12:11:33Z
day: '24'
ddc:
- '000'
department:
- _id: MoHe
doi: 10.4230/LIPIcs.ITCS.2024.62
ec_funded: 1
external_id:
arxiv:
- '2307.16771'
isi:
- '001300389400062'
file:
- access_level: open_access
checksum: 15085a5b3697a408b92a4a7a27293927
content_type: application/pdf
creator: dernst
date_created: 2025-01-27T15:33:24Z
date_updated: 2025-01-27T15:33:24Z
file_id: '18929'
file_name: 2024_LIPICs_HenzingerMo.pdf
file_size: 1084372
relation: main_file
success: 1
file_date_updated: 2025-01-27T15:33:24Z
has_accepted_license: '1'
intvolume: ' 287'
isi: 1
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '01'
oa: 1
oa_version: Published Version
page: 62:1-62:25
project:
- _id: bd9ca328-d553-11ed-ba76-dc4f890cfe62
call_identifier: H2020
grant_number: '101019564'
name: The design and evaluation of modern fully dynamic data structures
- _id: 34def286-11ca-11ed-8bc3-da5948e1613c
grant_number: Z00422
name: Efficient algorithms
- _id: bda196b2-d553-11ed-ba76-8e8ee6c21103
grant_number: I05982
name: Static and Dynamic Hierarchical Graph Decompositions
- _id: bd9e3a2e-d553-11ed-ba76-8aa684ce17fe
grant_number: P33775
name: Fast Algorithms for a Reactive Network Layer
publication: 15th Innovations in Theoretical Computer Science Conference
publication_identifier:
eissn:
- 1868-8969
isbn:
- '9783959773096'
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the complexity of algorithms with predictions for dynamic graph problems
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 287
year: '2024'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '18930'
abstract:
- lang: eng
text: "We study sumsets \U0001D49C + ℬ in the set of squares \U0001D4AE (and, more
generally, in the set of kth powers \U0001D4AEk, where k ≥2 is an integer). It
is known by a result of Gyarmati that \U0001D49C + ℬ ⊂ \U0001D4AEk ∩[1,N] implies
that min(|\U0001D49C|,|ℬ|) =Ok(logN). Here, we study how the upper bound on |ℬ|
decreases, when the size of |\U0001D49C| increases (or vice versa). In particular,
if |\U0001D49C| ≥ Ck1m m(logN)1m , then |ℬ| = Ok(m2logN), for sufficiently large
N, a positive integer m and an explicit constant C > 0. For example, with m ∼
loglogN this gives: If |\U0001D49C| ≥ CkloglogN,then |ℬ| = Ok(logN(loglogN)2)."
acknowledgement: This manuscript grew out of the second author’s MSc Thesis at Graz
University of Technology [34]. C. Elsholtz is supported by a joint FWF-ANR project
ArithRand, grant numbers FWF I 4945-N and ANR-20-CE91-0006. Both authors would like
to thank Igor Shparlinski for drawing our attention to related character sum estimates.
Furthermore, we would like to thank the referee for a careful reading of the paper.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Christian
full_name: Elsholtz, Christian
last_name: Elsholtz
- first_name: Lena
full_name: Wurzinger, Lena
id: 50c57d72-32a8-11ee-aeea-d652094d2ccd
last_name: Wurzinger
orcid: 0009-0004-5360-0074
citation:
ama: Elsholtz C, Wurzinger L. Sumsets in the set of squares. The Quarterly Journal
of Mathematics. 2024;75(4):1243-1254. doi:10.1093/qmath/haae044
apa: Elsholtz, C., & Wurzinger, L. (2024). Sumsets in the set of squares. The
Quarterly Journal of Mathematics. Oxford University Press. https://doi.org/10.1093/qmath/haae044
chicago: Elsholtz, Christian, and Lena Wurzinger. “Sumsets in the Set of Squares.”
The Quarterly Journal of Mathematics. Oxford University Press, 2024. https://doi.org/10.1093/qmath/haae044.
ieee: C. Elsholtz and L. Wurzinger, “Sumsets in the set of squares,” The Quarterly
Journal of Mathematics, vol. 75, no. 4. Oxford University Press, pp. 1243–1254,
2024.
ista: Elsholtz C, Wurzinger L. 2024. Sumsets in the set of squares. The Quarterly
Journal of Mathematics. 75(4), 1243–1254.
mla: Elsholtz, Christian, and Lena Wurzinger. “Sumsets in the Set of Squares.” The
Quarterly Journal of Mathematics, vol. 75, no. 4, Oxford University Press,
2024, pp. 1243–54, doi:10.1093/qmath/haae044.
short: C. Elsholtz, L. Wurzinger, The Quarterly Journal of Mathematics 75 (2024)
1243–1254.
corr_author: '1'
date_created: 2025-01-28T06:55:31Z
date_published: 2024-12-01T00:00:00Z
date_updated: 2025-12-04T14:46:28Z
day: '01'
ddc:
- '510'
department:
- _id: TiBr
doi: 10.1093/qmath/haae044
external_id:
isi:
- '001304396600001'
file:
- access_level: open_access
checksum: 1a06e052761d3f1e873463d6f529dd82
content_type: application/pdf
creator: dernst
date_created: 2025-01-28T07:03:51Z
date_updated: 2025-01-28T07:03:51Z
file_id: '18931'
file_name: 2024_QuarterlyJourMath_Elsholtz.pdf
file_size: 424645
relation: main_file
success: 1
file_date_updated: 2025-01-28T07:03:51Z
has_accepted_license: '1'
intvolume: ' 75'
isi: 1
issue: '4'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 1243-1254
publication: The Quarterly Journal of Mathematics
publication_identifier:
eissn:
- 1464-3847
issn:
- 0033-5606
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Sumsets in the set of squares
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 75
year: '2024'
...
---
OA_place: publisher
OA_type: hybrid
_id: '18934'
abstract:
- lang: eng
text: The assembly of biomolecular condensate in eukaryotic cells and the accumulation
of amyloid deposits in neurons are processes involving the nucleation and growth
(NAG) of new protein phases. To therapeutically target protein phase separation,
drug candidates are tested in in vitro assays that monitor the increase in the
mass or size of the new phase. Limited mechanistic insight is, however, provided
if empirical or untestable kinetic models are fitted to these progress curves.
Here we present the web server NAGPKin that quantifies NAG rates using mass-based
or size-based progress curves as the input data. A report is generated containing
the fitted NAG parameters and elucidating the phase separation mechanisms at play.
The NAG parameters can be used to predict particle size distributions of, for
example, protein droplets formed by liquid-liquid phase separation (LLPS) or amyloid
fibrils formed by protein aggregation. Because minimal intervention is required
from the user, NAGPKin is a good platform for standardized reporting of LLPS and
protein self-assembly data. NAGPKin is useful for drug discovery as well as for
fundamental studies on protein phase separation. NAGPKin is freely available (no
login required) at https://nagpkin.i3s.up.pt .
acknowledgement: We thank Professor José Paulo Leal, Department of Computer Science
− Faculdade de Ciências da Universidade do Porto, for his invaluable help during
the Implementation of NAGPKin. This work is part of a project that has received
funding from the European Union’s Horizon 2020 research and innovation programme
under grant agreement no. 952334 (PhasAGE). This research was funded by the Portuguese
Foundation for Science and Technology (FCT) in the framework of project PTDC/QUI-COL/2444/2021.
article_number: mr1
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Zsuzsa
full_name: Sárkány, Zsuzsa
last_name: Sárkány
- first_name: Francisco
full_name: Figueiredo, Francisco
id: 8125cbe2-9661-11ed-a754-afe96018f37d
last_name: Figueiredo
- first_name: Sandra
full_name: Macedo-Ribeiro, Sandra
last_name: Macedo-Ribeiro
- first_name: Pedro M.
full_name: Martins, Pedro M.
last_name: Martins
citation:
ama: 'Sárkány Z, Figueiredo F, Macedo-Ribeiro S, Martins PM. NAGPKin: Nucleation-and-growth
parameters from the kinetics of protein phase separation. Molecular Biology
of the Cell. 2024;35(3). doi:10.1091/mbc.e23-07-0289'
apa: 'Sárkány, Z., Figueiredo, F., Macedo-Ribeiro, S., & Martins, P. M. (2024).
NAGPKin: Nucleation-and-growth parameters from the kinetics of protein phase separation.
Molecular Biology of the Cell. American Society for Cell Biology. https://doi.org/10.1091/mbc.e23-07-0289'
chicago: 'Sárkány, Zsuzsa, Francisco Figueiredo, Sandra Macedo-Ribeiro, and Pedro
M. Martins. “NAGPKin: Nucleation-and-Growth Parameters from the Kinetics of Protein
Phase Separation.” Molecular Biology of the Cell. American Society for
Cell Biology, 2024. https://doi.org/10.1091/mbc.e23-07-0289.'
ieee: 'Z. Sárkány, F. Figueiredo, S. Macedo-Ribeiro, and P. M. Martins, “NAGPKin:
Nucleation-and-growth parameters from the kinetics of protein phase separation,”
Molecular Biology of the Cell, vol. 35, no. 3. American Society for Cell
Biology, 2024.'
ista: 'Sárkány Z, Figueiredo F, Macedo-Ribeiro S, Martins PM. 2024. NAGPKin: Nucleation-and-growth
parameters from the kinetics of protein phase separation. Molecular Biology of
the Cell. 35(3), mr1.'
mla: 'Sárkány, Zsuzsa, et al. “NAGPKin: Nucleation-and-Growth Parameters from the
Kinetics of Protein Phase Separation.” Molecular Biology of the Cell, vol.
35, no. 3, mr1, American Society for Cell Biology, 2024, doi:10.1091/mbc.e23-07-0289.'
short: Z. Sárkány, F. Figueiredo, S. Macedo-Ribeiro, P.M. Martins, Molecular Biology
of the Cell 35 (2024).
date_created: 2025-01-29T07:58:40Z
date_published: 2024-03-01T00:00:00Z
date_updated: 2025-01-29T08:16:20Z
day: '01'
ddc:
- '570'
department:
- _id: FlSc
doi: 10.1091/mbc.e23-07-0289
external_id:
pmid:
- '38117593'
file:
- access_level: open_access
checksum: d7deb6390f294da69321cfbe352ed611
content_type: application/pdf
creator: dernst
date_created: 2025-01-29T08:12:11Z
date_updated: 2025-01-29T08:12:11Z
file_id: '18935'
file_name: 2024_MolecularBioCell_Sarkany.pdf
file_size: 1699180
relation: main_file
success: 1
file_date_updated: 2025-01-29T08:12:11Z
has_accepted_license: '1'
intvolume: ' 35'
issue: '3'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-sa/4.0/
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
publication: Molecular Biology of the Cell
publication_identifier:
eissn:
- 1939-4586
issn:
- 1059-1524
publication_status: published
publisher: American Society for Cell Biology
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'NAGPKin: Nucleation-and-growth parameters from the kinetics of protein phase
separation'
tmp:
image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2024'
...
---
OA_type: closed access
_id: '18937'
abstract:
- lang: eng
text: A detailed structural, magnetic as well as dielectric dynamics study is carried
out to investigate the influence of Bi3+ on YCrO3. All the samples crystalize
in orthorhombic structure with Pnma symmetry and the grains are mostly stretched
with Bi. A coexisting tunable fraction of both antiferromagnetic (AFM) and weak
ferromagnetic (WFM) phases is acquired by the system down to Low-T. An abnormal
negative magnetization in zero field is correlated to the competition among AFM
and WFM phases. Maximum magnetization decreases while the coercivity first increases
and then decreases with Bi is correlated to the competing effect between the local
deformation and Cr–O–Cr exchange interaction. The magnetodielectric coupling with
improved permittivity might be associated with the 6s2 lone pair electron of Bi3+.
Furthermore, ac-conductivity increases with a decrease in activation energy (0.27–0.11
eV), is explained in the framework of structural model and charge carrier hopping
between Cr3+ and Cr4+ ions.
acknowledgement: The authors would like to acknowledge MHRD, Government of India for
financial support. The author is also thankful to RRCAT, Indore for providing XPS
beamline-14 of Indus II to conduct experimental work.
article_number: '416018'
article_processing_charge: No
article_type: original
author:
- first_name: Sujata Kumari
full_name: Ray, Sujata Kumari
last_name: Ray
- first_name: Anupama
full_name: Pati, Anupama
last_name: Pati
- first_name: Payala
full_name: Sahoo, Payala
last_name: Sahoo
- first_name: A.K.
full_name: Sahoo, A.K.
last_name: Sahoo
- first_name: Saurabh
full_name: Singh, Saurabh
id: 12d625da-9cb3-11ed-9667-af09d37d3f0a
last_name: Singh
orcid: 0000-0003-2209-5269
- first_name: Tsunehiro
full_name: Takeuchi, Tsunehiro
last_name: Takeuchi
- first_name: S.
full_name: Dash, S.
last_name: Dash
citation:
ama: 'Ray SK, Pati A, Sahoo P, et al. Tunable magnetoelectronic properties in Bi3+
substituted YCrO3. Physica B: Condensed Matter. 2024;685. doi:10.1016/j.physb.2024.416018'
apa: 'Ray, S. K., Pati, A., Sahoo, P., Sahoo, A. K., Singh, S., Takeuchi, T., &
Dash, S. (2024). Tunable magnetoelectronic properties in Bi3+ substituted YCrO3.
Physica B: Condensed Matter. Elsevier. https://doi.org/10.1016/j.physb.2024.416018'
chicago: 'Ray, Sujata Kumari, Anupama Pati, Payala Sahoo, A.K. Sahoo, Saurabh Singh,
Tsunehiro Takeuchi, and S. Dash. “Tunable Magnetoelectronic Properties in Bi3+
Substituted YCrO3.” Physica B: Condensed Matter. Elsevier, 2024. https://doi.org/10.1016/j.physb.2024.416018.'
ieee: 'S. K. Ray et al., “Tunable magnetoelectronic properties in Bi3+ substituted
YCrO3,” Physica B: Condensed Matter, vol. 685. Elsevier, 2024.'
ista: 'Ray SK, Pati A, Sahoo P, Sahoo AK, Singh S, Takeuchi T, Dash S. 2024. Tunable
magnetoelectronic properties in Bi3+ substituted YCrO3. Physica B: Condensed Matter.
685, 416018.'
mla: 'Ray, Sujata Kumari, et al. “Tunable Magnetoelectronic Properties in Bi3+ Substituted
YCrO3.” Physica B: Condensed Matter, vol. 685, 416018, Elsevier, 2024,
doi:10.1016/j.physb.2024.416018.'
short: 'S.K. Ray, A. Pati, P. Sahoo, A.K. Sahoo, S. Singh, T. Takeuchi, S. Dash,
Physica B: Condensed Matter 685 (2024).'
date_created: 2025-01-29T08:33:04Z
date_published: 2024-07-15T00:00:00Z
date_updated: 2025-01-29T08:37:14Z
day: '15'
department:
- _id: MaIb
doi: 10.1016/j.physb.2024.416018
intvolume: ' 685'
language:
- iso: eng
month: '07'
oa_version: None
publication: 'Physica B: Condensed Matter'
publication_identifier:
issn:
- 0921-4526
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Tunable magnetoelectronic properties in Bi3+ substituted YCrO3
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 685
year: '2024'
...
---
OA_place: publisher
OA_type: hybrid
_id: '18938'
abstract:
- lang: eng
text: The synthesis of proteins as encoded in the genome depends critically on translational
fidelity. Nevertheless, errors inevitably occur, and those that result in reading
frame shifts are particularly consequential because the resulting polypeptides
are typically nonfunctional. Despite the generally maladaptive impact of such
errors, the proper decoding of certain mRNAs, including many viral mRNAs, depends
on a process known as programmed ribosomal frameshifting. The fact that these
programmed events, commonly involving a shift to the –1 frame, occur at specific
evolutionarily optimized “slippery” sites has facilitated mechanistic investigation.
By contrast, less is known about the scope and nature of error (i.e., nonprogrammed)
frameshifting. Here, we examine error frameshifting by monitoring spontaneous
frameshift events that suppress the effects of single base pair deletions affecting
two unrelated test proteins. To map the precise sites of frameshifting, we developed
a targeted mass spectrometry–based method called “translational tiling proteomics”
for interrogating the full set of possible –1 slippage events that could produce
the observed frameshift suppression. Surprisingly, such events occur at many sites
along the transcripts, involving up to one half of the available codons. Only
a subset of these resembled canonical “slippery” sites, implicating alternative
mechanisms potentially involving noncognate mispairing events. Additionally, the
aggregate frequency of these events (ranging from 1 to 10% in our test cases)
was higher than we might have anticipated. Our findings point to an unexpected
degree of mechanistic diversity among ribosomal frameshifting events and suggest
that frameshifted products may contribute more significantly to the proteome than
generally assumed.
acknowledgement: We thank S. L. Dove for valuable discussion and comments on the manuscript
and R. Hellmiss for artwork. This work was supported by NIH grants GM136247 to A.H.,
AG011085 to J.W.H., and GM132129 to J.A.P.
article_number: e2317453121
article_processing_charge: No
article_type: original
author:
- first_name: Benjamin L
full_name: Springstein, Benjamin L
id: b4eb62ef-ac72-11ed-9503-ed3b4d66c083
last_name: Springstein
orcid: 0000-0002-3461-5391
- first_name: Joao A.
full_name: Paulo, Joao A.
last_name: Paulo
- first_name: Hankum
full_name: Park, Hankum
last_name: Park
- first_name: Kemardo
full_name: Henry, Kemardo
last_name: Henry
- first_name: Eleanor
full_name: Fleming, Eleanor
last_name: Fleming
- first_name: Zoë
full_name: Feder, Zoë
last_name: Feder
- first_name: J. Wade
full_name: Harper, J. Wade
last_name: Harper
- first_name: Ann
full_name: Hochschild, Ann
last_name: Hochschild
citation:
ama: Springstein BL, Paulo JA, Park H, et al. Systematic analysis of nonprogrammed
frameshift suppression in E.coli via translational tiling proteomics. Proceedings
of the National Academy of Sciences of the United States of America. 2024;121(6).
doi:10.1073/pnas.2317453121
apa: Springstein, B. L., Paulo, J. A., Park, H., Henry, K., Fleming, E., Feder,
Z., … Hochschild, A. (2024). Systematic analysis of nonprogrammed frameshift suppression
in E.coli via translational tiling proteomics. Proceedings of the National
Academy of Sciences of the United States of America. National Academy of Sciences.
https://doi.org/10.1073/pnas.2317453121
chicago: Springstein, Benjamin L, Joao A. Paulo, Hankum Park, Kemardo Henry, Eleanor
Fleming, Zoë Feder, J. Wade Harper, and Ann Hochschild. “Systematic Analysis of
Nonprogrammed Frameshift Suppression in E.Coli via Translational Tiling Proteomics.”
Proceedings of the National Academy of Sciences of the United States of America.
National Academy of Sciences, 2024. https://doi.org/10.1073/pnas.2317453121.
ieee: B. L. Springstein et al., “Systematic analysis of nonprogrammed frameshift
suppression in E.coli via translational tiling proteomics,” Proceedings of
the National Academy of Sciences of the United States of America, vol. 121,
no. 6. National Academy of Sciences, 2024.
ista: Springstein BL, Paulo JA, Park H, Henry K, Fleming E, Feder Z, Harper JW,
Hochschild A. 2024. Systematic analysis of nonprogrammed frameshift suppression
in E.coli via translational tiling proteomics. Proceedings of the National Academy
of Sciences of the United States of America. 121(6), e2317453121.
mla: Springstein, Benjamin L., et al. “Systematic Analysis of Nonprogrammed Frameshift
Suppression in E.Coli via Translational Tiling Proteomics.” Proceedings of
the National Academy of Sciences of the United States of America, vol. 121,
no. 6, e2317453121, National Academy of Sciences, 2024, doi:10.1073/pnas.2317453121.
short: B.L. Springstein, J.A. Paulo, H. Park, K. Henry, E. Fleming, Z. Feder, J.W.
Harper, A. Hochschild, Proceedings of the National Academy of Sciences of the
United States of America 121 (2024).
date_created: 2025-01-29T08:39:27Z
date_published: 2024-02-06T00:00:00Z
date_updated: 2025-05-14T11:02:52Z
day: '06'
ddc:
- '570'
department:
- _id: MaLo
doi: 10.1073/pnas.2317453121
external_id:
pmid:
- '38289956'
file:
- access_level: open_access
checksum: 5bd62c7cb4287e3706a1d45d6ef61fd1
content_type: application/pdf
creator: dernst
date_created: 2025-01-29T08:43:16Z
date_updated: 2025-01-29T08:43:16Z
file_id: '18939'
file_name: 2024_PNAS_Springstein.pdf
file_size: 720902
relation: main_file
success: 1
file_date_updated: 2025-01-29T08:43:16Z
has_accepted_license: '1'
intvolume: ' 121'
issue: '6'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
publication: Proceedings of the National Academy of Sciences of the United States
of America
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: Systematic analysis of nonprogrammed frameshift suppression in E.coli via translational
tiling proteomics
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 121
year: '2024'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '18940'
abstract:
- lang: eng
text: BMP signaling has a conserved function in patterning the dorsal-ventral body
axis in Bilateria and the directive axis in anthozoan cnidarians. So far, cnidarian
studies have focused on the role of different BMP signaling network components
in regulating pSMAD1/5 gradient formation. Much less is known about the target
genes downstream of BMP signaling. To address this, we generated a genome-wide
list of direct pSMAD1/5 target genes in the anthozoan Nematostella
vectensis, several of which were conserved in Drosophila
and Xenopus. Our ChIP-seq analysis revealed that many
of the regulatory molecules with documented bilaterally symmetric expression in
Nematostella are directly controlled by BMP signaling.
We identified several so far uncharacterized BMP-dependent transcription factors
and signaling molecules, whose bilaterally symmetric expression may be indicative
of their involvement in secondary axis patterning. One of these molecules is zswim4-6,
which encodes a novel nuclear protein that can modulate the pSMAD1/5 gradient
and potentially promote BMP-dependent gene repression.
acknowledgement: This work was funded by the Austrian Science Foundation (FWF) grants
P26962-B21 and P32705-B to GG and by the European Research Council (ERC) under the
European Union’s Horizon 2020 research and innovation program (grant agreement No
637840 [QUANTPATTERN] and 863952 [ACE-OF-SPACE]) to PM. We thank Michaela Schwaiger,
Taras Kreslavsky, Hiromi Tagoh, and Patricio Ferrer Murguia for their help with
the ChIP protocol, Matthias Richter and Christian Hofer for their assistance with
in situ analyses, Emilio Gonzalez Morales for making the measurements for Figure
6—figure supplement 3, Catrin Weiler for the assistance in cloning zebrafish zswim5,
David Mörsdorf for critically reading the manuscript and help with data visualization,
and the Core Facility for Cell Imaging and Ultrastructure Research of the University
of Vienna for access to the confocal microscope.
article_processing_charge: Yes
article_type: original
author:
- first_name: Paul
full_name: Knabl, Paul
last_name: Knabl
- first_name: Alexandra
full_name: Schauer, Alexandra
id: 30A536BA-F248-11E8-B48F-1D18A9856A87
last_name: Schauer
orcid: 0000-0001-7659-9142
- first_name: Autumn P
full_name: Pomreinke, Autumn P
last_name: Pomreinke
- first_name: Bob
full_name: Zimmermann, Bob
last_name: Zimmermann
- first_name: Katherine W
full_name: Rogers, Katherine W
last_name: Rogers
- first_name: Daniel
full_name: Čapek, Daniel
last_name: Čapek
- first_name: Patrick
full_name: Müller, Patrick
last_name: Müller
- first_name: Grigory
full_name: Genikhovich, Grigory
last_name: Genikhovich
citation:
ama: Knabl P, Schauer A, Pomreinke AP, et al. Analysis of SMAD1/5 target genes in
a sea anemone reveals ZSWIM4-6 as a novel BMP signaling modulator. eLife.
2024;13. doi:10.7554/elife.80803
apa: Knabl, P., Schauer, A., Pomreinke, A. P., Zimmermann, B., Rogers, K. W., Čapek,
D., … Genikhovich, G. (2024). Analysis of SMAD1/5 target genes in a sea anemone
reveals ZSWIM4-6 as a novel BMP signaling modulator. ELife. eLife Sciences
Publications. https://doi.org/10.7554/elife.80803
chicago: Knabl, Paul, Alexandra Schauer, Autumn P Pomreinke, Bob Zimmermann, Katherine
W Rogers, Daniel Čapek, Patrick Müller, and Grigory Genikhovich. “Analysis of
SMAD1/5 Target Genes in a Sea Anemone Reveals ZSWIM4-6 as a Novel BMP Signaling
Modulator.” ELife. eLife Sciences Publications, 2024. https://doi.org/10.7554/elife.80803.
ieee: P. Knabl et al., “Analysis of SMAD1/5 target genes in a sea anemone
reveals ZSWIM4-6 as a novel BMP signaling modulator,” eLife, vol. 13. eLife
Sciences Publications, 2024.
ista: Knabl P, Schauer A, Pomreinke AP, Zimmermann B, Rogers KW, Čapek D, Müller
P, Genikhovich G. 2024. Analysis of SMAD1/5 target genes in a sea anemone reveals
ZSWIM4-6 as a novel BMP signaling modulator. eLife. 13.
mla: Knabl, Paul, et al. “Analysis of SMAD1/5 Target Genes in a Sea Anemone Reveals
ZSWIM4-6 as a Novel BMP Signaling Modulator.” ELife, vol. 13, eLife Sciences
Publications, 2024, doi:10.7554/elife.80803.
short: P. Knabl, A. Schauer, A.P. Pomreinke, B. Zimmermann, K.W. Rogers, D. Čapek,
P. Müller, G. Genikhovich, ELife 13 (2024).
date_created: 2025-01-29T08:48:34Z
date_published: 2024-02-07T00:00:00Z
date_updated: 2025-01-29T08:56:21Z
day: '07'
ddc:
- '570'
department:
- _id: CaHe
doi: 10.7554/elife.80803
file:
- access_level: open_access
checksum: 24548a184215d3f4547bba535ccfd7b1
content_type: application/pdf
creator: dernst
date_created: 2025-01-29T08:50:18Z
date_updated: 2025-01-29T08:50:18Z
file_id: '18941'
file_name: 2024_eLife_Knabl.pdf
file_size: 11855972
relation: main_file
success: 1
file_date_updated: 2025-01-29T08:50:18Z
has_accepted_license: '1'
intvolume: ' 13'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: eLife
publication_identifier:
issn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: Analysis of SMAD1/5 target genes in a sea anemone reveals ZSWIM4-6 as a novel
BMP signaling modulator
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2024'
...
---
OA_place: repository
OA_type: green
_id: '18944'
abstract:
- lang: eng
text: 'Understanding connectivity patterns exhibited by endangered species living
in fragmented habitats is fundamental to improving management and conservation
actions. Such improvements can be particularly pressing at the trailing edges
of these habitats, where populations are facing the greatest challenges from climate
change, and appear even more crucial if the species is commercially harvested.
Seascape genetics have been increasingly used to meet these needs. In this study,
we examined connectivity patterns among 32 populations of the oarweed kelp Laminaria
digitata located at the species’ southern range limit. The distance
(or sampling gap) between neighboring populations ranged from a few km to a few
100s of km. By genotyping 11 microsatellite markers, we aimed to (1) refine analyses
of population structure; (2) test whether on-shelf islands are genetically more
differentiated than mainland populations; (3) evaluate the relative importance
of various abiotic conditions in shaping the genetic structure; and (4) evaluate
if the relative importance of each environmental factor varied according to sampling
schemes. Our analyses revealed a positive relationship between connectivity links
and genetic diversity: populations with high levels of connectivity were genetically
enriched while isolated populations showed signs of genetic erosion. The genetically
impoverished populations corresponded to the southernmost populations as well
as populations along the northern coast of Brittany (Locquirec, Saint-Malo Bay)
and the northernmost population in Pas-de-Calais. By performing distance-based
redundancy analysis on various sampling schemes, geographic distance appeared
as the dominant factor influencing connectivity between populations separated
by great distances, while hydrodynamic processes were the main factor when analyzing
at a final spatial resolution.'
article_processing_charge: No
article_type: original
author:
- first_name: Louise
full_name: Fouqueau, Louise
id: 1676e173-8143-11ed-8927-fe165216a93f
last_name: Fouqueau
orcid: 0000-0003-0371-9339
- first_name: L
full_name: Reynes, L
last_name: Reynes
- first_name: F
full_name: Tempera, F
last_name: Tempera
- first_name: T
full_name: Bajjouk, T
last_name: Bajjouk
- first_name: A
full_name: Blanfuné, A
last_name: Blanfuné
- first_name: C
full_name: Chevalier, C
last_name: Chevalier
- first_name: M
full_name: Laurans, M
last_name: Laurans
- first_name: S
full_name: Mauger, S
last_name: Mauger
- first_name: M
full_name: Sourisseau, M
last_name: Sourisseau
- first_name: J
full_name: Assis, J
last_name: Assis
- first_name: L
full_name: Lévêque, L
last_name: Lévêque
- first_name: M
full_name: Valero, M
last_name: Valero
citation:
ama: Fouqueau L, Reynes L, Tempera F, et al. Seascape genetic study on Laminaria
digitata underscores the critical role of sampling schemes. Marine Ecology
Progress Series. 2024;740:23-42. doi:10.3354/meps14640
apa: Fouqueau, L., Reynes, L., Tempera, F., Bajjouk, T., Blanfuné, A., Chevalier,
C., … Valero, M. (2024). Seascape genetic study on Laminaria digitata underscores
the critical role of sampling schemes. Marine Ecology Progress Series.
Inter-Research Science Center. https://doi.org/10.3354/meps14640
chicago: Fouqueau, Louise, L Reynes, F Tempera, T Bajjouk, A Blanfuné, C Chevalier,
M Laurans, et al. “Seascape Genetic Study on Laminaria Digitata Underscores the
Critical Role of Sampling Schemes.” Marine Ecology Progress Series. Inter-Research
Science Center, 2024. https://doi.org/10.3354/meps14640.
ieee: L. Fouqueau et al., “Seascape genetic study on Laminaria digitata underscores
the critical role of sampling schemes,” Marine Ecology Progress Series,
vol. 740. Inter-Research Science Center, pp. 23–42, 2024.
ista: Fouqueau L, Reynes L, Tempera F, Bajjouk T, Blanfuné A, Chevalier C, Laurans
M, Mauger S, Sourisseau M, Assis J, Lévêque L, Valero M. 2024. Seascape genetic
study on Laminaria digitata underscores the critical role of sampling schemes.
Marine Ecology Progress Series. 740, 23–42.
mla: Fouqueau, Louise, et al. “Seascape Genetic Study on Laminaria Digitata Underscores
the Critical Role of Sampling Schemes.” Marine Ecology Progress Series,
vol. 740, Inter-Research Science Center, 2024, pp. 23–42, doi:10.3354/meps14640.
short: L. Fouqueau, L. Reynes, F. Tempera, T. Bajjouk, A. Blanfuné, C. Chevalier,
M. Laurans, S. Mauger, M. Sourisseau, J. Assis, L. Lévêque, M. Valero, Marine
Ecology Progress Series 740 (2024) 23–42.
corr_author: '1'
date_created: 2025-01-29T09:09:10Z
date_published: 2024-07-25T00:00:00Z
date_updated: 2025-01-29T09:12:34Z
day: '25'
department:
- _id: NiBa
doi: 10.3354/meps14640
intvolume: ' 740'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://inria.hal.science/hal-04624490/
month: '07'
oa: 1
oa_version: Submitted Version
page: 23-42
publication: Marine Ecology Progress Series
publication_identifier:
eissn:
- 1616-1599
issn:
- 0171-8630
publication_status: published
publisher: Inter-Research Science Center
quality_controlled: '1'
scopus_import: '1'
status: public
title: Seascape genetic study on Laminaria digitata underscores the critical role
of sampling schemes
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 740
year: '2024'
...
---
OA_type: closed access
_id: '18945'
abstract:
- lang: eng
text: Vaccinia-related kinase 1 (VRK1) and the δ and ε isoforms of casein kinase
1 (CK1) are linked to various disease-relevant pathways. However, the lack of
tool compounds for these kinases has significantly hampered our understanding
of their cellular functions and therapeutic potential. Here, we describe the structure-based
development of potent inhibitors of VRK1, a kinase highly expressed in various
tumor types and crucial for cell proliferation and genome integrity. Kinome-wide
profiling revealed that our compounds also inhibit CK1δ and CK1ε. We demonstrate
that dihydropteridinones 35 and 36 mimic the cellular outcomes of VRK1 depletion.
Complementary studies with existing CK1δ and CK1ε inhibitors suggest that these
kinases may play overlapping roles in cell proliferation and genome instability.
Together, our findings highlight the potential of VRK1 inhibition in treating
p53-deficient tumors and possibly enhancing the efficacy of existing cancer therapies
that target DNA stability or cell division.
acknowledgement: "R.M.C. and K.B.M. are grateful for support by FAPESP (Fundação de
Amparo à Pesquisa do Estado de São Paulo) (grants 2013/50724–5 and 2014/50897–0),
Embrapii (Empresa Brasileira de Pesquisa e Inovação Industrial), CNPq (Conselho
Nacional de Desenvolvimento Científico e Tecnológico) (grant 465651/2014–3) and
Aché Laboratórios Farmacêuticos. R.M.C. and O.G. are also grateful for support by
the Structural Genomics Consortium, a registered charity (1097737) that receives
funds from AbbVie, Bayer AG, Boehringer Ingelheim, Canada Foundation for Innovation,
Eshelman Institute for Innovation, Genentech, Genome Canada through the Ontario
Genomics Institute (OGI-196), EU/EFPIA/OICR/McGill/KTH/Diamond, Innovative Medicines
Initiative 2 Joint Undertaking (EUbOPEN Grant 875510), Janssen, Merck KGaA, Merck
& Co., Pfizer, Takeda, and Wellcome. B.L. and M.H. are grateful for support from
the Swedish Research Council, Swedish Cancer Society, Karolinska Institutet and
The Mark Foundation for Cancer Research. R.A.M.S. (2016/25320–6 and 2018/23322–7),
A.S.S. (2019/14275–8), S.N.S.V (2018/09475–5), V.M.A. (2022/00743–2) and M.R.C.
(2021/04853–4) were recipients of fellowships from the Fundação de Amparo à Pesquisa
do Estado de São Paulo, FAPESP. C.V.R. (88887.146077/2017–00), J.E.T. (88887.373547/2019–00)
and P.Z.R (88887.136432/2017–00) were the recipient of fellowships from the Coordenação
de Aperfeiçoamento de Pessoal de Nível Superior, CAPES.\r\nWe thank all members
of CQMED-UNICAMP for their help and support. We thank the staff of the Life Sciences
Core Facility (LaCTAD) at UNICAMP for the Genomics and Mass Spectrometry analysis.
We thank the NMR facility at UNICAMP Chemistry Institute for its assistance. We
thank the staff at the Northeastern Collaborative Access Team beamlines, which are
funded by the National Institute of General Medical Sciences from the National Institutes
of Health (P41 GM103403). The Pilatus 6M detector on the 24-ID-C beamline is funded
by a NIH-ORIP HEI grant (S10 RR029205). This research used resources of the Advanced
Photon Source; a U.S. Department of Energy (DOE) Office of Science User Facility
operated for the DOE Office of Science by Argonne National Laboratory under Contract
No. DE-AC02-06CH11357. We thank Diamond Light Source for access to beamline I24.
The authors thank Tammy Havener (SGC-UNC), Abid Hussain Sayyid (KI), and Yiqiu Yang
(KI) for valuable discussions and technical support."
article_processing_charge: No
article_type: original
author:
- first_name: Fernando H.
full_name: de Souza Gama, Fernando H.
last_name: de Souza Gama
- first_name: Luiz A.
full_name: Dutra, Luiz A.
last_name: Dutra
- first_name: Michael
full_name: Hawgood, Michael
last_name: Hawgood
- first_name: Caio Vinícius
full_name: dos Reis, Caio Vinícius
last_name: dos Reis
- first_name: Ricardo A. M.
full_name: Serafim, Ricardo A. M.
last_name: Serafim
- first_name: Marcos A.
full_name: Ferreira, Marcos A.
last_name: Ferreira
- first_name: Bruno V. M.
full_name: Teodoro, Bruno V. M.
last_name: Teodoro
- first_name: Jéssica Emi
full_name: Takarada, Jéssica Emi
last_name: Takarada
- first_name: André S.
full_name: Santiago, André S.
last_name: Santiago
- first_name: Dimitrios-Ilias
full_name: Balourdas, Dimitrios-Ilias
last_name: Balourdas
- first_name: Ann-Sofie
full_name: Nilsson, Ann-Sofie
last_name: Nilsson
- first_name: Bruno
full_name: Urien, Bruno
last_name: Urien
- first_name: Vitor M.
full_name: Almeida, Vitor M.
last_name: Almeida
- first_name: Carina
full_name: Gileadi, Carina
last_name: Gileadi
- first_name: Priscila Z.
full_name: Ramos, Priscila Z.
last_name: Ramos
- first_name: Anita P
full_name: Testa Salmazo, Anita P
id: 41F1F098-F248-11E8-B48F-1D18A9856A87
last_name: Testa Salmazo
- first_name: Stanley N. S.
full_name: Vasconcelos, Stanley N. S.
last_name: Vasconcelos
- first_name: Micael R.
full_name: Cunha, Micael R.
last_name: Cunha
- first_name: Susanne
full_name: Mueller, Susanne
last_name: Mueller
- first_name: Stefan
full_name: Knapp, Stefan
last_name: Knapp
- first_name: Katlin B.
full_name: Massirer, Katlin B.
last_name: Massirer
- first_name: Jonathan M.
full_name: Elkins, Jonathan M.
last_name: Elkins
- first_name: Opher
full_name: Gileadi, Opher
last_name: Gileadi
- first_name: Alessandra
full_name: Mascarello, Alessandra
last_name: Mascarello
- first_name: Bennie B. L. G.
full_name: Lemmens, Bennie B. L. G.
last_name: Lemmens
- first_name: Cristiano R. W.
full_name: Guimarães, Cristiano R. W.
last_name: Guimarães
- first_name: Hatylas
full_name: Azevedo, Hatylas
last_name: Azevedo
- first_name: Rafael M.
full_name: Couñago, Rafael M.
last_name: Couñago
citation:
ama: de Souza Gama FH, Dutra LA, Hawgood M, et al. Novel dihydropteridinone derivatives
as potent inhibitors of the understudied human kinases vaccinia-related kinase
1 and casein kinase 1δ/ε. Journal of Medicinal Chemistry. 2024;67(11):8609-8629.
doi:10.1021/acs.jmedchem.3c02250
apa: de Souza Gama, F. H., Dutra, L. A., Hawgood, M., dos Reis, C. V., Serafim,
R. A. M., Ferreira, M. A., … Couñago, R. M. (2024). Novel dihydropteridinone derivatives
as potent inhibitors of the understudied human kinases vaccinia-related kinase
1 and casein kinase 1δ/ε. Journal of Medicinal Chemistry. American Chemical
Society. https://doi.org/10.1021/acs.jmedchem.3c02250
chicago: Souza Gama, Fernando H. de, Luiz A. Dutra, Michael Hawgood, Caio Vinícius
dos Reis, Ricardo A. M. Serafim, Marcos A. Ferreira, Bruno V. M. Teodoro, et al.
“Novel Dihydropteridinone Derivatives as Potent Inhibitors of the Understudied
Human Kinases Vaccinia-Related Kinase 1 and Casein Kinase 1δ/ε.” Journal of
Medicinal Chemistry. American Chemical Society, 2024. https://doi.org/10.1021/acs.jmedchem.3c02250.
ieee: F. H. de Souza Gama et al., “Novel dihydropteridinone derivatives as
potent inhibitors of the understudied human kinases vaccinia-related kinase 1
and casein kinase 1δ/ε,” Journal of Medicinal Chemistry, vol. 67, no. 11.
American Chemical Society, pp. 8609–8629, 2024.
ista: de Souza Gama FH, Dutra LA, Hawgood M, dos Reis CV, Serafim RAM, Ferreira
MA, Teodoro BVM, Takarada JE, Santiago AS, Balourdas D-I, Nilsson A-S, Urien B,
Almeida VM, Gileadi C, Ramos PZ, Testa Salmazo AP, Vasconcelos SNS, Cunha MR,
Mueller S, Knapp S, Massirer KB, Elkins JM, Gileadi O, Mascarello A, Lemmens BBLG,
Guimarães CRW, Azevedo H, Couñago RM. 2024. Novel dihydropteridinone derivatives
as potent inhibitors of the understudied human kinases vaccinia-related kinase
1 and casein kinase 1δ/ε. Journal of Medicinal Chemistry. 67(11), 8609–8629.
mla: de Souza Gama, Fernando H., et al. “Novel Dihydropteridinone Derivatives as
Potent Inhibitors of the Understudied Human Kinases Vaccinia-Related Kinase 1
and Casein Kinase 1δ/ε.” Journal of Medicinal Chemistry, vol. 67, no. 11,
American Chemical Society, 2024, pp. 8609–29, doi:10.1021/acs.jmedchem.3c02250.
short: F.H. de Souza Gama, L.A. Dutra, M. Hawgood, C.V. dos Reis, R.A.M. Serafim,
M.A. Ferreira, B.V.M. Teodoro, J.E. Takarada, A.S. Santiago, D.-I. Balourdas,
A.-S. Nilsson, B. Urien, V.M. Almeida, C. Gileadi, P.Z. Ramos, A.P. Testa Salmazo,
S.N.S. Vasconcelos, M.R. Cunha, S. Mueller, S. Knapp, K.B. Massirer, J.M. Elkins,
O. Gileadi, A. Mascarello, B.B.L.G. Lemmens, C.R.W. Guimarães, H. Azevedo, R.M.
Couñago, Journal of Medicinal Chemistry 67 (2024) 8609–8629.
date_created: 2025-01-29T09:14:19Z
date_published: 2024-05-23T00:00:00Z
date_updated: 2025-01-29T09:19:15Z
day: '23'
department:
- _id: CaBe
doi: 10.1021/acs.jmedchem.3c02250
external_id:
pmid:
- '38780468'
intvolume: ' 67'
issue: '11'
language:
- iso: eng
month: '05'
oa_version: None
page: 8609-8629
pmid: 1
publication: Journal of Medicinal Chemistry
publication_identifier:
eissn:
- 1520-4804
issn:
- 0022-2623
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Novel dihydropteridinone derivatives as potent inhibitors of the understudied
human kinases vaccinia-related kinase 1 and casein kinase 1δ/ε
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 67
year: '2024'
...
---
OA_place: repository
OA_type: green
_id: '18948'
abstract:
- lang: eng
text: We consider a gas of N bosons with interactions in the mean-field scaling
regime. We review a recent proof of the asymptotic expansion of its spectrum and
eigenstates and two applications of this result, namely the derivation of an Edgeworth
expansion for fluctuations of one-body operators and the computation of the binding
energy of an inhomogeneous Bose gas to any order. Finally, we collect related
results for the dynamics of the weakly interacting Bose gas and for the regularized
Nelson model.
acknowledgement: It is our pleasure to thank Marco Falconi, Nataša Pavlović, Peter
Pickl, Robert Seiringer and Avy Soffer for the collaboration on the works [11, 13,
14, 21, 33, 39]. L.B. was supported by the German Research Foundation within the
Munich Center of Quantum Science and Technology (EXC 2111). N.L. acknowledges support
from the Swiss National Science Foundation through the NCCR SwissMap and funding
from the European Union’s Horizon 2020 research and innovation programme under the
Marie Skłodowska-Curie grant agreement No 101024712. S.P. acknowledges funding by
the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) - project
number 512258249.
alternative_title:
- Fundamental Theories of Physics
article_processing_charge: No
arxiv: 1
author:
- first_name: Lea
full_name: Bossmann, Lea
id: A2E3BCBE-5FCC-11E9-AA4B-76F3E5697425
last_name: Bossmann
orcid: 0000-0002-6854-1343
- first_name: Nikolai
full_name: Leopold, Nikolai
last_name: Leopold
- first_name: David Johannes
full_name: Mitrouskas, David Johannes
id: cbddacee-2b11-11eb-a02e-a2e14d04e52d
last_name: Mitrouskas
- first_name: Sören
full_name: Petrat, Sören
last_name: Petrat
citation:
ama: 'Bossmann L, Leopold N, Mitrouskas DJ, Petrat S. Asymptotic Analysis of the Weakly
Interacting Bose Gas: A Collection of Recent Results and Applications. In: Bassi
A, Goldstein S, Tumulka R, Zanghi N, eds. Physics and the Nature of Reality.
Vol 215. FTPH. Cham: Springer Nature; 2024:307-321. doi:10.1007/978-3-031-45434-9_22'
apa: 'Bossmann, L., Leopold, N., Mitrouskas, D. J., & Petrat, S. (2024). Asymptotic
Analysis of the Weakly Interacting Bose Gas: A Collection of Recent Results and Applications.
In A. Bassi, S. Goldstein, R. Tumulka, & N. Zanghi (Eds.), Physics and
the Nature of Reality (Vol. 215, pp. 307–321). Cham: Springer Nature. https://doi.org/10.1007/978-3-031-45434-9_22'
chicago: 'Bossmann, Lea, Nikolai Leopold, David Johannes Mitrouskas, and Sören Petrat.
“Asymptotic Analysis of the Weakly Interacting Bose Gas: A Collection of Recent
Results and Applications.” In Physics and the Nature of Reality, edited
by Angelo Bassi, Sheldon Goldstein, Roderich Tumulka, and Nino Zanghi, 215:307–21.
FTPH. Cham: Springer Nature, 2024. https://doi.org/10.1007/978-3-031-45434-9_22.'
ieee: 'L. Bossmann, N. Leopold, D. J. Mitrouskas, and S. Petrat, “Asymptotic Analysis
of the Weakly Interacting Bose Gas: A Collection of Recent Results and Applications,”
in Physics and the Nature of Reality, vol. 215, A. Bassi, S. Goldstein,
R. Tumulka, and N. Zanghi, Eds. Cham: Springer Nature, 2024, pp. 307–321.'
ista: 'Bossmann L, Leopold N, Mitrouskas DJ, Petrat S. 2024.Asymptotic Analysis
of the Weakly Interacting Bose Gas: A Collection of Recent Results and Applications.
In: Physics and the Nature of Reality. Fundamental Theories of Physics, vol. 215,
307–321.'
mla: 'Bossmann, Lea, et al. “Asymptotic Analysis of the Weakly Interacting Bose
Gas: A Collection of Recent Results and Applications.” Physics and the Nature
of Reality, edited by Angelo Bassi et al., vol. 215, Springer Nature, 2024,
pp. 307–21, doi:10.1007/978-3-031-45434-9_22.'
short: L. Bossmann, N. Leopold, D.J. Mitrouskas, S. Petrat, in:, A. Bassi, S. Goldstein,
R. Tumulka, N. Zanghi (Eds.), Physics and the Nature of Reality, Springer Nature,
Cham, 2024, pp. 307–321.
date_created: 2025-01-29T10:30:08Z
date_published: 2024-02-04T00:00:00Z
date_updated: 2025-01-29T10:35:10Z
day: '04'
department:
- _id: RoSe
doi: 10.1007/978-3-031-45434-9_22
editor:
- first_name: Angelo
full_name: Bassi, Angelo
last_name: Bassi
- first_name: Sheldon
full_name: Goldstein, Sheldon
last_name: Goldstein
- first_name: Roderich
full_name: Tumulka, Roderich
last_name: Tumulka
- first_name: Nino
full_name: Zanghi, Nino
last_name: Zanghi
external_id:
arxiv:
- '2304.12910'
intvolume: ' 215'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2304.12910
month: '02'
oa: 1
oa_version: Preprint
page: 307-321
place: Cham
publication: Physics and the Nature of Reality
publication_identifier:
eisbn:
- '9783031454349'
eissn:
- 2365-6425
isbn:
- '9783031454332'
issn:
- 0168-1222
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
series_title: FTPH
status: public
title: 'Asymptotic Analysis of the Weakly Interacting Bose Gas: A Collection of Recent
Results and Applications'
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 215
year: '2024'
...
---
OA_place: publisher
OA_type: gold
_id: '18949'
abstract:
- lang: eng
text: 'Speciation research—the scientific field focused on understanding the origin
and diversity of species—has a long and complex history. While relevant to one
another, the specific goals and activities of speciation researchers are highly
diverse, and scattered across a collection of different perspectives. Thus, our
understanding of speciation will benefit from efforts to bridge scientific findings
and the diverse people who do the work. In this paper, we outline two ways of
integrating speciation research: (i) scientific integration, through the bringing
together of ideas, data, and approaches; and (ii) social integration, by creating
ways for a diversity of researchers to participate in the scientific process.
We then discuss five challenges to integration: (i) the multidisciplinary nature
of speciation research, (ii) the complex language of speciation; (iii) a bias
toward certain study systems; (iv) the challenges of working across scales; and
(v) inconsistent measures and reporting standards. We provide practical steps
that individuals and groups can take to help overcome these challenges, and argue
that integration is a team effort in which we all have a role to play.'
acknowledgement: "We thank the staff of the Tvärminne Zoological Station (University
of Helsinki) for their hospitality during the workshop. We are also grateful to
everyone who applied to attend the workshop.\r\nFunding for the workshop was provided
by the European Society for Evolutionary Biology through the Special Topic Network
(STN) funding scheme."
article_number: kzae001
article_processing_charge: Yes
article_type: original
author:
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Asher D
full_name: Cutter, Asher D
last_name: Cutter
- first_name: Ina
full_name: Satokangas, Ina
last_name: Satokangas
- first_name: Brian A
full_name: Lerch, Brian A
last_name: Lerch
- first_name: Jonathan
full_name: Rolland, Jonathan
last_name: Rolland
- first_name: Carole M
full_name: Smadja, Carole M
last_name: Smadja
- first_name: J Carolina
full_name: Segami Marzal, J Carolina
last_name: Segami Marzal
- first_name: Christopher R
full_name: Cooney, Christopher R
last_name: Cooney
- first_name: Philine G D
full_name: Feulner, Philine G D
last_name: Feulner
- first_name: Fabricius Maia Chaves Bicalho
full_name: Domingos, Fabricius Maia Chaves Bicalho
last_name: Domingos
- first_name: Henry L
full_name: North, Henry L
last_name: North
- first_name: Ryo
full_name: Yamaguchi, Ryo
last_name: Yamaguchi
- first_name: Roger K
full_name: Butlin, Roger K
last_name: Butlin
- first_name: Jochen B W
full_name: Wolf, Jochen B W
last_name: Wolf
- first_name: Jenn
full_name: Coughlan, Jenn
last_name: Coughlan
- first_name: Patrick
full_name: Heidbreder, Patrick
last_name: Heidbreder
- first_name: Rebeca
full_name: Hernández-Gutiérrez, Rebeca
last_name: Hernández-Gutiérrez
- first_name: Karen B
full_name: Barnard-Kubow, Karen B
last_name: Barnard-Kubow
- first_name: David
full_name: Peede, David
last_name: Peede
- first_name: Loïs
full_name: Rancilhac, Loïs
last_name: Rancilhac
- first_name: Rodrigo Brincalepe
full_name: Salvador, Rodrigo Brincalepe
last_name: Salvador
- first_name: Ken A
full_name: Thompson, Ken A
last_name: Thompson
- first_name: Elizabeth A
full_name: Stacy, Elizabeth A
last_name: Stacy
- first_name: Leonie C
full_name: Moyle, Leonie C
last_name: Moyle
- first_name: Martin D
full_name: Garlovsky, Martin D
last_name: Garlovsky
- first_name: Arif
full_name: Maulana, Arif
last_name: Maulana
- first_name: Annina
full_name: Kantelinen, Annina
last_name: Kantelinen
- first_name: N Ivalú
full_name: Cacho, N Ivalú
last_name: Cacho
- first_name: Hilde
full_name: Schneemann, Hilde
last_name: Schneemann
- first_name: Marisol
full_name: Domínguez, Marisol
last_name: Domínguez
- first_name: Erik B
full_name: Dopman, Erik B
last_name: Dopman
- first_name: Konrad
full_name: Lohse, Konrad
last_name: Lohse
- first_name: Sina J
full_name: Rometsch, Sina J
last_name: Rometsch
- first_name: Aaron A
full_name: Comeault, Aaron A
last_name: Comeault
- first_name: Richard M
full_name: Merrill, Richard M
last_name: Merrill
- first_name: Elizabeth S C
full_name: Scordato, Elizabeth S C
last_name: Scordato
- first_name: Sonal
full_name: Singhal, Sonal
last_name: Singhal
- first_name: Varpu
full_name: Pärssinen, Varpu
last_name: Pärssinen
- first_name: Alycia C R
full_name: Lackey, Alycia C R
last_name: Lackey
- first_name: Sanghamitra
full_name: Kumar, Sanghamitra
last_name: Kumar
- first_name: Joana I
full_name: Meier, Joana I
last_name: Meier
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Christelle
full_name: Fraisse, Christelle
id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
orcid: 0000-0001-8441-5075
- first_name: Mark
full_name: Ravinet, Mark
last_name: Ravinet
- first_name: Jonna
full_name: Kulmuni, Jonna
last_name: Kulmuni
citation:
ama: Stankowski S, Cutter AD, Satokangas I, et al. Toward the integration of speciation
research. Evolutionary Journal of the Linnean Society. 2024;3(1). doi:10.1093/evolinnean/kzae001
apa: Stankowski, S., Cutter, A. D., Satokangas, I., Lerch, B. A., Rolland, J., Smadja,
C. M., … Kulmuni, J. (2024). Toward the integration of speciation research. Evolutionary
Journal of the Linnean Society. Oxford University Press. https://doi.org/10.1093/evolinnean/kzae001
chicago: Stankowski, Sean, Asher D Cutter, Ina Satokangas, Brian A Lerch, Jonathan
Rolland, Carole M Smadja, J Carolina Segami Marzal, et al. “Toward the Integration
of Speciation Research.” Evolutionary Journal of the Linnean Society. Oxford
University Press, 2024. https://doi.org/10.1093/evolinnean/kzae001.
ieee: S. Stankowski et al., “Toward the integration of speciation research,”
Evolutionary Journal of the Linnean Society, vol. 3, no. 1. Oxford University
Press, 2024.
ista: Stankowski S, Cutter AD, Satokangas I, Lerch BA, Rolland J, Smadja CM, Segami
Marzal JC, Cooney CR, Feulner PGD, Domingos FMCB, North HL, Yamaguchi R, Butlin
RK, Wolf JBW, Coughlan J, Heidbreder P, Hernández-Gutiérrez R, Barnard-Kubow KB,
Peede D, Rancilhac L, Salvador RB, Thompson KA, Stacy EA, Moyle LC, Garlovsky
MD, Maulana A, Kantelinen A, Cacho NI, Schneemann H, Domínguez M, Dopman EB, Lohse
K, Rometsch SJ, Comeault AA, Merrill RM, Scordato ESC, Singhal S, Pärssinen V,
Lackey ACR, Kumar S, Meier JI, Barton NH, Fraisse C, Ravinet M, Kulmuni J. 2024.
Toward the integration of speciation research. Evolutionary Journal of the Linnean
Society. 3(1), kzae001.
mla: Stankowski, Sean, et al. “Toward the Integration of Speciation Research.” Evolutionary
Journal of the Linnean Society, vol. 3, no. 1, kzae001, Oxford University
Press, 2024, doi:10.1093/evolinnean/kzae001.
short: S. Stankowski, A.D. Cutter, I. Satokangas, B.A. Lerch, J. Rolland, C.M. Smadja,
J.C. Segami Marzal, C.R. Cooney, P.G.D. Feulner, F.M.C.B. Domingos, H.L. North,
R. Yamaguchi, R.K. Butlin, J.B.W. Wolf, J. Coughlan, P. Heidbreder, R. Hernández-Gutiérrez,
K.B. Barnard-Kubow, D. Peede, L. Rancilhac, R.B. Salvador, K.A. Thompson, E.A.
Stacy, L.C. Moyle, M.D. Garlovsky, A. Maulana, A. Kantelinen, N.I. Cacho, H. Schneemann,
M. Domínguez, E.B. Dopman, K. Lohse, S.J. Rometsch, A.A. Comeault, R.M. Merrill,
E.S.C. Scordato, S. Singhal, V. Pärssinen, A.C.R. Lackey, S. Kumar, J.I. Meier,
N.H. Barton, C. Fraisse, M. Ravinet, J. Kulmuni, Evolutionary Journal of the Linnean
Society 3 (2024).
corr_author: '1'
date_created: 2025-01-29T10:38:17Z
date_published: 2024-02-16T00:00:00Z
date_updated: 2025-01-29T10:55:54Z
day: '16'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1093/evolinnean/kzae001
file:
- access_level: open_access
checksum: db08120a92527acaef476bd93f2b87f9
content_type: application/pdf
creator: dernst
date_created: 2025-01-29T10:52:40Z
date_updated: 2025-01-29T10:52:40Z
file_id: '18950'
file_name: 2024_EvolJourLinneanSoc_Stankowski.pdf
file_size: 3935454
relation: main_file
success: 1
file_date_updated: 2025-01-29T10:52:40Z
has_accepted_license: '1'
intvolume: ' 3'
issue: '1'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: Evolutionary Journal of the Linnean Society
publication_identifier:
issn:
- 2752-938X
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Toward the integration of speciation research
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 3
year: '2024'
...
---
OA_place: repository
OA_type: green
_id: '18955'
abstract:
- lang: eng
text: We give a simple proof that assuming the Exponential Time Hypothesis (ETH),
determining the winner of a Rabin game cannot be done in time 2o(k log k) · nO(1),
where k is the number of pairs of vertex subsets involved in the winning condition
and n is the vertex count of the game graph. While this result follows from the
lower bounds provided by Calude et al [SIAM J. Comp. 2022], our reduction is considerably
simpler and arguably provides more insight into the complexity of the problem.
In fact, the analogous lower bounds discussed by Calude et al, for solving Muller
games and multidimensional parity games, follow as simple corollaries of our approach.
Our reduction also highlights the usefulness of a certain pivot problem — Permutation
SAT — which may be of independent interest.
acknowledgement: This work is a part of projects CUTACOMBS (Ma. Pilipczuk), BOBR (Mi.
Pilipczuk), and VAMOS (K. S. Thejaswini) that have received funding from the European
Research Council (ERC) under the European Union's Horizon 2020 research and innovation
programme, grant agreements No 714704, 948057, and 101020093, respectively. Ma.
Pilipczuk is also partially supported by Polish National Science Centre SONATA BIS-12
grant number 2022/46/E/ST6/00143.
article_processing_charge: No
arxiv: 1
author:
- first_name: Antonio
full_name: Casares, Antonio
last_name: Casares
- first_name: Marcin
full_name: Pilipczuk, Marcin
last_name: Pilipczuk
- first_name: Michał
full_name: Pilipczuk, Michał
last_name: Pilipczuk
- first_name: Uéverton S.
full_name: Souza, Uéverton S.
last_name: Souza
- first_name: K. S.
full_name: Thejaswini, K. S.
id: 3807fb92-fdc1-11ee-bb4a-b4d8a431c753
last_name: Thejaswini
citation:
ama: 'Casares A, Pilipczuk M, Pilipczuk M, Souza US, Thejaswini KS. Simple and tight
complexity lower bounds for solving Rabin games. In: 2024 Symposium on Simplicity
in Algorithms. Society for Industrial and Applied Mathematics; 2024:160-167.
doi:10.1137/1.9781611977936.16'
apa: 'Casares, A., Pilipczuk, M., Pilipczuk, M., Souza, U. S., & Thejaswini,
K. S. (2024). Simple and tight complexity lower bounds for solving Rabin games.
In 2024 Symposium on Simplicity in Algorithms (pp. 160–167). Alexandria,
VA, United States: Society for Industrial and Applied Mathematics. https://doi.org/10.1137/1.9781611977936.16'
chicago: Casares, Antonio, Marcin Pilipczuk, Michał Pilipczuk, Uéverton S. Souza,
and K. S. Thejaswini. “Simple and Tight Complexity Lower Bounds for Solving Rabin
Games.” In 2024 Symposium on Simplicity in Algorithms, 160–67. Society
for Industrial and Applied Mathematics, 2024. https://doi.org/10.1137/1.9781611977936.16.
ieee: A. Casares, M. Pilipczuk, M. Pilipczuk, U. S. Souza, and K. S. Thejaswini,
“Simple and tight complexity lower bounds for solving Rabin games,” in 2024
Symposium on Simplicity in Algorithms, Alexandria, VA, United States, 2024,
pp. 160–167.
ista: 'Casares A, Pilipczuk M, Pilipczuk M, Souza US, Thejaswini KS. 2024. Simple
and tight complexity lower bounds for solving Rabin games. 2024 Symposium on Simplicity
in Algorithms. SOSA: Symposium on Simplicity in Algorithms, 160–167.'
mla: Casares, Antonio, et al. “Simple and Tight Complexity Lower Bounds for Solving
Rabin Games.” 2024 Symposium on Simplicity in Algorithms, Society for Industrial
and Applied Mathematics, 2024, pp. 160–67, doi:10.1137/1.9781611977936.16.
short: A. Casares, M. Pilipczuk, M. Pilipczuk, U.S. Souza, K.S. Thejaswini, in:,
2024 Symposium on Simplicity in Algorithms, Society for Industrial and Applied
Mathematics, 2024, pp. 160–167.
conference:
end_date: 2024-01-10
location: Alexandria, VA, United States
name: 'SOSA: Symposium on Simplicity in Algorithms'
start_date: 2024-01-08
date_created: 2025-01-29T11:55:50Z
date_published: 2024-01-01T00:00:00Z
date_updated: 2025-04-14T07:55:54Z
day: '01'
department:
- _id: ToHe
doi: 10.1137/1.9781611977936.16
ec_funded: 1
external_id:
arxiv:
- '2310.20433'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2310.20433
month: '01'
oa: 1
oa_version: Preprint
page: 160-167
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: 2024 Symposium on Simplicity in Algorithms
publication_identifier:
isbn:
- '9781611977936'
publication_status: published
publisher: Society for Industrial and Applied Mathematics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Simple and tight complexity lower bounds for solving Rabin games
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
OA_place: repository
OA_type: green
_id: '18956'
abstract:
- lang: eng
text: 'Group Activity Recognition (GAR) aims to detect the activity performed by
multiple actors in a scene. Prior works model the spatio-temporal features based
on the RGB, optical flow or keypoint data types. On the contrary, our hypothesis
is that by only using the RGB data without temporality, the performance can be
maintained with a negligible loss in accuracy. To that end, we propose a novel
GAR technique for volleyball videos, DECOMPL, which consists of two complementary
branches. In the visual branch, it extracts the features using attention pooling.
In the coordinate branch, it considers the configuration of the players and extracts
the spatial information from the box coordinates. Moreover, we analyzed the Volleyball
dataset that the recent literature is mostly based on, and systematically reannotated
it to emphasize the group concept. Experimental results demonstrated the effectiveness
of the proposed model DECOMPL, which delivered the best/second best GAR performance
with the reannotations/original annotations among the comparable state-of-the-art
methods. Code and new annotations are available at GitHub: https://github.com/berkerdemirel/decompl'
article_processing_charge: No
arxiv: 1
author:
- first_name: Berker
full_name: Demirel, Berker
id: 8b4bc47f-3200-11ee-973b-8f0e7be21a9f
last_name: Demirel
- first_name: Huseyin
full_name: Ozkan, Huseyin
last_name: Ozkan
citation:
ama: 'Demirel B, Ozkan H. Decompl: Decompositional learning with attention pooling
for group activity recognition from a single volleyball image. In: 2024 IEEE
International Conference on Image Processing. IEEE; 2024:977-983. doi:10.1109/icip51287.2024.10647499'
apa: 'Demirel, B., & Ozkan, H. (2024). Decompl: Decompositional learning with
attention pooling for group activity recognition from a single volleyball image.
In 2024 IEEE International Conference on Image Processing (pp. 977–983).
Abu Dhabi, United Arab Emirates: IEEE. https://doi.org/10.1109/icip51287.2024.10647499'
chicago: 'Demirel, Berker, and Huseyin Ozkan. “Decompl: Decompositional Learning
with Attention Pooling for Group Activity Recognition from a Single Volleyball
Image.” In 2024 IEEE International Conference on Image Processing, 977–83.
IEEE, 2024. https://doi.org/10.1109/icip51287.2024.10647499.'
ieee: 'B. Demirel and H. Ozkan, “Decompl: Decompositional learning with attention
pooling for group activity recognition from a single volleyball image,” in 2024
IEEE International Conference on Image Processing, Abu Dhabi, United Arab
Emirates, 2024, pp. 977–983.'
ista: 'Demirel B, Ozkan H. 2024. Decompl: Decompositional learning with attention
pooling for group activity recognition from a single volleyball image. 2024 IEEE
International Conference on Image Processing. ICIP: International Conference on
Image Processing, 977–983.'
mla: 'Demirel, Berker, and Huseyin Ozkan. “Decompl: Decompositional Learning with
Attention Pooling for Group Activity Recognition from a Single Volleyball Image.”
2024 IEEE International Conference on Image Processing, IEEE, 2024, pp.
977–83, doi:10.1109/icip51287.2024.10647499.'
short: B. Demirel, H. Ozkan, in:, 2024 IEEE International Conference on Image Processing,
IEEE, 2024, pp. 977–983.
conference:
end_date: 2024-10-30
location: Abu Dhabi, United Arab Emirates
name: 'ICIP: International Conference on Image Processing'
start_date: 2024-10-27
corr_author: '1'
date_created: 2025-01-29T12:22:24Z
date_published: 2024-11-01T00:00:00Z
date_updated: 2025-09-09T12:13:12Z
day: '01'
department:
- _id: FrLo
doi: 10.1109/icip51287.2024.10647499
external_id:
arxiv:
- '2303.06439'
isi:
- '001442947000143'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2303.06439
month: '11'
oa: 1
oa_version: Preprint
page: 977-983
publication: 2024 IEEE International Conference on Image Processing
publication_identifier:
eisbn:
- '9798350349399'
eissn:
- 2381-8549
publication_status: published
publisher: IEEE
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/berkerdemirel/decompl
status: public
title: 'Decompl: Decompositional learning with attention pooling for group activity
recognition from a single volleyball image'
type: conference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
year: '2024'
...
---
OA_place: repository
OA_type: hybrid
_id: '18957'
abstract:
- lang: eng
text: Sui Lutris is the first smart-contract platform to sustainably achieve sub-second
finality. It achieves this significant decrease by employing consensusless agreement
not only for simple payments but for a large variety of transactions. Unlike prior
work, Sui Lutris neither compromises expressiveness nor throughput and can run
perpetually without restarts. Sui Lutris achieves this by safely integrating consensuless
agreement with a high-throughput consensus protocol that is invoked out of the
critical finality path but ensures that when a transaction is at risk of inconsistent
concurrent accesses, its settlement is delayed until the total ordering is resolved.
Building such a hybrid architecture is especially delicate during reconfiguration
events, where the system needs to preserve the safety of the consensusless path
without compromising the long-term liveness of potentially misconfigured clients.
We thus develop a novel reconfiguration protocol, the first to provably show the
safe and efficient reconfiguration of a consensusless blockchain. Sui Lutris is
currently running in production and underpins the Sui smart-contract platform.
Combined with the use of Objects instead of accounts it enables the safe execution
of smart contracts that expose objects as a first-class resource. In our experiments
Sui Lutris achieves latency lower than 0.5 seconds for throughput up to 5,000
certificates per second (150k ops/s with transaction blocks), compared to the
state-of-the-art real-world consensus latencies of 3 seconds. Furthermore, it
gracefully handles validators crash-recovery and does not suffer visible performance
degradation during reconfiguration.
acknowledgement: 'This work is funded by MystenLabs. We thank the Mysten Labs Engineering
teams for valuable feedback broadly, and specifically Dmitry Perelman and Todd Fiala
for managing the implementation effort. A number of folks contributed to specific
aspects of the implementation of Sui Lutris (amongst many other contributions to
the overall blockchain): Francois Garillot, Laura Makdah, Mingwei Tian, Andrew Schran,
Sadhan Sood and William Smith implemented and optimized aspects of both Sui Lutris
and Narwhal / Bullshark consensus; Alonso de Gortari oversaw the cryptoeconomics
of the blockchain, and Emma Zhong, Ade Adepoju, Tim Zakia and Dario Russi designed
and implemented staking and gas mechanisms. Adam Welc designed several Move tools
and provided great feedback on the manuscript. We also extend our thanks to Patrick
Kuo, Ge Gao, Chris Li, and Arun Koshy for their work on the Sui Lutris SDK, clients,
and RPC layer; Kostas Chalkias, Jonas Lindstrøm, and Joy Wang built cryptographic
components.'
article_processing_charge: No
arxiv: 1
author:
- first_name: Sam
full_name: Blackshear, Sam
last_name: Blackshear
- first_name: Andrey
full_name: Chursin, Andrey
last_name: Chursin
- first_name: George
full_name: Danezis, George
last_name: Danezis
- first_name: Anastasios
full_name: Kichidis, Anastasios
last_name: Kichidis
- first_name: Eleftherios
full_name: Kokoris Kogias, Eleftherios
id: f5983044-d7ef-11ea-ac6d-fd1430a26d30
last_name: Kokoris Kogias
- first_name: Xun
full_name: Li, Xun
last_name: Li
- first_name: Mark
full_name: Logan, Mark
last_name: Logan
- first_name: Ashok
full_name: Menon, Ashok
last_name: Menon
- first_name: Todd
full_name: Nowacki, Todd
last_name: Nowacki
- first_name: Alberto
full_name: Sonnino, Alberto
last_name: Sonnino
- first_name: Brandon
full_name: Williams, Brandon
last_name: Williams
- first_name: Lu
full_name: Zhang, Lu
last_name: Zhang
citation:
ama: 'Blackshear S, Chursin A, Danezis G, et al. Sui Lutris: A blockchain combining
broadcast and consensus. In: Proceedings of the 2024 on ACM SIGSAC Conference
on Computer and Communications Security. ACM; 2024:2606-2620. doi:10.1145/3658644.3670286'
apa: 'Blackshear, S., Chursin, A., Danezis, G., Kichidis, A., Kokoris Kogias, E.,
Li, X., … Zhang, L. (2024). Sui Lutris: A blockchain combining broadcast and consensus.
In Proceedings of the 2024 on ACM SIGSAC Conference on Computer and Communications
Security (pp. 2606–2620). Salt Lake City, UT, United States: ACM. https://doi.org/10.1145/3658644.3670286'
chicago: 'Blackshear, Sam, Andrey Chursin, George Danezis, Anastasios Kichidis,
Eleftherios Kokoris Kogias, Xun Li, Mark Logan, et al. “Sui Lutris: A Blockchain
Combining Broadcast and Consensus.” In Proceedings of the 2024 on ACM SIGSAC
Conference on Computer and Communications Security, 2606–20. ACM, 2024. https://doi.org/10.1145/3658644.3670286.'
ieee: 'S. Blackshear et al., “Sui Lutris: A blockchain combining broadcast
and consensus,” in Proceedings of the 2024 on ACM SIGSAC Conference on Computer
and Communications Security, Salt Lake City, UT, United States, 2024, pp.
2606–2620.'
ista: 'Blackshear S, Chursin A, Danezis G, Kichidis A, Kokoris Kogias E, Li X, Logan
M, Menon A, Nowacki T, Sonnino A, Williams B, Zhang L. 2024. Sui Lutris: A blockchain
combining broadcast and consensus. Proceedings of the 2024 on ACM SIGSAC Conference
on Computer and Communications Security. CCS: Conference on Computer and Communications
Security, 2606–2620.'
mla: 'Blackshear, Sam, et al. “Sui Lutris: A Blockchain Combining Broadcast and
Consensus.” Proceedings of the 2024 on ACM SIGSAC Conference on Computer and
Communications Security, ACM, 2024, pp. 2606–20, doi:10.1145/3658644.3670286.'
short: S. Blackshear, A. Chursin, G. Danezis, A. Kichidis, E. Kokoris Kogias, X.
Li, M. Logan, A. Menon, T. Nowacki, A. Sonnino, B. Williams, L. Zhang, in:, Proceedings
of the 2024 on ACM SIGSAC Conference on Computer and Communications Security,
ACM, 2024, pp. 2606–2620.
conference:
end_date: 2024-10-18
location: Salt Lake City, UT, United States
name: 'CCS: Conference on Computer and Communications Security'
start_date: 2024-10-14
date_created: 2025-01-29T12:42:21Z
date_published: 2024-12-09T00:00:00Z
date_updated: 2025-09-09T12:13:55Z
day: '09'
department:
- _id: ElKo
doi: 10.1145/3658644.3670286
external_id:
arxiv:
- '2310.18042'
isi:
- '001436367300178'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2310.18042
month: '12'
oa: 1
oa_version: Preprint
page: 2606-2620
publication: Proceedings of the 2024 on ACM SIGSAC Conference on Computer and Communications
Security
publication_identifier:
isbn:
- '9798400706363'
publication_status: published
publisher: ACM
quality_controlled: '1'
status: public
title: 'Sui Lutris: A blockchain combining broadcast and consensus'
type: conference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
year: '2024'
...
---
_id: '18958'
abstract:
- lang: eng
text: This workshop brought together experts on the analysis of quantum many-body
problems and quantum statistical mechanics, with the goal of discussing the state-of-the-art
of the field, recent developments as well as challenges for the future. The main
topics of discussion concerned the equilibrium and dynamical behavior of (bosonic
or fermionic) quantum gases, quantum spin systems, as well as quantum field theory
models like the Nelson or Fröhlich model.
acknowledgement: The MFO and the workshop organizers would like to thank the National
Science Foundation for supporting the participation of junior researchers in the
workshop by the grant DMS-2230648, “US Junior Oberwolfach Fellows”.
article_processing_charge: No
article_type: original
author:
- first_name: Christian
full_name: Hainzl, Christian
last_name: Hainzl
- first_name: Benjamin
full_name: Schlein, Benjamin
last_name: Schlein
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
- first_name: Simone
full_name: Warzel, Simone
last_name: Warzel
citation:
ama: Hainzl C, Schlein B, Seiringer R, Warzel S. Many-body quantum systems. Oberwolfach
Reports. 2024;20(3):2247-2302. doi:10.4171/owr/2023/39
apa: Hainzl, C., Schlein, B., Seiringer, R., & Warzel, S. (2024). Many-body
quantum systems. Oberwolfach Reports. EMS Press. https://doi.org/10.4171/owr/2023/39
chicago: Hainzl, Christian, Benjamin Schlein, Robert Seiringer, and Simone Warzel.
“Many-Body Quantum Systems.” Oberwolfach Reports. EMS Press, 2024. https://doi.org/10.4171/owr/2023/39.
ieee: C. Hainzl, B. Schlein, R. Seiringer, and S. Warzel, “Many-body quantum systems,”
Oberwolfach Reports, vol. 20, no. 3. EMS Press, pp. 2247–2302, 2024.
ista: Hainzl C, Schlein B, Seiringer R, Warzel S. 2024. Many-body quantum systems.
Oberwolfach Reports. 20(3), 2247–2302.
mla: Hainzl, Christian, et al. “Many-Body Quantum Systems.” Oberwolfach Reports,
vol. 20, no. 3, EMS Press, 2024, pp. 2247–302, doi:10.4171/owr/2023/39.
short: C. Hainzl, B. Schlein, R. Seiringer, S. Warzel, Oberwolfach Reports 20 (2024)
2247–2302.
date_created: 2025-01-29T13:09:28Z
date_published: 2024-04-18T00:00:00Z
date_updated: 2025-01-29T13:19:06Z
day: '18'
department:
- _id: RoSe
doi: 10.4171/owr/2023/39
intvolume: ' 20'
issue: '3'
language:
- iso: eng
month: '04'
oa_version: None
page: 2247-2302
publication: Oberwolfach Reports
publication_identifier:
eissn:
- 1660-8941
issn:
- 1660-8933
publication_status: published
publisher: EMS Press
quality_controlled: '1'
status: public
title: Many-body quantum systems
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 20
year: '2024'
...
---
OA_place: publisher
OA_type: gold
_id: '18961'
abstract:
- lang: eng
text: "Automated contact tracing (ACT) emerged as a promising measure to curb the
spread of Covid-19. Users enable ACT on their smartphones to automatically record
contacts with other users. If a user tests positive for the disease, they report
their diagnosis to alert their contacts.\r\nDesigning effective ACT protocols
is challenging since they need to be efficient and secure while also ensuring
users' privacy. As ACT protocols necessarily leak some information by design,
defining privacy is difficult. For example, a user cannot deny having met another
user. Ideally, however, the user can plausibly deny everything else, in particular,
when they met. We call this privacy property contact-time deniability.\r\nWhile
some early works discussed contact-time deniability informally, it has received
little attention since then. We investigate deniability from a rigorous, theoretical
point of view and arrive at the following impossibility result:\r\nA decentralized
protocol with unidirectional communication cannot be contact-time deniable and
replay-secure. This holds even if malicious users treat smartphones as black-boxes.\r\n
Unidirectional protocols are usually very efficient and many proposals are unidirectional,
e.g., the widely-deployed Google-Apple Exposure Notifications. So the impossibility
result considerably constrains the design space of efficient, secure, and private
ACT protocols. However, it can also be used as a guide; we discuss several possibilities
to achieve contact-time deniability in practice."
acknowledgement: "We thank Raluca-Georgia Diugan for her initial contributions and
support afterward.\r\nThis research was funded in whole or in part by the Austrian
Science Fund (FWF) 10.55776/F85."
article_processing_charge: No
article_type: original
author:
- first_name: Christoph Ullrich
full_name: Günther, Christoph Ullrich
id: ec98511c-eb8e-11eb-b029-edd25d7271a1
last_name: Günther
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
citation:
ama: 'Günther CU, Pietrzak KZ. Deniability in automated contact tracing: Impossibilities
and possibilities. Proceedings on Privacy Enhancing Technologies. 2024;2024(4):636-648.
doi:10.56553/popets-2024-0134'
apa: 'Günther, C. U., & Pietrzak, K. Z. (2024). Deniability in automated contact
tracing: Impossibilities and possibilities. Proceedings on Privacy Enhancing
Technologies. Bristol, UK/Virtual: Privacy Enhancing Technologies Symposium
Advisory Board. https://doi.org/10.56553/popets-2024-0134'
chicago: 'Günther, Christoph Ullrich, and Krzysztof Z Pietrzak. “Deniability in
Automated Contact Tracing: Impossibilities and Possibilities.” Proceedings
on Privacy Enhancing Technologies. Privacy Enhancing Technologies Symposium
Advisory Board, 2024. https://doi.org/10.56553/popets-2024-0134.'
ieee: 'C. U. Günther and K. Z. Pietrzak, “Deniability in automated contact tracing:
Impossibilities and possibilities,” Proceedings on Privacy Enhancing Technologies,
vol. 2024, no. 4. Privacy Enhancing Technologies Symposium Advisory Board, pp.
636–648, 2024.'
ista: 'Günther CU, Pietrzak KZ. 2024. Deniability in automated contact tracing:
Impossibilities and possibilities. Proceedings on Privacy Enhancing Technologies.
2024(4), 636–648.'
mla: 'Günther, Christoph Ullrich, and Krzysztof Z. Pietrzak. “Deniability in Automated
Contact Tracing: Impossibilities and Possibilities.” Proceedings on Privacy
Enhancing Technologies, vol. 2024, no. 4, Privacy Enhancing Technologies Symposium
Advisory Board, 2024, pp. 636–48, doi:10.56553/popets-2024-0134.'
short: C.U. Günther, K.Z. Pietrzak, Proceedings on Privacy Enhancing Technologies
2024 (2024) 636–648.
conference:
end_date: 2024-07-20
location: Bristol, UK/Virtual
name: 'PETs: Privacy Enhancing Technologies Symposium '
start_date: 2024-07-15
corr_author: '1'
date_created: 2025-01-29T13:39:34Z
date_published: 2024-07-01T00:00:00Z
date_updated: 2025-04-15T08:16:04Z
day: '01'
ddc:
- '000'
department:
- _id: KrPi
- _id: GradSch
doi: 10.56553/popets-2024-0134
file:
- access_level: open_access
checksum: 348ed6adcf6ad2f925227bde1758cae6
content_type: application/pdf
creator: dernst
date_created: 2025-01-29T13:44:47Z
date_updated: 2025-01-29T13:44:47Z
file_id: '18962'
file_name: 2024_ProcPrivacyEnhTech_Guenther.pdf
file_size: 611567
relation: main_file
success: 1
file_date_updated: 2025-01-29T13:44:47Z
has_accepted_license: '1'
intvolume: ' 2024'
issue: '4'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 636-648
project:
- _id: 34a34d57-11ca-11ed-8bc3-a2688a8724e1
grant_number: F8509
name: Security and Privacy by Design for Complex Systems
publication: Proceedings on Privacy Enhancing Technologies
publication_identifier:
issn:
- 2299-0984
publication_status: published
publisher: Privacy Enhancing Technologies Symposium Advisory Board
quality_controlled: '1'
status: public
title: 'Deniability in automated contact tracing: Impossibilities and possibilities'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2024
year: '2024'
...
---
OA_place: repository
OA_type: green
_id: '18964'
abstract:
- lang: eng
text: Object-centric learning (OCL) extracts the representation of objects with
slots, offering an exceptional blend of flexibility and interpretability for abstracting
low-level perceptual features. A widely adopted method within OCL is slot attention,
which utilizes attention mechanisms to iteratively refine slot representations.
However, a major draw-back of most object-centric models, including slot attention,
is their reliance on predefining the number of slots. This not only necessitates
prior knowledge of the dataset but also overlooks the inherent variability in
the number of objects present in each instance. To overcome this fundamental limitation,
we present a novel complexity-aware object auto-encoder framework. Within this
framework, we introduce an adaptive slot attention (AdaSlot) mecha-nism that dynamically
determines the optimal number of slots based on the content of the data. This
is achieved by proposing a discrete slot sampling module that is responsible for
selecting an appropriate number of slots from a candidate list. Furthermore, we
introduce a masked slot decoder that suppresses unselected slots during the decoding
process. Our framework, tested extensively on object discovery tasks with various
datasets, shows performance matching or exceeding top fixed-slot models. Moreover,
our analysis substantiates that our method exhibits the capability to dynamically
adapt the slot number according to each instance's complexity, offering the potential
for further exploration in slot attention research. Project will be available
at https://kfan21.github.io/AdaSlot/
acknowledgement: Yanwei Fu is the corresponding authour. Yanwei Fu is with School
of Data Science, Fudan University, Shanghai Key Lab of Intelligent Information Processing,
Fudan University, and Fudan ISTBI-ZJNU Algorithm Centre for Brain-inspired Intelligence,
Zhejiang Normal University, Jinhua, China.
article_processing_charge: No
arxiv: 1
author:
- first_name: Ke
full_name: Fan, Ke
last_name: Fan
- first_name: Zechen
full_name: Bai, Zechen
last_name: Bai
- first_name: Tianjun
full_name: Xiao, Tianjun
last_name: Xiao
- first_name: Tong
full_name: He, Tong
last_name: He
- first_name: Max
full_name: Horn, Max
last_name: Horn
- first_name: Yanwei
full_name: Fu, Yanwei
last_name: Fu
- first_name: Francesco
full_name: Locatello, Francesco
id: 26cfd52f-2483-11ee-8040-88983bcc06d4
last_name: Locatello
orcid: 0000-0002-4850-0683
- first_name: Zheng
full_name: Zhang, Zheng
last_name: Zhang
citation:
ama: 'Fan K, Bai Z, Xiao T, et al. Adaptive slot attention: Object discovery with
dynamic slot number. In: 2024 IEEE/CVF Conference on Computer Vision and Pattern
Recognition. IEEE; 2024. doi:10.1109/cvpr52733.2024.02176'
apa: 'Fan, K., Bai, Z., Xiao, T., He, T., Horn, M., Fu, Y., … Zhang, Z. (2024).
Adaptive slot attention: Object discovery with dynamic slot number. In 2024
IEEE/CVF Conference on Computer Vision and Pattern Recognition. Seattle, WA,
United States: IEEE. https://doi.org/10.1109/cvpr52733.2024.02176'
chicago: 'Fan, Ke, Zechen Bai, Tianjun Xiao, Tong He, Max Horn, Yanwei Fu, Francesco
Locatello, and Zheng Zhang. “Adaptive Slot Attention: Object Discovery with Dynamic
Slot Number.” In 2024 IEEE/CVF Conference on Computer Vision and Pattern Recognition.
IEEE, 2024. https://doi.org/10.1109/cvpr52733.2024.02176.'
ieee: 'K. Fan et al., “Adaptive slot attention: Object discovery with dynamic
slot number,” in 2024 IEEE/CVF Conference on Computer Vision and Pattern Recognition,
Seattle, WA, United States, 2024.'
ista: 'Fan K, Bai Z, Xiao T, He T, Horn M, Fu Y, Locatello F, Zhang Z. 2024. Adaptive
slot attention: Object discovery with dynamic slot number. 2024 IEEE/CVF Conference
on Computer Vision and Pattern Recognition. CVPR: Conference on Computer Vision
and Pattern Recognition.'
mla: 'Fan, Ke, et al. “Adaptive Slot Attention: Object Discovery with Dynamic Slot
Number.” 2024 IEEE/CVF Conference on Computer Vision and Pattern Recognition,
IEEE, 2024, doi:10.1109/cvpr52733.2024.02176.'
short: K. Fan, Z. Bai, T. Xiao, T. He, M. Horn, Y. Fu, F. Locatello, Z. Zhang, in:,
2024 IEEE/CVF Conference on Computer Vision and Pattern Recognition, IEEE, 2024.
conference:
end_date: 2024-06-22
location: Seattle, WA, United States
name: 'CVPR: Conference on Computer Vision and Pattern Recognition'
start_date: 2024-06-16
date_created: 2025-01-29T14:27:39Z
date_published: 2024-06-15T00:00:00Z
date_updated: 2025-09-09T12:15:17Z
day: '15'
department:
- _id: FrLo
doi: 10.1109/cvpr52733.2024.02176
external_id:
arxiv:
- '2406.09196'
isi:
- '001342515506043'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2406.09196
month: '06'
oa: 1
oa_version: Preprint
publication: 2024 IEEE/CVF Conference on Computer Vision and Pattern Recognition
publication_identifier:
eisbn:
- '9798350353006'
publication_status: published
publisher: IEEE
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://kfan21.github.io/AdaSlot/
status: public
title: 'Adaptive slot attention: Object discovery with dynamic slot number'
type: conference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
year: '2024'
...
---
OA_place: publisher
OA_type: hybrid
_id: '18967'
abstract:
- lang: eng
text: "Background: We identified small molecule tricyclic pyrone compound CP2 as
a mild mitochondrial complex I (MCI) inhibitor that induces neuroprotection in
multiple mouse models of AD. One of the major concerns while targeting mitochondria
is the production of reactive oxygen species (ROS). CP2 consists of two diastereoisomers,
D1 and D2, with distinct activity and toxicity profiles. This study was designed
to understand how structure of D1 and D2 affects their binding to MCI and the
consequential impact on ROS production.\r\n\r\nMethod: The X-ray crystallography
and cryo-electron microscopy (cryo-EM) at global resolution of 3.25-3.27Å were
employed to identify the molecular structure of D1 and D2 and the D1 binding to
the isolated ovine MCI. The assessment of the MCI inhibition and the extent of
ROS generation were done in isolated MCI and human neuroblastoma MC65 cells using
flow cytometry, a Seahorse extracellular flux analyzer, and the kinetic studies.\r\n\r\nResult:
In the closed conformation of MCI, D1 selectively binds to the deep Quinone-site
(Qd) but not to the shallow Q-site (Qs), sharing the same binding pocket as rotenone.
In the open MCI state, D1 exclusively binds to the Qs in contrast to rotenone,
which binds Qd and Qs in both closed and open states. At the same concentrations,
D1 inhibits respiration to a greater extent compared to D2 (5:1 ratio) and produces
higher level of ROS.\r\n\r\nConclusion:Cryo-EM unambiguously identified binding
of D1 to both the Qd and Qs sites, contingent upon the conformational state of
MCI. In contrast to rotenone, D1 binds Qd only in the closed conformation during
catalytic cycle, leading to mild inhibition. Superimposing X-ray crystallography
data of D1 and D2 onto cryo-EM data suggests that the orientation of the methyl
group in D2 induces a flatter conformation, resulting in lower binding affinity
to MCI, which correlates with lower inhibition and toxicity compared to D1. At
physiologically relevant concentrations, CP2 (D1:D2 = 1:1) demonstrates low MCI
inhibition yielding negligible ROS levels. This observation provides new insight
into the absence of toxicity associated with CP2 treatment in vivo, further highlighting
feasibility for the development of safe and efficacious MCI inhibitors."
article_number: e085971
article_processing_charge: Yes (in subscription journal)
author:
- first_name: Olga
full_name: Petrova, Olga
id: 5D8C9660-5D49-11EA-8188-567B3DDC885E
last_name: Petrova
- first_name: Sergey A
full_name: Trushin, Sergey A
last_name: Trushin
- first_name: Thi Kim Oanh
full_name: Nguyen, Thi Kim Oanh
last_name: Nguyen
- first_name: Mark
full_name: Ostroot, Mark
last_name: Ostroot
- first_name: Matthew
full_name: Schellenberg, Matthew
last_name: Schellenberg
- first_name: Graham
full_name: Johnson, Graham
last_name: Johnson
- first_name: Eugenia
full_name: Trushina, Eugenia
last_name: Trushina
- first_name: Leonid A
full_name: Sazanov, Leonid A
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
citation:
ama: Petrova O, Trushin SA, Nguyen TKO, et al. Structure‐activity Relationship
Study of Neuroprotective Complex I Inhibitor CP2. Vol 20. Wiley; 2024. doi:10.1002/alz.085971
apa: Petrova, O., Trushin, S. A., Nguyen, T. K. O., Ostroot, M., Schellenberg, M.,
Johnson, G., … Sazanov, L. A. (2024). Structure‐activity relationship study
of neuroprotective complex I inhibitor CP2. Alzheimer’s & Dementia
(Vol. 20). Wiley. https://doi.org/10.1002/alz.085971
chicago: Petrova, Olga, Sergey A Trushin, Thi Kim Oanh Nguyen, Mark Ostroot, Matthew
Schellenberg, Graham Johnson, Eugenia Trushina, and Leonid A Sazanov. Structure‐activity
Relationship Study of Neuroprotective Complex I Inhibitor CP2. Alzheimer’s
& Dementia. Vol. 20. Wiley, 2024. https://doi.org/10.1002/alz.085971.
ieee: O. Petrova et al., Structure‐activity relationship study of neuroprotective
complex I inhibitor CP2, vol. 20, no. S6. Wiley, 2024.
ista: Petrova O, Trushin SA, Nguyen TKO, Ostroot M, Schellenberg M, Johnson G, Trushina
E, Sazanov LA. 2024. Structure‐activity relationship study of neuroprotective
complex I inhibitor CP2, Wiley,p.
mla: Petrova, Olga, et al. “Structure‐activity Relationship Study of Neuroprotective
Complex I Inhibitor CP2.” Alzheimer’s & Dementia, vol. 20, no. S6,
e085971, Wiley, 2024, doi:10.1002/alz.085971.
short: O. Petrova, S.A. Trushin, T.K.O. Nguyen, M. Ostroot, M. Schellenberg, G.
Johnson, E. Trushina, L.A. Sazanov, Structure‐activity Relationship Study of Neuroprotective
Complex I Inhibitor CP2, Wiley, 2024.
date_created: 2025-01-29T15:21:40Z
date_published: 2024-12-01T00:00:00Z
date_updated: 2025-01-29T15:29:22Z
day: '01'
ddc:
- '570'
department:
- _id: LeSa
doi: 10.1002/alz.085971
file:
- access_level: open_access
checksum: e914bd5f3a701659ab79d497a122811f
content_type: application/pdf
creator: dernst
date_created: 2025-01-29T15:24:50Z
date_updated: 2025-01-29T15:24:50Z
file_id: '18968'
file_name: 2024_AlzheimerDementia_Petrova.pdf
file_size: 70870
relation: main_file
success: 1
file_date_updated: 2025-01-29T15:24:50Z
has_accepted_license: '1'
intvolume: ' 20'
issue: S6
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
publication: Alzheimer's & Dementia
publication_identifier:
eissn:
- 1552-5279
issn:
- 1552-5260
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Structure‐activity relationship study of neuroprotective complex I inhibitor
CP2
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: other_academic_publication
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 20
year: '2024'
...
---
OA_place: publisher
OA_type: hybrid
_id: '18970'
abstract:
- lang: eng
text: Given a smooth projective curve C, nonabelian Hodge theory gives a diffeomorphism
between two different moduli spaces associated to C. The first is the moduli space
of Higgs bundles on C of rank n, which is equipped with the structure of an algebraic
completely integrable Hamiltonian system. The second is the character variety
of representations of the fundamental group of C into GL(n). In 2012, de Cataldo,
Hausel, and Migliorini [1] proposed the P=W conjecture which identifies the perverse
filtration on the cohomology of the Higgs moduli space with the weight filtration
on the cohomology of the character variety. Recently, in 2022, two independent
proofs of the P=W Conjecture appeared, in work of Maulik &Shen [2] and Hausel,
Mellit, Minets &Schiffmann [6]. The aim of the Arbeitsgemeinschaft was to understand
the P=W Conjecture and these two recent proofs.
acknowledgement: "The MFO and the workshop organizers would like to thank the\r\nNational
Science Foundation for supporting the participation of junior researchers\r\nby
the grant DMS-2230648, “US Junior Oberwolfach Fellows”. Moreover, the\r\nMFO and
the workshop organizers would like to thank the Oberwolfach Foundation for supporting
the participation of junior researchers in the Arbeitsgemeinschaft."
article_processing_charge: No
article_type: original
author:
- first_name: Tamás
full_name: Hausel, Tamás
id: 4A0666D8-F248-11E8-B48F-1D18A9856A87
last_name: Hausel
orcid: 0000-0002-9582-2634
- first_name: Davesh
full_name: Maulik, Davesh
last_name: Maulik
- first_name: Anton
full_name: Mellit, Anton
last_name: Mellit
- first_name: Olivier
full_name: Schiffmann, Olivier
last_name: Schiffmann
- first_name: Junliang
full_name: Shen, Junliang
last_name: Shen
citation:
ama: 'Hausel T, Maulik D, Mellit A, Schiffmann O, Shen J. Arbeitsgemeinschaft: Geometry
and representation theory around the P=W conjecture. Oberwolfach Reports.
2024;21(2):949-1004. doi:10.4171/owr/2024/16'
apa: 'Hausel, T., Maulik, D., Mellit, A., Schiffmann, O., & Shen, J. (2024).
Arbeitsgemeinschaft: Geometry and representation theory around the P=W conjecture.
Oberwolfach Reports. EMS Press. https://doi.org/10.4171/owr/2024/16'
chicago: 'Hausel, Tamás, Davesh Maulik, Anton Mellit, Olivier Schiffmann, and Junliang
Shen. “Arbeitsgemeinschaft: Geometry and Representation Theory around the P=W
Conjecture.” Oberwolfach Reports. EMS Press, 2024. https://doi.org/10.4171/owr/2024/16.'
ieee: 'T. Hausel, D. Maulik, A. Mellit, O. Schiffmann, and J. Shen, “Arbeitsgemeinschaft:
Geometry and representation theory around the P=W conjecture,” Oberwolfach
Reports, vol. 21, no. 2. EMS Press, pp. 949–1004, 2024.'
ista: 'Hausel T, Maulik D, Mellit A, Schiffmann O, Shen J. 2024. Arbeitsgemeinschaft:
Geometry and representation theory around the P=W conjecture. Oberwolfach Reports.
21(2), 949–1004.'
mla: 'Hausel, Tamás, et al. “Arbeitsgemeinschaft: Geometry and Representation Theory
around the P=W Conjecture.” Oberwolfach Reports, vol. 21, no. 2, EMS Press,
2024, pp. 949–1004, doi:10.4171/owr/2024/16.'
short: T. Hausel, D. Maulik, A. Mellit, O. Schiffmann, J. Shen, Oberwolfach Reports
21 (2024) 949–1004.
date_created: 2025-01-29T15:34:22Z
date_published: 2024-05-05T00:00:00Z
date_updated: 2025-01-29T15:39:55Z
day: '05'
ddc:
- '500'
department:
- _id: TaHa
doi: 10.4171/owr/2024/16
has_accepted_license: '1'
intvolume: ' 21'
issue: '2'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-sa/4.0/
main_file_link:
- open_access: '1'
url: https://doi.org/10.4171/owr/2024/16
month: '05'
oa: 1
oa_version: Published Version
page: 949-1004
publication: Oberwolfach Reports
publication_identifier:
eissn:
- 1660-8941
issn:
- 1660-8933
publication_status: published
publisher: EMS Press
quality_controlled: '1'
status: public
title: 'Arbeitsgemeinschaft: Geometry and representation theory around the P=W conjecture'
tmp:
image: /images/cc_by_sa.png
legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode
name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC
BY-SA 4.0)
short: CC BY-SA (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 21
year: '2024'
...
---
OA_place: repository
OA_type: green
_id: '18971'
abstract:
- lang: eng
text: 'Models prone to spurious correlations in training data often produce brittle
predictions and introduce unintended biases. Addressing this challenge typically
involves methods relying on prior knowledge and group annotation to remove spurious
correlations, which may not be readily available in many applications. In this
paper, we establish a novel connection between unsupervised object-centric learning
and mitigation of spurious correlations. Instead of directly inferring subgroups
with varying correlations with labels, our approach focuses on discovering concepts:
discrete ideas that are shared across input samples. Leveraging existing object-centric
representation learning, we introduce CoBalT: a concept balancing technique that
effectively mitigates spurious correlations without requiring human labeling of
subgroups. Evaluation across the benchmark datasets for sub-population shifts
demonstrate superior or competitive performance compared state-of-the-art baselines,
without the need for group annotation. Code is available at https://github.com/rarefin/CoBalT'
acknowledgement: "We acknowledge the support of the Canada CIFAR AI Chair Program
and IVADO. We thank Mila and Compute Canada for providing computational resources.\r\n"
alternative_title:
- PMLR
article_processing_charge: No
arxiv: 1
author:
- first_name: Rifat
full_name: Arefin, Rifat
last_name: Arefin
- first_name: Yan
full_name: Zhang, Yan
last_name: Zhang
- first_name: Aristide
full_name: Baratin, Aristide
last_name: Baratin
- first_name: Francesco
full_name: Locatello, Francesco
id: 26cfd52f-2483-11ee-8040-88983bcc06d4
last_name: Locatello
orcid: 0000-0002-4850-0683
- first_name: Irina
full_name: Rish, Irina
last_name: Rish
- first_name: Dianbo
full_name: Liu, Dianbo
last_name: Liu
- first_name: Kenji
full_name: Kawaguchi, Kenji
last_name: Kawaguchi
citation:
ama: 'Arefin R, Zhang Y, Baratin A, et al. Unsupervised concept discovery mitigates
spurious correlations. In: Proceedings of the 41st International Conference
on Machine Learning. Vol 235. ML Research Press; 2024:1672-1688.'
apa: 'Arefin, R., Zhang, Y., Baratin, A., Locatello, F., Rish, I., Liu, D., &
Kawaguchi, K. (2024). Unsupervised concept discovery mitigates spurious correlations.
In Proceedings of the 41st International Conference on Machine Learning
(Vol. 235, pp. 1672–1688). Vienna, Austria: ML Research Press.'
chicago: Arefin, Rifat, Yan Zhang, Aristide Baratin, Francesco Locatello, Irina
Rish, Dianbo Liu, and Kenji Kawaguchi. “Unsupervised Concept Discovery Mitigates
Spurious Correlations.” In Proceedings of the 41st International Conference
on Machine Learning, 235:1672–88. ML Research Press, 2024.
ieee: R. Arefin et al., “Unsupervised concept discovery mitigates spurious
correlations,” in Proceedings of the 41st International Conference on Machine
Learning, Vienna, Austria, 2024, vol. 235, pp. 1672–1688.
ista: 'Arefin R, Zhang Y, Baratin A, Locatello F, Rish I, Liu D, Kawaguchi K. 2024.
Unsupervised concept discovery mitigates spurious correlations. Proceedings of
the 41st International Conference on Machine Learning. ICML: International Conference
on Machine Learning, PMLR, vol. 235, 1672–1688.'
mla: Arefin, Rifat, et al. “Unsupervised Concept Discovery Mitigates Spurious Correlations.”
Proceedings of the 41st International Conference on Machine Learning, vol.
235, ML Research Press, 2024, pp. 1672–88.
short: R. Arefin, Y. Zhang, A. Baratin, F. Locatello, I. Rish, D. Liu, K. Kawaguchi,
in:, Proceedings of the 41st International Conference on Machine Learning, ML
Research Press, 2024, pp. 1672–1688.
conference:
end_date: 2024-07-27
location: Vienna, Austria
name: 'ICML: International Conference on Machine Learning'
start_date: 2024-07-21
date_created: 2025-01-30T07:21:57Z
date_published: 2024-07-30T00:00:00Z
date_updated: 2025-01-30T07:23:10Z
day: '30'
department:
- _id: FrLo
external_id:
arxiv:
- '2402.13368'
intvolume: ' 235'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2402.13368
month: '07'
oa: 1
oa_version: Preprint
page: 1672-1688
publication: Proceedings of the 41st International Conference on Machine Learning
publication_identifier:
eissn:
- 2640-3498
publication_status: published
publisher: ML Research Press
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/rarefin/CoBalT
scopus_import: '1'
status: public
title: Unsupervised concept discovery mitigates spurious correlations
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 235
year: '2024'
...