---
_id: '15008'
abstract:
- lang: eng
text: "Oblivious routing is a well-studied paradigm that uses static precomputed
routing tables for selecting routing paths within a network. Existing oblivious
routing schemes with polylogarithmic competitive ratio for general networks are
tree-based, in the sense that routing is performed according to a convex combination
of trees. However, this restriction to trees leads to a construction that has
time quadratic in the size of the network and does not parallelize well. \r\nIn
this paper we study oblivious routing schemes based on electrical routing. In
particular, we show that general networks with n vertices and m edges admit a
routing scheme that has competitive ratio O(log² n) and consists of a convex combination
of only O(√m) electrical routings. This immediately leads to an improved construction
algorithm with time Õ(m^{3/2}) that can also be implemented in parallel with
Õ(√m) depth."
acknowledgement: "Monika Henzinger and A. R. Sricharan: This project has received
funding from the European Research Council (ERC) under the European Union’s Horizon
2020 research and innovation\r\nprogramme (Grant agreement No. 101019564) and the
Austrian Science Fund (FWF) project Z\r\n422-N, project I 5982-N, and project P
33775-N, with additional funding from the netidee SCIENCE Stiftung, 2020–2024.\r\nHarald
Räcke: Research supported by German Research Foundation (DFG), grant 470029389\r\n(FlexNets),
2021-2024.\r\nSushant Sachdeva: SS’s work is supported by an Natural Sciences and
Engineering Research Council of Canada (NSERC) Discovery Grant RGPIN-2018-06398
and a Sloan Research Fellowship."
alternative_title:
- LIPIcs
article_number: '55'
article_processing_charge: No
arxiv: 1
author:
- first_name: Gramoz
full_name: Goranci, Gramoz
last_name: Goranci
- 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: Harald
full_name: Räcke, Harald
last_name: Räcke
- first_name: Sushant
full_name: Sachdeva, Sushant
last_name: Sachdeva
- first_name: A. R.
full_name: Sricharan, A. R.
last_name: Sricharan
citation:
ama: 'Goranci G, Henzinger MH, Räcke H, Sachdeva S, Sricharan AR. Electrical flows
for polylogarithmic competitive oblivious routing. In: 15th Innovations in
Theoretical Computer Science Conference. Vol 287. Schloss Dagstuhl - Leibniz-Zentrum
für Informatik; 2024. doi:10.4230/LIPIcs.ITCS.2024.55'
apa: 'Goranci, G., Henzinger, M. H., Räcke, H., Sachdeva, S., & Sricharan, A.
R. (2024). Electrical flows for polylogarithmic competitive oblivious routing.
In 15th Innovations in Theoretical Computer Science Conference (Vol. 287).
Berkeley, CA, United States: Schloss Dagstuhl - Leibniz-Zentrum für Informatik.
https://doi.org/10.4230/LIPIcs.ITCS.2024.55'
chicago: Goranci, Gramoz, Monika H Henzinger, Harald Räcke, Sushant Sachdeva, and
A. R. Sricharan. “Electrical Flows for Polylogarithmic Competitive Oblivious Routing.”
In 15th Innovations in Theoretical Computer Science Conference, Vol. 287.
Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024. https://doi.org/10.4230/LIPIcs.ITCS.2024.55.
ieee: G. Goranci, M. H. Henzinger, H. Räcke, S. Sachdeva, and A. R. Sricharan, “Electrical
flows for polylogarithmic competitive oblivious routing,” in 15th Innovations
in Theoretical Computer Science Conference, Berkeley, CA, United States, 2024,
vol. 287.
ista: 'Goranci G, Henzinger MH, Räcke H, Sachdeva S, Sricharan AR. 2024. Electrical
flows for polylogarithmic competitive oblivious routing. 15th Innovations in Theoretical
Computer Science Conference. ITCS: Innovations in Theoretical Computer Science
Conference, LIPIcs, vol. 287, 55.'
mla: Goranci, Gramoz, et al. “Electrical Flows for Polylogarithmic Competitive Oblivious
Routing.” 15th Innovations in Theoretical Computer Science Conference,
vol. 287, 55, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024, doi:10.4230/LIPIcs.ITCS.2024.55.
short: G. Goranci, M.H. Henzinger, H. Räcke, S. Sachdeva, A.R. Sricharan, in:, 15th
Innovations in Theoretical Computer Science Conference, Schloss Dagstuhl - Leibniz-Zentrum
für Informatik, 2024.
conference:
end_date: 2024-02-02
location: Berkeley, CA, United States
name: 'ITCS: Innovations in Theoretical Computer Science Conference'
start_date: 2024-01-30
date_created: 2024-02-18T23:01:02Z
date_published: 2024-01-24T00:00:00Z
date_updated: 2025-07-15T12:51:53Z
day: '24'
ddc:
- '000'
department:
- _id: MoHe
doi: 10.4230/LIPIcs.ITCS.2024.55
ec_funded: 1
external_id:
arxiv:
- '2303.02491'
file:
- access_level: open_access
checksum: b89716aae6a5599f187897e39de1e53a
content_type: application/pdf
creator: dernst
date_created: 2024-02-26T10:10:48Z
date_updated: 2024-02-26T10:10:48Z
file_id: '15030'
file_name: 2024_LIPICs_Goranci.pdf
file_size: 1054754
relation: main_file
success: 1
file_date_updated: 2024-02-26T10:10:48Z
has_accepted_license: '1'
intvolume: ' 287'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
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: Wittgenstein Award - Monika Henzinger
- _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:
isbn:
- '9783959773096'
issn:
- 1868-8969
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
scopus_import: '1'
status: public
title: Electrical flows for polylogarithmic competitive oblivious routing
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 287
year: '2024'
...
---
_id: '15009'
abstract:
- lang: eng
text: Since the commercialization of brine shrimp (genus Artemia) in the 1950s,
this lineage, and in particular the model species Artemia franciscana, has been
the subject of extensive research. However, our understanding of the genetic mechanisms
underlying various aspects of their reproductive biology, including sex determination,
is still lacking. This is partly due to the scarcity of genomic resources for
Artemia species and crustaceans in general. Here, we present a chromosome-level
genome assembly of A. franciscana (Kellogg 1906), from the Great Salt Lake, United
States. The genome is 1 GB, and the majority of the genome (81%) is scaffolded
into 21 linkage groups using a previously published high-density linkage map.
We performed coverage and FST analyses using male and female genomic and transcriptomic
reads to quantify the extent of differentiation between the Z and W chromosomes.
Additionally, we quantified the expression levels in male and female heads and
gonads and found further evidence for dosage compensation in this species.
article_number: evae006
article_processing_charge: Yes
article_type: original
author:
- first_name: Vincent K
full_name: Bett, Vincent K
id: 57854184-AAE0-11E9-8D04-98D6E5697425
last_name: Bett
- first_name: Ariana
full_name: Macon, Ariana
id: 2A0848E2-F248-11E8-B48F-1D18A9856A87
last_name: Macon
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
citation:
ama: Bett VK, Macon A, Vicoso B, Elkrewi MN. Chromosome-level assembly of Artemia
franciscana sheds light on sex chromosome differentiation. Genome Biology and
Evolution. 2024;16(1). doi:10.1093/gbe/evae006
apa: Bett, V. K., Macon, A., Vicoso, B., & Elkrewi, M. N. (2024). Chromosome-level
assembly of Artemia franciscana sheds light on sex chromosome differentiation.
Genome Biology and Evolution. Oxford University Press. https://doi.org/10.1093/gbe/evae006
chicago: Bett, Vincent K, Ariana Macon, Beatriz Vicoso, and Marwan N Elkrewi. “Chromosome-Level
Assembly of Artemia Franciscana Sheds Light on Sex Chromosome Differentiation.”
Genome Biology and Evolution. Oxford University Press, 2024. https://doi.org/10.1093/gbe/evae006.
ieee: V. K. Bett, A. Macon, B. Vicoso, and M. N. Elkrewi, “Chromosome-level assembly
of Artemia franciscana sheds light on sex chromosome differentiation,” Genome
Biology and Evolution, vol. 16, no. 1. Oxford University Press, 2024.
ista: Bett VK, Macon A, Vicoso B, Elkrewi MN. 2024. Chromosome-level assembly of
Artemia franciscana sheds light on sex chromosome differentiation. Genome Biology
and Evolution. 16(1), evae006.
mla: Bett, Vincent K., et al. “Chromosome-Level Assembly of Artemia Franciscana
Sheds Light on Sex Chromosome Differentiation.” Genome Biology and Evolution,
vol. 16, no. 1, evae006, Oxford University Press, 2024, doi:10.1093/gbe/evae006.
short: V.K. Bett, A. Macon, B. Vicoso, M.N. Elkrewi, Genome Biology and Evolution
16 (2024).
date_created: 2024-02-18T23:01:02Z
date_published: 2024-01-20T00:00:00Z
date_updated: 2025-07-24T11:06:42Z
day: '20'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1093/gbe/evae006
external_id:
pmid:
- '38245839'
file:
- access_level: open_access
checksum: 106a40f10443b2e7ba66749844ebbdf1
content_type: application/pdf
creator: dernst
date_created: 2024-02-26T09:54:59Z
date_updated: 2024-02-26T09:54:59Z
file_id: '15029'
file_name: 2024_GBE_Bett.pdf
file_size: 5213306
relation: main_file
success: 1
file_date_updated: 2024-02-26T09:54:59Z
has_accepted_license: '1'
intvolume: ' 16'
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: Genome Biology and Evolution
publication_identifier:
eissn:
- 1759-6653
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
related_material:
record:
- id: '14705'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Chromosome-level assembly of Artemia franciscana sheds light on sex chromosome
differentiation
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 16
year: '2024'
...
---
_id: '15011'
abstract:
- lang: eng
text: Pruning large language models (LLMs) from the BERT family has emerged as a
standard compression benchmark, and several pruning methods have been proposed
for this task. The recent “Sparsity May Cry” (SMC) benchmark put into question
the validity of all existing methods, exhibiting a more complex setup where many
known pruning methods appear to fail. We revisit the question of accurate BERT-pruning
during fine-tuning on downstream datasets, and propose a set of general guidelines
for successful pruning, even on the challenging SMC benchmark. First, we perform
a cost-vs-benefits analysis of pruning model components, such as the embeddings
and the classification head; second, we provide a simple-yet-general way of scaling
training, sparsification and learning rate schedules relative to the desired target
sparsity; finally, we investigate the importance of proper parametrization for
Knowledge Distillation in the context of LLMs. Our simple insights lead to state-of-the-art
results, both on classic BERT-pruning benchmarks, as well as on the SMC benchmark,
showing that even classic gradual magnitude pruning (GMP) can yield competitive
results, with the right approach.
alternative_title:
- PMLR
article_processing_charge: No
arxiv: 1
author:
- first_name: Eldar
full_name: Kurtic, Eldar
id: 47beb3a5-07b5-11eb-9b87-b108ec578218
last_name: Kurtic
- first_name: Torsten
full_name: Hoefler, Torsten
last_name: Hoefler
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
citation:
ama: 'Kurtic E, Hoefler T, Alistarh D-A. How to prune your language model: Recovering
accuracy on the “Sparsity May Cry” benchmark. In: Proceedings of Machine Learning
Research. Vol 234. ML Research Press; 2024:542-553.'
apa: 'Kurtic, E., Hoefler, T., & Alistarh, D.-A. (2024). How to prune your language
model: Recovering accuracy on the “Sparsity May Cry” benchmark. In Proceedings
of Machine Learning Research (Vol. 234, pp. 542–553). Hongkong, China: ML
Research Press.'
chicago: 'Kurtic, Eldar, Torsten Hoefler, and Dan-Adrian Alistarh. “How to Prune
Your Language Model: Recovering Accuracy on the ‘Sparsity May Cry’ Benchmark.”
In Proceedings of Machine Learning Research, 234:542–53. ML Research Press,
2024.'
ieee: 'E. Kurtic, T. Hoefler, and D.-A. Alistarh, “How to prune your language model:
Recovering accuracy on the ‘Sparsity May Cry’ benchmark,” in Proceedings of
Machine Learning Research, Hongkong, China, 2024, vol. 234, pp. 542–553.'
ista: 'Kurtic E, Hoefler T, Alistarh D-A. 2024. How to prune your language model:
Recovering accuracy on the ‘Sparsity May Cry’ benchmark. Proceedings of Machine
Learning Research. CPAL: Conference on Parsimony and Learning, PMLR, vol. 234,
542–553.'
mla: 'Kurtic, Eldar, et al. “How to Prune Your Language Model: Recovering Accuracy
on the ‘Sparsity May Cry’ Benchmark.” Proceedings of Machine Learning Research,
vol. 234, ML Research Press, 2024, pp. 542–53.'
short: E. Kurtic, T. Hoefler, D.-A. Alistarh, in:, Proceedings of Machine Learning
Research, ML Research Press, 2024, pp. 542–553.
conference:
end_date: 2024-01-06
location: Hongkong, China
name: 'CPAL: Conference on Parsimony and Learning'
start_date: 2024-01-03
date_created: 2024-02-18T23:01:03Z
date_published: 2024-01-08T00:00:00Z
date_updated: 2024-02-26T10:30:52Z
day: '08'
department:
- _id: DaAl
external_id:
arxiv:
- '2312.13547'
intvolume: ' 234'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://proceedings.mlr.press/v234/kurtic24a
month: '01'
oa: 1
oa_version: Preprint
page: 542-553
publication: Proceedings of Machine Learning Research
publication_identifier:
eissn:
- 2640-3498
publication_status: published
publisher: ML Research Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'How to prune your language model: Recovering accuracy on the "Sparsity May
Cry" benchmark'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 234
year: '2024'
...
---
_id: '15012'
abstract:
- lang: eng
text: We solve a problem of Dujmović and Wood (2007) by showing that a complete
convex geometric graph on n vertices cannot be decomposed into fewer than n-1
star-forests, each consisting of noncrossing edges. This bound is clearly tight.
We also discuss similar questions for abstract graphs.
acknowledgement: János Pach’s Research partially supported by European Research Council
(ERC), grant “GeoScape” No. 882971 and by the Hungarian Science Foundation (NKFIH),
grant K-131529. Work by Morteza Saghafian is partially supported by the European
Research Council (ERC), grant No. 788183, and by the Wittgenstein Prize, Austrian
Science Fund (FWF), grant No. Z 342-N31.
alternative_title:
- LNCS
article_processing_charge: No
arxiv: 1
author:
- first_name: János
full_name: Pach, János
id: E62E3130-B088-11EA-B919-BF823C25FEA4
last_name: Pach
- first_name: Morteza
full_name: Saghafian, Morteza
id: f86f7148-b140-11ec-9577-95435b8df824
last_name: Saghafian
- first_name: Patrick
full_name: Schnider, Patrick
last_name: Schnider
citation:
ama: 'Pach J, Saghafian M, Schnider P. Decomposition of geometric graphs into star-forests.
In: 31st International Symposium on Graph Drawing and Network Visualization.
Vol 14465. Springer Nature; 2024:339-346. doi:10.1007/978-3-031-49272-3_23'
apa: 'Pach, J., Saghafian, M., & Schnider, P. (2024). Decomposition of geometric
graphs into star-forests. In 31st International Symposium on Graph Drawing
and Network Visualization (Vol. 14465, pp. 339–346). Isola delle Femmine,
Palermo, Italy: Springer Nature. https://doi.org/10.1007/978-3-031-49272-3_23'
chicago: Pach, János, Morteza Saghafian, and Patrick Schnider. “Decomposition of Geometric
Graphs into Star-Forests.” In 31st International Symposium on Graph Drawing
and Network Visualization, 14465:339–46. Springer Nature, 2024. https://doi.org/10.1007/978-3-031-49272-3_23.
ieee: J. Pach, M. Saghafian, and P. Schnider, “Decomposition of geometric graphs
into star-forests,” in 31st International Symposium on Graph Drawing and Network
Visualization, Isola delle Femmine, Palermo, Italy, 2024, vol. 14465, pp.
339–346.
ista: 'Pach J, Saghafian M, Schnider P. 2024. Decomposition of geometric graphs
into star-forests. 31st International Symposium on Graph Drawing and Network Visualization.
GD: Graph Drawing and Network Visualization, LNCS, vol. 14465, 339–346.'
mla: Pach, János, et al. “Decomposition of Geometric Graphs into Star-Forests.”
31st International Symposium on Graph Drawing and Network Visualization,
vol. 14465, Springer Nature, 2024, pp. 339–46, doi:10.1007/978-3-031-49272-3_23.
short: J. Pach, M. Saghafian, P. Schnider, in:, 31st International Symposium on
Graph Drawing and Network Visualization, Springer Nature, 2024, pp. 339–346.
conference:
end_date: 2023-09-22
location: Isola delle Femmine, Palermo, Italy
name: 'GD: Graph Drawing and Network Visualization'
start_date: 2023-09-20
date_created: 2024-02-18T23:01:03Z
date_published: 2024-01-01T00:00:00Z
date_updated: 2024-02-20T09:13:07Z
day: '01'
department:
- _id: HeEd
doi: 10.1007/978-3-031-49272-3_23
ec_funded: 1
external_id:
arxiv:
- '2306.13201'
intvolume: ' 14465'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2306.13201
month: '01'
oa: 1
oa_version: Preprint
page: 339-346
project:
- _id: 266A2E9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '788183'
name: Alpha Shape Theory Extended
- _id: 268116B8-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00342
name: The Wittgenstein Prize
publication: 31st International Symposium on Graph Drawing and Network Visualization
publication_identifier:
eissn:
- '16113349'
isbn:
- '9783031492716'
issn:
- '03029743'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Decomposition of geometric graphs into star-forests
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14465
year: '2024'
...
---
_id: '15016'
abstract:
- lang: eng
text: 'The development, evolution, and function of the vertebrate central nervous
system (CNS) can be best studied using diverse model organisms. Amphibians, with
their unique phylogenetic position at the transition between aquatic and terrestrial
lifestyles, are valuable for understanding the origin and evolution of the tetrapod
brain and spinal cord. Their metamorphic developmental transitions and unique
regenerative abilities also facilitate the discovery of mechanisms for neural
circuit remodeling and replacement. The genetic toolkit for amphibians, however,
remains limited, with only a few species having sequenced genomes and a small
number of transgenic lines available. In mammals, recombinant adeno-associated
viral vectors (AAVs) have become a powerful alternative to genome modification
for visualizing and perturbing the nervous system. AAVs are DNA viruses that enable
neuronal transduction in both developing and adult animals with low toxicity and
spatial, temporal, and cell-type specificity. However, AAVs have never been shown
to transduce amphibian cells efficiently. To bridge this gap, we established a
simple, scalable, and robust strategy to screen AAV serotypes in three distantly-related
amphibian species: the frogs Xenopus laevis and Pelophylax bedriagae, and the
salamander Pleurodeles waltl, in both developing larval tadpoles and post-metamorphic
animals. For each species, we successfully identified at least two AAV serotypes
capable of infecting the CNS; however, no pan-amphibian serotype was identified,
indicating rapid evolution of AAV tropism. In addition, we developed an AAV-based
strategy that targets isochronic cohorts of developing neurons – a critical tool
for parsing neural circuit assembly. Finally, to enable visualization and manipulation
of neural circuits, we identified AAV variants for retrograde tracing of neuronal
projections in adult animals. Our findings expand the toolkit for amphibians to
include AAVs, establish a generalizable workflow for AAV screening in non-canonical
research organisms, generate testable hypotheses for the evolution of AAV tropism,
and lay the foundation for modern cross-species comparisons of vertebrate CNS
development, function, and evolution. '
acknowledgement: "We would like to extend our thanks to members of the Sweeney, Tosches,
Shein-Idelson,\r\nYamaguchi, Kelley, and Cline Labs for their contributions to this
project, discussion and support.\r\nWe additionally thank the Beckman Institute
Clover Center and Viviana Gradinaru (Caltech),\r\nKimberly Ritola (UNC NeuroTools),
Flavia Gama Gomez Leite (ISTA Viral Core), and Hüseyin\r\nCihan Önal (Shigemoto
Group, ISTA) for their consultation and assistance regarding AAVs, as\r\nwell as
Andras Simon and Alberto Joven for feedback and discussions on AAVs in Pleurodeles.\r\nTo
do these experiments, we have also benefited from the tremendous support of our
animal care and imaging facilities at our respective institutions, as well as the
amphibian stock centers\r\n(National Xenopus Resource Center, European Xenopus Resource
Center, Xenopus Express)\r\nand our funding sources: U.S. National Science Foundation
(NSF) Grant Number IOS 2110086\r\n(D.B.K., L.B.S., M.A.T., A.Y., and H.T.C.); United
States-Israel Binational Science Foundation\r\n(BSF) Grant Number 2020702 (M.S.-I.);
NSF Award Number 1645105 (G.J.G., M.E.H.); FTI\r\nStrategy Lower Austria Dissertation
Grant Number FTI21-D-046 (D.V.); Horizon Europe ERC\r\nStarting Grant Number 101041551
(L.B.S.); NIH grant number R35GM146973 (M.A.T.); Rita Allen\r\nFoundation award
number GA_032522_FE (M.A.T.); European Molecular Biology Organization\r\nLong-Term
Fellowship ALTF 874-2021 (A.D.); National Science Foundation Graduate Research\r\nFellowship
DGE 2036197 (E.C.J.B.); NIH grant number P40OD010997 (M.E.H)."
article_processing_charge: No
author:
- first_name: Eliza C.B.
full_name: Jaeger, Eliza C.B.
last_name: Jaeger
- first_name: David
full_name: Vijatovic, David
id: cf391e77-ec3c-11ea-a124-d69323410b58
last_name: Vijatovic
- first_name: Astrid
full_name: Deryckere, Astrid
last_name: Deryckere
- first_name: Nikol
full_name: Zorin, Nikol
last_name: Zorin
- first_name: Akemi L.
full_name: Nguyen, Akemi L.
last_name: Nguyen
- first_name: Georgiy
full_name: Ivanian, Georgiy
id: eaf2b366-cfd1-11ee-bbdf-c8790f800a05
last_name: Ivanian
- first_name: Jamie
full_name: Woych, Jamie
last_name: Woych
- first_name: Rebecca C
full_name: Arnold, Rebecca C
id: d6cce458-14c9-11ed-a755-c1c8fc6fde6f
last_name: Arnold
- first_name: Alonso
full_name: Ortega Gurrola, Alonso
last_name: Ortega Gurrola
- first_name: Arik
full_name: Shvartsman, Arik
last_name: Shvartsman
- first_name: Francesca
full_name: Barbieri, Francesca
id: a9492887-8972-11ed-ae7b-bfae10998254
last_name: Barbieri
- first_name: Florina-Alexandra
full_name: Toma, Florina-Alexandra
id: 85dd99f2-15b2-11ec-abd3-d1ae4d57f3b5
last_name: Toma
- first_name: Gary J.
full_name: Gorbsky, Gary J.
last_name: Gorbsky
- first_name: Marko E.
full_name: Horb, Marko E.
last_name: Horb
- first_name: Hollis T.
full_name: Cline, Hollis T.
last_name: Cline
- first_name: Timothy F.
full_name: Shay, Timothy F.
last_name: Shay
- first_name: Darcy B.
full_name: Kelley, Darcy B.
last_name: Kelley
- first_name: Ayako
full_name: Yamaguchi, Ayako
last_name: Yamaguchi
- first_name: Mark
full_name: Shein-Idelson, Mark
last_name: Shein-Idelson
- first_name: Maria Antonietta
full_name: Tosches, Maria Antonietta
last_name: Tosches
- first_name: Lora Beatrice Jaeger
full_name: Sweeney, Lora Beatrice Jaeger
id: 56BE8254-C4F0-11E9-8E45-0B23E6697425
last_name: Sweeney
orcid: 0000-0001-9242-5601
citation:
ama: Jaeger ECB, Vijatovic D, Deryckere A, et al. Adeno-associated viral tools to
trace neural development and connectivity across amphibians. bioRxiv. doi:10.1101/2024.02.15.580289
apa: Jaeger, E. C. B., Vijatovic, D., Deryckere, A., Zorin, N., Nguyen, A. L., Ivanian,
G., … Sweeney, L. B. (n.d.). Adeno-associated viral tools to trace neural development
and connectivity across amphibians. bioRxiv. https://doi.org/10.1101/2024.02.15.580289
chicago: Jaeger, Eliza C.B., David Vijatovic, Astrid Deryckere, Nikol Zorin, Akemi
L. Nguyen, Georgiy Ivanian, Jamie Woych, et al. “Adeno-Associated Viral Tools
to Trace Neural Development and Connectivity across Amphibians.” BioRxiv,
n.d. https://doi.org/10.1101/2024.02.15.580289.
ieee: E. C. B. Jaeger et al., “Adeno-associated viral tools to trace neural
development and connectivity across amphibians,” bioRxiv. .
ista: Jaeger ECB, Vijatovic D, Deryckere A, Zorin N, Nguyen AL, Ivanian G, Woych
J, Arnold RC, Ortega Gurrola A, Shvartsman A, Barbieri F, Toma F-A, Gorbsky GJ,
Horb ME, Cline HT, Shay TF, Kelley DB, Yamaguchi A, Shein-Idelson M, Tosches MA,
Sweeney LB. Adeno-associated viral tools to trace neural development and connectivity
across amphibians. bioRxiv, 10.1101/2024.02.15.580289.
mla: Jaeger, Eliza C. B., et al. “Adeno-Associated Viral Tools to Trace Neural Development
and Connectivity across Amphibians.” BioRxiv, doi:10.1101/2024.02.15.580289.
short: E.C.B. Jaeger, D. Vijatovic, A. Deryckere, N. Zorin, A.L. Nguyen, G. Ivanian,
J. Woych, R.C. Arnold, A. Ortega Gurrola, A. Shvartsman, F. Barbieri, F.-A. Toma,
G.J. Gorbsky, M.E. Horb, H.T. Cline, T.F. Shay, D.B. Kelley, A. Yamaguchi, M.
Shein-Idelson, M.A. Tosches, L.B. Sweeney, BioRxiv (n.d.).
date_created: 2024-02-20T09:20:32Z
date_published: 2024-02-16T00:00:00Z
date_updated: 2024-02-20T09:34:25Z
day: '16'
department:
- _id: LoSw
- _id: MaDe
- _id: GaNo
doi: 10.1101/2024.02.15.580289
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2024.02.15.580289
month: '02'
oa: 1
oa_version: Preprint
project:
- _id: bd73af52-d553-11ed-ba76-912049f0ac7a
grant_number: FTI21-D-046
name: Entwicklung und Funktion der V1 Interneuronen vom Schwimmen zum Laufen während
der Metamorphose von Xenopus
- _id: ebb66355-77a9-11ec-83b8-b8ac210a4dae
grant_number: '101041551'
name: Development and Evolution of Tetrapod Motor Circuits
publication: bioRxiv
publication_status: submitted
status: public
title: Adeno-associated viral tools to trace neural development and connectivity across
amphibians
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '15018'
abstract:
- lang: eng
text: The epitaxial growth of a strained Ge layer, which is a promising candidate
for the channel material of a hole spin qubit, has been demonstrated on 300 mm
Si wafers using commercially available Si0.3Ge0.7 strain relaxed buffer (SRB)
layers. The assessment of the layer and the interface qualities for a buried strained
Ge layer embedded in Si0.3Ge0.7 layers is reported. The XRD reciprocal space mapping
confirmed that the reduction of the growth temperature enables the 2-dimensional
growth of the Ge layer fully strained with respect to the Si0.3Ge0.7. Nevertheless,
dislocations at the top and/or bottom interface of the Ge layer were observed
by means of electron channeling contrast imaging, suggesting the importance of
the careful dislocation assessment. The interface abruptness does not depend on
the selection of the precursor gases, but it is strongly influenced by the growth
temperature which affects the coverage of the surface H-passivation. The mobility
of 2.7 × 105 cm2/Vs is promising, while the low percolation density of 3 × 1010
/cm2 measured with a Hall-bar device at 7 K illustrates the high quality of the
heterostructure thanks to the high Si0.3Ge0.7 SRB quality.
acknowledgement: The Ge project received funding from the European Union's Horizon
Europe programme under the Grant Agreement 101069515 – IGNITE. Siltronic AG is acknowledged
for providing the SRB wafers. This work was supported by Imec's Industrial Affiliation
Program on Quantum Computing.
article_number: '108231'
article_processing_charge: No
article_type: original
author:
- first_name: Yosuke
full_name: Shimura, Yosuke
last_name: Shimura
- first_name: Clement
full_name: Godfrin, Clement
last_name: Godfrin
- first_name: Andriy
full_name: Hikavyy, Andriy
last_name: Hikavyy
- first_name: Roy
full_name: Li, Roy
last_name: Li
- first_name: Juan L
full_name: Aguilera Servin, Juan L
id: 2A67C376-F248-11E8-B48F-1D18A9856A87
last_name: Aguilera Servin
orcid: 0000-0002-2862-8372
- first_name: Georgios
full_name: Katsaros, Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
orcid: 0000-0001-8342-202X
- first_name: Paola
full_name: Favia, Paola
last_name: Favia
- first_name: Han
full_name: Han, Han
last_name: Han
- first_name: Danny
full_name: Wan, Danny
last_name: Wan
- first_name: Kristiaan
full_name: de Greve, Kristiaan
last_name: de Greve
- first_name: Roger
full_name: Loo, Roger
last_name: Loo
citation:
ama: Shimura Y, Godfrin C, Hikavyy A, et al. Compressively strained epitaxial Ge
layers for quantum computing applications. Materials Science in Semiconductor
Processing. 2024;174(5). doi:10.1016/j.mssp.2024.108231
apa: Shimura, Y., Godfrin, C., Hikavyy, A., Li, R., Aguilera Servin, J. L., Katsaros,
G., … Loo, R. (2024). Compressively strained epitaxial Ge layers for quantum computing
applications. Materials Science in Semiconductor Processing. Elsevier.
https://doi.org/10.1016/j.mssp.2024.108231
chicago: Shimura, Yosuke, Clement Godfrin, Andriy Hikavyy, Roy Li, Juan L Aguilera
Servin, Georgios Katsaros, Paola Favia, et al. “Compressively Strained Epitaxial
Ge Layers for Quantum Computing Applications.” Materials Science in Semiconductor
Processing. Elsevier, 2024. https://doi.org/10.1016/j.mssp.2024.108231.
ieee: Y. Shimura et al., “Compressively strained epitaxial Ge layers for
quantum computing applications,” Materials Science in Semiconductor Processing,
vol. 174, no. 5. Elsevier, 2024.
ista: Shimura Y, Godfrin C, Hikavyy A, Li R, Aguilera Servin JL, Katsaros G, Favia
P, Han H, Wan D, de Greve K, Loo R. 2024. Compressively strained epitaxial Ge
layers for quantum computing applications. Materials Science in Semiconductor
Processing. 174(5), 108231.
mla: Shimura, Yosuke, et al. “Compressively Strained Epitaxial Ge Layers for Quantum
Computing Applications.” Materials Science in Semiconductor Processing,
vol. 174, no. 5, 108231, Elsevier, 2024, doi:10.1016/j.mssp.2024.108231.
short: Y. Shimura, C. Godfrin, A. Hikavyy, R. Li, J.L. Aguilera Servin, G. Katsaros,
P. Favia, H. Han, D. Wan, K. de Greve, R. Loo, Materials Science in Semiconductor
Processing 174 (2024).
date_created: 2024-02-22T14:10:40Z
date_published: 2024-02-20T00:00:00Z
date_updated: 2024-02-26T10:36:35Z
day: '20'
ddc:
- '530'
department:
- _id: GeKa
- _id: NanoFab
doi: 10.1016/j.mssp.2024.108231
has_accepted_license: '1'
intvolume: ' 174'
issue: '5'
keyword:
- Mechanical Engineering
- Mechanics of Materials
- Condensed Matter Physics
- General Materials Science
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.mssp.2024.108231
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 34c0acea-11ca-11ed-8bc3-8775e10fd452
grant_number: '101069515'
name: Integrated GermaNIum quanTum tEchnology
publication: Materials Science in Semiconductor Processing
publication_identifier:
issn:
- 1369-8001
publication_status: epub_ahead
publisher: Elsevier
quality_controlled: '1'
status: public
title: Compressively strained epitaxial Ge layers for quantum computing applications
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: 174
year: '2024'
...
---
_id: '15020'
abstract:
- lang: eng
text: "This thesis consists of four distinct pieces of work within theoretical biology,
with two themes in common: the concept of optimization in biological systems,
and the use of information-theoretic tools to quantify biological stochasticity
and statistical uncertainty.\r\nChapter 2 develops a statistical framework for
studying biological systems which we believe to be optimized for a particular
utility function, such as retinal neurons conveying information about visual stimuli.
We formalize such beliefs as maximum-entropy Bayesian priors, constrained by the
expected utility. We explore how such priors aid inference of system parameters
with limited data and enable optimality hypothesis testing: is the utility higher
than by chance?\r\nChapter 3 examines the ultimate biological optimization process:
evolution by natural selection. As some individuals survive and reproduce more
successfully than others, populations evolve towards fitter genotypes and phenotypes.
We formalize this as accumulation of genetic information, and use population genetics
theory to study how much such information can be accumulated per generation and
maintained in the face of random mutation and genetic drift. We identify the population
size and fitness variance as the key quantities that control information accumulation
and maintenance.\r\nChapter 4 reuses the concept of genetic information from Chapter
3, but from a different perspective: we ask how much genetic information organisms
actually need, in particular in the context of gene regulation. For example, how
much information is needed to bind transcription factors at correct locations
within the genome? Population genetics provides us with a refined answer: with
an increasing population size, populations achieve higher fitness by maintaining
more genetic information. Moreover, regulatory parameters experience selection
pressure to optimize the fitness-information trade-off, i.e. minimize the information
needed for a given fitness. This provides an evolutionary derivation of the optimization
priors introduced in Chapter 2.\r\nChapter 5 proves an upper bound on mutual information
between a signal and a communication channel output (such as neural activity).
Mutual information is an important utility measure for biological systems, but
its practical use can be difficult due to the large dimensionality of many biological
channels. Sometimes, a lower bound on mutual information is computed by replacing
the high-dimensional channel outputs with decodes (signal estimates). Our result
provides a corresponding upper bound, provided that the decodes are the maximum
posterior estimates of the signal."
acknowledged_ssus:
- _id: ScienComp
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Michal
full_name: Hledik, Michal
id: 4171253A-F248-11E8-B48F-1D18A9856A87
last_name: Hledik
citation:
ama: Hledik M. Genetic information and biological optimization. 2024. doi:10.15479/at:ista:15020
apa: Hledik, M. (2024). Genetic information and biological optimization.
Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:15020
chicago: Hledik, Michal. “Genetic Information and Biological Optimization.” Institute
of Science and Technology Austria, 2024. https://doi.org/10.15479/at:ista:15020.
ieee: M. Hledik, “Genetic information and biological optimization,” Institute of
Science and Technology Austria, 2024.
ista: Hledik M. 2024. Genetic information and biological optimization. Institute
of Science and Technology Austria.
mla: Hledik, Michal. Genetic Information and Biological Optimization. Institute
of Science and Technology Austria, 2024, doi:10.15479/at:ista:15020.
short: M. Hledik, Genetic Information and Biological Optimization, Institute of
Science and Technology Austria, 2024.
date_created: 2024-02-23T14:02:04Z
date_published: 2024-02-23T00:00:00Z
date_updated: 2025-06-30T13:21:09Z
day: '23'
ddc:
- '576'
- '519'
department:
- _id: GradSch
- _id: NiBa
- _id: GaTk
doi: 10.15479/at:ista:15020
ec_funded: 1
file:
- access_level: open_access
checksum: b2d3da47c98d481577a4baf68944fe41
content_type: application/pdf
creator: mhledik
date_created: 2024-02-23T13:50:53Z
date_updated: 2024-02-23T13:50:53Z
file_id: '15021'
file_name: hledik thesis pdfa 2b.pdf
file_size: 7102089
relation: main_file
success: 1
- access_level: closed
checksum: eda9b9430da2610fee7ce1c1419a479a
content_type: application/zip
creator: mhledik
date_created: 2024-02-23T13:50:54Z
date_updated: 2024-02-23T14:20:16Z
file_id: '15022'
file_name: hledik thesis source.zip
file_size: 14014790
relation: source_file
file_date_updated: 2024-02-23T14:20:16Z
has_accepted_license: '1'
keyword:
- Theoretical biology
- Optimality
- Evolution
- Information
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: '158'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: 2665AAFE-B435-11E9-9278-68D0E5697425
grant_number: RGP0034/2018
name: Can evolution minimize spurious signaling crosstalk to reach optimal performance?
- _id: bd6958e0-d553-11ed-ba76-86eba6a76c00
grant_number: '101055327'
name: Understanding the evolution of continuous genomes
publication_identifier:
issn:
- 2663 - 337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '7553'
relation: part_of_dissertation
status: public
- id: '7606'
relation: part_of_dissertation
status: public
- id: '12081'
relation: part_of_dissertation
status: public
status: public
supervisor:
- 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: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
title: Genetic information and biological optimization
type: dissertation
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '15024'
abstract:
- lang: eng
text: Electrostatic correlations between ions dissolved in water are known to impact
their transport properties in numerous ways, from conductivity to ion selectivity.
The effects of these correlations on the solvent itself remain, however, much
less clear. In particular, the addition of salt has been consistently reported
to affect the solution’s viscosity, but most modeling attempts fail to reproduce
experimental data even at moderate salt concentrations. Here, we use an approach
based on stochastic density functional theory, which accurately captures charge
fluctuations and correlations. We derive a simple analytical expression for the
viscosity correction in concentrated electrolytes, by directly linking it to the
liquid’s structure factor. Our prediction compares quantitatively to experimental
data at all temperatures and all salt concentrations up to the saturation limit.
This universal link between the microscopic structure and viscosity allows us
to shed light on the nanoscale dynamics of water and ions under highly concentrated
and correlated conditions.
acknowledgement: The author thanks Lydéric Bocquet, Baptiste Coquinot, and Mathieu
Lizée for fruitful discussions. This project received funding from the European
Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie
Grant Agreement No. 101034413.
article_number: '064503'
article_processing_charge: Yes (in subscription journal)
article_type: original
arxiv: 1
author:
- first_name: Paul
full_name: Robin, Paul
id: 48c58128-57b0-11ee-9095-dc28fd97fc1d
last_name: Robin
orcid: 0000-0002-5728-9189
citation:
ama: Robin P. Correlation-induced viscous dissipation in concentrated electrolytes.
Journal of Chemical Physics. 2024;160(6). doi:10.1063/5.0188215
apa: Robin, P. (2024). Correlation-induced viscous dissipation in concentrated electrolytes.
Journal of Chemical Physics. AIP Publishing. https://doi.org/10.1063/5.0188215
chicago: Robin, Paul. “Correlation-Induced Viscous Dissipation in Concentrated Electrolytes.”
Journal of Chemical Physics. AIP Publishing, 2024. https://doi.org/10.1063/5.0188215.
ieee: P. Robin, “Correlation-induced viscous dissipation in concentrated electrolytes,”
Journal of Chemical Physics, vol. 160, no. 6. AIP Publishing, 2024.
ista: Robin P. 2024. Correlation-induced viscous dissipation in concentrated electrolytes.
Journal of Chemical Physics. 160(6), 064503.
mla: Robin, Paul. “Correlation-Induced Viscous Dissipation in Concentrated Electrolytes.”
Journal of Chemical Physics, vol. 160, no. 6, 064503, AIP Publishing, 2024,
doi:10.1063/5.0188215.
short: P. Robin, Journal of Chemical Physics 160 (2024).
date_created: 2024-02-25T23:00:55Z
date_published: 2024-02-14T00:00:00Z
date_updated: 2024-02-27T08:16:06Z
day: '14'
ddc:
- '540'
department:
- _id: EdHa
doi: 10.1063/5.0188215
ec_funded: 1
external_id:
arxiv:
- '2311.11784'
pmid:
- '38349632'
file:
- access_level: open_access
checksum: 0a5e0ae70849bce674466fc054390ec0
content_type: application/pdf
creator: dernst
date_created: 2024-02-27T08:12:52Z
date_updated: 2024-02-27T08:12:52Z
file_id: '15034'
file_name: 2024_JourChemicalPhysics_Robin.pdf
file_size: 5452738
relation: main_file
success: 1
file_date_updated: 2024-02-27T08:12:52Z
has_accepted_license: '1'
intvolume: ' 160'
issue: '6'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Journal of Chemical Physics
publication_identifier:
eissn:
- 1089-7690
issn:
- 0021-9606
publication_status: published
publisher: AIP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Correlation-induced viscous dissipation in concentrated electrolytes
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: 160
year: '2024'
...
---
_id: '15025'
abstract:
- lang: eng
text: We consider quadratic forms of deterministic matrices A evaluated at the random
eigenvectors of a large N×N GOE or GUE matrix, or equivalently evaluated at the
columns of a Haar-orthogonal or Haar-unitary random matrix. We prove that, as
long as the deterministic matrix has rank much smaller than √N, the distributions
of the extrema of these quadratic forms are asymptotically the same as if the
eigenvectors were independent Gaussians. This reduces the problem to Gaussian
computations, which we carry out in several cases to illustrate our result, finding
Gumbel or Weibull limiting distributions depending on the signature of A. Our
result also naturally applies to the eigenvectors of any invariant ensemble.
acknowledgement: The first author was supported by the ERC Advanced Grant “RMTBeyond”
No. 101020331. The second author was supported by Fulbright Austria and the Austrian
Marshall Plan Foundation.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Benjamin
full_name: McKenna, Benjamin
id: b0cc634c-d549-11ee-96c8-87338c7ad808
last_name: McKenna
orcid: 0000-0003-2625-495X
citation:
ama: Erdös L, McKenna B. Extremal statistics of quadratic forms of GOE/GUE eigenvectors.
Annals of Applied Probability. 2024;34(1B):1623-1662. doi:10.1214/23-AAP2000
apa: Erdös, L., & McKenna, B. (2024). Extremal statistics of quadratic forms
of GOE/GUE eigenvectors. Annals of Applied Probability. Institute of Mathematical
Statistics. https://doi.org/10.1214/23-AAP2000
chicago: Erdös, László, and Benjamin McKenna. “Extremal Statistics of Quadratic
Forms of GOE/GUE Eigenvectors.” Annals of Applied Probability. Institute
of Mathematical Statistics, 2024. https://doi.org/10.1214/23-AAP2000.
ieee: L. Erdös and B. McKenna, “Extremal statistics of quadratic forms of GOE/GUE
eigenvectors,” Annals of Applied Probability, vol. 34, no. 1B. Institute
of Mathematical Statistics, pp. 1623–1662, 2024.
ista: Erdös L, McKenna B. 2024. Extremal statistics of quadratic forms of GOE/GUE
eigenvectors. Annals of Applied Probability. 34(1B), 1623–1662.
mla: Erdös, László, and Benjamin McKenna. “Extremal Statistics of Quadratic Forms
of GOE/GUE Eigenvectors.” Annals of Applied Probability, vol. 34, no. 1B,
Institute of Mathematical Statistics, 2024, pp. 1623–62, doi:10.1214/23-AAP2000.
short: L. Erdös, B. McKenna, Annals of Applied Probability 34 (2024) 1623–1662.
date_created: 2024-02-25T23:00:56Z
date_published: 2024-02-01T00:00:00Z
date_updated: 2024-02-27T08:29:05Z
day: '01'
department:
- _id: LaEr
doi: 10.1214/23-AAP2000
ec_funded: 1
external_id:
arxiv:
- '2208.12206'
intvolume: ' 34'
issue: 1B
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2208.12206
month: '02'
oa: 1
oa_version: Preprint
page: 1623-1662
project:
- _id: 62796744-2b32-11ec-9570-940b20777f1d
call_identifier: H2020
grant_number: '101020331'
name: Random matrices beyond Wigner-Dyson-Mehta
publication: Annals of Applied Probability
publication_identifier:
issn:
- 1050-5164
publication_status: published
publisher: Institute of Mathematical Statistics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Extremal statistics of quadratic forms of GOE/GUE eigenvectors
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 34
year: '2024'
...
---
_id: '15033'
abstract:
- lang: eng
text: The GNOM (GN) Guanine nucleotide Exchange Factor for ARF small GTPases (ARF-GEF)
is among the best studied trafficking regulators in plants, playing crucial and
unique developmental roles in patterning and polarity. The current models place
GN at the Golgi apparatus (GA), where it mediates secretion/recycling, and at
the plasma membrane (PM) presumably contributing to clathrin-mediated endocytosis
(CME). The mechanistic basis of the developmental function of GN, distinct from
the other ARF-GEFs including its closest homologue GNOM-LIKE1 (GNL1), remains
elusive. Insights from this study largely extend the current notions of GN function.
We show that GN, but not GNL1, localizes to the cell periphery at long-lived structures
distinct from clathrin-coated pits, while CME and secretion proceed normally in
gn knockouts. The functional GN mutant variant GNfewerroots,
absent from the GA, suggests that the cell periphery is the major site of GN action
responsible for its developmental function. Following inhibition by Brefeldin
A, GN, but not GNL1, relocates to the PM likely on exocytic vesicles, suggesting
selective molecular associations en route to the cell periphery. A study of GN-GNL1
chimeric ARF-GEFs indicates that all GN domains contribute to the specific GN
function in a partially redundant manner. Together, this study offers significant
steps toward the elucidation of the mechanism underlying unique cellular and development
functions of GNOM.
acknowledgement: "The authors would like to gratefully acknowledge Dr Xixi Zhang for
cloning the GNL1/pDONR221 construct and for useful discussions.H2020 European Research\r\nCouncil
Advanced Grant ETAP742985 to Jiří Friml, Austrian Science Fund I 3630-B25 to Jiří
Friml"
article_processing_charge: Yes
article_type: original
author:
- first_name: Maciek
full_name: Adamowski, Maciek
id: 45F536D2-F248-11E8-B48F-1D18A9856A87
last_name: Adamowski
orcid: 0000-0001-6463-5257
- first_name: Ivana
full_name: Matijevic, Ivana
id: 83c17ce3-15b2-11ec-abd3-f486545870bd
last_name: Matijevic
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Adamowski M, Matijevic I, Friml J. Developmental patterning function of GNOM
ARF-GEF mediated from the cell periphery. eLife. 2024;13. doi:10.7554/elife.68993
apa: Adamowski, M., Matijevic, I., & Friml, J. (2024). Developmental patterning
function of GNOM ARF-GEF mediated from the cell periphery. ELife. eLife
Sciences Publications. https://doi.org/10.7554/elife.68993
chicago: Adamowski, Maciek, Ivana Matijevic, and Jiří Friml. “Developmental Patterning
Function of GNOM ARF-GEF Mediated from the Cell Periphery.” ELife. eLife
Sciences Publications, 2024. https://doi.org/10.7554/elife.68993.
ieee: M. Adamowski, I. Matijevic, and J. Friml, “Developmental patterning function
of GNOM ARF-GEF mediated from the cell periphery,” eLife, vol. 13. eLife
Sciences Publications, 2024.
ista: Adamowski M, Matijevic I, Friml J. 2024. Developmental patterning function
of GNOM ARF-GEF mediated from the cell periphery. eLife. 13.
mla: Adamowski, Maciek, et al. “Developmental Patterning Function of GNOM ARF-GEF
Mediated from the Cell Periphery.” ELife, vol. 13, eLife Sciences Publications,
2024, doi:10.7554/elife.68993.
short: M. Adamowski, I. Matijevic, J. Friml, ELife 13 (2024).
date_created: 2024-02-27T07:10:11Z
date_published: 2024-02-21T00:00:00Z
date_updated: 2024-02-28T12:29:43Z
day: '21'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.7554/elife.68993
ec_funded: 1
has_accepted_license: '1'
intvolume: ' 13'
keyword:
- General Immunology and Microbiology
- General Biochemistry
- Genetics and Molecular Biology
- General Medicine
- General Neuroscience
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.7554/eLife.68993
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
- _id: 26538374-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03630
name: Molecular mechanisms of endocytic cargo recognition in plants
publication: eLife
publication_identifier:
issn:
- 2050-084X
publication_status: epub_ahead
publisher: eLife Sciences Publications
quality_controlled: '1'
status: public
title: Developmental patterning function of GNOM ARF-GEF mediated from the cell periphery
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'
...
---
_id: '15045'
abstract:
- lang: eng
text: Coupling of orbital motion to a spin degree of freedom gives rise to various
transport phenomena in quantum systems that are beyond the standard paradigms
of classical physics. Here, we discuss features of spin-orbit dynamics that can
be visualized using a classical model with two coupled angular degrees of freedom.
Specifically, we demonstrate classical ‘spin’ filtering through our model and
show that the interplay between angular degrees of freedom and dissipation can
lead to asymmetric ‘spin’ transport.
acknowledgement: "We thank Mikhail Lemeshko and members of his group for many inspiring
discussions; Alberto Cappellaro for comments on the manuscript.\r\nOpen access funding
provided by Institute of Science and Technology (IST Austria)."
article_number: '12'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Atul
full_name: Varshney, Atul
id: 2A2006B2-F248-11E8-B48F-1D18A9856A87
last_name: Varshney
orcid: 0000-0002-3072-5999
- first_name: Areg
full_name: Ghazaryan, Areg
id: 4AF46FD6-F248-11E8-B48F-1D18A9856A87
last_name: Ghazaryan
orcid: 0000-0001-9666-3543
- first_name: Artem
full_name: Volosniev, Artem
id: 37D278BC-F248-11E8-B48F-1D18A9856A87
last_name: Volosniev
orcid: 0000-0003-0393-5525
citation:
ama: Varshney A, Ghazaryan A, Volosniev A. Classical ‘spin’ filtering with two degrees
of freedom and dissipation. Few-Body Systems. 2024;65. doi:10.1007/s00601-024-01880-x
apa: Varshney, A., Ghazaryan, A., & Volosniev, A. (2024). Classical ‘spin’ filtering
with two degrees of freedom and dissipation. Few-Body Systems. Springer
Nature. https://doi.org/10.1007/s00601-024-01880-x
chicago: Varshney, Atul, Areg Ghazaryan, and Artem Volosniev. “Classical ‘Spin’
Filtering with Two Degrees of Freedom and Dissipation.” Few-Body Systems.
Springer Nature, 2024. https://doi.org/10.1007/s00601-024-01880-x.
ieee: A. Varshney, A. Ghazaryan, and A. Volosniev, “Classical ‘spin’ filtering with
two degrees of freedom and dissipation,” Few-Body Systems, vol. 65. Springer
Nature, 2024.
ista: Varshney A, Ghazaryan A, Volosniev A. 2024. Classical ‘spin’ filtering with
two degrees of freedom and dissipation. Few-Body Systems. 65, 12.
mla: Varshney, Atul, et al. “Classical ‘Spin’ Filtering with Two Degrees of Freedom
and Dissipation.” Few-Body Systems, vol. 65, 12, Springer Nature, 2024,
doi:10.1007/s00601-024-01880-x.
short: A. Varshney, A. Ghazaryan, A. Volosniev, Few-Body Systems 65 (2024).
date_created: 2024-03-01T11:39:33Z
date_published: 2024-02-17T00:00:00Z
date_updated: 2024-03-04T07:08:16Z
day: '17'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.1007/s00601-024-01880-x
external_id:
arxiv:
- '2401.08454'
file:
- access_level: open_access
checksum: c4e08cc7bc756da69b1b36fda7bb92fb
content_type: application/pdf
creator: dernst
date_created: 2024-03-04T07:07:10Z
date_updated: 2024-03-04T07:07:10Z
file_id: '15049'
file_name: 2024_FewBodySys_Varshney.pdf
file_size: 436712
relation: main_file
success: 1
file_date_updated: 2024-03-04T07:07:10Z
has_accepted_license: '1'
intvolume: ' 65'
keyword:
- Atomic and Molecular Physics
- and Optics
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: Few-Body Systems
publication_identifier:
issn:
- 1432-5411
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Classical ‘spin’ filtering with two degrees of freedom and dissipation
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: 65
year: '2024'
...
---
_id: '15047'
abstract:
- lang: eng
text: Tropical precipitation extremes and their changes with surface warming are
investigated using global storm resolving simulations and high-resolution observations.
The simulations demonstrate that the mesoscale organization of convection, a process
that cannot be physically represented by conventional global climate models, is
important for the variations of tropical daily accumulated precipitation extremes.
In both the simulations and observations, daily precipitation extremes increase
in a more organized state, in association with larger, but less frequent, storms.
Repeating the simulations for a warmer climate results in a robust increase in
monthly-mean daily precipitation extremes. Higher precipitation percentiles have
a greater sensitivity to convective organization, which is predicted to increase
with warming. Without changes in organization, the strongest daily precipitation
extremes over the tropical oceans increase at a rate close to Clausius-Clapeyron
(CC) scaling. Thus, in a future warmer state with increased organization, the
strongest daily precipitation extremes over oceans increase at a faster rate than
CC scaling.
acknowledgement: This work is supported by the Max-Planck-Gesellschaft (MPG). We greatly
appreciate computational resources from Deutsches Klimarechenzentrum (DKRZ) and
the Jülich Supercomputing Centre (JSC). ICONA/O simulations are funded through the
NextGEMS project by the EU’s Horizon 2020 programme (grant agreement no. 101003470).
ICONA simulations are funded through the MONSOON-2.0 project (grant agreement no.
01LP1927A) which is supported from German Federal Ministry of Education and Research
(BMBF). J.B. acknowledges funding from the European Union’s Horizon 2020 research
and innovation programme under the Marie Skłodowska-Curie grant (grant agreement
no. 101034413). B.S. acknowledges funding from the EU’s Horizon 2020 programme (grant
agreement no. 101003470). C.M. gratefully acknowledges funding from the European
Research Council (ERC) under the European Union’s Horizon 2020 research and innovation
program (Project CLUSTER, grant agreement no. 805041).
article_number: eadj6801
article_processing_charge: Yes
article_type: original
author:
- first_name: Jiawei
full_name: Bao, Jiawei
id: bb9a7399-fefd-11ed-be3c-ae648fd1d160
last_name: Bao
- first_name: Bjorn
full_name: Stevens, Bjorn
last_name: Stevens
- first_name: Lukas
full_name: Kluft, Lukas
last_name: Kluft
- first_name: Caroline J
full_name: Muller, Caroline J
id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b
last_name: Muller
orcid: 0000-0001-5836-5350
citation:
ama: Bao J, Stevens B, Kluft L, Muller CJ. Intensification of daily tropical precipitation
extremes from more organized convection. Science Advances. 2024;10(8).
doi:10.1126/sciadv.adj6801
apa: Bao, J., Stevens, B., Kluft, L., & Muller, C. J. (2024). Intensification
of daily tropical precipitation extremes from more organized convection. Science
Advances. American Association for the Advancement of Science. https://doi.org/10.1126/sciadv.adj6801
chicago: Bao, Jiawei, Bjorn Stevens, Lukas Kluft, and Caroline J Muller. “Intensification
of Daily Tropical Precipitation Extremes from More Organized Convection.” Science
Advances. American Association for the Advancement of Science, 2024. https://doi.org/10.1126/sciadv.adj6801.
ieee: J. Bao, B. Stevens, L. Kluft, and C. J. Muller, “Intensification of daily
tropical precipitation extremes from more organized convection,” Science Advances,
vol. 10, no. 8. American Association for the Advancement of Science, 2024.
ista: Bao J, Stevens B, Kluft L, Muller CJ. 2024. Intensification of daily tropical
precipitation extremes from more organized convection. Science Advances. 10(8),
eadj6801.
mla: Bao, Jiawei, et al. “Intensification of Daily Tropical Precipitation Extremes
from More Organized Convection.” Science Advances, vol. 10, no. 8, eadj6801,
American Association for the Advancement of Science, 2024, doi:10.1126/sciadv.adj6801.
short: J. Bao, B. Stevens, L. Kluft, C.J. Muller, Science Advances 10 (2024).
date_created: 2024-03-03T23:00:50Z
date_published: 2024-02-23T00:00:00Z
date_updated: 2024-03-05T09:26:47Z
day: '23'
ddc:
- '550'
department:
- _id: CaMu
doi: 10.1126/sciadv.adj6801
ec_funded: 1
external_id:
pmid:
- '38394192'
file:
- access_level: open_access
checksum: d4ec4f05a6d14745057e14d1b8bf45ae
content_type: application/pdf
creator: dernst
date_created: 2024-03-04T07:34:00Z
date_updated: 2024-03-04T07:34:00Z
file_id: '15051'
file_name: 2024_ScienceAdv_Bao.pdf
file_size: 800926
relation: main_file
success: 1
file_date_updated: 2024-03-04T07:34:00Z
has_accepted_license: '1'
intvolume: ' 10'
issue: '8'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
- _id: 629205d8-2b32-11ec-9570-e1356ff73576
call_identifier: H2020
grant_number: '805041'
name: organization of CLoUdS, and implications of Tropical cyclones and for the
Energetics of the tropics, in current and waRming climate
publication: Science Advances
publication_identifier:
eissn:
- 2375-2548
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/cloud-clustering-causes-more-extreme-rain/
scopus_import: '1'
status: public
title: Intensification of daily tropical precipitation extremes from more organized
convection
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: 10
year: '2024'
...
---
_id: '15048'
abstract:
- lang: eng
text: Embryogenesis results from the coordinated activities of different signaling
pathways controlling cell fate specification and morphogenesis. In vertebrate
gastrulation, both Nodal and BMP signaling play key roles in germ layer specification
and morphogenesis, yet their interplay to coordinate embryo patterning with morphogenesis
is still insufficiently understood. Here, we took a reductionist approach using
zebrafish embryonic explants to study the coordination of Nodal and BMP signaling
for embryo patterning and morphogenesis. We show that Nodal signaling triggers
explant elongation by inducing mesendodermal progenitors but also suppressing
BMP signaling activity at the site of mesendoderm induction. Consistent with this,
ectopic BMP signaling in the mesendoderm blocks cell alignment and oriented mesendoderm
intercalations, key processes during explant elongation. Translating these ex
vivo observations to the intact embryo showed that, similar to explants, Nodal
signaling suppresses the effect of BMP signaling on cell intercalations in the
dorsal domain, thus allowing robust embryonic axis elongation. These findings
suggest a dual function of Nodal signaling in embryonic axis elongation by both
inducing mesendoderm and suppressing BMP effects in the dorsal portion of the
mesendoderm.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
acknowledgement: "We thank Patrick Müller for sharing the chordintt250 mutant zebrafish
line as well as the plasmid for chrd-GFP, Katherine Rogers for sharing the bmp2b
plasmid and Andrea Pauli for sharing the draculin plasmid. Diana Pinheiro generated
the MZlefty1,2;Tg(sebox::EGFP) line. We are grateful to Patrick Müller, Diana Pinheiro
and Katherine Rogers and members of the Heisenberg lab for discussions, technical
advice and feedback on the manuscript. We also thank Anna Kicheva and Edouard Hannezo
for discussions. We thank the Imaging and Optics Facility as well as the Life Science
facility at IST Austria for support with microscopy and fish maintenance.\r\nThis
work was supported by a European Research Council Advanced Grant\r\n(MECSPEC 742573
to C.-P.H.). A.S. is a recipient of a DOC Fellowship of the Austrian\r\nAcademy
of Sciences at IST Austria. Open Access funding provided by Institute of\r\nScience
and Technology Austria. "
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Alexandra
full_name: Schauer, Alexandra
id: 30A536BA-F248-11E8-B48F-1D18A9856A87
last_name: Schauer
orcid: 0000-0001-7659-9142
- first_name: Kornelija
full_name: Pranjic-Ferscha, Kornelija
id: 4362B3C2-F248-11E8-B48F-1D18A9856A87
last_name: Pranjic-Ferscha
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Schauer A, Pranjic-Ferscha K, Hauschild R, Heisenberg C-PJ. Robust axis elongation
by Nodal-dependent restriction of BMP signaling. Development. 2024;151(4):1-18.
doi:10.1242/dev.202316
apa: Schauer, A., Pranjic-Ferscha, K., Hauschild, R., & Heisenberg, C.-P. J.
(2024). Robust axis elongation by Nodal-dependent restriction of BMP signaling.
Development. The Company of Biologists. https://doi.org/10.1242/dev.202316
chicago: Schauer, Alexandra, Kornelija Pranjic-Ferscha, Robert Hauschild, and Carl-Philipp
J Heisenberg. “Robust Axis Elongation by Nodal-Dependent Restriction of BMP Signaling.”
Development. The Company of Biologists, 2024. https://doi.org/10.1242/dev.202316.
ieee: A. Schauer, K. Pranjic-Ferscha, R. Hauschild, and C.-P. J. Heisenberg, “Robust
axis elongation by Nodal-dependent restriction of BMP signaling,” Development,
vol. 151, no. 4. The Company of Biologists, pp. 1–18, 2024.
ista: Schauer A, Pranjic-Ferscha K, Hauschild R, Heisenberg C-PJ. 2024. Robust axis
elongation by Nodal-dependent restriction of BMP signaling. Development. 151(4),
1–18.
mla: Schauer, Alexandra, et al. “Robust Axis Elongation by Nodal-Dependent Restriction
of BMP Signaling.” Development, vol. 151, no. 4, The Company of Biologists,
2024, pp. 1–18, doi:10.1242/dev.202316.
short: A. Schauer, K. Pranjic-Ferscha, R. Hauschild, C.-P.J. Heisenberg, Development
151 (2024) 1–18.
date_created: 2024-03-03T23:00:50Z
date_published: 2024-02-01T00:00:00Z
date_updated: 2024-03-04T07:28:25Z
day: '01'
ddc:
- '570'
department:
- _id: CaHe
- _id: Bio
doi: 10.1242/dev.202316
ec_funded: 1
file:
- access_level: open_access
checksum: 6961ea10012bf0d266681f9628bb8f13
content_type: application/pdf
creator: dernst
date_created: 2024-03-04T07:24:43Z
date_updated: 2024-03-04T07:24:43Z
file_id: '15050'
file_name: 2024_Development_Schauer.pdf
file_size: 14839986
relation: main_file
success: 1
file_date_updated: 2024-03-04T07:24:43Z
has_accepted_license: '1'
intvolume: ' 151'
issue: '4'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 1-18
project:
- _id: 260F1432-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742573'
name: Interaction and feedback between cell mechanics and fate specification in
vertebrate gastrulation
- _id: 26B1E39C-B435-11E9-9278-68D0E5697425
grant_number: '25239'
name: 'Mesendoderm specification in zebrafish: The role of extraembryonic tissues'
publication: Development
publication_identifier:
eissn:
- 1477-9129
issn:
- 0950-1991
publication_status: published
publisher: The Company of Biologists
quality_controlled: '1'
related_material:
record:
- id: '14926'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Robust axis elongation by Nodal-dependent restriction of BMP signaling
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: 151
year: '2024'
...
---
_id: '15052'
abstract:
- lang: eng
text: "Substrate induces mechanical strain on perovskite devices, which can result
in alterations to its lattice dynamics and thermal transport. Herein, we have
performed a theoretical investigation on the anharmonic lattice dynamics and thermal
property of perovskite Rb2SnBr6 and Cs2SnBr6 under strains using perturbation
theory up to the fourth-order terms and the unified thermal transport theory.
We demonstrate a pronounced hardening of low-frequency optical phonons as temperature
increases, indicating strong lattice anharmonicity and the necessity of adopting
temperature-dependent interatomic force constants in the lattice thermal conductivity
(\r\nκL) calculations. It is found that the low-lying optical phonon modes of
Rb2SnBr6 are extremely soft and their phonon energies are almost strain independent,
which ultimately lead to a lower \r\nκL and a weaker strain dependence than Cs2SnBr6.
We further reveal that the strain dependence of these phonon modes in the A2XB6-type
perovskites weakens as their ibrational frequency decreases. This study deepens
the understanding of lattice thermal transport in perovskites A2XB6 and provides
a perspective on the selection of materials that meet the expected thermal behaviors
in practical applications."
acknowledgement: "This work is supported by the Research Grants Council of Hong Kong
(C7002-22Y and 17318122). The authors are grateful for the research computing facilities
offered by\r\nITS, HKU. Z.Z. acknowledges the European Union’s Horizon 2020 research
and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 101034413."
article_number: '054305'
article_processing_charge: No
article_type: original
author:
- first_name: Ruihuan
full_name: Cheng, Ruihuan
last_name: Cheng
- first_name: Zezhu
full_name: Zeng, Zezhu
id: 54a2c730-803f-11ed-ab7e-95b29d2680e7
last_name: Zeng
- first_name: Chen
full_name: Wang, Chen
last_name: Wang
- first_name: Niuchang
full_name: Ouyang, Niuchang
last_name: Ouyang
- first_name: Yue
full_name: Chen, Yue
last_name: Chen
citation:
ama: Cheng R, Zeng Z, Wang C, Ouyang N, Chen Y. Impact of strain-insensitive low-frequency
phonon modes on lattice thermal transport in AxXB6-type perovskites. Physical
Review B. 2024;109(5). doi:10.1103/physrevb.109.054305
apa: Cheng, R., Zeng, Z., Wang, C., Ouyang, N., & Chen, Y. (2024). Impact of
strain-insensitive low-frequency phonon modes on lattice thermal transport in
AxXB6-type perovskites. Physical Review B. American Physical Society. https://doi.org/10.1103/physrevb.109.054305
chicago: Cheng, Ruihuan, Zezhu Zeng, Chen Wang, Niuchang Ouyang, and Yue Chen. “Impact
of Strain-Insensitive Low-Frequency Phonon Modes on Lattice Thermal Transport
in AxXB6-Type Perovskites.” Physical Review B. American Physical Society,
2024. https://doi.org/10.1103/physrevb.109.054305.
ieee: R. Cheng, Z. Zeng, C. Wang, N. Ouyang, and Y. Chen, “Impact of strain-insensitive
low-frequency phonon modes on lattice thermal transport in AxXB6-type perovskites,”
Physical Review B, vol. 109, no. 5. American Physical Society, 2024.
ista: Cheng R, Zeng Z, Wang C, Ouyang N, Chen Y. 2024. Impact of strain-insensitive
low-frequency phonon modes on lattice thermal transport in AxXB6-type perovskites.
Physical Review B. 109(5), 054305.
mla: Cheng, Ruihuan, et al. “Impact of Strain-Insensitive Low-Frequency Phonon Modes
on Lattice Thermal Transport in AxXB6-Type Perovskites.” Physical Review B,
vol. 109, no. 5, 054305, American Physical Society, 2024, doi:10.1103/physrevb.109.054305.
short: R. Cheng, Z. Zeng, C. Wang, N. Ouyang, Y. Chen, Physical Review B 109 (2024).
date_created: 2024-03-04T07:41:23Z
date_published: 2024-02-14T00:00:00Z
date_updated: 2024-03-04T07:48:55Z
day: '14'
department:
- _id: BiCh
doi: 10.1103/physrevb.109.054305
ec_funded: 1
intvolume: ' 109'
issue: '5'
language:
- iso: eng
month: '02'
oa_version: None
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: Physical Review B
publication_identifier:
eissn:
- 2469-9969
issn:
- 2469-9950
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Impact of strain-insensitive low-frequency phonon modes on lattice thermal
transport in AxXB6-type perovskites
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 109
year: '2024'
...
---
_id: '15053'
abstract:
- lang: eng
text: Atom-based quantum simulators have had many successes in tackling challenging
quantum many-body problems, owing to the precise and dynamical control that they
provide over the systems' parameters. They are, however, often optimized to address
a specific type of problem. Here, we present the design and implementation of
a 6Li-based quantum gas platform that provides wide-ranging capabilities and is
able to address a variety of quantum many-body problems. Our two-chamber architecture
relies on a robust combination of gray molasses and optical transport from a laser-cooling
chamber to a glass cell with excellent optical access. There, we first create
unitary Fermi superfluids in a three-dimensional axially symmetric harmonic trap
and characterize them using in situ thermometry, reaching temperatures below 20
nK. This allows us to enter the deep superfluid regime with samples of extreme
diluteness, where the interparticle spacing is sufficiently large for direct single-atom
imaging. Second, we generate optical lattice potentials with triangular and honeycomb
geometry in which we study diffraction of molecular Bose-Einstein condensates,
and show how going beyond the Kapitza-Dirac regime allows us to unambiguously
distinguish between the two geometries. With the ability to probe quantum many-body
physics in both discrete and continuous space, and its suitability for bulk and
single-atom imaging, our setup represents an important step towards achieving
a wide-scope quantum simulator.
acknowledgement: We thank Clara Bachorz, Darby Bates, Markus Bohlen, Valentin Crépel,
Yann Kiefer, Joanna Lis, Mihail Rabinovic, and Julian Struck for experimental assistance
in the early stages of this project, and Sebastian Will for a critical reading of
the manuscript. This work has been supported by Agence Nationale de la Recherche
(Grant No. ANR-21-CE30-0021), the European Research Council (Grant No. ERC-2016-ADG-743159),
CNRS (Tremplin@INP 2020), and Région Ile-de-France in the framework of DIM SIRTEQ
(Super2D and SISCo) and DIM QuanTiP.
article_number: '013158'
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: Shuwei
full_name: Jin, Shuwei
last_name: Jin
- first_name: Kunlun
full_name: Dai, Kunlun
last_name: Dai
- first_name: Joris
full_name: Verstraten, Joris
last_name: Verstraten
- first_name: Maxime
full_name: Dixmerias, Maxime
last_name: Dixmerias
- first_name: Ragheed
full_name: Al Hyder, Ragheed
id: d1c405be-ae15-11ed-8510-ccf53278162e
last_name: Al Hyder
- first_name: Christophe
full_name: Salomon, Christophe
last_name: Salomon
- first_name: Bruno
full_name: Peaudecerf, Bruno
last_name: Peaudecerf
- first_name: Tim
full_name: de Jongh, Tim
last_name: de Jongh
- first_name: Tarik
full_name: Yefsah, Tarik
last_name: Yefsah
citation:
ama: Jin S, Dai K, Verstraten J, et al. Multipurpose platform for analog quantum
simulation. Physical Review Research. 2024;6(1). doi:10.1103/physrevresearch.6.013158
apa: Jin, S., Dai, K., Verstraten, J., Dixmerias, M., Al Hyder, R., Salomon, C.,
… Yefsah, T. (2024). Multipurpose platform for analog quantum simulation. Physical
Review Research. American Physical Society. https://doi.org/10.1103/physrevresearch.6.013158
chicago: Jin, Shuwei, Kunlun Dai, Joris Verstraten, Maxime Dixmerias, Ragheed Al
Hyder, Christophe Salomon, Bruno Peaudecerf, Tim de Jongh, and Tarik Yefsah. “Multipurpose
Platform for Analog Quantum Simulation.” Physical Review Research. American
Physical Society, 2024. https://doi.org/10.1103/physrevresearch.6.013158.
ieee: S. Jin et al., “Multipurpose platform for analog quantum simulation,”
Physical Review Research, vol. 6, no. 1. American Physical Society, 2024.
ista: Jin S, Dai K, Verstraten J, Dixmerias M, Al Hyder R, Salomon C, Peaudecerf
B, de Jongh T, Yefsah T. 2024. Multipurpose platform for analog quantum simulation.
Physical Review Research. 6(1), 013158.
mla: Jin, Shuwei, et al. “Multipurpose Platform for Analog Quantum Simulation.”
Physical Review Research, vol. 6, no. 1, 013158, American Physical Society,
2024, doi:10.1103/physrevresearch.6.013158.
short: S. Jin, K. Dai, J. Verstraten, M. Dixmerias, R. Al Hyder, C. Salomon, B.
Peaudecerf, T. de Jongh, T. Yefsah, Physical Review Research 6 (2024).
date_created: 2024-03-04T07:42:52Z
date_published: 2024-02-13T00:00:00Z
date_updated: 2024-03-04T07:55:29Z
day: '13'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.1103/physrevresearch.6.013158
external_id:
arxiv:
- '2304.08433'
file:
- access_level: open_access
checksum: ba2ae3e3a011f8897d3803c9366a67e2
content_type: application/pdf
creator: dernst
date_created: 2024-03-04T07:53:08Z
date_updated: 2024-03-04T07:53:08Z
file_id: '15054'
file_name: 2024_PhysicalReviewResearch_Jin.pdf
file_size: 4025988
relation: main_file
success: 1
file_date_updated: 2024-03-04T07:53:08Z
has_accepted_license: '1'
intvolume: ' 6'
issue: '1'
keyword:
- General Physics and Astronomy
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: Physical Review Research
publication_identifier:
issn:
- 2643-1564
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Multipurpose platform for analog quantum simulation
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: 6
year: '2024'
...
---
_id: '15177'
article_processing_charge: No
author:
- first_name: Doris
full_name: Ernst, Doris
id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
last_name: Ernst
orcid: 0000-0002-2354-0195
date_created: 2024-06-11T10:04:54Z
date_published: 2024-01-01T00:00:00Z
date_updated: 2024-06-11T10:05:06Z
department:
- _id: E-Lib
oa_version: None
publisher: ISTA
status: public
title: RD Ref
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '15262'
article_processing_charge: No
author:
- first_name: Doris
full_name: Ernst, Doris
id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
last_name: Ernst
orcid: 0000-0002-2354-0195
date_created: 2024-11-18T14:11:31Z
date_published: 2024-11-18T00:00:00Z
date_updated: 2024-11-19T09:19:59Z
day: '18'
department:
- _id: E-Lib
ec_funded: 1
language:
- iso: eng
month: '11'
oa_version: None
project:
- _id: 42f76822-911d-11ef-982b-ce758d810b28
grant_number: AB123
name: A Test Grant
- _id: 26336814-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '758053'
name: A Fiber Optic Transceiver for Superconducting Qubits
- _id: 4b739304-2d65-11ef-919e-fdbedb4a0279
grant_number: '345'
name: Aagain a test
publication: Today
status: public
title: Doris Test 18.11.
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '14213'
abstract:
- lang: eng
text: We introduce a method to segment the visual field into independently moving
regions, trained with no ground truth or supervision. It consists of an adversarial
conditional encoder-decoder architecture based on Slot Attention, modified to
use the image as context to decode optical flow without attempting to reconstruct
the image itself. In the resulting multi-modal representation, one modality (flow)
feeds the encoder to produce separate latent codes (slots), whereas the other
modality (image) conditions the decoder to generate the first (flow) from the
slots. This design frees the representation from having to encode complex nuisance
variability in the image due to, for instance, illumination and reflectance properties
of the scene. Since customary autoencoding based on minimizing the reconstruction
error does not preclude the entire flow from being encoded into a single slot,
we modify the loss to an adversarial criterion based on Contextual Information
Separation. The resulting min-max optimization fosters the separation of objects
and their assignment to different attention slots, leading to Divided Attention,
or DivA. DivA outperforms recent unsupervised multi-object motion segmentation
methods while tripling run-time speed up to 104FPS and reducing the performance
gap from supervised methods to 12% or less. DivA can handle different numbers
of objects and different image sizes at training and test time, is invariant to
permutation of object labels, and does not require explicit regularization.
article_processing_charge: No
arxiv: 1
author:
- first_name: Dong
full_name: Lao, Dong
last_name: Lao
- first_name: Zhengyang
full_name: Hu, Zhengyang
last_name: Hu
- first_name: Francesco
full_name: Locatello, Francesco
id: 26cfd52f-2483-11ee-8040-88983bcc06d4
last_name: Locatello
orcid: 0000-0002-4850-0683
- first_name: Yanchao
full_name: Yang, Yanchao
last_name: Yang
- first_name: Stefano
full_name: Soatto, Stefano
last_name: Soatto
conference:
end_date: 2024-01-03
location: Hong Kong, China
name: 'CPAL: Conference on Parsimony and Learning'
start_date: 2024-01-03
date_created: 2023-08-22T14:19:59Z
date_published: 2024-01-03T00:00:00Z
date_updated: 2025-02-13T08:10:28Z
day: '03'
ddc:
- '000'
department:
- _id: FrLo
external_id:
arxiv:
- '2304.01430'
file:
- access_level: open_access
checksum: 8fad894c34f1b3d5a14fb8ffb12f7277
content_type: application/pdf
creator: dernst
date_created: 2024-02-12T08:40:36Z
date_updated: 2024-02-12T08:40:36Z
file_id: '14978'
file_name: 2024_CPAL_Lao.pdf
file_size: 8038511
relation: main_file
success: 1
file_date_updated: 2024-02-12T08:40:36Z
has_accepted_license: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: 1st Conference on Parsimony and Learning
publication_identifier:
issnl:
- 1234-4321
publication_status: published
quality_controlled: '1'
status: public
title: 'Divided attention: Unsupervised multi-object discovery with contextually separated
slots'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '14251'
abstract:
- lang: eng
text: The phytohormone auxin and its directional transport through tissues play
a fundamental role in development of higher plants. This polar auxin transport
predominantly relies on PIN-FORMED (PIN) auxin exporters. Hence, PIN polarization
is crucial for development, but its evolution during the rise of morphological
complexity in land plants remains unclear. Here, we performed a cross-species
investigation by observing the trafficking and localization of endogenous and
exogenous PINs in two bryophytes, Physcomitrium patens and Marchantia polymorpha,
and in the flowering plant Arabidopsis thaliana. We confirmed that the GFP fusion
did not compromise the auxin export function of all examined PINs by using radioactive
auxin export assay and by observing the phenotypic changes in transgenic bryophytes.
Endogenous PINs polarize to filamentous apices, while exogenous Arabidopsis PINs
distribute symmetrically on the membrane in both bryophytes. In Arabidopsis root
epidermis, bryophytic PINs show no defined polarity. Pharmacological interference
revealed a strong cytoskeleton dependence of bryophytic but not Arabidopsis PIN
polarization. The divergence of PIN polarization and trafficking is also observed
within the bryophyte clade and between tissues of individual species. These results
collectively reveal a divergence of PIN trafficking and polarity mechanisms throughout
land plant evolution and a co-evolution of PIN sequence-based and cell-based polarity
mechanisms.
acknowledgement: This work was supported by the ERC grant (PR1023ERC02) to H. T. and
J. F., and by the ministry of science and technology (grant number 110-2636-B-005-001)
to K. J. L.
article_number: '100669'
article_processing_charge: Yes
article_type: original
author:
- first_name: Han
full_name: Tang, Han
id: 19BDF720-25A0-11EA-AC6E-928F3DDC885E
last_name: Tang
orcid: 0000-0001-6152-6637
- first_name: KJ
full_name: Lu, KJ
last_name: Lu
- first_name: Y
full_name: Zhang, Y
last_name: Zhang
- first_name: YL
full_name: Cheng, YL
last_name: Cheng
- first_name: SL
full_name: Tu, SL
last_name: Tu
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Tang H, Lu K, Zhang Y, Cheng Y, Tu S, Friml J. Divergence of trafficking and
polarization mechanisms for PIN auxin transporters during land plant evolution.
Plant Communications. 2024;5(1). doi:10.1016/j.xplc.2023.100669
apa: Tang, H., Lu, K., Zhang, Y., Cheng, Y., Tu, S., & Friml, J. (2024). Divergence
of trafficking and polarization mechanisms for PIN auxin transporters during land
plant evolution. Plant Communications. Elsevier. https://doi.org/10.1016/j.xplc.2023.100669
chicago: Tang, Han, KJ Lu, Y Zhang, YL Cheng, SL Tu, and Jiří Friml. “Divergence
of Trafficking and Polarization Mechanisms for PIN Auxin Transporters during Land
Plant Evolution.” Plant Communications. Elsevier, 2024. https://doi.org/10.1016/j.xplc.2023.100669.
ieee: H. Tang, K. Lu, Y. Zhang, Y. Cheng, S. Tu, and J. Friml, “Divergence of trafficking
and polarization mechanisms for PIN auxin transporters during land plant evolution,”
Plant Communications, vol. 5, no. 1. Elsevier, 2024.
ista: Tang H, Lu K, Zhang Y, Cheng Y, Tu S, Friml J. 2024. Divergence of trafficking
and polarization mechanisms for PIN auxin transporters during land plant evolution.
Plant Communications. 5(1), 100669.
mla: Tang, Han, et al. “Divergence of Trafficking and Polarization Mechanisms for
PIN Auxin Transporters during Land Plant Evolution.” Plant Communications,
vol. 5, no. 1, 100669, Elsevier, 2024, doi:10.1016/j.xplc.2023.100669.
short: H. Tang, K. Lu, Y. Zhang, Y. Cheng, S. Tu, J. Friml, Plant Communications
5 (2024).
date_created: 2023-09-01T11:32:02Z
date_published: 2024-01-08T00:00:00Z
date_updated: 2025-07-02T12:51:02Z
day: '08'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1016/j.xplc.2023.100669
ec_funded: 1
external_id:
pmid:
- '37528584'
file:
- access_level: open_access
checksum: edbc44c6d4a394d2bf70f92fdbb08f0a
content_type: application/pdf
creator: dernst
date_created: 2024-01-30T12:59:57Z
date_updated: 2024-01-30T12:59:57Z
file_id: '14911'
file_name: 2023_PlantCommunications_Tang.pdf
file_size: 2825565
relation: main_file
success: 1
file_date_updated: 2024-01-30T12:59:57Z
has_accepted_license: '1'
intvolume: ' 5'
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
publication: Plant Communications
publication_identifier:
issn:
- 2590-3462
issnl:
- 1234-4567
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Divergence of trafficking and polarization mechanisms for PIN auxin transporters
during land plant evolution
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: 5
year: '2024'
...
---
OA_place: repository
OA_type: green
_id: '12312'
abstract:
- lang: eng
text: "Let $\\ell$ be a prime number. We classify the subgroups $G$ of $\\operatorname{Sp}_4(\\mathbb{F}_\\ell)$
and $\\operatorname{GSp}_4(\\mathbb{F}_\\ell)$ that act irreducibly on $\\mathbb{F}_\\ell^4$,
but such that every element of $G$ fixes an $\\mathbb{F}_\\ell$-vector subspace
of dimension 1. We use this classification to prove that the local-global principle
for isogenies of degree $\\ell$ between abelian surfaces over number fields holds
in many cases -- in particular, whenever the abelian surface has non-trivial endomorphisms
and $\\ell$ is large enough with respect to the field of definition. Finally,
we prove that there exist arbitrarily large primes $\\ell$ for which some abelian
surface\r\n$A/\\mathbb{Q}$ fails the local-global principle for isogenies of degree
$\\ell$."
acknowledgement: "It is a pleasure to thank Samuele Anni for his interest in this
project and for several discussions on the topic of this paper, which led in particular
to Remark 6.30 and to a better understanding of the difficulties with [6]. We also
thank John Cullinan for correspondence about [6] and Barinder Banwait for his many
insightful comments on the first version of this paper. Finally, we thank the referee
for their thorough reading of the manuscript.\r\nOpen access funding provided by
Università di Pisa within the CRUI-CARE Agreement. The authors have been partially
supported by MIUR (Italy) through PRIN 2017 “Geometric, algebraic and analytic methods
in arithmetic\" and PRIN 2022 “Semiabelian varieties, Galois representations and
related Diophantine problems\", and by the University of Pisa through PRA 2018-19
and 2022 “Spazi di moduli, rappresentazioni e strutture combinatorie\". The first
author is a member of the INdAM group GNSAGA."
article_number: '18'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Davide
full_name: Lombardo, Davide
last_name: Lombardo
- first_name: Matteo
full_name: Verzobio, Matteo
id: 7aa8f170-131e-11ed-88e1-a9efd01027cb
last_name: Verzobio
orcid: 0000-0002-0854-0306
date_created: 2023-01-16T11:45:53Z
date_published: 2024-01-26T00:00:00Z
date_updated: 2025-02-13T11:47:12Z
day: '26'
department:
- _id: TiBr
doi: 10.1007/s00029-023-00908-0
external_id:
arxiv:
- '2206.15240'
intvolume: ' 30'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2206.15240
month: '01'
oa: 1
oa_version: Preprint
publication: Selecta Mathematica
publication_identifier:
eissn:
- 1420-9020
issn:
- 4321-1234
issnl:
- 1022-1824
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the local-global principle for isogenies of abelian surfaces
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 30
year: '2024'
...