---
OA_place: repository
OA_type: free access
_id: '18503'
abstract:
- lang: eng
  text: "In 1996, Karger [Kar96] gave a startling randomized algorithm that finds
    a minimum-cut in a (weighted) graph in time O(m log3 n) which he termed near-linear
    time meaning linear (in the size of the input) times a polylogarthmic factor.
    In this paper, we give the first deterministic algorithm which runs in near-linear
    time for weighted graphs.\r\nPreviously, the breakthrough results of Kawarabayashi
    and Thorup [KT19] gave a near-linear time algorithm for simple graphs (which was
    improved to have running time O(m log2 n log log n) in [HRW20].) The main technique
    here is a clustering procedure that perfectly preserves minimum cuts. Recently,
    Li [Li21] gave an m1+o(1) deterministic minimum-cut algorithm for weighted graphs;
    this form of running time has been termed “almost-linear”. Li uses almost-linear
    time deterministic expander decompositions which do not perfectly preserve minimum
    cuts, but he can use these clusterings to, in a sense, “derandomize” the methods
    of Karger.\r\nIn terms of techniques, we provide a structural theorem that says
    there exists a sparse clustering that preserves minimum cuts in a weighted graph
    with o(1) error. In addition, we construct it deterministically in near linear
    time. This was done exactly for simple graphs in [KT19, HRW20] and with polylogarithmic
    error for weighted graphs in [Li21]. Extending the techniques in [KT19, HRW20]
    to weighted graphs presents significant challenges, and moreover, the algorithm
    can only polylogarithmically approximately preserve minimum cuts. A remaining
    challenge is to reduce the polylogarithmic-approximate clusterings to 1 + o(1/
    log n)-approximate so that they can be applied recursively as in [Li21] over O(log
    n) many levels. This is an additional challenge that requires building on properties
    of tree-packings in the presence of a wide range of edge weights to, for example,
    find sources for local flow computations which identify minimum cuts that cross
    clusters."
acknowledgement: 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 “The Design of Modern Fully Dynamic Data Structures (MoDyn-Struct)”
  and the Austrian Science Fund (FWF) project Z 422-N, project “Static and Dynamic
  Hierarchical Graph Decompositions”, I 5982-N, and project “Fast Algorithms for a
  Reactive Network Layer (ReactNet)”, P33775-N, with additional funding from the netidee
  SCIENCE Stiftung, 2020–2024.
article_processing_charge: No
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: Jason
  full_name: Li, Jason
  last_name: Li
- first_name: Satish
  full_name: Rao, Satish
  last_name: Rao
- first_name: Di
  full_name: Wang, Di
  last_name: Wang
citation:
  ama: 'Henzinger M, Li J, Rao S, Wang D. Deterministic near-linear time minimum cut
    in weighted graphs. In: <i>35th Annual ACM-SIAM Symposium on Discrete Algorithms</i>.
    Society for Industrial and Applied Mathematics; 2024:3089-3139. doi:<a href="https://doi.org/10.1137/1.9781611977912.111">10.1137/1.9781611977912.111</a>'
  apa: 'Henzinger, M., Li, J., Rao, S., &#38; Wang, D. (2024). Deterministic near-linear
    time minimum cut in weighted graphs. In <i>35th Annual ACM-SIAM Symposium on Discrete
    Algorithms</i> (pp. 3089–3139). Alexandria, VA,  United States: Society for Industrial
    and Applied Mathematics. <a href="https://doi.org/10.1137/1.9781611977912.111">https://doi.org/10.1137/1.9781611977912.111</a>'
  chicago: Henzinger, Monika, Jason Li, Satish Rao, and Di Wang. “Deterministic Near-Linear
    Time Minimum Cut in Weighted Graphs.” In <i>35th Annual ACM-SIAM Symposium on
    Discrete Algorithms</i>, 3089–3139. Society for Industrial and Applied Mathematics,
    2024. <a href="https://doi.org/10.1137/1.9781611977912.111">https://doi.org/10.1137/1.9781611977912.111</a>.
  ieee: M. Henzinger, J. Li, S. Rao, and D. Wang, “Deterministic near-linear time
    minimum cut in weighted graphs,” in <i>35th Annual ACM-SIAM Symposium on Discrete
    Algorithms</i>, Alexandria, VA,  United States, 2024, pp. 3089–3139.
  ista: 'Henzinger M, Li J, Rao S, Wang D. 2024. Deterministic near-linear time minimum
    cut in weighted graphs. 35th Annual ACM-SIAM Symposium on Discrete Algorithms.
    SODA: Symposium on Discrete Algorithms, 3089–3139.'
  mla: Henzinger, Monika, et al. “Deterministic Near-Linear Time Minimum Cut in Weighted
    Graphs.” <i>35th Annual ACM-SIAM Symposium on Discrete Algorithms</i>, Society
    for Industrial and Applied Mathematics, 2024, pp. 3089–139, doi:<a href="https://doi.org/10.1137/1.9781611977912.111">10.1137/1.9781611977912.111</a>.
  short: M. Henzinger, J. Li, S. Rao, D. Wang, in:, 35th Annual ACM-SIAM Symposium
    on Discrete Algorithms, Society for Industrial and Applied Mathematics, 2024,
    pp. 3089–3139.
conference:
  end_date: 2024-01-10
  location: Alexandria, VA,  United States
  name: 'SODA: Symposium on Discrete Algorithms'
  start_date: 2024-01-07
corr_author: '1'
date_created: 2024-11-04T10:54:21Z
date_published: 2024-01-04T00:00:00Z
date_updated: 2025-06-24T12:09:26Z
day: '04'
department:
- _id: MoHe
doi: 10.1137/1.9781611977912.111
ec_funded: 1
external_id:
  arxiv:
  - '2401.05627'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2401.05627
month: '01'
oa: 1
oa_version: Preprint
page: 3089-3139
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: 35th Annual ACM-SIAM Symposium on Discrete Algorithms
publication_identifier:
  eisbn:
  - '9781611977912'
publication_status: published
publisher: Society for Industrial and Applied Mathematics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Deterministic near-linear time minimum cut in weighted graphs
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
OA_place: publisher
OA_type: gold
_id: '18515'
abstract:
- lang: eng
  text: "Understanding the role of evolutionary processes in shaping genetic variation
    has been a\r\nprimary goal in evolutionary genetics. In this regard, a key question
    is how genetically\r\ndistinct populations evolve in the face of gene flow, thereby
    generating genetic and\r\nphenotypic divergence and reproductive isolation (RI).
    This requires quantifying the role\r\nand relative contributions of prezygotic
    and postzygotic isolating mechanisms on the\r\nreduction of gene exchange between
    populations, and identifying regions in the genome\r\nthat mediate RI, which is
    often polygenic. Further, this needs distinguishing neutral and\r\nselected regions
    in the genome, and discerning how selection influences patterns of neutral\r\ndivergence.\r\nPopulation
    structure, defined as any deviation from panmixia, such as geographic distribution,
    movement and mating patterns of individuals, influences how genetic variation
    is\r\nstructured in space and shapes the neutral null model. Availability of large
    scale spatial\r\ngenomic datasets now enables us to detect signatures of population
    structure in genetic\r\ndata and infer population genetic parameters. Such inferences
    are crucial and have wide\r\napplications in biodiversity, conservation genetics,
    population management and medical\r\ngenetics. However, inferences are based on
    assumptions that do not always match the\r\ncomplex reality, thus leading to erroneous
    conclusions. Moreover, the role and interaction\r\nof heterogeneous population
    density and dispersal, which are ubiquitous in nature, has\r\nbeen challenging
    to study owing to their mathematical complexity. In such scenarios,\r\nfeedback
    between theory, data and simulations can prove to be useful.\r\nIn this thesis,
    I examine the effect of population structure on neutral genetic variation\r\nand
    barriers to gene exchange in hybridising populations, thereby bridging together
    the\r\nfields of spatial population genetics and speciation.\r\nDespite being
    a key concept in speciation, reproductive isolation (RI) lacks a quantitative\r\ndefinition
    and has been used and measured differently across different fields. Chapter 2\r\ngives
    a quantitative definition of RI, in terms of the effect of genetic differences
    on gene\r\nflow. We give analytical predictions for RI in a range of scenarios,
    in terms of effective migration rates for discrete populations and barrier strength
    for continuous populations.\r\nIn addition to this, we discuss current measures
    of RI and their limitations, and propose\r\nthe need for new measures that combine
    organismal and genetic perspectives of RI.\r\nIn chapter 3, I examine the combined
    effect of assortative mating, sexual selection\r\nand viability selection on RI.
    For this, we consider a polygenic ‘magic’ trait under a\r\nmainland-island model.
    We obtain novel theoretical predictions for molecular divergence\r\nin terms of
    effective migration rates, which bears a simple relationship to measurable\r\nfitness
    components of migrants and various early generation hybrids. We explore the\r\nconditions
    under which local adaptation can be maintained despite maladaptive gene flow\r\nand
    quantify the relative contributions of viability and sexual selection to genome-wide\r\nbarriers
    to gene flow.\r\nThe next two chapters of the thesis focus on a hybrid zone of
    Antirrhinum majus that\r\nconsist of two subspecies- the magenta flowered A. m.
    pseudomajus and the yellow\r\nflowered A.m. striatum. Previous studies have suggested
    that flower colour is target of\r\npollinator mediated selection and is influenced
    only by few genes. While these regions\r\nshow high genetic differentiation between
    the subspecies, the rest of the genome is seen\r\nto be well mixed. Chapter 4
    examines the effects of heterogeneous population density\r\nand leptokurtic dispersal
    on isolation by distance and the distribution of heterozygosity\r\nby focusing
    on non-flower colour markers.\r\nChapter 5 analyses cline shapes and associations
    among 6 focal flower colour markers to\r\nunderstand how selection and dispersal
    maintain this hybrid zone. We see sharp coincident\r\nstepped clines at all loci
    and positive associations throughout the hybrid zone, contrary to\r\nthe expected
    patterns from diffusive gene flow. With a novel scheme of inferring dispersal\r\ncombined
    with multilocus simulations, we show that stepped clines do not reflect genetic\r\nbarriers
    to gene flow, but are rather a result of long-distance migration. This framework\r\nallows
    us to get realistic estimates gene flow and selection and shows how traditional
    cline\r\nanalysis may lead to inaccurate conclusions when assumptions of the theory
    are not met.\r\nOverall, this thesis investigates how different features of population
    structure leave\r\ndetectable signatures in genetic variation, namely in patterns
    of isolation by distance,\r\nlinkage disequilibrium and genetic divergence. It
    also highlights how effective migration\r\nrates provide useful way of analysing
    polygenic architectures and shed new light into\r\nhybrid zones. In doing so,
    I identify scenarios when simple models become insufficient\r\nand suggest possibe
    directions by combining genetic data with simulations."
acknowledged_ssus:
- _id: ScienComp
acknowledgement: "I also acknowledge the funding agencies Marie Curie COFUND Doctoral
  Fellowship,\r\nAustrian Science Fund FWF (grant P32166) and ERC (grant PR1000ERC02)
  for financially\r\nsupporting my research over the years."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Parvathy
  full_name: Surendranadh, Parvathy
  id: 455235B8-F248-11E8-B48F-1D18A9856A87
  last_name: Surendranadh
  orcid: 0000-0001-6395-386X
citation:
  ama: Surendranadh P. Effect of population structure on neutral genetic variation
    and barriers to gene exchange. 2024. doi:<a href="https://doi.org/10.15479/at:ista:18515">10.15479/at:ista:18515</a>
  apa: Surendranadh, P. (2024). <i>Effect of population structure on neutral genetic
    variation and barriers to gene exchange</i>. Institute of Science and Technology
    Austria. <a href="https://doi.org/10.15479/at:ista:18515">https://doi.org/10.15479/at:ista:18515</a>
  chicago: Surendranadh, Parvathy. “Effect of Population Structure on Neutral Genetic
    Variation and Barriers to Gene Exchange.” Institute of Science and Technology
    Austria, 2024. <a href="https://doi.org/10.15479/at:ista:18515">https://doi.org/10.15479/at:ista:18515</a>.
  ieee: P. Surendranadh, “Effect of population structure on neutral genetic variation
    and barriers to gene exchange,” Institute of Science and Technology Austria, 2024.
  ista: Surendranadh P. 2024. Effect of population structure on neutral genetic variation
    and barriers to gene exchange. Institute of Science and Technology Austria.
  mla: Surendranadh, Parvathy. <i>Effect of Population Structure on Neutral Genetic
    Variation and Barriers to Gene Exchange</i>. Institute of Science and Technology
    Austria, 2024, doi:<a href="https://doi.org/10.15479/at:ista:18515">10.15479/at:ista:18515</a>.
  short: P. Surendranadh, Effect of Population Structure on Neutral Genetic Variation
    and Barriers to Gene Exchange, Institute of Science and Technology Austria, 2024.
corr_author: '1'
date_created: 2024-11-06T21:25:37Z
date_published: 2024-11-07T00:00:00Z
date_updated: 2026-04-07T12:56:52Z
day: '07'
ddc:
- '576'
degree_awarded: PhD
department:
- _id: GradSch
- _id: NiBa
doi: 10.15479/at:ista:18515
file:
- access_level: open_access
  checksum: c32cf7bc75748d9c551d8eb70178bbec
  content_type: application/pdf
  creator: psurendr
  date_created: 2024-11-07T10:59:29Z
  date_updated: 2024-11-07T10:59:29Z
  file_id: '18519'
  file_name: PhD_Thesis__Parvathy_071124_PDFA.pdf
  file_size: 37019760
  relation: main_file
  success: 1
- access_level: closed
  checksum: 4417e02d54084d89e75734e18caaa96d
  content_type: application/zip
  creator: psurendr
  date_created: 2024-11-07T10:59:42Z
  date_updated: 2024-11-07T10:59:42Z
  file_id: '18520'
  file_name: PhD Thesis- Parvathy_071124.zip
  file_size: 41198857
  relation: source_file
file_date_updated: 2024-11-07T10:59:42Z
has_accepted_license: '1'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: '219'
project:
- _id: 05959E1C-7A3F-11EA-A408-12923DDC885E
  grant_number: P32166
  name: Snapdragon Speciation
- _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
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
title: Effect of population structure on neutral genetic variation and barriers to
  gene exchange
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: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2024'
...
---
APC_amount: 2748 EUR
OA_place: publisher
OA_type: hybrid
_id: '18521'
abstract:
- lang: eng
  text: In distributed systems with processes that do not share a global clock, partial
    synchrony is achieved by clock synchronization that guarantees bounded clock skew
    among all applications. Existing solutions for distributed runtime verification
    under partial synchrony against temporal logic specifications are exact but suffer
    from significant computational overhead. In this paper, we propose an approximate
    distributed monitoring algorithm for Signal Temporal Logic (STL) that mitigates
    this issue by abstracting away potential interleaving behaviors. This conservative
    abstraction enables a significant speedup of the distributed monitors, albeit
    with a tradeoff in accuracy. We address this tradeoff with a methodology that
    combines our approximate monitor with its exact counterpart, resulting in enhanced
    efficiency without sacrificing precision. We evaluate our approach with multiple
    experiments, showcasing its efficacy in both real-world applications and synthetic
    examples.
acknowledgement: This work was supported in part by the ERC-2020-AdG 101020093. This
  work is sponsored in part by the United States NSF CCF-2118356 award. This research
  was partially funded by A-IQ Ready (Chips JU, grant agreement No. 101096658).
alternative_title:
- LNCS
article_processing_charge: Yes (in subscription journal)
arxiv: 1
author:
- first_name: Borzoo
  full_name: Bonakdarpour, Borzoo
  last_name: Bonakdarpour
- first_name: Anik
  full_name: Momtaz, Anik
  last_name: Momtaz
- first_name: Dejan
  full_name: Nickovic, Dejan
  id: 41BCEE5C-F248-11E8-B48F-1D18A9856A87
  last_name: Nickovic
- first_name: Naci E
  full_name: Sarac, Naci E
  id: 8C6B42F8-C8E6-11E9-A03A-F2DCE5697425
  last_name: Sarac
citation:
  ama: 'Bonakdarpour B, Momtaz A, Nickovic D, Sarac NE. Approximate distributed monitoring
    under partial synchrony: Balancing speed &#38; accuracy. In: <i>24th International
    Conference on Runtime Verification</i>. Vol 15191. Springer Nature; 2024:282-301.
    doi:<a href="https://doi.org/10.1007/978-3-031-74234-7_18">10.1007/978-3-031-74234-7_18</a>'
  apa: 'Bonakdarpour, B., Momtaz, A., Nickovic, D., &#38; Sarac, N. E. (2024). Approximate
    distributed monitoring under partial synchrony: Balancing speed &#38; accuracy.
    In <i>24th International Conference on Runtime Verification</i> (Vol. 15191, pp.
    282–301). Istanbul, Turkey: Springer Nature. <a href="https://doi.org/10.1007/978-3-031-74234-7_18">https://doi.org/10.1007/978-3-031-74234-7_18</a>'
  chicago: 'Bonakdarpour, Borzoo, Anik Momtaz, Dejan Nickovic, and Naci E Sarac. “Approximate
    Distributed Monitoring under Partial Synchrony: Balancing Speed &#38; Accuracy.”
    In <i>24th International Conference on Runtime Verification</i>, 15191:282–301.
    Springer Nature, 2024. <a href="https://doi.org/10.1007/978-3-031-74234-7_18">https://doi.org/10.1007/978-3-031-74234-7_18</a>.'
  ieee: 'B. Bonakdarpour, A. Momtaz, D. Nickovic, and N. E. Sarac, “Approximate distributed
    monitoring under partial synchrony: Balancing speed &#38; accuracy,” in <i>24th
    International Conference on Runtime Verification</i>, Istanbul, Turkey, 2024,
    vol. 15191, pp. 282–301.'
  ista: 'Bonakdarpour B, Momtaz A, Nickovic D, Sarac NE. 2024. Approximate distributed
    monitoring under partial synchrony: Balancing speed &#38; accuracy. 24th International
    Conference on Runtime Verification. RV: Conference on Runtime Verification, LNCS,
    vol. 15191, 282–301.'
  mla: 'Bonakdarpour, Borzoo, et al. “Approximate Distributed Monitoring under Partial
    Synchrony: Balancing Speed &#38; Accuracy.” <i>24th International Conference on
    Runtime Verification</i>, vol. 15191, Springer Nature, 2024, pp. 282–301, doi:<a
    href="https://doi.org/10.1007/978-3-031-74234-7_18">10.1007/978-3-031-74234-7_18</a>.'
  short: B. Bonakdarpour, A. Momtaz, D. Nickovic, N.E. Sarac, in:, 24th International
    Conference on Runtime Verification, Springer Nature, 2024, pp. 282–301.
conference:
  end_date: 2024-10-17
  location: Istanbul, Turkey
  name: 'RV: Conference on Runtime Verification'
  start_date: 2024-10-15
corr_author: '1'
date_created: 2024-11-10T23:01:58Z
date_published: 2024-10-12T00:00:00Z
date_updated: 2026-05-20T08:43:20Z
day: '12'
ddc:
- '000'
department:
- _id: ToHe
- _id: GradSch
doi: 10.1007/978-3-031-74234-7_18
ec_funded: 1
external_id:
  arxiv:
  - '2408.05033'
  isi:
  - '001420093700018'
file:
- access_level: open_access
  checksum: 7b8ca21b8c19ab796fa445b0e54003ca
  content_type: application/pdf
  creator: dernst
  date_created: 2024-11-11T09:42:28Z
  date_updated: 2024-11-11T09:42:28Z
  file_id: '18539'
  file_name: 2024_LNCS_Bonakdarpour.pdf
  file_size: 1897101
  relation: main_file
  success: 1
file_date_updated: 2024-11-11T09:42:28Z
has_accepted_license: '1'
intvolume: '     15191'
isi: 1
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 282-301
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
  call_identifier: H2020
  grant_number: '101020093'
  name: Vigilant Algorithmic Monitoring of Software
publication: 24th International Conference on Runtime Verification
publication_identifier:
  eissn:
  - 1611-3349
  isbn:
  - '9783031742330'
  issn:
  - 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Approximate distributed monitoring under partial synchrony: Balancing speed
  & accuracy'
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: 15191
year: '2024'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '18523'
abstract:
- lang: eng
  text: "Recent observations from the EIGER JWST program have measured for the first
    time the quasar–galaxy cross-correlation function at z ≈ 6. The autocorrelation
    function of faint z ≈ 6 quasars was also recently estimated. These measurements
    provide key insights into the properties of quasars and galaxies at high redshift
    and their relation with the host dark matter haloes. In this work, we interpret
    these data building upon an empirical quasar population model that has been applied
    successfully to quasar clustering and demographic measurements at z ≈ 2–4. We
    use a new, large-volume N-body simulation with more than a trillion particles,
    FLAMINGO-10k, to model quasars and galaxies simultaneously. We successfully reproduce
    observations of z ≈ 6 quasars and galaxies (i.e. their clustering properties and
    luminosity functions), and infer key quantities such as their luminosity–halo
    mass relation, the mass function of their host haloes, and their duty cycle/occupation
    fraction. Our key findings\r\nare (i) quasars reside on average in ≈ 1012.5 M
    haloes (corresponding to ≈ 5σ fluctuations in the initial conditions of the linear
    density field), but the distribution of host halo masses is quite broad; (ii)
    the duty cycle of (UV-bright) quasar activity is relatively low (≈ 1 per cent);
    (iii) galaxies (that are bright in [O III]) live in much smaller haloes (≈ 1010.9
    M) and have a larger duty cycle (occupation fraction) of ≈ 13 per cent. Finally,
    we focus on the inferred properties of quasars and present a homogeneous analysis
    of their evolution with redshift. The picture that emerges reveals a strong evolution
    of the host halo mass and duty cycle of quasars at z ≈ 2–6, and calls for new
    investigations of the role of quasar activity across cosmic time."
acknowledgement: "We are grateful to Junya Arita and the SHELLQs team for sharing
  their data on the quasar autocorrelation function and to Jan-Torge Schindler for
  discussion on the QLF. We acknowledge helpful conversations with the ENIGMA group
  at UC Santa Barbara and Leiden University. EP is grateful to Rob McGibbon and Victor
  Forouhar Moreno for help with the simulation outputs, and to Timo Kist, Jiamu Huang,
  and Vikram Khaire for comments on an early version of the manuscript. JFH and EP
  acknowledge support from the European Research Council (ERC) under the European
  Union’s Horizon 2020 research and innovation program (grant agreement No 885301).
  This work is partly supported by funding from the European Union’s Horizon 2020
  research and innovation programme under the Marie Skłodowska-Curie grant agreement
  No 860744 (BiD4BESt). FW acknowledges support from NSF grant AST-2308258. This work
  used the DiRAC Memory Intensive service (Cosma8) at the University of Durham, which
  is part of the STFC DiRAC HPC Facility (www.dirac.ac.uk). Access to DiRAC resources
  was granted through a Director’s Discretionary Time allocation in 2023/24, under
  the auspices of the UKRI-funded\r\nDiRAC Federation Project. The equipment was funded
  by BEIS capital funding via STFC capital grants ST/K00042X/1, ST/P002293/1, ST/R002371/1,
  and ST/S002502/1, Durham University, and STFC operations grant ST/R000832/1. DiRAC
  is part of the National e-Infrastructure."
article_processing_charge: Yes
article_type: original
author:
- first_name: Elia
  full_name: Pizzati, Elia
  last_name: Pizzati
- first_name: Joseph F.
  full_name: Hennawi, Joseph F.
  last_name: Hennawi
- first_name: Joop
  full_name: Schaye, Joop
  last_name: Schaye
- first_name: Matthieu
  full_name: Schaller, Matthieu
  last_name: Schaller
- first_name: Anna Christina
  full_name: Eilers, Anna Christina
  last_name: Eilers
- first_name: Feige
  full_name: Wang, Feige
  last_name: Wang
- first_name: Carlos S.
  full_name: Frenk, Carlos S.
  last_name: Frenk
- first_name: Willem
  full_name: Elbers, Willem
  last_name: Elbers
- first_name: John C.
  full_name: Helly, John C.
  last_name: Helly
- first_name: Ruari
  full_name: Mackenzie, Ruari
  last_name: Mackenzie
- first_name: Jorryt J
  full_name: Matthee, Jorryt J
  id: 7439a258-f3c0-11ec-9501-9df22fe06720
  last_name: Matthee
  orcid: 0000-0003-2871-127X
- first_name: Rongmon
  full_name: Bordoloi, Rongmon
  last_name: Bordoloi
- first_name: Daichi
  full_name: Kashino, Daichi
  last_name: Kashino
- first_name: Rohan P.
  full_name: Naidu, Rohan P.
  last_name: Naidu
- first_name: Minghao
  full_name: Yue, Minghao
  last_name: Yue
citation:
  ama: Pizzati E, Hennawi JF, Schaye J, et al. A unified model for the clustering
    of quasars and galaxies at z ≈ 6. <i>Monthly Notices of the Royal Astronomical
    Society</i>. 2024;534(4):3155-3175. doi:<a href="https://doi.org/10.1093/mnras/stae2307">10.1093/mnras/stae2307</a>
  apa: Pizzati, E., Hennawi, J. F., Schaye, J., Schaller, M., Eilers, A. C., Wang,
    F., … Yue, M. (2024). A unified model for the clustering of quasars and galaxies
    at z ≈ 6. <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University
    Press. <a href="https://doi.org/10.1093/mnras/stae2307">https://doi.org/10.1093/mnras/stae2307</a>
  chicago: Pizzati, Elia, Joseph F. Hennawi, Joop Schaye, Matthieu Schaller, Anna
    Christina Eilers, Feige Wang, Carlos S. Frenk, et al. “A Unified Model for the
    Clustering of Quasars and Galaxies at z ≈ 6.” <i>Monthly Notices of the Royal
    Astronomical Society</i>. Oxford University Press, 2024. <a href="https://doi.org/10.1093/mnras/stae2307">https://doi.org/10.1093/mnras/stae2307</a>.
  ieee: E. Pizzati <i>et al.</i>, “A unified model for the clustering of quasars and
    galaxies at z ≈ 6,” <i>Monthly Notices of the Royal Astronomical Society</i>,
    vol. 534, no. 4. Oxford University Press, pp. 3155–3175, 2024.
  ista: Pizzati E, Hennawi JF, Schaye J, Schaller M, Eilers AC, Wang F, Frenk CS,
    Elbers W, Helly JC, Mackenzie R, Matthee JJ, Bordoloi R, Kashino D, Naidu RP,
    Yue M. 2024. A unified model for the clustering of quasars and galaxies at z ≈
    6. Monthly Notices of the Royal Astronomical Society. 534(4), 3155–3175.
  mla: Pizzati, Elia, et al. “A Unified Model for the Clustering of Quasars and Galaxies
    at z ≈ 6.” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 534,
    no. 4, Oxford University Press, 2024, pp. 3155–75, doi:<a href="https://doi.org/10.1093/mnras/stae2307">10.1093/mnras/stae2307</a>.
  short: E. Pizzati, J.F. Hennawi, J. Schaye, M. Schaller, A.C. Eilers, F. Wang, C.S.
    Frenk, W. Elbers, J.C. Helly, R. Mackenzie, J.J. Matthee, R. Bordoloi, D. Kashino,
    R.P. Naidu, M. Yue, Monthly Notices of the Royal Astronomical Society 534 (2024)
    3155–3175.
date_created: 2024-11-10T23:01:58Z
date_published: 2024-11-01T00:00:00Z
date_updated: 2025-09-08T14:40:22Z
day: '01'
ddc:
- '520'
department:
- _id: JoMa
doi: 10.1093/mnras/stae2307
external_id:
  isi:
  - '001335663900008'
file:
- access_level: open_access
  checksum: 9ea6285dd1d04d7a9e7b40a4c9e11edb
  content_type: application/pdf
  creator: dernst
  date_created: 2024-11-12T07:17:26Z
  date_updated: 2024-11-12T07:17:26Z
  file_id: '18542'
  file_name: 2024_MonthlyNRoyalAstronSoc_Pizzati.pdf
  file_size: 2954312
  relation: main_file
  success: 1
file_date_updated: 2024-11-12T07:17:26Z
has_accepted_license: '1'
intvolume: '       534'
isi: 1
issue: '4'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 3155-3175
publication: Monthly Notices of the Royal Astronomical Society
publication_identifier:
  eissn:
  - 1365-2966
  issn:
  - 0035-8711
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: A unified model for the clustering of quasars and galaxies at z ≈ 6
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 534
year: '2024'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '18524'
abstract:
- lang: eng
  text: Recent works have constrained the binary fraction of evolved populations of
    massive stars in local galaxies such as red supergiants and Wolf–Rayet stars,
    but the binary fraction of yellow supergiants (YSGs) in the Hertzsprung gap remains
    unconstrained. Binary evolution theory predicts that the Hertzsprung gap is home
    to multiple populations of binary systems with varied evolutionary histories.
    In this paper, we develop a method to distinguish single YSGs from YSG plus O-
    or B-type main-sequence binaries using optical and ultraviolet photometry, and
    then apply this method to identify candidate YSG binaries in the Magellanic Clouds.
    After constructing a set of combined stellar atmosphere models, we find that optical
    photometry is, given typical measurement and reddening uncertainties, sufficient
    to discern single YSGs from YSG+OB binaries if the OB-star is at least ∼5M⊙ for
    Teff,YSG ∼ 4000 K, but requires a ∼20M⊙ OB star for YSGs up to Teff,YSG ∼ 9000
    K. For these hotter YSG temperatures, ultraviolet photometry allows binaries with
    OB companions as small as ∼7M⊙ to be identified. We use color–color spaces developed
    from these models to search for evidence of excess blue or ultraviolet light in
    a set of ∼1000 YSG candidates in the Magellanic Clouds. We identify hundreds of
    candidate YSG binary systems and report a preliminary fraction of YSGs that show
    a blue/UV color excess of 20%–60%. Spectroscopic follow-up is now required to
    confirm the true nature of this population.
acknowledgement: "The authors thank Aaron Tohuvavohu, Katie Breivik, Marten van Kerkwijk,
  Jakub Klencki, Eva Laplace, and Dae-Sik Moon for helpful discussions, and Adiv Paradise
  for helpful edits. The authors also thank the anonymous reviewer for a helpful and
  constructive referee report.\r\nThe authors at the University of Toronto acknowledge
  that the land on which the University of Toronto operates is the traditional territory
  of the Huron–Wendat, the Seneca, and the Mississaugas of the Credit River. They
  are grateful to have the opportunity to work on this land.\r\nThe Dunlap Institute
  is funded through an endowment established by the David Dunlap family and the University
  of Toronto.\r\nA.J.G.O. is supported by a McWilliams Fellowship at Carnegie Mellon
  University. M.R.D. acknowledges support from the NSERC through grant RGPIN-2019-06186,
  the Canada Research Chairs Program, and the Dunlap Institute at the University of
  Toronto. B.M.G. acknowledges the support of the Natural Sciences and Engineering
  Research Council of Canada (NSERC) through grant RGPIN-2022-03163, and of the Canada
  Research Chairs program. Support for this work was provided by NASA through the
  NASA Hubble Fellowship Program grant Nos. HST-HF2-51457.001-A and HST-HF2-51516
  awarded by the Space Telescope Science Institute, which is operated by the Association
  of Universities for Research in Astronomy, Inc., for NASA, under contract NAS5-26555.\r\nThis
  research has made use of the SIMBAD database (M. Wenger et al. 2000), operated at
  CDS, Strasbourg, France, and the SVO Filter Profile Service 13 supported by the
  Spanish MINECO through grant AYA2017-84089 (C. Rodrigo et al. 2012, 2020).\r\nThis
  research has made use of the following software: astropy (Astropy Collaboration
  et al. 2013, 2018, 2022), IRAF (D. Tody 1986, 1993), and TOPCAT (M. B. Taylor 2005)."
article_number: '29'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Anna J.G.
  full_name: O’Grady, Anna J.G.
  last_name: O’Grady
- first_name: Maria R.
  full_name: Drout, Maria R.
  last_name: Drout
- first_name: Kathryn F.
  full_name: Neugent, Kathryn F.
  last_name: Neugent
- first_name: Bethany
  full_name: Ludwig, Bethany
  last_name: Ludwig
- first_name: Ylva Louise Linsdotter
  full_name: Götberg, Ylva Louise Linsdotter
  id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d
  last_name: Götberg
  orcid: 0000-0002-6960-6911
- first_name: B. M.
  full_name: Gaensler, B. M.
  last_name: Gaensler
citation:
  ama: O’Grady AJG, Drout MR, Neugent KF, Ludwig B, Götberg YLL, Gaensler BM. Binary
    yellow supergiants in the Magellanic Clouds. I. Photometric candidate identification.
    <i>Astrophysical Journal</i>. 2024;975. doi:<a href="https://doi.org/10.3847/1538-4357/ad778a">10.3847/1538-4357/ad778a</a>
  apa: O’Grady, A. J. G., Drout, M. R., Neugent, K. F., Ludwig, B., Götberg, Y. L.
    L., &#38; Gaensler, B. M. (2024). Binary yellow supergiants in the Magellanic
    Clouds. I. Photometric candidate identification. <i>Astrophysical Journal</i>.
    IOP Publishing. <a href="https://doi.org/10.3847/1538-4357/ad778a">https://doi.org/10.3847/1538-4357/ad778a</a>
  chicago: O’Grady, Anna J.G., Maria R. Drout, Kathryn F. Neugent, Bethany Ludwig,
    Ylva Louise Linsdotter Götberg, and B. M. Gaensler. “Binary Yellow Supergiants
    in the Magellanic Clouds. I. Photometric Candidate Identification.” <i>Astrophysical
    Journal</i>. IOP Publishing, 2024. <a href="https://doi.org/10.3847/1538-4357/ad778a">https://doi.org/10.3847/1538-4357/ad778a</a>.
  ieee: A. J. G. O’Grady, M. R. Drout, K. F. Neugent, B. Ludwig, Y. L. L. Götberg,
    and B. M. Gaensler, “Binary yellow supergiants in the Magellanic Clouds. I. Photometric
    candidate identification,” <i>Astrophysical Journal</i>, vol. 975. IOP Publishing,
    2024.
  ista: O’Grady AJG, Drout MR, Neugent KF, Ludwig B, Götberg YLL, Gaensler BM. 2024.
    Binary yellow supergiants in the Magellanic Clouds. I. Photometric candidate identification.
    Astrophysical Journal. 975, 29.
  mla: O’Grady, Anna J. G., et al. “Binary Yellow Supergiants in the Magellanic Clouds.
    I. Photometric Candidate Identification.” <i>Astrophysical Journal</i>, vol. 975,
    29, IOP Publishing, 2024, doi:<a href="https://doi.org/10.3847/1538-4357/ad778a">10.3847/1538-4357/ad778a</a>.
  short: A.J.G. O’Grady, M.R. Drout, K.F. Neugent, B. Ludwig, Y.L.L. Götberg, B.M.
    Gaensler, Astrophysical Journal 975 (2024).
date_created: 2024-11-10T23:01:59Z
date_published: 2024-11-01T00:00:00Z
date_updated: 2025-09-08T14:37:18Z
day: '01'
ddc:
- '520'
department:
- _id: YlGo
doi: 10.3847/1538-4357/ad778a
external_id:
  arxiv:
  - '2406.17177'
  isi:
  - '001339486900001'
file:
- access_level: open_access
  checksum: 0e9bb88b5048ecc782ac27953c84b8ce
  content_type: application/pdf
  creator: dernst
  date_created: 2024-11-11T09:20:45Z
  date_updated: 2024-11-11T09:20:45Z
  file_id: '18535'
  file_name: 2024_AstrophysicalJour_Grady.pdf
  file_size: 34634395
  relation: main_file
  success: 1
file_date_updated: 2024-11-11T09:20:45Z
has_accepted_license: '1'
intvolume: '       975'
isi: 1
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
publication: Astrophysical Journal
publication_identifier:
  eissn:
  - 1538-4357
  issn:
  - 0004-637X
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Binary yellow supergiants in the Magellanic Clouds. I. Photometric candidate
  identification
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 975
year: '2024'
...
---
APC_amount: 3062,93 EUR
OA_place: publisher
OA_type: hybrid
_id: '18525'
abstract:
- lang: eng
  text: As their statistical power grows, genome-wide association studies (GWAS) have
    identified an increasing number of loci underlying quantitative traits of interest.
    These loci are scattered throughout the genome and are individually responsible
    only for small fractions of the total heritable trait variance. The recently proposed
    omnigenic model provides a conceptual framework to explain these observations
    by postulating that numerous distant loci contribute to each complex trait via
    effect propagation through intracellular regulatory networks. We formalize this
    conceptual framework by proposing the “quantitative omnigenic model” (QOM), a
    statistical model that combines prior knowledge of the regulatory network topology
    with genomic data. By applying our model to gene expression traits in yeast, we
    demonstrate that QOM achieves similar gene expression prediction performance to
    traditional GWAS with hundreds of times less parameters, while simultaneously
    extracting candidate causal and quantitative chains of effect propagation through
    the regulatory network for every individual gene. We estimate the fraction of
    heritable trait variance in cis- and in trans-, break the latter down by effect
    propagation order, assess the trans- variance not attributable to transcriptional
    regulation, and show that QOM correctly accounts for the low-dimensional structure
    of gene expression covariance. We furthermore demonstrate the relevance of QOM
    for systems biology, by employing it as a statistical test for the quality of
    regulatory network reconstructions, and linking it to the propagation of nontranscriptional
    (including environmental) effects.
acknowledgement: N.R.acknowledges the support of the Austrian Academy of Sciences
  through the Doctoral Fellowship Programme (DOC) of the Austrian Academy of Sciences
  26917. M.H. and G.T. were supported in part by the Human Frontiers Science Program
  Grant RGP0034/2018. We thank Nicholas H. Barton, Fyodor Kondrashov, and Matthew
  R. Robinson for fruitful discussions.
article_number: e2402340121
article_processing_charge: Yes
article_type: original
author:
- first_name: Natalia
  full_name: Ruzickova, Natalia
  id: D2761128-D73D-11E9-A1BF-BA0DE6697425
  last_name: Ruzickova
- first_name: Michal
  full_name: Hledik, Michal
  id: 4171253A-F248-11E8-B48F-1D18A9856A87
  last_name: Hledik
- first_name: Gašper
  full_name: Tkačik, Gašper
  id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
  last_name: Tkačik
  orcid: 0000-0002-6699-1455
citation:
  ama: Ruzickova N, Hledik M, Tkačik G. Quantitative omnigenic model discovers interpretable
    genome-wide associations. <i>Proceedings of the National Academy of Sciences of
    the United States of America</i>. 2024;121(44). doi:<a href="https://doi.org/10.1073/pnas.2402340121">10.1073/pnas.2402340121</a>
  apa: Ruzickova, N., Hledik, M., &#38; Tkačik, G. (2024). Quantitative omnigenic
    model discovers interpretable genome-wide associations. <i>Proceedings of the
    National Academy of Sciences of the United States of America</i>. National Academy
    of Sciences. <a href="https://doi.org/10.1073/pnas.2402340121">https://doi.org/10.1073/pnas.2402340121</a>
  chicago: Ruzickova, Natalia, Michal Hledik, and Gašper Tkačik. “Quantitative Omnigenic
    Model Discovers Interpretable Genome-Wide Associations.” <i>Proceedings of the
    National Academy of Sciences of the United States of America</i>. National Academy
    of Sciences, 2024. <a href="https://doi.org/10.1073/pnas.2402340121">https://doi.org/10.1073/pnas.2402340121</a>.
  ieee: N. Ruzickova, M. Hledik, and G. Tkačik, “Quantitative omnigenic model discovers
    interpretable genome-wide associations,” <i>Proceedings of the National Academy
    of Sciences of the United States of America</i>, vol. 121, no. 44. National Academy
    of Sciences, 2024.
  ista: Ruzickova N, Hledik M, Tkačik G. 2024. Quantitative omnigenic model discovers
    interpretable genome-wide associations. Proceedings of the National Academy of
    Sciences of the United States of America. 121(44), e2402340121.
  mla: Ruzickova, Natalia, et al. “Quantitative Omnigenic Model Discovers Interpretable
    Genome-Wide Associations.” <i>Proceedings of the National Academy of Sciences
    of the United States of America</i>, vol. 121, no. 44, e2402340121, National Academy
    of Sciences, 2024, doi:<a href="https://doi.org/10.1073/pnas.2402340121">10.1073/pnas.2402340121</a>.
  short: N. Ruzickova, M. Hledik, G. Tkačik, Proceedings of the National Academy of
    Sciences of the United States of America 121 (2024).
corr_author: '1'
date_created: 2024-11-10T23:01:59Z
date_published: 2024-10-29T00:00:00Z
date_updated: 2026-04-07T12:02:39Z
day: '29'
ddc:
- '570'
department:
- _id: GaTk
- _id: NiBa
doi: 10.1073/pnas.2402340121
external_id:
  isi:
  - '001349462600001'
  pmid:
  - '39441639'
file:
- access_level: open_access
  checksum: d930e2ccf9ec900c7d7509a78cfb3564
  content_type: application/pdf
  creator: dernst
  date_created: 2024-11-11T09:31:00Z
  date_updated: 2024-11-11T09:31:00Z
  file_id: '18536'
  file_name: 2024_PNAS_Ruzickova.pdf
  file_size: 25529709
  relation: main_file
  success: 1
file_date_updated: 2024-11-11T09:31:00Z
has_accepted_license: '1'
intvolume: '       121'
isi: 1
issue: '44'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 7bec9174-9f16-11ee-852c-ded9fe5f810e
  name: Collective behaviour of cells in pancreatic Islets of Langerhans
- _id: 2665AAFE-B435-11E9-9278-68D0E5697425
  grant_number: RGP0034/2018
  name: Can evolution minimize spurious signaling crosstalk to reach optimal performance?
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'
related_material:
  record:
  - id: '20357'
    relation: dissertation_contains
    status: public
scopus_import: '1'
status: public
title: Quantitative omnigenic model discovers interpretable genome-wide associations
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 121
year: '2024'
...
---
OA_place: publisher
OA_type: hybrid
_id: '18526'
abstract:
- lang: eng
  text: Multivesicular endosomes (MVEs) sequester membrane proteins destined for degradation
    within intralumenal vesicles (ILVs), a process mediated by the membrane-remodeling
    action of Endosomal Sorting Complex Required for Transport (ESCRT) proteins. In
    Arabidopsis, endosomal membrane constriction and scission are uncoupled, resulting
    in the formation of extensive concatenated ILV networks and enhancing cargo sequestration
    efficiency. Here, we used a combination of electron tomography, computer simulations,
    and mathematical modeling to address the questions of when concatenated ILV networks
    evolved in plants and what drives their formation. Through morphometric analyses
    of tomographic reconstructions of endosomes across yeast, algae, and various land
    plants, we have found that ILV concatenation is widespread within plant species,
    but only prevalent in seed plants, especially in flowering plants. Multiple budding
    sites that require the formation of pores in the limiting membrane were only identified
    in hornworts and seed plants, suggesting that this mechanism has evolved independently
    in both plant lineages. To identify the conditions under which these multiple
    budding sites can arise, we used particle-based molecular dynamics simulations
    and found that changes in ESCRT filament properties, such as filament curvature
    and membrane binding energy, can generate the membrane shapes observed in multiple
    budding sites. To understand the relationship between membrane budding activity
    and ILV network topology, we performed computational simulations and identified
    a set of membrane remodeling parameters that can recapitulate our tomographic
    datasets.
acknowledgement: We would like to thank Janice Pennington for her support with electron
  tomography data collection, Dr. Ingrid Jordon-Thaden, director of the Botany Garden
  and Greenhouse of University of Wisconsin Madison, for her invaluable assistance
  collecting plant materials, Dr. Marie Trest for providing Chara specimens, and Dr.
  Nicholas Keuler for his advice on statistical analyses. We thank Charlie Hamilton
  for exploring the initial computational model. This work was supported by grant
  NSF MCB 2114603 and NIH 1S10OD026769-01 to M.S.O. F.F acknowledges support as a
  NOMIS Fellow from the NOMIS Foundation. A.Š. acknowledges ERC Starting Grant “NEPA”
  802960.
article_number: e2409407121
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Ethan
  full_name: Weiner, Ethan
  last_name: Weiner
- first_name: Elizabeth
  full_name: Berryman, Elizabeth
  last_name: Berryman
- first_name: Felix F
  full_name: Frey, Felix F
  id: a0270b37-8f1a-11ec-95c7-8e710c59a4f3
  last_name: Frey
  orcid: 0000-0001-8501-6017
- first_name: Ariadna González
  full_name: Solís, Ariadna González
  last_name: Solís
- first_name: André
  full_name: Leier, André
  last_name: Leier
- first_name: Tatiana Marquez
  full_name: Lago, Tatiana Marquez
  last_name: Lago
- first_name: Anđela
  full_name: Šarić, Anđela
  id: bf63d406-f056-11eb-b41d-f263a6566d8b
  last_name: Šarić
  orcid: 0000-0002-7854-2139
- first_name: Marisa S.
  full_name: Otegui, Marisa S.
  last_name: Otegui
citation:
  ama: Weiner E, Berryman E, Frey FF, et al. Endosomal membrane budding patterns in
    plants. <i>Proceedings of the National Academy of Sciences of the United States
    of America</i>. 2024;121(44). doi:<a href="https://doi.org/10.1073/pnas.2409407121">10.1073/pnas.2409407121</a>
  apa: Weiner, E., Berryman, E., Frey, F. F., Solís, A. G., Leier, A., Lago, T. M.,
    … Otegui, M. S. (2024). Endosomal membrane budding patterns in plants. <i>Proceedings
    of the National Academy of Sciences of the United States of America</i>. National
    Academy of Sciences. <a href="https://doi.org/10.1073/pnas.2409407121">https://doi.org/10.1073/pnas.2409407121</a>
  chicago: Weiner, Ethan, Elizabeth Berryman, Felix F Frey, Ariadna González Solís,
    André Leier, Tatiana Marquez Lago, Anđela Šarić, and Marisa S. Otegui. “Endosomal
    Membrane Budding Patterns in Plants.” <i>Proceedings of the National Academy of
    Sciences of the United States of America</i>. National Academy of Sciences, 2024.
    <a href="https://doi.org/10.1073/pnas.2409407121">https://doi.org/10.1073/pnas.2409407121</a>.
  ieee: E. Weiner <i>et al.</i>, “Endosomal membrane budding patterns in plants,”
    <i>Proceedings of the National Academy of Sciences of the United States of America</i>,
    vol. 121, no. 44. National Academy of Sciences, 2024.
  ista: Weiner E, Berryman E, Frey FF, Solís AG, Leier A, Lago TM, Šarić A, Otegui
    MS. 2024. Endosomal membrane budding patterns in plants. Proceedings of the National
    Academy of Sciences of the United States of America. 121(44), e2409407121.
  mla: Weiner, Ethan, et al. “Endosomal Membrane Budding Patterns in Plants.” <i>Proceedings
    of the National Academy of Sciences of the United States of America</i>, vol.
    121, no. 44, e2409407121, National Academy of Sciences, 2024, doi:<a href="https://doi.org/10.1073/pnas.2409407121">10.1073/pnas.2409407121</a>.
  short: E. Weiner, E. Berryman, F.F. Frey, A.G. Solís, A. Leier, T.M. Lago, A. Šarić,
    M.S. Otegui, Proceedings of the National Academy of Sciences of the United States
    of America 121 (2024).
date_created: 2024-11-10T23:01:59Z
date_published: 2024-10-29T00:00:00Z
date_updated: 2025-09-08T14:38:35Z
day: '29'
ddc:
- '570'
department:
- _id: AnSa
doi: 10.1073/pnas.2409407121
ec_funded: 1
external_id:
  isi:
  - '001349500800007'
  pmid:
  - '39441629'
file:
- access_level: open_access
  checksum: 21c82d2ab58ff99b2bd0489797be42e5
  content_type: application/pdf
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  date_created: 2024-11-11T09:35:15Z
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  file_id: '18538'
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file_date_updated: 2024-11-11T09:35:15Z
has_accepted_license: '1'
intvolume: '       121'
isi: 1
issue: '44'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: eba2549b-77a9-11ec-83b8-a81e493eae4e
  call_identifier: H2020
  grant_number: '802960'
  name: 'Non-Equilibrium Protein Assembly: from Building Blocks to Biological Machines'
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: Endosomal membrane budding patterns in plants
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 121
year: '2024'
...
---
OA_place: publisher
OA_type: hybrid
_id: '18553'
abstract:
- lang: eng
  text: Transcription-coupled nucleotide excision repair (TC-NER) efficiently eliminates
    DNA damage that impedes gene transcription by RNA polymerase II (RNA Pol II).
    TC-NER is initiated by the recognition of lesion-stalled RNA Pol II by CSB, which
    recruits the CRL4CSA ubiquitin ligase and UVSSA. RNA Pol II ubiquitylation at
    RPB1-K1268 by CRL4CSA serves as a critical TC-NER checkpoint, governing RNA Pol
    II stability and initiating DNA damage excision by TFIIH recruitment. However,
    the precise regulatory mechanisms of CRL4CSA activity and TFIIH recruitment remain
    elusive. Here, we reveal human serine/threonine-protein kinase 19 (STK19) as a
    TC-NER factor, which is essential for correct DNA damage removal and subsequent
    transcription restart. Cryogenic electron microscopy (cryo-EM) studies demonstrate
    that STK19 is an integral part of the RNA Pol II-TC-NER complex, bridging CSA,
    UVSSA, RNA Pol II, and downstream DNA. STK19 stimulates TC-NER complex stability
    and CRL4CSA activity, resulting in efficient RNA Pol II ubiquitylation and correct
    UVSSA and TFIIH binding. These findings underscore the crucial role of STK19 as
    a core TC-NER component.
acknowledged_ssus:
- _id: LifeSc
- _id: PreCl
acknowledgement: We thank N. Thompson and R. Burgess for the 8WG16 hybridoma cell
  line. This research was further supported by the Scientific Service Units (SSU)
  of IST Austria through resources provided by the Lab Support Facility (LSF) and
  the Preclinical Facility (PCF). This work is part of the Oncode Institute, which
  is partly financed by the Dutch Cancer Society. Research at the Netherlands Cancer
  Institute is supported by institutional grants of the Dutch Cancer Society and the
  Dutch Ministry of Health, Welfare and Sport. This study was supported by a VICI
  (VI.C.182.025) and a TOP Grant (714.017.003) of the Netherlands Organization for
  Scientific Research.
article_processing_charge: No
article_type: original
author:
- first_name: Anisha R.
  full_name: Ramadhin, Anisha R.
  last_name: Ramadhin
- first_name: Shun-Hsiao
  full_name: Lee, Shun-Hsiao
  last_name: Lee
- first_name: Di
  full_name: Zhou, Di
  last_name: Zhou
- first_name: Anita P
  full_name: Testa Salmazo, Anita P
  id: 41F1F098-F248-11E8-B48F-1D18A9856A87
  last_name: Testa Salmazo
- first_name: Camila
  full_name: Gonzalo-Hansen, Camila
  last_name: Gonzalo-Hansen
- first_name: Marjolein
  full_name: van Sluis, Marjolein
  last_name: van Sluis
- first_name: Cindy M.A.
  full_name: Blom, Cindy M.A.
  last_name: Blom
- first_name: Roel C.
  full_name: Janssens, Roel C.
  last_name: Janssens
- first_name: Anja
  full_name: Raams, Anja
  last_name: Raams
- first_name: Dick
  full_name: Dekkers, Dick
  last_name: Dekkers
- first_name: Karel
  full_name: Bezstarosti, Karel
  last_name: Bezstarosti
- first_name: Dea
  full_name: Slade, Dea
  last_name: Slade
- first_name: Wim
  full_name: Vermeulen, Wim
  last_name: Vermeulen
- first_name: Alex
  full_name: Pines, Alex
  last_name: Pines
- first_name: Jeroen A.A.
  full_name: Demmers, Jeroen A.A.
  last_name: Demmers
- first_name: Carrie A
  full_name: Bernecky, Carrie A
  id: 2CB9DFE2-F248-11E8-B48F-1D18A9856A87
  last_name: Bernecky
  orcid: 0000-0003-0893-7036
- first_name: Titia K.
  full_name: Sixma, Titia K.
  last_name: Sixma
- first_name: Jurgen A.
  full_name: Marteijn, Jurgen A.
  last_name: Marteijn
citation:
  ama: Ramadhin AR, Lee S-H, Zhou D, et al. STK19 drives transcription-coupled repair
    by stimulating repair complex stability, RNA Pol II ubiquitylation, and TFIIH
    recruitment. <i>Molecular Cell</i>. 2024;84(24):4740-4757.e12. doi:<a href="https://doi.org/10.1016/j.molcel.2024.10.030">10.1016/j.molcel.2024.10.030</a>
  apa: Ramadhin, A. R., Lee, S.-H., Zhou, D., Testa Salmazo, A. P., Gonzalo-Hansen,
    C., van Sluis, M., … Marteijn, J. A. (2024). STK19 drives transcription-coupled
    repair by stimulating repair complex stability, RNA Pol II ubiquitylation, and
    TFIIH recruitment. <i>Molecular Cell</i>. Elsevier. <a href="https://doi.org/10.1016/j.molcel.2024.10.030">https://doi.org/10.1016/j.molcel.2024.10.030</a>
  chicago: Ramadhin, Anisha R., Shun-Hsiao Lee, Di Zhou, Anita P Testa Salmazo, Camila
    Gonzalo-Hansen, Marjolein van Sluis, Cindy M.A. Blom, et al. “STK19 Drives Transcription-Coupled
    Repair by Stimulating Repair Complex Stability, RNA Pol II Ubiquitylation, and
    TFIIH Recruitment.” <i>Molecular Cell</i>. Elsevier, 2024. <a href="https://doi.org/10.1016/j.molcel.2024.10.030">https://doi.org/10.1016/j.molcel.2024.10.030</a>.
  ieee: A. R. Ramadhin <i>et al.</i>, “STK19 drives transcription-coupled repair by
    stimulating repair complex stability, RNA Pol II ubiquitylation, and TFIIH recruitment,”
    <i>Molecular Cell</i>, vol. 84, no. 24. Elsevier, p. 4740–4757.e12, 2024.
  ista: Ramadhin AR, Lee S-H, Zhou D, Testa Salmazo AP, Gonzalo-Hansen C, van Sluis
    M, Blom CMA, Janssens RC, Raams A, Dekkers D, Bezstarosti K, Slade D, Vermeulen
    W, Pines A, Demmers JAA, Bernecky C, Sixma TK, Marteijn JA. 2024. STK19 drives
    transcription-coupled repair by stimulating repair complex stability, RNA Pol
    II ubiquitylation, and TFIIH recruitment. Molecular Cell. 84(24), 4740–4757.e12.
  mla: Ramadhin, Anisha R., et al. “STK19 Drives Transcription-Coupled Repair by Stimulating
    Repair Complex Stability, RNA Pol II Ubiquitylation, and TFIIH Recruitment.” <i>Molecular
    Cell</i>, vol. 84, no. 24, Elsevier, 2024, p. 4740–4757.e12, doi:<a href="https://doi.org/10.1016/j.molcel.2024.10.030">10.1016/j.molcel.2024.10.030</a>.
  short: A.R. Ramadhin, S.-H. Lee, D. Zhou, A.P. Testa Salmazo, C. Gonzalo-Hansen,
    M. van Sluis, C.M.A. Blom, R.C. Janssens, A. Raams, D. Dekkers, K. Bezstarosti,
    D. Slade, W. Vermeulen, A. Pines, J.A.A. Demmers, C. Bernecky, T.K. Sixma, J.A.
    Marteijn, Molecular Cell 84 (2024) 4740–4757.e12.
date_created: 2024-11-15T12:12:54Z
date_published: 2024-12-19T00:00:00Z
date_updated: 2025-09-08T14:42:50Z
day: '19'
ddc:
- '570'
department:
- _id: CaBe
doi: 10.1016/j.molcel.2024.10.030
external_id:
  isi:
  - '001395711300001'
  pmid:
  - '39547223'
file:
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  creator: dernst
  date_created: 2025-01-13T11:17:35Z
  date_updated: 2025-01-13T11:17:35Z
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  relation: main_file
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file_date_updated: 2025-01-13T11:17:35Z
has_accepted_license: '1'
intvolume: '        84'
isi: 1
issue: '24'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 4740-4757.e12
pmid: 1
publication: Molecular Cell
publication_identifier:
  issn:
  - 1097-2765
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: STK19 drives transcription-coupled repair by stimulating repair complex stability,
  RNA Pol II ubiquitylation, and TFIIH recruitment
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 84
year: '2024'
...
---
OA_place: publisher
OA_type: hybrid
_id: '18554'
abstract:
- lang: eng
  text: We prove the Eigenstate Thermalization Hypothesis for general Wigner-type
    matrices in the bulk of the self-consistent spectrum, with optimal control on
    the fluctuations for obs ervables of arbitrary rank. As the main technical ingredient,
    we prove rank-uniform optimal local laws for one and two resolvents of a Wigner-type
    matrix with regular observables. Our results hold under very general conditions
    on the variance profile, even allowing many vanishing entries, demonstrating that
    Eigenstate Thermalization occurs robustly across a diverse class of random matrix
    ensembles, for which the underlying quantum system has a non-trivial spatial structure.
acknowledgement: Open access funding provided by Institute of Science and Technology
  (IST Austria).
article_number: '282'
article_processing_charge: Yes (via OA deal)
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: Volodymyr
  full_name: Riabov, Volodymyr
  id: 1949f904-edfb-11eb-afb5-e2dfddabb93b
  last_name: Riabov
citation:
  ama: Erdös L, Riabov V. Eigenstate Thermalization Hypothesis for Wigner-type matrices.
    <i>Communications in Mathematical Physics</i>. 2024;405(12). doi:<a href="https://doi.org/10.1007/s00220-024-05143-y">10.1007/s00220-024-05143-y</a>
  apa: Erdös, L., &#38; Riabov, V. (2024). Eigenstate Thermalization Hypothesis for
    Wigner-type matrices. <i>Communications in Mathematical Physics</i>. Springer
    Nature. <a href="https://doi.org/10.1007/s00220-024-05143-y">https://doi.org/10.1007/s00220-024-05143-y</a>
  chicago: Erdös, László, and Volodymyr Riabov. “Eigenstate Thermalization Hypothesis
    for Wigner-Type Matrices.” <i>Communications in Mathematical Physics</i>. Springer
    Nature, 2024. <a href="https://doi.org/10.1007/s00220-024-05143-y">https://doi.org/10.1007/s00220-024-05143-y</a>.
  ieee: L. Erdös and V. Riabov, “Eigenstate Thermalization Hypothesis for Wigner-type
    matrices,” <i>Communications in Mathematical Physics</i>, vol. 405, no. 12. Springer
    Nature, 2024.
  ista: Erdös L, Riabov V. 2024. Eigenstate Thermalization Hypothesis for Wigner-type
    matrices. Communications in Mathematical Physics. 405(12), 282.
  mla: Erdös, László, and Volodymyr Riabov. “Eigenstate Thermalization Hypothesis
    for Wigner-Type Matrices.” <i>Communications in Mathematical Physics</i>, vol.
    405, no. 12, 282, Springer Nature, 2024, doi:<a href="https://doi.org/10.1007/s00220-024-05143-y">10.1007/s00220-024-05143-y</a>.
  short: L. Erdös, V. Riabov, Communications in Mathematical Physics 405 (2024).
corr_author: '1'
date_created: 2024-11-17T23:01:46Z
date_published: 2024-12-01T00:00:00Z
date_updated: 2026-04-07T12:32:19Z
day: '01'
ddc:
- '510'
department:
- _id: LaEr
doi: 10.1007/s00220-024-05143-y
external_id:
  arxiv:
  - '2403.10359'
  isi:
  - '001348943900004'
  pmid:
  - '39526190'
file:
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  creator: dernst
  date_created: 2024-11-18T08:15:07Z
  date_updated: 2024-11-18T08:15:07Z
  file_id: '18562'
  file_name: 2024_CommMathPhysics_Erdoes.pdf
  file_size: 1426046
  relation: main_file
  success: 1
file_date_updated: 2024-11-18T08:15:07Z
has_accepted_license: '1'
intvolume: '       405'
isi: 1
issue: '12'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
publication: Communications in Mathematical Physics
publication_identifier:
  eissn:
  - 1432-0916
  issn:
  - 0010-3616
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
  record:
  - id: '20575'
    relation: dissertation_contains
    status: public
scopus_import: '1'
status: public
title: Eigenstate Thermalization Hypothesis for Wigner-type matrices
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 405
year: '2024'
...
---
OA_place: publisher
OA_type: gold
_id: '18556'
abstract:
- lang: eng
  text: Given a finite set, A ⊆ ℝ², and a subset, B ⊆ A, the MST-ratio is the combined
    length of the minimum spanning trees of B and A⧵B divided by the length of the
    minimum spanning tree of A. The question of the supremum, over all sets A, of
    the maximum, over all subsets B, is related to the Steiner ratio, and we prove
    this sup-max is between 2.154 and 2.427. Restricting ourselves to 2-dimensional
    lattices, we prove that the sup-max is 2, while the inf-max is 1.25. By some margin
    the most difficult of these results is the upper bound for the inf-max, which
    we prove by showing that the hexagonal lattice cannot have MST-ratio larger than
    1.25.
acknowledgement: This project has received funding from the European Research Council
  (ERC) under the European Union’s Horizon 2020 research and innovation programme,
  grant no. 788183, from the Wittgenstein Prize, Austrian Science Fund (FWF), grant
  no. Z 342-N31, and from the DFG Collaborative Research Center TRR 109, "Discretization
  in Geometry and Dynamics", Austrian Science Fund (FWF), grant no. I 02979-N35.
alternative_title:
- LIPIcs
article_number: '3'
article_processing_charge: Yes
arxiv: 1
author:
- first_name: Sebastiano
  full_name: Cultrera di Montesano, Sebastiano
  id: 34D2A09C-F248-11E8-B48F-1D18A9856A87
  last_name: Cultrera di Montesano
  orcid: 0000-0001-6249-0832
- first_name: Ondrej
  full_name: Draganov, Ondrej
  id: 2B23F01E-F248-11E8-B48F-1D18A9856A87
  last_name: Draganov
  orcid: 0000-0003-0464-3823
- first_name: Herbert
  full_name: Edelsbrunner, Herbert
  id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
  last_name: Edelsbrunner
  orcid: 0000-0002-9823-6833
- first_name: Morteza
  full_name: Saghafian, Morteza
  id: f86f7148-b140-11ec-9577-95435b8df824
  last_name: Saghafian
citation:
  ama: 'Cultrera di Montesano S, Draganov O, Edelsbrunner H, Saghafian M. The Euclidean
    MST-ratio for bi-colored lattices. In: <i>32nd International Symposium on Graph
    Drawing and Network Visualization</i>. Vol 320. Schloss Dagstuhl - Leibniz-Zentrum
    für Informatik; 2024. doi:<a href="https://doi.org/10.4230/LIPIcs.GD.2024.3">10.4230/LIPIcs.GD.2024.3</a>'
  apa: 'Cultrera di Montesano, S., Draganov, O., Edelsbrunner, H., &#38; Saghafian,
    M. (2024). The Euclidean MST-ratio for bi-colored lattices. In <i>32nd International
    Symposium on Graph Drawing and Network Visualization</i> (Vol. 320). Vienna, Austria:
    Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href="https://doi.org/10.4230/LIPIcs.GD.2024.3">https://doi.org/10.4230/LIPIcs.GD.2024.3</a>'
  chicago: Cultrera di Montesano, Sebastiano, Ondrej Draganov, Herbert Edelsbrunner,
    and Morteza Saghafian. “The Euclidean MST-Ratio for Bi-Colored Lattices.” In <i>32nd
    International Symposium on Graph Drawing and Network Visualization</i>, Vol. 320.
    Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024. <a href="https://doi.org/10.4230/LIPIcs.GD.2024.3">https://doi.org/10.4230/LIPIcs.GD.2024.3</a>.
  ieee: S. Cultrera di Montesano, O. Draganov, H. Edelsbrunner, and M. Saghafian,
    “The Euclidean MST-ratio for bi-colored lattices,” in <i>32nd International Symposium
    on Graph Drawing and Network Visualization</i>, Vienna, Austria, 2024, vol. 320.
  ista: 'Cultrera di Montesano S, Draganov O, Edelsbrunner H, Saghafian M. 2024. The
    Euclidean MST-ratio for bi-colored lattices. 32nd International Symposium on Graph
    Drawing and Network Visualization. GD: Graph Drawing and Network Visualization,
    LIPIcs, vol. 320, 3.'
  mla: Cultrera di Montesano, Sebastiano, et al. “The Euclidean MST-Ratio for Bi-Colored
    Lattices.” <i>32nd International Symposium on Graph Drawing and Network Visualization</i>,
    vol. 320, 3, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024, doi:<a href="https://doi.org/10.4230/LIPIcs.GD.2024.3">10.4230/LIPIcs.GD.2024.3</a>.
  short: S. Cultrera di Montesano, O. Draganov, H. Edelsbrunner, M. Saghafian, in:,
    32nd International Symposium on Graph Drawing and Network Visualization, Schloss
    Dagstuhl - Leibniz-Zentrum für Informatik, 2024.
conference:
  end_date: 2024-09-20
  location: Vienna, Austria
  name: 'GD: Graph Drawing and Network Visualization'
  start_date: 2024-09-18
corr_author: '1'
date_created: 2024-11-17T23:01:47Z
date_published: 2024-10-28T00:00:00Z
date_updated: 2025-12-02T13:50:50Z
day: '28'
ddc:
- '510'
department:
- _id: HeEd
doi: 10.4230/LIPIcs.GD.2024.3
ec_funded: 1
external_id:
  arxiv:
  - '2403.10204'
  isi:
  - '001540278400001'
file:
- access_level: open_access
  checksum: 5f9b35e115c3d375e99be78da9054cb4
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  creator: dernst
  date_created: 2024-11-18T07:49:25Z
  date_updated: 2024-11-18T07:49:25Z
  file_id: '18560'
  file_name: 2024_LIPIcs_CultreradiMontesano.pdf
  file_size: 908541
  relation: main_file
  success: 1
file_date_updated: 2024-11-18T07:49:25Z
has_accepted_license: '1'
intvolume: '       320'
isi: 1
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 266A2E9E-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '788183'
  name: Alpha Shape Theory Extended
- _id: 268116B8-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: Z00342
  name: Mathematics, Computer Science
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: I02979-N35
  name: Persistence and stability of geometric complexes
publication: 32nd International Symposium on Graph Drawing and Network Visualization
publication_identifier:
  isbn:
  - '9783959773430'
  issn:
  - 1868-8969
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
scopus_import: '1'
status: public
title: The Euclidean MST-ratio for bi-colored lattices
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: 320
year: '2024'
...
---
OA_place: repository
OA_type: green
_id: '18559'
abstract:
- lang: eng
  text: We prove a 1973 conjecture due to Erdős on the existence of Steiner triple
    systems with arbitrarily high girth.
acknowledgement: Sah and Sawhney were supported by NSF Graduate Research Fellowship
  Program DGE1745302. Sah was supported by the PD Soros Fellowship. Simkin was supported
  by the Center of Mathematical Sciences and Applications at Harvard University.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Matthew Alan
  full_name: Kwan, Matthew Alan
  id: 5fca0887-a1db-11eb-95d1-ca9d5e0453b3
  last_name: Kwan
  orcid: 0000-0002-4003-7567
- first_name: Ashwin
  full_name: Sah, Ashwin
  last_name: Sah
- first_name: Mehtaab
  full_name: Sawhney, Mehtaab
  last_name: Sawhney
- first_name: Michael
  full_name: Simkin, Michael
  last_name: Simkin
citation:
  ama: Kwan MA, Sah A, Sawhney M, Simkin M. High-girth Steiner triple systems. <i>Annals
    of Mathematics</i>. 2024;200(3):1059-1156. doi:<a href="https://doi.org/10.4007/annals.2024.200.3.4">10.4007/annals.2024.200.3.4</a>
  apa: Kwan, M. A., Sah, A., Sawhney, M., &#38; Simkin, M. (2024). High-girth Steiner
    triple systems. <i>Annals of Mathematics</i>. Princeton University. <a href="https://doi.org/10.4007/annals.2024.200.3.4">https://doi.org/10.4007/annals.2024.200.3.4</a>
  chicago: Kwan, Matthew Alan, Ashwin Sah, Mehtaab Sawhney, and Michael Simkin. “High-Girth
    Steiner Triple Systems.” <i>Annals of Mathematics</i>. Princeton University, 2024.
    <a href="https://doi.org/10.4007/annals.2024.200.3.4">https://doi.org/10.4007/annals.2024.200.3.4</a>.
  ieee: M. A. Kwan, A. Sah, M. Sawhney, and M. Simkin, “High-girth Steiner triple
    systems,” <i>Annals of Mathematics</i>, vol. 200, no. 3. Princeton University,
    pp. 1059–1156, 2024.
  ista: Kwan MA, Sah A, Sawhney M, Simkin M. 2024. High-girth Steiner triple systems.
    Annals of Mathematics. 200(3), 1059–1156.
  mla: Kwan, Matthew Alan, et al. “High-Girth Steiner Triple Systems.” <i>Annals of
    Mathematics</i>, vol. 200, no. 3, Princeton University, 2024, pp. 1059–156, doi:<a
    href="https://doi.org/10.4007/annals.2024.200.3.4">10.4007/annals.2024.200.3.4</a>.
  short: M.A. Kwan, A. Sah, M. Sawhney, M. Simkin, Annals of Mathematics 200 (2024)
    1059–1156.
corr_author: '1'
date_created: 2024-11-17T23:01:48Z
date_published: 2024-11-01T00:00:00Z
date_updated: 2025-09-08T14:40:55Z
day: '01'
department:
- _id: MaKw
doi: 10.4007/annals.2024.200.3.4
external_id:
  arxiv:
  - '2201.04554'
  isi:
  - '001366233800004'
intvolume: '       200'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2201.04554
month: '11'
oa: 1
oa_version: Preprint
page: 1059-1156
publication: Annals of Mathematics
publication_identifier:
  eissn:
  - 1939-8980
  issn:
  - 0003-486X
publication_status: published
publisher: Princeton University
quality_controlled: '1'
scopus_import: '1'
status: public
title: High-girth Steiner triple systems
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 200
year: '2024'
...
---
OA_type: closed access
_id: '18563'
abstract:
- lang: eng
  text: I give a personal account about the wave of new research activities that rose
    in the 1990s on the specification, verification, and control of real-time systems.
acknowledgement: I thank all my collaborators over the years. None of the mentioned
  contributions would have been possible without them. I also apologize for all omissions.
  The selection of contributions in this essay reflects primarily my personal involvement
  rather than any measure of importance.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Thomas A
  full_name: Henzinger, Thomas A
  id: 40876CD8-F248-11E8-B48F-1D18A9856A87
  last_name: Henzinger
  orcid: 0000-0002-2985-7724
citation:
  ama: 'Henzinger TA. Reminiscences of a Real-Time Researcher. In: Graf S, Pettersson
    P, Steffen B, eds. <i>Real Time and Such</i>. Vol 15230. LNCS. Cham: Springer
    Nature; 2024:154-164. doi:<a href="https://doi.org/10.1007/978-3-031-73751-0_12">10.1007/978-3-031-73751-0_12</a>'
  apa: 'Henzinger, T. A. (2024). Reminiscences of a Real-Time Researcher. In S. Graf,
    P. Pettersson, &#38; B. Steffen (Eds.), <i>Real Time and Such</i> (Vol. 15230,
    pp. 154–164). Cham: Springer Nature. <a href="https://doi.org/10.1007/978-3-031-73751-0_12">https://doi.org/10.1007/978-3-031-73751-0_12</a>'
  chicago: 'Henzinger, Thomas A. “Reminiscences of a Real-Time Researcher.” In <i>Real
    Time and Such</i>, edited by Susanne Graf, Paul Pettersson, and Bernhard Steffen,
    15230:154–64. LNCS. Cham: Springer Nature, 2024. <a href="https://doi.org/10.1007/978-3-031-73751-0_12">https://doi.org/10.1007/978-3-031-73751-0_12</a>.'
  ieee: 'T. A. Henzinger, “Reminiscences of a Real-Time Researcher,” in <i>Real Time
    and Such</i>, vol. 15230, S. Graf, P. Pettersson, and B. Steffen, Eds. Cham: Springer
    Nature, 2024, pp. 154–164.'
  ista: 'Henzinger TA. 2024.Reminiscences of a Real-Time Researcher. In: Real Time
    and Such. LNCS, vol. 15230, 154–164.'
  mla: Henzinger, Thomas A. “Reminiscences of a Real-Time Researcher.” <i>Real Time
    and Such</i>, edited by Susanne Graf et al., vol. 15230, Springer Nature, 2024,
    pp. 154–64, doi:<a href="https://doi.org/10.1007/978-3-031-73751-0_12">10.1007/978-3-031-73751-0_12</a>.
  short: T.A. Henzinger, in:, S. Graf, P. Pettersson, B. Steffen (Eds.), Real Time
    and Such, Springer Nature, Cham, 2024, pp. 154–164.
corr_author: '1'
date_created: 2024-11-18T09:10:06Z
date_published: 2024-10-23T00:00:00Z
date_updated: 2025-08-05T12:19:50Z
day: '23'
department:
- _id: ToHe
doi: 10.1007/978-3-031-73751-0_12
editor:
- first_name: Susanne
  full_name: Graf, Susanne
  last_name: Graf
- first_name: Paul
  full_name: Pettersson, Paul
  last_name: Pettersson
- first_name: Bernhard
  full_name: Steffen, Bernhard
  last_name: Steffen
intvolume: '     15230'
language:
- iso: eng
month: '10'
oa_version: None
page: 154-164
place: Cham
publication: Real Time and Such
publication_identifier:
  eisbn:
  - '9783031737510'
  eissn:
  - 1611-3349
  isbn:
  - '9783031737503'
  issn:
  - 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
series_title: LNCS
status: public
title: Reminiscences of a Real-Time Researcher
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15230
year: '2024'
...
---
OA_place: publisher
_id: '18568'
abstract:
- lang: eng
  text: "Locomotion is ubiquitous in the animal kingdom because an animal's survival
    depends on its ability to navigate its environment to find food, avoid predators
    and locate potential mates. These behaviours require control mechanisms that can
    extract information from the environment, particularly visual cues. Selective
    evolutionary pressures have thus refined such visuomotor transformations in a
    species-specific manner to meet the specific ecological and ethological challenges
    of each organism. However, a common challenge across organisms as visual information
    processing\r\nbecomes increasingly detailed is the mechanisms required to synthesise
    disparate pieces of information into a coherent percept or unified picture of
    the world. In this thesis, I investigate how disparate visual information is combined
    in the brain of Drosophila melanogaster to effectively guide locomotion.\r\nFor
    this, I first designed and built a behavioural setup to record locomotion and
    present visual stimuli to freely-walking fruit flies in a closed-loop manner.
    This setup allowed the investigation of innate visually-guided behaviours, including
    the optomotor reflex and courtship.\r\nSecond, taking advantage of my system I
    investigated the optomotor response, a reflexive visual stabilisation behaviour
    in which flies turn in the direction of global motion to minimise retinal slip.
    This behaviour is thought to be mediated by Lobula plate tangential cells (LPTCs);
    a complex network of optic-flow-sensitive neurons essential for self-motion estimation.
    Using a novel genetic mutant, I demonstrate that electrical coupling between two
    LPTC subtypes, contralateral HS and H2 neurons, regulates the balance between
    smooth optomotor turning and saccadic anti-optomotor responses. These findings
    underscore the critical role of binocular motion cue integration in guiding course
    control. Finally, I developed a novel behavioural paradigm in which a sexually
    aroused male fruit fly is presented with an optomotor distractor. This setup creates
    competition between two visual behaviours, courtship tracking and the  optomotor
    response, enabling me to explore how the visual system resolves this conflict.
    In this setting, males\r\nengaged in courtship selectively suppress their optomotor
    response based on the female's location. Furthermore, when this experiment is
    replicated with an “artificial female”, optogenetically aroused males alternate
    between tracking and optomotor responses. The probability and dynamics of this
    switching are determined by the relative strengths of the two competing stimuli.
    In summary, the results presented in this thesis explore two mechanisms – integration
    and competition - through which visual information is combined in the brain of
    the fruit fly to drive locomotion."
acknowledged_ssus:
- _id: M-Shop
acknowledgement: I am incredibly thankful for the outstanding support provided by
  ISTA, especially the Machine Shop team, who made conducting research much easier
  and more efficient. I am also grateful for the funding provided by European Union’s
  Horizon 2020 research and innovation program under the Marie Skłodowska-Curie programme
  (665385) and The German Research Foundation grant DFG (SPP2205) “Evolutionary optimization
  of neuronal processing”.
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Roshan K
  full_name: Satapathy, Roshan K
  id: 46046B7A-F248-11E8-B48F-1D18A9856A87
  last_name: Satapathy
  orcid: 0009-0006-2974-5075
citation:
  ama: Satapathy RK. Mechanisms of visual integration and competition in innate behaviours
    in Drosophila melanogaster. 2024. doi:<a href="https://doi.org/10.15479/at:ista:18568">10.15479/at:ista:18568</a>
  apa: Satapathy, R. K. (2024). <i>Mechanisms of visual integration and competition
    in innate behaviours in Drosophila melanogaster</i>. Institute of Science and
    Technology Austria. <a href="https://doi.org/10.15479/at:ista:18568">https://doi.org/10.15479/at:ista:18568</a>
  chicago: Satapathy, Roshan K. “Mechanisms of Visual Integration and Competition
    in Innate Behaviours in Drosophila Melanogaster.” Institute of Science and Technology
    Austria, 2024. <a href="https://doi.org/10.15479/at:ista:18568">https://doi.org/10.15479/at:ista:18568</a>.
  ieee: R. K. Satapathy, “Mechanisms of visual integration and competition in innate
    behaviours in Drosophila melanogaster,” Institute of Science and Technology Austria,
    2024.
  ista: Satapathy RK. 2024. Mechanisms of visual integration and competition in innate
    behaviours in Drosophila melanogaster. Institute of Science and Technology Austria.
  mla: Satapathy, Roshan K. <i>Mechanisms of Visual Integration and Competition in
    Innate Behaviours in Drosophila Melanogaster</i>. Institute of Science and Technology
    Austria, 2024, doi:<a href="https://doi.org/10.15479/at:ista:18568">10.15479/at:ista:18568</a>.
  short: R.K. Satapathy, Mechanisms of Visual Integration and Competition in Innate
    Behaviours in Drosophila Melanogaster, Institute of Science and Technology Austria,
    2024.
corr_author: '1'
date_created: 2024-11-19T12:34:30Z
date_published: 2024-11-20T00:00:00Z
date_updated: 2026-04-07T13:00:36Z
day: '20'
ddc:
- '573'
degree_awarded: PhD
department:
- _id: GradSch
- _id: MaJö
doi: 10.15479/at:ista:18568
ec_funded: 1
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language:
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license: https://creativecommons.org/licenses/by-sa/4.0/
month: '11'
oa: 1
oa_version: Published Version
page: '114'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '665385'
  name: International IST Doctoral Program
publication_identifier:
  isbn:
  - 978-3-99078-047-3
  issn:
  - 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
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status: public
supervisor:
- first_name: Maximilian A
  full_name: Jösch, Maximilian A
  id: 2BD278E6-F248-11E8-B48F-1D18A9856A87
  last_name: Jösch
  orcid: 0000-0002-3937-1330
title: Mechanisms of visual integration and competition in innate behaviours in Drosophila
  melanogaster
tmp:
  image: /images/cc_by_sa.png
  legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode
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    BY-SA 4.0)
  short: CC BY-SA (4.0)
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2024'
...
---
OA_place: publisher
_id: '18579'
abstract:
- lang: eng
  text: 'Electrophysiological, calcium two-photon recordings and behavioral data for
    Vega-Zuniga et al.  Relevant information can be found in the ''README.txt'' files. '
acknowledged_ssus:
- _id: ScienComp
- _id: PreCl
- _id: M-Shop
- _id: Bio
- _id: LifeSc
acknowledgement: Freyja Lange, Michael Schunn, and Todor Asenov
article_processing_charge: No
author:
- first_name: Tomas A
  full_name: Vega Zuniga, Tomas A
  id: 2E7C4E78-F248-11E8-B48F-1D18A9856A87
  last_name: Vega Zuniga
- first_name: Anton L
  full_name: Sumser, Anton L
  id: 3320A096-F248-11E8-B48F-1D18A9856A87
  last_name: Sumser
  orcid: 0000-0002-4792-1881
- first_name: Olga
  full_name: Symonova, Olga
  id: 3C0C7BC6-F248-11E8-B48F-1D18A9856A87
  last_name: Symonova
  orcid: 0000-0003-2012-9947
- first_name: Peter
  full_name: Koppensteiner, Peter
  id: 3B8B25A8-F248-11E8-B48F-1D18A9856A87
  last_name: Koppensteiner
  orcid: 0000-0002-3509-1948
- first_name: Florian
  full_name: Schmidt, Florian
  id: A2EF226A-AF19-11E9-924C-0525E6697425
  last_name: Schmidt
- first_name: Maximilian A
  full_name: Jösch, Maximilian A
  id: 2BD278E6-F248-11E8-B48F-1D18A9856A87
  last_name: Jösch
  orcid: 0000-0002-3937-1330
citation:
  ama: Vega Zuniga TA, Sumser AL, Symonova O, Koppensteiner P, Schmidt F, Jösch MA.
    A thalamic hub-and-spoke network enables visual perception during action by coordinating
    visuomotor dynamics. 2024. doi:<a href="https://doi.org/10.15479/AT:ISTA:18579">10.15479/AT:ISTA:18579</a>
  apa: Vega Zuniga, T. A., Sumser, A. L., Symonova, O., Koppensteiner, P., Schmidt,
    F., &#38; Jösch, M. A. (2024). A thalamic hub-and-spoke network enables visual
    perception during action by coordinating visuomotor dynamics. Institute of Science
    and Technology Austria. <a href="https://doi.org/10.15479/AT:ISTA:18579">https://doi.org/10.15479/AT:ISTA:18579</a>
  chicago: Vega Zuniga, Tomas A, Anton L Sumser, Olga Symonova, Peter Koppensteiner,
    Florian Schmidt, and Maximilian A Jösch. “A Thalamic Hub-and-Spoke Network Enables
    Visual Perception during Action by Coordinating Visuomotor Dynamics.” Institute
    of Science and Technology Austria, 2024. <a href="https://doi.org/10.15479/AT:ISTA:18579">https://doi.org/10.15479/AT:ISTA:18579</a>.
  ieee: T. A. Vega Zuniga, A. L. Sumser, O. Symonova, P. Koppensteiner, F. Schmidt,
    and M. A. Jösch, “A thalamic hub-and-spoke network enables visual perception during
    action by coordinating visuomotor dynamics.” Institute of Science and Technology
    Austria, 2024.
  ista: Vega Zuniga TA, Sumser AL, Symonova O, Koppensteiner P, Schmidt F, Jösch MA.
    2024. A thalamic hub-and-spoke network enables visual perception during action
    by coordinating visuomotor dynamics, Institute of Science and Technology Austria,
    <a href="https://doi.org/10.15479/AT:ISTA:18579">10.15479/AT:ISTA:18579</a>.
  mla: Vega Zuniga, Tomas A., et al. <i>A Thalamic Hub-and-Spoke Network Enables Visual
    Perception during Action by Coordinating Visuomotor Dynamics</i>. Institute of
    Science and Technology Austria, 2024, doi:<a href="https://doi.org/10.15479/AT:ISTA:18579">10.15479/AT:ISTA:18579</a>.
  short: T.A. Vega Zuniga, A.L. Sumser, O. Symonova, P. Koppensteiner, F. Schmidt,
    M.A. Jösch, (2024).
corr_author: '1'
date_created: 2024-11-22T13:48:12Z
date_published: 2024-12-09T00:00:00Z
date_updated: 2026-06-18T18:12:08Z
day: '09'
ddc:
- '570'
department:
- _id: MaJö
doi: 10.15479/AT:ISTA:18579
ec_funded: 1
file:
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  checksum: 8b13990ca1a458ae3f3ae54c2e888564
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  creator: symonova
  date_created: 2024-12-06T13:28:18Z
  date_updated: 2024-12-09T10:24:25Z
  file_id: '18625'
  file_name: electro_physiology_data.zip
  file_size: 800647957
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  creator: symonova
  date_created: 2024-12-09T10:21:10Z
  date_updated: 2024-12-09T10:21:10Z
  file_id: '18636'
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  checksum: 63651df0186196969553dc48b467f6ab
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  date_created: 2024-12-09T12:54:55Z
  date_updated: 2024-12-09T12:54:55Z
  file_id: '18637'
  file_name: readme.txt
  file_size: 505
  relation: main_file
  success: 1
file_date_updated: 2024-12-09T12:54:55Z
has_accepted_license: '1'
month: '12'
oa: 1
oa_version: Published Version
project:
- _id: 264FEA02-B435-11E9-9278-68D0E5697425
  grant_number: ALTF 1098-2017
  name: Connecting sensory with motor processing in the superior colliculus
- _id: 266D407A-B435-11E9-9278-68D0E5697425
  grant_number: LT000256
  name: Neuronal networks of salience and spatial detection in the murine superior
    colliculus
- _id: 2634E9D2-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '756502'
  name: Circuits of Visual Attention
- _id: bdaf81a8-d553-11ed-ba76-c95961984540
  grant_number: '101086580'
  name: 'Action Selection in the Midbrain: Neuromodulation of Visuomotor Senses'
publisher: Institute of Science and Technology Austria
related_material:
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    relation: used_in_publication
    status: public
status: public
title: A thalamic hub-and-spoke network enables visual perception during action by
  coordinating visuomotor dynamics
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
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  short: CC BY (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '18581'
abstract:
- lang: eng
  text: "Background: Human induced pluripotent stem cells represent a scalable source
    of youthful tissue progenitors and secretomes for regenerative therapies. The
    aim of our study was to investigate the potential of conditioned medium (CM) from
    hiPSC-mesenchymal progenitors (hiPSC-MPs) to stimulate osteogenic differentiation
    of human bone marrow-derived mesenchymal stromal cells (MSCs). We also investigated
    whether prolonged cultivation or osteogenic pre-differentiation of hiPSC-MPs could
    enhance the stimulatory activity of CM.\r\nMethods: MSCs were isolated from 13
    donors (age 20–90 years). CM derived from hiPSC-MPs was added to the MSC cultures
    and the effects on proliferation and osteogenic differentiation were examined
    after 14 days and 6 weeks. The stimulatory activity of hiPSC-MP-CM was compared
    with the activity of MSC-derived CM and with the activity of CM prepared from
    hiPSC-MPs pre-cultured in growth or osteogenic medium for 14 days. Comparative
    proteomic analysis of CM was performed to gain insight into the molecular components
    responsible for the stimulatory activity.\r\nResults: Primary bone marrow-derived
    MSC exhibited variability, with a tendency towards lower proliferation and tri-lineage
    differentiation in older donors. hiPSC-MP-CM increased the proliferation and alkaline
    phosphatase activity of MSC from several adult/aged donors after 14 days of continuous
    supplementation under osteogenic conditions. However, CM supplementation failed
    to improve the mineralization of MSC pellets after 6 weeks under osteogenic conditions.
    hiPSC-MP-CM showed greater enhancement of proliferation and ALP activity than
    CM derived from bone marrow-derived MSCs. Moreover, 14-day cultivation but not
    osteogenic pre-differentiation of hiPSC-MPs strongly enhanced CM stimulatory activity.
    Quantitative proteomic analysis of d14-CM revealed a distinct profile of components
    that formed a highly interconnected associations network with two clusters, one
    functionally associated with binding and organization of actin/cytoskeletal components
    and the other with structural constituents of the extracellular matrix, collagen,
    and growth factor binding. Several hub proteins were identified that were reported
    to have functions in cell-extracellular matrix interaction, osteogenic differentiation
    and development.\r\nConclusions: Our data show that hiPSC-MP-CM enhances early
    osteogenic differentiation of human bone marrow-derived MSCs and that prolonged
    cultivation of hiPSC-MPs enhances CM-stimulatory activity. Proteomic analysis
    of the upregulated protein components provides the basis for further optimization
    of hiPSC-MP-CM for bone regenerative therapies."
acknowledgement: "We thank the personnel of the Lorenz-Böhler-Unfallkrankenhaus for
  providing the human tissue waste for primary cell isolation and the New York Stem
  Cell Foundation Research Institute for providing the human induced pluripotent stem
  cell line 1013 A and its mesenchymal progenitors. We also thank all our colleagues
  at the Ludwig Boltzmann Institute for Traumatology for their suggestions and ongoing
  support of the project. InstaText writing tool (https://instatext.io) was used to
  edit the English language of the final manuscript.\r\nThis work has received funding
  from the European Union’s Horizon 2020 research and innovation program under the
  Marie Sklodowska-Curie actions (grant agreement No. 657716) and the Transforming
  European Industry call H2020-NMBP-TRIND-2020 (grant agreement No. 953134), as well
  as by the FFG Industrienahe Dissertation program (grant agreement No. 867803 and
  853056), the FEMtech Praktika program (grant agreement No. 852154, 868917 and 877951)
  and the Production of the Future program (grant agreement No. 877452)."
article_number: '434'
article_processing_charge: Yes
article_type: original
author:
- first_name: Darja
  full_name: Marolt Presen, Darja
  last_name: Marolt Presen
- first_name: Vanessa
  full_name: Goeschl, Vanessa
  last_name: Goeschl
- first_name: Dominik
  full_name: Hanetseder, Dominik
  last_name: Hanetseder
- first_name: Laura
  full_name: Ogrin, Laura
  last_name: Ogrin
- first_name: Alexandra Larissa
  full_name: Stetco, Alexandra Larissa
  last_name: Stetco
- first_name: Anja
  full_name: Tansek, Anja
  last_name: Tansek
- first_name: Laura
  full_name: Pozenel, Laura
  last_name: Pozenel
- first_name: Bella
  full_name: Bruszel, Bella
  id: 70abbbb3-88ea-11ec-8e0a-e8c939944834
  last_name: Bruszel
- first_name: Goran
  full_name: Mitulovic, Goran
  last_name: Mitulovic
- first_name: Johannes
  full_name: Oesterreicher, Johannes
  last_name: Oesterreicher
- first_name: Johannes
  full_name: Zipperle, Johannes
  last_name: Zipperle
- first_name: Barbara
  full_name: Schaedl, Barbara
  last_name: Schaedl
- first_name: Wolfgang
  full_name: Holnthoner, Wolfgang
  last_name: Holnthoner
- first_name: Johannes
  full_name: Grillari, Johannes
  last_name: Grillari
- first_name: Heinz
  full_name: Redl, Heinz
  last_name: Redl
citation:
  ama: Marolt Presen D, Goeschl V, Hanetseder D, et al. Prolonged cultivation enhances
    the stimulatory activity of hiPSC mesenchymal progenitor-derived conditioned medium.
    <i>Stem Cell Research and Therapy</i>. 2024;15. doi:<a href="https://doi.org/10.1186/s13287-024-03960-5">10.1186/s13287-024-03960-5</a>
  apa: Marolt Presen, D., Goeschl, V., Hanetseder, D., Ogrin, L., Stetco, A. L., Tansek,
    A., … Redl, H. (2024). Prolonged cultivation enhances the stimulatory activity
    of hiPSC mesenchymal progenitor-derived conditioned medium. <i>Stem Cell Research
    and Therapy</i>. Springer Nature. <a href="https://doi.org/10.1186/s13287-024-03960-5">https://doi.org/10.1186/s13287-024-03960-5</a>
  chicago: Marolt Presen, Darja, Vanessa Goeschl, Dominik Hanetseder, Laura Ogrin,
    Alexandra Larissa Stetco, Anja Tansek, Laura Pozenel, et al. “Prolonged Cultivation
    Enhances the Stimulatory Activity of HiPSC Mesenchymal Progenitor-Derived Conditioned
    Medium.” <i>Stem Cell Research and Therapy</i>. Springer Nature, 2024. <a href="https://doi.org/10.1186/s13287-024-03960-5">https://doi.org/10.1186/s13287-024-03960-5</a>.
  ieee: D. Marolt Presen <i>et al.</i>, “Prolonged cultivation enhances the stimulatory
    activity of hiPSC mesenchymal progenitor-derived conditioned medium,” <i>Stem
    Cell Research and Therapy</i>, vol. 15. Springer Nature, 2024.
  ista: Marolt Presen D, Goeschl V, Hanetseder D, Ogrin L, Stetco AL, Tansek A, Pozenel
    L, Bruszel B, Mitulovic G, Oesterreicher J, Zipperle J, Schaedl B, Holnthoner
    W, Grillari J, Redl H. 2024. Prolonged cultivation enhances the stimulatory activity
    of hiPSC mesenchymal progenitor-derived conditioned medium. Stem Cell Research
    and Therapy. 15, 434.
  mla: Marolt Presen, Darja, et al. “Prolonged Cultivation Enhances the Stimulatory
    Activity of HiPSC Mesenchymal Progenitor-Derived Conditioned Medium.” <i>Stem
    Cell Research and Therapy</i>, vol. 15, 434, Springer Nature, 2024, doi:<a href="https://doi.org/10.1186/s13287-024-03960-5">10.1186/s13287-024-03960-5</a>.
  short: D. Marolt Presen, V. Goeschl, D. Hanetseder, L. Ogrin, A.L. Stetco, A. Tansek,
    L. Pozenel, B. Bruszel, G. Mitulovic, J. Oesterreicher, J. Zipperle, B. Schaedl,
    W. Holnthoner, J. Grillari, H. Redl, Stem Cell Research and Therapy 15 (2024).
date_created: 2024-11-24T23:01:47Z
date_published: 2024-12-01T00:00:00Z
date_updated: 2025-09-09T11:41:12Z
day: '01'
ddc:
- '570'
department:
- _id: LifeSc
doi: 10.1186/s13287-024-03960-5
external_id:
  isi:
  - '001356479400001'
  pmid:
  - '39551765'
file:
- access_level: open_access
  checksum: 91edba8edde30d781dce89fdd5cadc39
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  creator: dernst
  date_created: 2024-12-10T08:28:17Z
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file_date_updated: 2024-12-10T08:28:17Z
has_accepted_license: '1'
intvolume: '        15'
isi: 1
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
publication: Stem Cell Research and Therapy
publication_identifier:
  eissn:
  - 1757-6512
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Prolonged cultivation enhances the stimulatory activity of hiPSC mesenchymal
  progenitor-derived conditioned medium
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 15
year: '2024'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '18582'
abstract:
- lang: eng
  text: Identification of PIN exporters for auxin, the major coordinative signal in
    plants, some 25 years ago, signifies a landmark in our understanding of plant-specific
    mechanisms underlying development and adaptation. Auxin is directionally transported
    throughout the plant body; a unique feature already envisioned by Darwin and solidified
    by PINs’ discovery and characterization. The PIN-based auxin distribution network
    with its complex regulations of PIN expression, localization and activity turned
    out to underlie a remarkable multitude of developmental processes and represents
    means to integrate endogenous and environmental signals. Given the recent anniversary,
    we here summarize past and current developments in this exciting field.
acknowledgement: We gratefully acknowledge Leo Gälweiler for authorizing his PIN1
  story. We would like to thank Yuanrong Pei for invaluable help with preparing figures.
  Work in the lab of C.L. is supported by grants from the Austrian Science Fund (PAT
  8419423) and by the Gesellschaft für Forschungsförderung Niederösterreich m.b.H.
  (FTI19-008). The lab of J.F. is supported by the Austrian Science Fund (I 6123-B
  and P 37051-B).
article_number: '9904'
article_processing_charge: Yes
article_type: original
author:
- first_name: Christian
  full_name: Luschnig, Christian
  last_name: Luschnig
- first_name: Jiří
  full_name: Friml, Jiří
  id: 4159519E-F248-11E8-B48F-1D18A9856A87
  last_name: Friml
  orcid: 0000-0002-8302-7596
citation:
  ama: Luschnig C, Friml J. Over 25 years of decrypting PIN-mediated plant development.
    <i>Nature Communications</i>. 2024;15. doi:<a href="https://doi.org/10.1038/s41467-024-54240-y">10.1038/s41467-024-54240-y</a>
  apa: Luschnig, C., &#38; Friml, J. (2024). Over 25 years of decrypting PIN-mediated
    plant development. <i>Nature Communications</i>. Springer Nature. <a href="https://doi.org/10.1038/s41467-024-54240-y">https://doi.org/10.1038/s41467-024-54240-y</a>
  chicago: Luschnig, Christian, and Jiří Friml. “Over 25 Years of Decrypting PIN-Mediated
    Plant Development.” <i>Nature Communications</i>. Springer Nature, 2024. <a href="https://doi.org/10.1038/s41467-024-54240-y">https://doi.org/10.1038/s41467-024-54240-y</a>.
  ieee: C. Luschnig and J. Friml, “Over 25 years of decrypting PIN-mediated plant
    development,” <i>Nature Communications</i>, vol. 15. Springer Nature, 2024.
  ista: Luschnig C, Friml J. 2024. Over 25 years of decrypting PIN-mediated plant
    development. Nature Communications. 15, 9904.
  mla: Luschnig, Christian, and Jiří Friml. “Over 25 Years of Decrypting PIN-Mediated
    Plant Development.” <i>Nature Communications</i>, vol. 15, 9904, Springer Nature,
    2024, doi:<a href="https://doi.org/10.1038/s41467-024-54240-y">10.1038/s41467-024-54240-y</a>.
  short: C. Luschnig, J. Friml, Nature Communications 15 (2024).
corr_author: '1'
date_created: 2024-11-24T23:01:48Z
date_published: 2024-12-01T00:00:00Z
date_updated: 2025-09-08T14:53:48Z
day: '01'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1038/s41467-024-54240-y
external_id:
  isi:
  - '001356232600004'
  pmid:
  - '39548100'
file:
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  checksum: 3a31af06f52100d287f1e9d9c2aa1d40
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  date_created: 2024-12-03T14:10:54Z
  date_updated: 2024-12-03T14:10:54Z
  file_id: '18615'
  file_name: 2024_NatureComm_Luschnig.pdf
  file_size: 1426555
  relation: main_file
  success: 1
file_date_updated: 2024-12-03T14:10:54Z
has_accepted_license: '1'
intvolume: '        15'
isi: 1
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: bd76d395-d553-11ed-ba76-f678c14f9033
  grant_number: I06123
  name: Peptide receptors for auxin canalization in Arabidopsis
- _id: 7bcece63-9f16-11ee-852c-ae94e099eeb6
  grant_number: P37051
  name: Guanylate cyclase activity of TIR1/AFBs auxin receptors
publication: Nature Communications
publication_identifier:
  eissn:
  - 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Over 25 years of decrypting PIN-mediated plant development
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 15
year: '2024'
...
---
OA_place: publisher
OA_type: hybrid
_id: '18583'
abstract:
- lang: eng
  text: "There are a number of well-known problems and conjectures about partitioning
    graphs to satisfy local constraints. For example, the majority colouring conjecture
    of Kreutzer, Oum, Seymour, van der Zypen and Wood states that every directed graph
    has a 3-colouring such that for every vertex v, at most half of the out-neighbours
    of v have the same colour as \r\n. As another example, the internal partition
    conjecture, due to DeVos and to Ban and Linial, states that for every d, all but
    finitely many d-regular graphs have a partition into two non-empty parts such
    that for every vertex v, at least half of the neighbours of v lie in the same
    part as v. We prove several results in this spirit: in particular, two of our
    results are that the majority colouring conjecture holds for Erdős–Rényi random
    directed graphs (of any density), and that the internal partition conjecture holds
    if we permit a tiny number of ‘exceptional vertices’. Our proofs involve a variety
    of techniques, including several different methods to analyse random recolouring
    processes. One highlight is a personality-changing scheme: we ‘forget’ certain
    information based on the state of a Markov chain, giving us more independence
    to work with."
acknowledgement: "We are grateful to the anonymous referees for their thorough reading
  of the paper, and for many suggestions which have improved the exposition throughout.\r\n\r\nMichael
  Anastos was supported by the European Union's Horizon 2020 research and innovation
  programme under the Marie Skłodowska-Curie grant agreement No. 101034413. Matthew
  Kwan was supported by ERC Starting Grant ‘RANDSTRUCT’ No. 101076777, also funded
  by the European Union image. Mihyun Kang was supported in part by the Austrian Science
  Fund (FWF) [10.55776/I6502]. For the purpose of open access, the authors have applied
  a CC-BY public copyright licence to any Author Accepted Manuscript version arising
  from this submission."
article_number: e70010
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Michael
  full_name: Anastos, Michael
  id: 0b2a4358-bb35-11ec-b7b9-e3279b593dbb
  last_name: Anastos
- first_name: Oliver
  full_name: Cooley, Oliver
  id: 43f4ddd0-a46b-11ec-8df6-ef3703bd721d
  last_name: Cooley
- first_name: Mihyun
  full_name: Kang, Mihyun
  last_name: Kang
- first_name: Matthew Alan
  full_name: Kwan, Matthew Alan
  id: 5fca0887-a1db-11eb-95d1-ca9d5e0453b3
  last_name: Kwan
  orcid: 0000-0002-4003-7567
citation:
  ama: Anastos M, Cooley O, Kang M, Kwan MA. Partitioning problems via random processes.
    <i>Journal of the London Mathematical Society</i>. 2024;110(6). doi:<a href="https://doi.org/10.1112/jlms.70010">10.1112/jlms.70010</a>
  apa: Anastos, M., Cooley, O., Kang, M., &#38; Kwan, M. A. (2024). Partitioning problems
    via random processes. <i>Journal of the London Mathematical Society</i>. Wiley.
    <a href="https://doi.org/10.1112/jlms.70010">https://doi.org/10.1112/jlms.70010</a>
  chicago: Anastos, Michael, Oliver Cooley, Mihyun Kang, and Matthew Alan Kwan. “Partitioning
    Problems via Random Processes.” <i>Journal of the London Mathematical Society</i>.
    Wiley, 2024. <a href="https://doi.org/10.1112/jlms.70010">https://doi.org/10.1112/jlms.70010</a>.
  ieee: M. Anastos, O. Cooley, M. Kang, and M. A. Kwan, “Partitioning problems via
    random processes,” <i>Journal of the London Mathematical Society</i>, vol. 110,
    no. 6. Wiley, 2024.
  ista: Anastos M, Cooley O, Kang M, Kwan MA. 2024. Partitioning problems via random
    processes. Journal of the London Mathematical Society. 110(6), e70010.
  mla: Anastos, Michael, et al. “Partitioning Problems via Random Processes.” <i>Journal
    of the London Mathematical Society</i>, vol. 110, no. 6, e70010, Wiley, 2024,
    doi:<a href="https://doi.org/10.1112/jlms.70010">10.1112/jlms.70010</a>.
  short: M. Anastos, O. Cooley, M. Kang, M.A. Kwan, Journal of the London Mathematical
    Society 110 (2024).
corr_author: '1'
date_created: 2024-11-24T23:01:48Z
date_published: 2024-12-01T00:00:00Z
date_updated: 2025-12-02T13:52:26Z
day: '01'
ddc:
- '510'
department:
- _id: MaKw
doi: 10.1112/jlms.70010
ec_funded: 1
external_id:
  arxiv:
  - '2307.06453'
  isi:
  - '001374738100001'
file:
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  checksum: 98e301e0565d75e3fb50e10e982a5018
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  creator: dernst
  date_created: 2024-12-10T08:10:39Z
  date_updated: 2024-12-10T08:10:39Z
  file_id: '18639'
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  file_size: 539891
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file_date_updated: 2024-12-10T08:10:39Z
has_accepted_license: '1'
intvolume: '       110'
isi: 1
issue: '6'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
  call_identifier: H2020
  grant_number: '101034413'
  name: 'IST-BRIDGE: International postdoctoral program'
- _id: bd95085b-d553-11ed-ba76-e55d3349be45
  grant_number: '101076777'
  name: Randomness and structure in combinatorics
publication: Journal of the London Mathematical Society
publication_identifier:
  eissn:
  - 1469-7750
  issn:
  - 0024-6107
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Partitioning problems via random processes
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: 110
year: '2024'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '18584'
abstract:
- lang: eng
  text: In this paper, we describe the "Medium Bands, Mega Science" JWST Cycle 2 survey
    (JWST-GO-4111) and demonstrate the power of these data to reveal both the spatially
    integrated and spatially resolved properties of galaxies from the local Universe
    to the era of cosmic dawn. Executed in 2023 November, MegaScience obtained ∼30
    arcmin2 of deep multiband NIRCam imaging centered on the z ∼ 0.3 A2744 cluster,
    including 11 medium-band filters and the two shortest-wavelength broadband filters,
    F070W and F090W. Together, MegaScience and the UNCOVER Cycle 1 treasury program
    provide a complete set of deep (∼28–30 magAB) images in all NIRCam medium- and
    broadband filters. This unique data set allows us to precisely constrain photometric
    redshifts, map stellar populations and dust attenuation for large samples of distant
    galaxies, and examine the connection between galaxy structures and formation histories.
    MegaScience also includes ∼17 arcmin2 of NIRISS parallel imaging in two broadband
    and four medium-band filters from 0.9 to 4.8 μm, expanding the footprint where
    robust spectral energy distribution (SED) fitting is possible. We provide example
    SEDs and multiband cutouts at a variety of redshifts, and use a catalog of JWST
    spectroscopic redshifts to show that MegaScience improves both the scatter and
    catastrophic outlier rate of photometric redshifts by factors of 2–3. Additionally,
    we demonstrate the spatially resolved science enabled by MegaScience by presenting
    maps of the [O iii] line emission and continuum emission in three spectroscopically
    confirmed z > 6 galaxies. We show that line emission in reionization-era galaxies
    can be clumpy, extended, and spatially offset from continuum emission, implying
    that galaxy assembly histories are complex even at these early epochs. We publicly
    release fully reduced mosaics and photometric catalogs for both the NIRCam primary
    and NIRISS parallel fields (jwst-uncover.github.io/megascience).
acknowledgement: "K.A.S. thanks Shelly Meyett, the MegaScience Program Coordinator,
  for invaluable assistance designing WOPR 88967 and ensuring that this program was
  fully observed. This proposal was conceived of and developed at the International
  Space Science Institute (ISSI) in Bern, through ISSI International Team project
  #562. This work is based on observations made with the NASA/ESA/CSA James Webb Space
  Telescope. The raw data were obtained from the Mikulski Archive for Space Telescopes
  at the Space Telescope Science Institute, which is operated by the Association of
  Universities for Research in Astronomy, Inc., under NASA contract NAS 5-03127 for
  JWST. These observations are associated with JWST Cycle 2 GO program #4111, and
  this project has gratefully made use of a large number of public JWST programs in
  the A2744 field including JWST-GO-2641, JWST-ERS-1324, JWST-DD-2756, JWST-GO-2883,
  JWST-GO-3538, and JWST-GO-3516. Support for program JWST-GO-4111 was provided by
  NASA through a grant from the Space Telescope Science Institute, which is operated
  by the Associations of Universities for Research in Astronomy, Incorporated, under
  NASA contract NAS5-26555.\r\n\r\nThe Cosmic Dawn Center is funded by the Danish
  National Research Foundation (DNRF) under grant #140. P.D. acknowledges support
  from the NWO grant 016.VIDI.189.162 (\"ODIN\") and warmly thanks the European Commission's
  and University of Groningen's CO-FUND Rosalind Franklin program. This work has received
  funding from the Swiss State Secretariat for Education, Research and Innovation
  (SERI) under contract number MB22.00072, as well as from the Swiss National Science
  Foundation (SNSF) through project grant 200020_207349. The work of C.C.W. is supported
  by NOIRLab, which is managed by the Association of Universities for Research in
  Astronomy (AURA) under a cooperative agreement with the National Science Foundation.
  T.B.M. was supported by a CIERA Fellowship. H.A. is supported by CNES, focused on
  the JWST mission, and by the Programme National Cosmology and Galaxies (PNCG) of
  CNRS/INSU with INP and IN2P3, co-funded by CEA and CNES. The BGU lensing group acknowledges
  support by grant No. 2020750 from the United States–Israel Binational Science Foundation
  (BSF) and grant No. 2109066 from the United States National Science Foundation (NSF);
  by the Ministry of Science & Technology, Israel; and by the Israel Science Foundation
  grant No. 864/23. Y.F. acknowledges support from JSPS KAKENHI grant No. JP22K21349
  and JP23K13149. R.P. and D.M. acknowledge funding from JWST-GO-02561.013 and JWST-GO-04111.035."
article_number: '101'
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: Katherine A.
  full_name: Suess, Katherine A.
  last_name: Suess
- first_name: John R.
  full_name: Weaver, John R.
  last_name: Weaver
- first_name: Sedona H.
  full_name: Price, Sedona H.
  last_name: Price
- first_name: Richard
  full_name: Pan, Richard
  last_name: Pan
- first_name: Bingjie
  full_name: Wang, Bingjie
  last_name: Wang
- first_name: Rachel
  full_name: Bezanson, Rachel
  last_name: Bezanson
- first_name: Gabriel
  full_name: Brammer, Gabriel
  last_name: Brammer
- first_name: Sam E.
  full_name: Cutler, Sam E.
  last_name: Cutler
- first_name: Ivo
  full_name: Labbé, Ivo
  last_name: Labbé
- first_name: Joel
  full_name: Leja, Joel
  last_name: Leja
- first_name: Christina C.
  full_name: Williams, Christina C.
  last_name: Williams
- first_name: Katherine E.
  full_name: Whitaker, Katherine E.
  last_name: Whitaker
- first_name: Hakim
  full_name: Atek, Hakim
  last_name: Atek
- first_name: Pratika
  full_name: Dayal, Pratika
  last_name: Dayal
- first_name: Anna
  full_name: De Graaff, Anna
  last_name: De Graaff
- first_name: Robert
  full_name: Feldmann, Robert
  last_name: Feldmann
- first_name: Marijn
  full_name: Franx, Marijn
  last_name: Franx
- first_name: Yoshinobu
  full_name: Fudamoto, Yoshinobu
  last_name: Fudamoto
- first_name: Seiji
  full_name: Fujimoto, Seiji
  last_name: Fujimoto
- first_name: Lukas J.
  full_name: Furtak, Lukas J.
  last_name: Furtak
- first_name: Andy D.
  full_name: Goulding, Andy D.
  last_name: Goulding
- first_name: Jenny E.
  full_name: Greene, Jenny E.
  last_name: Greene
- first_name: Gourav
  full_name: Khullar, Gourav
  last_name: Khullar
- first_name: Vasily
  full_name: Kokorev, Vasily
  last_name: Kokorev
- first_name: Mariska
  full_name: Kriek, Mariska
  last_name: Kriek
- first_name: Brian
  full_name: Lorenz, Brian
  last_name: Lorenz
- first_name: Danilo
  full_name: Marchesini, Danilo
  last_name: Marchesini
- first_name: Michael V.
  full_name: Maseda, Michael V.
  last_name: Maseda
- first_name: Jorryt J
  full_name: Matthee, Jorryt J
  id: 7439a258-f3c0-11ec-9501-9df22fe06720
  last_name: Matthee
  orcid: 0000-0003-2871-127X
- first_name: Tim B.
  full_name: Miller, Tim B.
  last_name: Miller
- first_name: Ikki
  full_name: Mitsuhashi, Ikki
  last_name: Mitsuhashi
- first_name: Lamiya A.
  full_name: Mowla, Lamiya A.
  last_name: Mowla
- first_name: Adam
  full_name: Muzzin, Adam
  last_name: Muzzin
- first_name: Rohan P.
  full_name: Naidu, Rohan P.
  last_name: Naidu
- first_name: Themiya
  full_name: Nanayakkara, Themiya
  last_name: Nanayakkara
- first_name: Erica J.
  full_name: Nelson, Erica J.
  last_name: Nelson
- first_name: Pascal A.
  full_name: Oesch, Pascal A.
  last_name: Oesch
- first_name: David J.
  full_name: Setton, David J.
  last_name: Setton
- first_name: Heath
  full_name: Shipley, Heath
  last_name: Shipley
- first_name: Renske
  full_name: Smit, Renske
  last_name: Smit
- first_name: Justin S.
  full_name: Spilker, Justin S.
  last_name: Spilker
- first_name: Pieter
  full_name: Van Dokkum, Pieter
  last_name: Van Dokkum
- first_name: Adi
  full_name: Zitrin, Adi
  last_name: Zitrin
citation:
  ama: 'Suess KA, Weaver JR, Price SH, et al. Medium bands, mega science: A JWST/NIRCam
    medium-band imaging survey of A2744. <i>Astrophysical Journal</i>. 2024;976(1).
    doi:<a href="https://doi.org/10.3847/1538-4357/ad75fe">10.3847/1538-4357/ad75fe</a>'
  apa: 'Suess, K. A., Weaver, J. R., Price, S. H., Pan, R., Wang, B., Bezanson, R.,
    … Zitrin, A. (2024). Medium bands, mega science: A JWST/NIRCam medium-band imaging
    survey of A2744. <i>Astrophysical Journal</i>. IOP Publishing. <a href="https://doi.org/10.3847/1538-4357/ad75fe">https://doi.org/10.3847/1538-4357/ad75fe</a>'
  chicago: 'Suess, Katherine A., John R. Weaver, Sedona H. Price, Richard Pan, Bingjie
    Wang, Rachel Bezanson, Gabriel Brammer, et al. “Medium Bands, Mega Science: A
    JWST/NIRCam Medium-Band Imaging Survey of A2744.” <i>Astrophysical Journal</i>.
    IOP Publishing, 2024. <a href="https://doi.org/10.3847/1538-4357/ad75fe">https://doi.org/10.3847/1538-4357/ad75fe</a>.'
  ieee: 'K. A. Suess <i>et al.</i>, “Medium bands, mega science: A JWST/NIRCam medium-band
    imaging survey of A2744,” <i>Astrophysical Journal</i>, vol. 976, no. 1. IOP Publishing,
    2024.'
  ista: 'Suess KA, Weaver JR, Price SH, Pan R, Wang B, Bezanson R, Brammer G, Cutler
    SE, Labbé I, Leja J, Williams CC, Whitaker KE, Atek H, Dayal P, De Graaff A, Feldmann
    R, Franx M, Fudamoto Y, Fujimoto S, Furtak LJ, Goulding AD, Greene JE, Khullar
    G, Kokorev V, Kriek M, Lorenz B, Marchesini D, Maseda MV, Matthee JJ, Miller TB,
    Mitsuhashi I, Mowla LA, Muzzin A, Naidu RP, Nanayakkara T, Nelson EJ, Oesch PA,
    Setton DJ, Shipley H, Smit R, Spilker JS, Van Dokkum P, Zitrin A. 2024. Medium
    bands, mega science: A JWST/NIRCam medium-band imaging survey of A2744. Astrophysical
    Journal. 976(1), 101.'
  mla: 'Suess, Katherine A., et al. “Medium Bands, Mega Science: A JWST/NIRCam Medium-Band
    Imaging Survey of A2744.” <i>Astrophysical Journal</i>, vol. 976, no. 1, 101,
    IOP Publishing, 2024, doi:<a href="https://doi.org/10.3847/1538-4357/ad75fe">10.3847/1538-4357/ad75fe</a>.'
  short: K.A. Suess, J.R. Weaver, S.H. Price, R. Pan, B. Wang, R. Bezanson, G. Brammer,
    S.E. Cutler, I. Labbé, J. Leja, C.C. Williams, K.E. Whitaker, H. Atek, P. Dayal,
    A. De Graaff, R. Feldmann, M. Franx, Y. Fudamoto, S. Fujimoto, L.J. Furtak, A.D.
    Goulding, J.E. Greene, G. Khullar, V. Kokorev, M. Kriek, B. Lorenz, D. Marchesini,
    M.V. Maseda, J.J. Matthee, T.B. Miller, I. Mitsuhashi, L.A. Mowla, A. Muzzin,
    R.P. Naidu, T. Nanayakkara, E.J. Nelson, P.A. Oesch, D.J. Setton, H. Shipley,
    R. Smit, J.S. Spilker, P. Van Dokkum, A. Zitrin, Astrophysical Journal 976 (2024).
date_created: 2024-11-24T23:01:48Z
date_published: 2024-11-14T00:00:00Z
date_updated: 2025-09-09T11:40:09Z
day: '14'
ddc:
- '520'
department:
- _id: JoMa
doi: 10.3847/1538-4357/ad75fe
external_id:
  arxiv:
  - '2404.13132'
  isi:
  - '001355710500001'
file:
- access_level: open_access
  checksum: dcd854acee73ce998d70a4ce634ead6d
  content_type: application/pdf
  creator: dernst
  date_created: 2024-12-10T08:18:53Z
  date_updated: 2024-12-10T08:18:53Z
  file_id: '18640'
  file_name: 2024_AstrophysicalJournal_Suess.pdf
  file_size: 13352667
  relation: main_file
  success: 1
file_date_updated: 2024-12-10T08:18:53Z
has_accepted_license: '1'
intvolume: '       976'
isi: 1
issue: '1'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
publication: Astrophysical Journal
publication_identifier:
  eissn:
  - 1538-4357
  issn:
  - 0004-637X
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Medium bands, mega science: A JWST/NIRCam medium-band imaging survey of A2744'
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 976
year: '2024'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '18585'
abstract:
- lang: eng
  text: We present the census of Hβ+[OIII] 4960,5008 Åemitters at 6.8<z<9.0 from the
    JWST FRESCO survey over 124 arcmin2 in the GOODS-North and GOODS-South fields.
    Our unbiased spectroscopic search results in 137 spectroscopically-confirmed galaxies
    at 6.8<z<9.0 with observed [OIII] fluxes f[OIII]≳1×10−18 ergs s−1 cm−2. The rest-frame
    optical line ratios of the median stacked spectrum (median MUV=−19.65+0.59−1.05)
    indicate negligible dust attenuation, low metallicity (12+log(O/H)=7.2−7.7) and
    a high ionisation parameter log10U≃−2.5. We find a factor ×1.3 difference in the
    number density of 6.8<z<9.0 galaxies between GOODS-South and GOODS-North, which
    is caused by a single overdensity at 7.0<z<7.2 in GOODS-North. The bright end
    of the UV luminosity function of spectroscopically-confirmed [OIII] emitters is
    in good agreement with HST dropout-selected samples. Discrepancies between the
    observed [OIII] LF, [OIII]/UV ratio and [OIII] equivalent widths, and that predicted
    by theoretical models, suggest burstier star-formation histories and/or more heterogeneous
    metallicity and ionising conditions in z>7 galaxies. We report a rapid decline
    of the [OIII] luminosity density at z≳6−7 which cannot be explained by the evolution
    of the cosmic star-formation rate density. Finally we find that FRESCO detects
    in only 2h galaxies likely accounting for ∼10−20% of the ionising budget at z=7−8
    (assuming an escape fraction of 10%), raising the prospect of directly detecting
    a significant fraction of the sources of reionisation with JWST.
acknowledgement: "The authors thank the anonymous referee for comments and suggestions
  which improved this paper. RAM thanks R. Kannan for sharing emission line luminosities
  from THESAN and H. Katz for similar data from an early version of the SPHINX20 data
  release (we use the final data release in this paper). The authors thank the CONGRESS
  team for proposing and designing their program with a zero exclusive access period.\r\nRAM,
  PA, ACP, and AW acknowledge support from the Swiss National Science Foundation (SNSF)
  through project grant 200020_207349. PA, AW, EG, and MX acknowledge support from
  the Swiss State Secretariat for Education, Research and Innovation (SERI) under
  contract number MB22.00072. YF acknowledges support by JSPS KAKENHI grant number
  JP22K21349 and JP23K13149. RPN acknowledges support for this work provided by NASA
  through the NASA Hubble Fellowship grant HST-HF2-51515.001-A awarded by the Space
  Telescope Science Institute, which is operated by the Association of Universities
  for Research in Astronomy, Incorporated, under NASA contract NAS5-26555. MS acknowledges
  support from the European Research Commission Grant 101088789 (SFEER), from the
  CIDEGENT/2021/059 grant by Generalitat Valenciana, and from project PID2019-109592GB-I00/AEI/10.13039/501100011033
  by the Spanish Ministerio de Ciencia e Innovación - Agencia Estatal de Investigación.
  The Cosmic Dawn Center (DAWN) is funded by the Danish National Research Foundation
  under grant no. 140. Cloud-based data processing and file storage for this work
  is provided by the AWS Cloud Credits for Research program. RJB and MS acknowledges
  support from NWO grant TOP1.16.057.\r\nThis work is based on observations made with
  the NASA/ESA/CSA JWST. The raw data were obtained from the Mikulski Archive for
  Space Telescopes at the Space Telescope Science Institute, which is operated by
  the Association of Universities for Research in Astronomy, Inc., under NASA contract
  NAS 5-03127 for JWST. These observations are associated with JWST Cycle 1 GO program
  #1895. Support for program JWST-GO-1895 was provided by NASA through a grant from
  the Space Telescope Science Institute, which is operated by the Associations of
  Universities for Research in Astronomy, Incorporated, under NASA contract NAS5-26555."
article_processing_charge: Yes
article_type: original
author:
- first_name: R. A.
  full_name: Meyer, R. A.
  last_name: Meyer
- first_name: P. A.
  full_name: Oesch, P. A.
  last_name: Oesch
- first_name: E.
  full_name: Giovinazzo, E.
  last_name: Giovinazzo
- first_name: A.
  full_name: Weibel, A.
  last_name: Weibel
- first_name: G.
  full_name: Brammer, G.
  last_name: Brammer
- first_name: Jorryt J
  full_name: Matthee, Jorryt J
  id: 7439a258-f3c0-11ec-9501-9df22fe06720
  last_name: Matthee
  orcid: 0000-0003-2871-127X
- first_name: R. P.
  full_name: Naidu, R. P.
  last_name: Naidu
- first_name: R. J.
  full_name: Bouwens, R. J.
  last_name: Bouwens
- first_name: J.
  full_name: Chisholm, J.
  last_name: Chisholm
- first_name: A.
  full_name: Covelo-Paz, A.
  last_name: Covelo-Paz
- first_name: Y.
  full_name: Fudamoto, Y.
  last_name: Fudamoto
- first_name: M.
  full_name: Maseda, M.
  last_name: Maseda
- first_name: E.
  full_name: Nelson, E.
  last_name: Nelson
- first_name: I.
  full_name: Shivaei, I.
  last_name: Shivaei
- first_name: M.
  full_name: Xiao, M.
  last_name: Xiao
- first_name: T.
  full_name: Herard-Demanche, T.
  last_name: Herard-Demanche
- first_name: G. D.
  full_name: Illingworth, G. D.
  last_name: Illingworth
- first_name: J.
  full_name: Kerutt, J.
  last_name: Kerutt
- first_name: Ivan
  full_name: Kramarenko, Ivan
  id: 9a9394cb-3200-11ee-973b-f5ba2a8b16e4
  last_name: Kramarenko
  orcid: 0000-0001-5346-6048
- first_name: I.
  full_name: Labbe, I.
  last_name: Labbe
- first_name: E.
  full_name: Leonova, E.
  last_name: Leonova
- first_name: D.
  full_name: Magee, D.
  last_name: Magee
- first_name: J.
  full_name: Matharu, J.
  last_name: Matharu
- first_name: G.
  full_name: Prieto Lyon, G.
  last_name: Prieto Lyon
- first_name: N.
  full_name: Reddy, N.
  last_name: Reddy
- first_name: D.
  full_name: Schaerer, D.
  last_name: Schaerer
- first_name: A.
  full_name: Shapley, A.
  last_name: Shapley
- first_name: M.
  full_name: Stefanon, M.
  last_name: Stefanon
- first_name: M. A.
  full_name: Wozniak, M. A.
  last_name: Wozniak
- first_name: S.
  full_name: Wuyts, S.
  last_name: Wuyts
citation:
  ama: 'Meyer RA, Oesch PA, Giovinazzo E, et al. JWST FRESCO: A comprehensive census
    of H β + [O iii] emitters at 6.8 &#60; z &#60; 9.0 in the GOODS fields. <i>Monthly
    Notices of the Royal Astronomical Society</i>. 2024;535(1):1067-1094. doi:<a href="https://doi.org/10.1093/mnras/stae2353">10.1093/mnras/stae2353</a>'
  apa: 'Meyer, R. A., Oesch, P. A., Giovinazzo, E., Weibel, A., Brammer, G., Matthee,
    J. J., … Wuyts, S. (2024). JWST FRESCO: A comprehensive census of H β + [O iii]
    emitters at 6.8 &#60; z &#60; 9.0 in the GOODS fields. <i>Monthly Notices of the
    Royal Astronomical Society</i>. Oxford University Press. <a href="https://doi.org/10.1093/mnras/stae2353">https://doi.org/10.1093/mnras/stae2353</a>'
  chicago: 'Meyer, R. A., P. A. Oesch, E. Giovinazzo, A. Weibel, G. Brammer, Jorryt
    J Matthee, R. P. Naidu, et al. “JWST FRESCO: A Comprehensive Census of H β + [O
    Iii] Emitters at 6.8 &#60; z &#60; 9.0 in the GOODS Fields.” <i>Monthly Notices
    of the Royal Astronomical Society</i>. Oxford University Press, 2024. <a href="https://doi.org/10.1093/mnras/stae2353">https://doi.org/10.1093/mnras/stae2353</a>.'
  ieee: 'R. A. Meyer <i>et al.</i>, “JWST FRESCO: A comprehensive census of H β +
    [O iii] emitters at 6.8 &#60; z &#60; 9.0 in the GOODS fields,” <i>Monthly Notices
    of the Royal Astronomical Society</i>, vol. 535, no. 1. Oxford University Press,
    pp. 1067–1094, 2024.'
  ista: 'Meyer RA, Oesch PA, Giovinazzo E, Weibel A, Brammer G, Matthee JJ, Naidu
    RP, Bouwens RJ, Chisholm J, Covelo-Paz A, Fudamoto Y, Maseda M, Nelson E, Shivaei
    I, Xiao M, Herard-Demanche T, Illingworth GD, Kerutt J, Kramarenko I, Labbe I,
    Leonova E, Magee D, Matharu J, Prieto Lyon G, Reddy N, Schaerer D, Shapley A,
    Stefanon M, Wozniak MA, Wuyts S. 2024. JWST FRESCO: A comprehensive census of
    H β + [O iii] emitters at 6.8 &#60; z &#60; 9.0 in the GOODS fields. Monthly Notices
    of the Royal Astronomical Society. 535(1), 1067–1094.'
  mla: 'Meyer, R. A., et al. “JWST FRESCO: A Comprehensive Census of H β + [O Iii]
    Emitters at 6.8 &#60; z &#60; 9.0 in the GOODS Fields.” <i>Monthly Notices of
    the Royal Astronomical Society</i>, vol. 535, no. 1, Oxford University Press,
    2024, pp. 1067–94, doi:<a href="https://doi.org/10.1093/mnras/stae2353">10.1093/mnras/stae2353</a>.'
  short: R.A. Meyer, P.A. Oesch, E. Giovinazzo, A. Weibel, G. Brammer, J.J. Matthee,
    R.P. Naidu, R.J. Bouwens, J. Chisholm, A. Covelo-Paz, Y. Fudamoto, M. Maseda,
    E. Nelson, I. Shivaei, M. Xiao, T. Herard-Demanche, G.D. Illingworth, J. Kerutt,
    I. Kramarenko, I. Labbe, E. Leonova, D. Magee, J. Matharu, G. Prieto Lyon, N.
    Reddy, D. Schaerer, A. Shapley, M. Stefanon, M.A. Wozniak, S. Wuyts, Monthly Notices
    of the Royal Astronomical Society 535 (2024) 1067–1094.
date_created: 2024-11-24T23:01:49Z
date_published: 2024-11-01T00:00:00Z
date_updated: 2025-09-08T14:47:58Z
day: '01'
ddc:
- '520'
department:
- _id: JoMa
doi: 10.1093/mnras/stae2353
external_id:
  isi:
  - '001348009500001'
file:
- access_level: open_access
  checksum: efe0ce3580e01459f3be78eb111b35a9
  content_type: application/pdf
  creator: dernst
  date_created: 2024-12-03T12:52:13Z
  date_updated: 2024-12-03T12:52:13Z
  file_id: '18613'
  file_name: 2024_MonthlyNRoyalAstronSoc_Meyer.pdf
  file_size: 29476699
  relation: main_file
  success: 1
file_date_updated: 2024-12-03T12:52:13Z
has_accepted_license: '1'
intvolume: '       535'
isi: 1
issue: '1'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 1067-1094
publication: Monthly Notices of the Royal Astronomical Society
publication_identifier:
  eissn:
  - 1365-2966
  issn:
  - 0035-8711
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'JWST FRESCO: A comprehensive census of H β + [O iii] emitters at 6.8 < z <
  9.0 in the GOODS fields'
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 535
year: '2024'
...
---
OA_place: repository
OA_type: green
_id: '18586'
abstract:
- lang: eng
  text: "We prove the Central Limit Theorem and superpolynomial mixing for environment\r\nviewed
    from the particle process in quasi periodic Diophantine random environment. The
    main\r\ningredients are smoothness estimates for the solution of the Poisson equation
    and local limit asymptotics for certain accelerated walks."
acknowledgement: "ents. The authors are grateful to Agnieszka Zelerowicz and the anonymous
  referee\r\nfor useful comments. The first author is grateful to Minsung Kim for
  providing some references.\r\nThe first author has been supported by the European
  Union Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie
  Grant Agreement No. 101034413. The second author has been supported by the NSF grant
  DMS 2246983."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Klaudiusz S
  full_name: Czudek, Klaudiusz S
  id: 5c0e116e-803f-11ed-ab7e-90d572405f20
  last_name: Czudek
- first_name: Dmitry
  full_name: Dolgopyat, Dmitry
  last_name: Dolgopyat
citation:
  ama: CZUDEK KS, Dolgopyat D. The central limit theorem and rate of mixing for simple
    random walks on the circle. <i>Alea</i>. 2024;21(2):1853-1865. doi:<a href="https://doi.org/10.30757/ALEA.V21-70">10.30757/ALEA.V21-70</a>
  apa: CZUDEK, K. S., &#38; Dolgopyat, D. (2024). The central limit theorem and rate
    of mixing for simple random walks on the circle. <i>Alea</i>. Instituto Nacional
    de Matematica Pura e Aplicada. <a href="https://doi.org/10.30757/ALEA.V21-70">https://doi.org/10.30757/ALEA.V21-70</a>
  chicago: CZUDEK, Klaudiusz S, and Dmitry Dolgopyat. “The Central Limit Theorem and
    Rate of Mixing for Simple Random Walks on the Circle.” <i>Alea</i>. Instituto
    Nacional de Matematica Pura e Aplicada, 2024. <a href="https://doi.org/10.30757/ALEA.V21-70">https://doi.org/10.30757/ALEA.V21-70</a>.
  ieee: K. S. CZUDEK and D. Dolgopyat, “The central limit theorem and rate of mixing
    for simple random walks on the circle,” <i>Alea</i>, vol. 21, no. 2. Instituto
    Nacional de Matematica Pura e Aplicada, pp. 1853–1865, 2024.
  ista: CZUDEK KS, Dolgopyat D. 2024. The central limit theorem and rate of mixing
    for simple random walks on the circle. Alea. 21(2), 1853–1865.
  mla: CZUDEK, Klaudiusz S., and Dmitry Dolgopyat. “The Central Limit Theorem and
    Rate of Mixing for Simple Random Walks on the Circle.” <i>Alea</i>, vol. 21, no.
    2, Instituto Nacional de Matematica Pura e Aplicada, 2024, pp. 1853–65, doi:<a
    href="https://doi.org/10.30757/ALEA.V21-70">10.30757/ALEA.V21-70</a>.
  short: K.S. CZUDEK, D. Dolgopyat, Alea 21 (2024) 1853–1865.
date_created: 2024-11-24T23:01:49Z
date_published: 2024-11-01T00:00:00Z
date_updated: 2025-09-08T14:48:42Z
day: '01'
department:
- _id: VaKa
doi: 10.30757/ALEA.V21-70
ec_funded: 1
external_id:
  arxiv:
  - '2404.11700'
  isi:
  - '001440992000003'
intvolume: '        21'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: ' https://doi.org/10.48550/arXiv.2404.11700'
month: '11'
oa: 1
oa_version: Preprint
page: 1853-1865
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
  call_identifier: H2020
  grant_number: '101034413'
  name: 'IST-BRIDGE: International postdoctoral program'
publication: Alea
publication_identifier:
  issn:
  - 1980-0436
publication_status: published
publisher: Instituto Nacional de Matematica Pura e Aplicada
quality_controlled: '1'
scopus_import: '1'
status: public
title: The central limit theorem and rate of mixing for simple random walks on the
  circle
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 21
year: '2024'
...
