---
_id: '13266'
abstract:
- lang: eng
  text: The 3′,5′-cyclic adenosine monophosphate (cAMP) is a versatile second messenger
    in many mammalian signaling pathways. However, its role in plants remains not
    well-recognized. Recent discovery of adenylate cyclase (AC) activity for transport
    inhibitor response 1/auxin-signaling F-box proteins (TIR1/AFB) auxin receptors
    and the demonstration of its importance for canonical auxin signaling put plant
    cAMP research back into spotlight. This insight briefly summarizes the well-established
    cAMP signaling pathways in mammalian cells and describes the turbulent and controversial
    history of plant cAMP research highlighting the major progress and the unresolved
    points. We also briefly review the current paradigm of auxin signaling to provide
    a background for the discussion on the AC activity of TIR1/AFB auxin receptors
    and its potential role in transcriptional auxin signaling as well as impact of
    these discoveries on plant cAMP research in general.
acknowledgement: 'We gratefully acknowledge our brave colleagues, whose excellent
  efforts kept the plant cAMP research going in the last two decades. The authors
  were financially supported by the Austrian Science Fund (FWF): I 6123 and P 37051-B.'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Linlin
  full_name: Qi, Linlin
  id: 44B04502-A9ED-11E9-B6FC-583AE6697425
  last_name: Qi
  orcid: 0000-0001-5187-8401
- first_name: Jiří
  full_name: Friml, Jiří
  id: 4159519E-F248-11E8-B48F-1D18A9856A87
  last_name: Friml
  orcid: 0000-0002-8302-7596
citation:
  ama: Qi L, Friml J. Tale of cAMP as a second messenger in auxin signaling and beyond.
    <i>New Phytologist</i>. 2023;240(2):489-495. doi:<a href="https://doi.org/10.1111/nph.19123">10.1111/nph.19123</a>
  apa: Qi, L., &#38; Friml, J. (2023). Tale of cAMP as a second messenger in auxin
    signaling and beyond. <i>New Phytologist</i>. Wiley. <a href="https://doi.org/10.1111/nph.19123">https://doi.org/10.1111/nph.19123</a>
  chicago: Qi, Linlin, and Jiří Friml. “Tale of CAMP as a Second Messenger in Auxin
    Signaling and Beyond.” <i>New Phytologist</i>. Wiley, 2023. <a href="https://doi.org/10.1111/nph.19123">https://doi.org/10.1111/nph.19123</a>.
  ieee: L. Qi and J. Friml, “Tale of cAMP as a second messenger in auxin signaling
    and beyond,” <i>New Phytologist</i>, vol. 240, no. 2. Wiley, pp. 489–495, 2023.
  ista: Qi L, Friml J. 2023. Tale of cAMP as a second messenger in auxin signaling
    and beyond. New Phytologist. 240(2), 489–495.
  mla: Qi, Linlin, and Jiří Friml. “Tale of CAMP as a Second Messenger in Auxin Signaling
    and Beyond.” <i>New Phytologist</i>, vol. 240, no. 2, Wiley, 2023, pp. 489–95,
    doi:<a href="https://doi.org/10.1111/nph.19123">10.1111/nph.19123</a>.
  short: L. Qi, J. Friml, New Phytologist 240 (2023) 489–495.
date_created: 2023-07-23T22:01:13Z
date_published: 2023-10-01T00:00:00Z
date_updated: 2024-01-29T11:21:55Z
day: '01'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1111/nph.19123
external_id:
  isi:
  - '001026321500001'
  pmid:
  - '37434303'
file:
- access_level: open_access
  checksum: 6d9bbd45b8e7bb3ceee2586d447bacb2
  content_type: application/pdf
  creator: dernst
  date_created: 2024-01-29T11:21:43Z
  date_updated: 2024-01-29T11:21:43Z
  file_id: '14898'
  file_name: 2023_NewPhytologist_Qi.pdf
  file_size: 974464
  relation: main_file
  success: 1
file_date_updated: 2024-01-29T11:21:43Z
has_accepted_license: '1'
intvolume: '       240'
isi: 1
issue: '2'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 489-495
pmid: 1
project:
- _id: bd76d395-d553-11ed-ba76-f678c14f9033
  grant_number: I06123
  name: Peptide receptor complexes for auxin canalization and regeneration in Arabidopsis
- _id: 7bcece63-9f16-11ee-852c-ae94e099eeb6
  grant_number: P37051
  name: Guanylate cyclase activity of TIR1/AFBs auxin receptors
publication: New Phytologist
publication_identifier:
  eissn:
  - 1469-8137
  issn:
  - 0028-646X
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Tale of cAMP as a second messenger in auxin signaling and beyond
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: 240
year: '2023'
...
---
_id: '13267'
abstract:
- lang: eng
  text: Three-dimensional (3D) reconstruction of living brain tissue down to an individual
    synapse level would create opportunities for decoding the dynamics and structure–function
    relationships of the brain’s complex and dense information processing network;
    however, this has been hindered by insufficient 3D resolution, inadequate signal-to-noise
    ratio and prohibitive light burden in optical imaging, whereas electron microscopy
    is inherently static. Here we solved these challenges by developing an integrated
    optical/machine-learning technology, LIONESS (live information-optimized nanoscopy
    enabling saturated segmentation). This leverages optical modifications to stimulated
    emission depletion microscopy in comprehensively, extracellularly labeled tissue
    and previous information on sample structure via machine learning to simultaneously
    achieve isotropic super-resolution, high signal-to-noise ratio and compatibility
    with living tissue. This allows dense deep-learning-based instance segmentation
    and 3D reconstruction at a synapse level, incorporating molecular, activity and
    morphodynamic information. LIONESS opens up avenues for studying the dynamic functional
    (nano-)architecture of living brain tissue.
acknowledged_ssus:
- _id: ScienComp
- _id: Bio
- _id: PreCl
- _id: E-Lib
- _id: LifeSc
- _id: M-Shop
acknowledgement: "We thank J. Vorlaufer, N. Agudelo and A. Wartak for microscope maintenance
  and troubleshooting, C. Kreuzinger and A. Freeman for technical assistance, M. Šuplata
  for hardware control support and M. Cunha dos Santos for initial exploration of
  software. We\r\nthank P. Henderson for advice on deep-learning training and M. Sixt,
  S. Boyd and T. Weiss for discussions and critical reading of the manuscript. L.
  Lavis (Janelia Research Campus) generously provided the JF585-HaloTag ligand. We
  acknowledge expert support by IST\r\nAustria’s scientific computing, imaging and
  optics, preclinical, library and laboratory support facilities and by the Miba machine
  shop. We gratefully acknowledge funding by the following sources: Austrian Science
  Fund (F.W.F.) grant no. I3600-B27 (J.G.D.), grant no. DK W1232\r\n(J.G.D. and J.M.M.)
  and grant no. Z 312-B27, Wittgenstein award (P.J.); the Gesellschaft für Forschungsförderung
  NÖ grant no. LSC18-022 (J.G.D.); an ISTA Interdisciplinary project grant (J.G.D.
  and B.B.); the European Union’s Horizon 2020 research and innovation programme,\r\nMarie-Skłodowska
  Curie grant 665385 (J.M.M. and J.L.); the European Union’s Horizon 2020 research
  and innovation programme, European Research Council grant no. 715767, MATERIALIZABLE
  (B.B.); grant no. 715508, REVERSEAUTISM (G.N.); grant no. 695568, SYNNOVATE (S.G.N.G.);
  and grant no. 692692, GIANTSYN (P.J.); the Simons\r\nFoundation Autism Research
  Initiative grant no. 529085 (S.G.N.G.); the Wellcome Trust Technology Development
  grant no. 202932 (S.G.N.G.); the Marie Skłodowska-Curie Actions Individual Fellowship
  no. 101026635 under the EU Horizon 2020 program (J.F.W.);\r\nthe Human Frontier
  Science Program postdoctoral fellowship LT000557/2018 (W.J.); and the National Science
  Foundation grant no. IIS-1835231 (H.P.) and NCS-FO-2124179 (H.P.)."
article_processing_charge: Yes
article_type: original
author:
- first_name: Philipp
  full_name: Velicky, Philipp
  id: 39BDC62C-F248-11E8-B48F-1D18A9856A87
  last_name: Velicky
  orcid: 0000-0002-2340-7431
- first_name: Eder
  full_name: Miguel Villalba, Eder
  id: 3FB91342-F248-11E8-B48F-1D18A9856A87
  last_name: Miguel Villalba
  orcid: 0000-0001-5665-0430
- first_name: Julia M
  full_name: Michalska, Julia M
  id: 443DB6DE-F248-11E8-B48F-1D18A9856A87
  last_name: Michalska
  orcid: 0000-0003-3862-1235
- first_name: Julia
  full_name: Lyudchik, Julia
  id: 46E28B80-F248-11E8-B48F-1D18A9856A87
  last_name: Lyudchik
- first_name: Donglai
  full_name: Wei, Donglai
  last_name: Wei
- first_name: Zudi
  full_name: Lin, Zudi
  last_name: Lin
- first_name: Jake
  full_name: Watson, Jake
  id: 63836096-4690-11EA-BD4E-32803DDC885E
  last_name: Watson
  orcid: 0000-0002-8698-3823
- first_name: Jakob
  full_name: Troidl, Jakob
  last_name: Troidl
- first_name: Johanna
  full_name: Beyer, Johanna
  last_name: Beyer
- first_name: Yoav
  full_name: Ben Simon, Yoav
  id: 43DF3136-F248-11E8-B48F-1D18A9856A87
  last_name: Ben Simon
- first_name: Christoph M
  full_name: Sommer, Christoph M
  id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87
  last_name: Sommer
  orcid: 0000-0003-1216-9105
- first_name: Wiebke
  full_name: Jahr, Wiebke
  id: 425C1CE8-F248-11E8-B48F-1D18A9856A87
  last_name: Jahr
- first_name: Alban
  full_name: Cenameri, Alban
  id: 9ac8f577-2357-11eb-997a-e566c5550886
  last_name: Cenameri
- first_name: Johannes
  full_name: Broichhagen, Johannes
  last_name: Broichhagen
- first_name: Seth G.N.
  full_name: Grant, Seth G.N.
  last_name: Grant
- first_name: Peter M
  full_name: Jonas, Peter M
  id: 353C1B58-F248-11E8-B48F-1D18A9856A87
  last_name: Jonas
  orcid: 0000-0001-5001-4804
- first_name: Gaia
  full_name: Novarino, Gaia
  id: 3E57A680-F248-11E8-B48F-1D18A9856A87
  last_name: Novarino
  orcid: 0000-0002-7673-7178
- first_name: Hanspeter
  full_name: Pfister, Hanspeter
  last_name: Pfister
- first_name: Bernd
  full_name: Bickel, Bernd
  id: 49876194-F248-11E8-B48F-1D18A9856A87
  last_name: Bickel
  orcid: 0000-0001-6511-9385
- first_name: Johann G
  full_name: Danzl, Johann G
  id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
  last_name: Danzl
  orcid: 0000-0001-8559-3973
citation:
  ama: Velicky P, Miguel Villalba E, Michalska JM, et al. Dense 4D nanoscale reconstruction
    of living brain tissue. <i>Nature Methods</i>. 2023;20:1256-1265. doi:<a href="https://doi.org/10.1038/s41592-023-01936-6">10.1038/s41592-023-01936-6</a>
  apa: Velicky, P., Miguel Villalba, E., Michalska, J. M., Lyudchik, J., Wei, D.,
    Lin, Z., … Danzl, J. G. (2023). Dense 4D nanoscale reconstruction of living brain
    tissue. <i>Nature Methods</i>. Springer Nature. <a href="https://doi.org/10.1038/s41592-023-01936-6">https://doi.org/10.1038/s41592-023-01936-6</a>
  chicago: Velicky, Philipp, Eder Miguel Villalba, Julia M Michalska, Julia Lyudchik,
    Donglai Wei, Zudi Lin, Jake Watson, et al. “Dense 4D Nanoscale Reconstruction
    of Living Brain Tissue.” <i>Nature Methods</i>. Springer Nature, 2023. <a href="https://doi.org/10.1038/s41592-023-01936-6">https://doi.org/10.1038/s41592-023-01936-6</a>.
  ieee: P. Velicky <i>et al.</i>, “Dense 4D nanoscale reconstruction of living brain
    tissue,” <i>Nature Methods</i>, vol. 20. Springer Nature, pp. 1256–1265, 2023.
  ista: Velicky P, Miguel Villalba E, Michalska JM, Lyudchik J, Wei D, Lin Z, Watson
    J, Troidl J, Beyer J, Ben Simon Y, Sommer CM, Jahr W, Cenameri A, Broichhagen
    J, Grant SGN, Jonas PM, Novarino G, Pfister H, Bickel B, Danzl JG. 2023. Dense
    4D nanoscale reconstruction of living brain tissue. Nature Methods. 20, 1256–1265.
  mla: Velicky, Philipp, et al. “Dense 4D Nanoscale Reconstruction of Living Brain
    Tissue.” <i>Nature Methods</i>, vol. 20, Springer Nature, 2023, pp. 1256–65, doi:<a
    href="https://doi.org/10.1038/s41592-023-01936-6">10.1038/s41592-023-01936-6</a>.
  short: P. Velicky, E. Miguel Villalba, J.M. Michalska, J. Lyudchik, D. Wei, Z. Lin,
    J. Watson, J. Troidl, J. Beyer, Y. Ben Simon, C.M. Sommer, W. Jahr, A. Cenameri,
    J. Broichhagen, S.G.N. Grant, P.M. Jonas, G. Novarino, H. Pfister, B. Bickel,
    J.G. Danzl, Nature Methods 20 (2023) 1256–1265.
date_created: 2023-07-23T22:01:13Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2024-01-10T08:37:48Z
day: '01'
department:
- _id: PeJo
- _id: GaNo
- _id: BeBi
- _id: JoDa
- _id: Bio
doi: 10.1038/s41592-023-01936-6
ec_funded: 1
external_id:
  isi:
  - '001025621500001'
  pmid:
  - '37429995'
intvolume: '        20'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1038/s41592-023-01936-6
month: '08'
oa: 1
oa_version: Published Version
page: 1256-1265
pmid: 1
project:
- _id: 265CB4D0-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: I03600
  name: Optical control of synaptic function via adhesion molecules
- _id: 2548AE96-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: W1232-B24
  name: Molecular Drug Targets
- _id: 25C5A090-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: Z00312
  name: The Wittgenstein Prize
- _id: 23889792-32DE-11EA-91FC-C7463DDC885E
  name: High content imaging to decode human immune cell interactions in health and
    allergic disease
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '665385'
  name: International IST Doctoral Program
- _id: 24F9549A-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '715767'
  name: 'MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and
    Modeling'
- _id: 25444568-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '715508'
  name: Probing the Reversibility of Autism Spectrum Disorders by Employing in vivo
    and in vitro Models
- _id: 25B7EB9E-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '692692'
  name: Biophysics and circuit function of a giant cortical glumatergic synapse
- _id: fc2be41b-9c52-11eb-aca3-faa90aa144e9
  call_identifier: H2020
  grant_number: '101026635'
  name: Synaptic computations of the hippocampal CA3 circuitry
- _id: 2668BFA0-B435-11E9-9278-68D0E5697425
  grant_number: LT00057
  name: High-speed 3D-nanoscopy to study the role of adhesion during 3D cell migration
publication: Nature Methods
publication_identifier:
  eissn:
  - 1548-7105
  issn:
  - 1548-7091
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
  link:
  - relation: software
    url: https://github.com/danzllab/LIONESS
  record:
  - id: '12817'
    relation: research_data
    status: public
  - id: '14770'
    relation: shorter_version
    status: public
scopus_import: '1'
status: public
title: Dense 4D nanoscale reconstruction of living brain tissue
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 20
year: '2023'
...
---
_id: '13268'
abstract:
- lang: eng
  text: We give a simple argument to prove Nagai’s conjecture for type II degenerations
    of compact hyperkähler manifolds and cohomology classes of middle degree. Under
    an additional assumption, the techniques yield the conjecture in arbitrary degree.
    This would complete the proof of Nagai’s conjecture in general, as it was proved
    already for type I degenerations by Kollár, Laza, Saccà, and Voisin [10] and independently
    by Soldatenkov [18], while it is immediate for type III degenerations. Our arguments
    are close in spirit to a recent paper by Harder [8] proving similar results for
    the restrictive class of good degenerations.
acknowledgement: The first author is supported by the ERC Synergy Grant HyperK. The
  second author is supported by the Max Planck Institute for Mathematics and the Institute
  of Science and Technology Austria. This project has received funding from the European
  Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie
  grant agreement No 101034413.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: D.
  full_name: Huybrechts, D.
  last_name: Huybrechts
- first_name: Mirko
  full_name: Mauri, Mirko
  id: 2cf70c34-09c1-11ed-bd8d-c34fac206130
  last_name: Mauri
citation:
  ama: Huybrechts D, Mauri M. On type II degenerations of hyperkähler manifolds. <i>Mathematical
    Research Letters</i>. 2023;30(1):125-141. doi:<a href="https://doi.org/10.4310/mrl.2023.v30.n1.a6">10.4310/mrl.2023.v30.n1.a6</a>
  apa: Huybrechts, D., &#38; Mauri, M. (2023). On type II degenerations of hyperkähler
    manifolds. <i>Mathematical Research Letters</i>. International Press. <a href="https://doi.org/10.4310/mrl.2023.v30.n1.a6">https://doi.org/10.4310/mrl.2023.v30.n1.a6</a>
  chicago: Huybrechts, D., and Mirko Mauri. “On Type II Degenerations of Hyperkähler
    Manifolds.” <i>Mathematical Research Letters</i>. International Press, 2023. <a
    href="https://doi.org/10.4310/mrl.2023.v30.n1.a6">https://doi.org/10.4310/mrl.2023.v30.n1.a6</a>.
  ieee: D. Huybrechts and M. Mauri, “On type II degenerations of hyperkähler manifolds,”
    <i>Mathematical Research Letters</i>, vol. 30, no. 1. International Press, pp.
    125–141, 2023.
  ista: Huybrechts D, Mauri M. 2023. On type II degenerations of hyperkähler manifolds.
    Mathematical Research Letters. 30(1), 125–141.
  mla: Huybrechts, D., and Mirko Mauri. “On Type II Degenerations of Hyperkähler Manifolds.”
    <i>Mathematical Research Letters</i>, vol. 30, no. 1, International Press, 2023,
    pp. 125–41, doi:<a href="https://doi.org/10.4310/mrl.2023.v30.n1.a6">10.4310/mrl.2023.v30.n1.a6</a>.
  short: D. Huybrechts, M. Mauri, Mathematical Research Letters 30 (2023) 125–141.
date_created: 2023-07-23T22:01:14Z
date_published: 2023-06-21T00:00:00Z
date_updated: 2024-01-16T12:00:47Z
day: '21'
department:
- _id: TaHa
doi: 10.4310/mrl.2023.v30.n1.a6
ec_funded: 1
external_id:
  arxiv:
  - '2108.01587'
  isi:
  - '001027656000006'
intvolume: '        30'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2108.01587
month: '06'
oa: 1
oa_version: Preprint
page: 125-141
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
  call_identifier: H2020
  grant_number: '101034413'
  name: 'IST-BRIDGE: International postdoctoral program'
publication: Mathematical Research Letters
publication_identifier:
  eissn:
  - 1945-001X
  issn:
  - 1073-2780
publication_status: published
publisher: International Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: On type II degenerations of hyperkähler manifolds
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 30
year: '2023'
...
---
_id: '13269'
abstract:
- lang: eng
  text: This paper is a collection of results on combinatorial properties of codes
    for the Z-channel . A Z-channel with error fraction τ takes as input a length-
    n binary codeword and injects in an adversarial manner up to n τ asymmetric errors,
    i.e., errors that only zero out bits but do not flip 0’s to 1’s. It is known that
    the largest ( L - 1)-list-decodable code for the Z-channel with error fraction
    τ has exponential size (in n ) if τ is less than a critical value that we call
    the ( L - 1)- list-decoding Plotkin point and has constant size if τ is larger
    than the threshold. The ( L -1)-list-decoding Plotkin point is known to be L -1/L-1
    – L -L/ L-1 , which equals 1/4 for unique-decoding with L -1 = 1. In this paper,
    we derive various results for the size of the largest codes above and below the
    list-decoding Plotkin point. In particular, we show that the largest ( L -1)-list-decodable
    code ε-above the Plotkin point, for any given sufficiently small positive constant
    ε > 0, has size Θ L (ε -3/2 ) for any L - 1 ≥ 1. We also devise upper and lower
    bounds on the exponential size of codes below the list-decoding Plotkin point.
acknowledgement: "Nikita Polyanskii’s research was conducted in part during October
  2020 - December 2021 with the Technical University of Munich and the Skolkovo Institute
  of Science and Technology. His work was supported by the German Research Foundation
  (Deutsche Forschungsgemeinschaft, DFG) under Grant No. WA3907/1-1 and the Russian
  Foundation for Basic Research (RFBR)\r\nunder Grant No. 20-01-00559.\r\nYihan Zhang
  is supported by funding from the European Union’s Horizon 2020 research and innovation
  programme under grant agreement No 682203-ERC-[Inf-Speed-Tradeoff]."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Nikita
  full_name: Polyanskii, Nikita
  last_name: Polyanskii
- first_name: Yihan
  full_name: Zhang, Yihan
  id: 2ce5da42-b2ea-11eb-bba5-9f264e9d002c
  last_name: Zhang
  orcid: 0000-0002-6465-6258
citation:
  ama: Polyanskii N, Zhang Y. Codes for the Z-channel. <i>IEEE Transactions on Information
    Theory</i>. 2023;69(10):6340-6357. doi:<a href="https://doi.org/10.1109/TIT.2023.3292219">10.1109/TIT.2023.3292219</a>
  apa: Polyanskii, N., &#38; Zhang, Y. (2023). Codes for the Z-channel. <i>IEEE Transactions
    on Information Theory</i>. Institute of Electrical and Electronics Engineers.
    <a href="https://doi.org/10.1109/TIT.2023.3292219">https://doi.org/10.1109/TIT.2023.3292219</a>
  chicago: Polyanskii, Nikita, and Yihan Zhang. “Codes for the Z-Channel.” <i>IEEE
    Transactions on Information Theory</i>. Institute of Electrical and Electronics
    Engineers, 2023. <a href="https://doi.org/10.1109/TIT.2023.3292219">https://doi.org/10.1109/TIT.2023.3292219</a>.
  ieee: N. Polyanskii and Y. Zhang, “Codes for the Z-channel,” <i>IEEE Transactions
    on Information Theory</i>, vol. 69, no. 10. Institute of Electrical and Electronics
    Engineers, pp. 6340–6357, 2023.
  ista: Polyanskii N, Zhang Y. 2023. Codes for the Z-channel. IEEE Transactions on
    Information Theory. 69(10), 6340–6357.
  mla: Polyanskii, Nikita, and Yihan Zhang. “Codes for the Z-Channel.” <i>IEEE Transactions
    on Information Theory</i>, vol. 69, no. 10, Institute of Electrical and Electronics
    Engineers, 2023, pp. 6340–57, doi:<a href="https://doi.org/10.1109/TIT.2023.3292219">10.1109/TIT.2023.3292219</a>.
  short: N. Polyanskii, Y. Zhang, IEEE Transactions on Information Theory 69 (2023)
    6340–6357.
date_created: 2023-07-23T22:01:14Z
date_published: 2023-07-04T00:00:00Z
date_updated: 2024-01-29T11:10:54Z
day: '04'
department:
- _id: MaMo
doi: 10.1109/TIT.2023.3292219
external_id:
  arxiv:
  - '2105.01427'
  isi:
  - '001069680100011'
intvolume: '        69'
isi: 1
issue: '10'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2105.01427
month: '07'
oa: 1
oa_version: Preprint
page: 6340-6357
publication: IEEE Transactions on Information Theory
publication_identifier:
  eissn:
  - 1557-9654
  issn:
  - 0018-9448
publication_status: published
publisher: Institute of Electrical and Electronics Engineers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Codes for the Z-channel
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 69
year: '2023'
...
---
_id: '13270'
abstract:
- lang: eng
  text: "Consider a geodesic triangle on a surface of constant curvature and subdivide
    it recursively into four triangles by joining the midpoints of its edges. We show
    the existence of a uniform δ>0\r\n such that, at any step of the subdivision,
    all the triangle angles lie in the interval (δ,π−δ)\r\n. Additionally, we exhibit
    stabilising behaviours for both angles and lengths as this subdivision progresses."
acknowledgement: Open access funding provided by the Institute of Science and Technology
  (IST Austria).
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Florestan R
  full_name: Brunck, Florestan R
  id: 6ab6e556-f394-11eb-9cf6-9dfb78f00d8d
  last_name: Brunck
citation:
  ama: Brunck FR. Iterated medial triangle subdivision in surfaces of constant curvature.
    <i>Discrete and Computational Geometry</i>. 2023;70(3):1059-1089. doi:<a href="https://doi.org/10.1007/s00454-023-00500-5">10.1007/s00454-023-00500-5</a>
  apa: Brunck, F. R. (2023). Iterated medial triangle subdivision in surfaces of constant
    curvature. <i>Discrete and Computational Geometry</i>. Springer Nature. <a href="https://doi.org/10.1007/s00454-023-00500-5">https://doi.org/10.1007/s00454-023-00500-5</a>
  chicago: Brunck, Florestan R. “Iterated Medial Triangle Subdivision in Surfaces
    of Constant Curvature.” <i>Discrete and Computational Geometry</i>. Springer Nature,
    2023. <a href="https://doi.org/10.1007/s00454-023-00500-5">https://doi.org/10.1007/s00454-023-00500-5</a>.
  ieee: F. R. Brunck, “Iterated medial triangle subdivision in surfaces of constant
    curvature,” <i>Discrete and Computational Geometry</i>, vol. 70, no. 3. Springer
    Nature, pp. 1059–1089, 2023.
  ista: Brunck FR. 2023. Iterated medial triangle subdivision in surfaces of constant
    curvature. Discrete and Computational Geometry. 70(3), 1059–1089.
  mla: Brunck, Florestan R. “Iterated Medial Triangle Subdivision in Surfaces of Constant
    Curvature.” <i>Discrete and Computational Geometry</i>, vol. 70, no. 3, Springer
    Nature, 2023, pp. 1059–89, doi:<a href="https://doi.org/10.1007/s00454-023-00500-5">10.1007/s00454-023-00500-5</a>.
  short: F.R. Brunck, Discrete and Computational Geometry 70 (2023) 1059–1089.
date_created: 2023-07-23T22:01:14Z
date_published: 2023-07-05T00:00:00Z
date_updated: 2024-01-29T11:16:16Z
day: '05'
ddc:
- '510'
department:
- _id: UlWa
doi: 10.1007/s00454-023-00500-5
external_id:
  arxiv:
  - '2107.04112'
  isi:
  - '001023742800003'
file:
- access_level: open_access
  checksum: 865e68daafdd4edcfc280172ec50f5ea
  content_type: application/pdf
  creator: dernst
  date_created: 2024-01-29T11:15:22Z
  date_updated: 2024-01-29T11:15:22Z
  file_id: '14897'
  file_name: 2023_DiscreteComputGeometry_Brunck.pdf
  file_size: 1466020
  relation: main_file
  success: 1
file_date_updated: 2024-01-29T11:15:22Z
has_accepted_license: '1'
intvolume: '        70'
isi: 1
issue: '3'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 1059-1089
publication: Discrete and Computational Geometry
publication_identifier:
  eissn:
  - 1432-0444
  issn:
  - 0179-5376
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Iterated medial triangle subdivision in surfaces of constant curvature
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: 70
year: '2023'
...
---
_id: '13271'
abstract:
- lang: eng
  text: "In this paper, we prove the convexity of trace functionals (A,B,C)↦Tr|BpACq|s,\r\nfor
    parameters (p, q, s) that are best possible, where B and C are any n-by-n positive-definite
    matrices, and A is any n-by-n matrix. We also obtain the monotonicity versions
    of trace functionals of this type. As applications, we extend some results in
    Carlen et al. (Linear Algebra Appl 490:174–185, 2016), Hiai and Petz (Publ Res
    Inst Math Sci 48(3):525-542, 2012) and resolve a conjecture in Al-Rashed and Zegarliński
    (Infin Dimens Anal Quantum Probab Relat Top 17(4):1450029, 2014) in the matrix
    setting. Other conjectures in Al-Rashed and Zegarliński (Infin Dimens Anal Quantum
    Probab Relat Top 17(4):1450029, 2014) will also be discussed. We also show that
    some related trace functionals are not concave in general. Such concavity results
    were expected to hold in different problems."
acknowledgement: I am grateful to Boguslaw Zegarliński for asking me the questions
  in [3] and for helpful communication. I also want to thank Paata Ivanisvili for
  drawing [25] to my attention and for useful correspondence. Many thanks to the anonymous
  referee for the valuable comments and for pointing out some errors in an earlier
  version of the paper. This work is partially supported by the European Union’s Horizon
  2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement
  No. 754411 and the Lise Meitner fellowship, Austrian Science Fund (FWF) M3337.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Haonan
  full_name: Zhang, Haonan
  id: D8F41E38-9E66-11E9-A9E2-65C2E5697425
  last_name: Zhang
citation:
  ama: Zhang H. Some convexity and monotonicity results of trace functionals. <i>Annales
    Henri Poincare</i>. 2023. doi:<a href="https://doi.org/10.1007/s00023-023-01345-7">10.1007/s00023-023-01345-7</a>
  apa: Zhang, H. (2023). Some convexity and monotonicity results of trace functionals.
    <i>Annales Henri Poincare</i>. Springer Nature. <a href="https://doi.org/10.1007/s00023-023-01345-7">https://doi.org/10.1007/s00023-023-01345-7</a>
  chicago: Zhang, Haonan. “Some Convexity and Monotonicity Results of Trace Functionals.”
    <i>Annales Henri Poincare</i>. Springer Nature, 2023. <a href="https://doi.org/10.1007/s00023-023-01345-7">https://doi.org/10.1007/s00023-023-01345-7</a>.
  ieee: H. Zhang, “Some convexity and monotonicity results of trace functionals,”
    <i>Annales Henri Poincare</i>. Springer Nature, 2023.
  ista: Zhang H. 2023. Some convexity and monotonicity results of trace functionals.
    Annales Henri Poincare.
  mla: Zhang, Haonan. “Some Convexity and Monotonicity Results of Trace Functionals.”
    <i>Annales Henri Poincare</i>, Springer Nature, 2023, doi:<a href="https://doi.org/10.1007/s00023-023-01345-7">10.1007/s00023-023-01345-7</a>.
  short: H. Zhang, Annales Henri Poincare (2023).
date_created: 2023-07-23T22:01:15Z
date_published: 2023-07-08T00:00:00Z
date_updated: 2023-12-13T11:33:46Z
day: '08'
department:
- _id: JaMa
doi: 10.1007/s00023-023-01345-7
ec_funded: 1
external_id:
  arxiv:
  - '2108.05785'
  isi:
  - '001025709100001'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2108.05785
month: '07'
oa: 1
oa_version: Preprint
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '754411'
  name: ISTplus - Postdoctoral Fellowships
- _id: eb958bca-77a9-11ec-83b8-c565cb50d8d6
  grant_number: M03337
  name: Curvature-dimension in noncommutative analysis
publication: Annales Henri Poincare
publication_identifier:
  issn:
  - 1424-0637
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Some convexity and monotonicity results of trace functionals
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13274'
abstract:
- lang: eng
  text: Viscous flows through pipes and channels are steady and ordered until, with
    increasing velocity, the laminar motion catastrophically breaks down and gives
    way to turbulence. How this apparently discontinuous change from low- to high-dimensional
    motion can be rationalized within the framework of the Navier-Stokes equations
    is not well understood. Exploiting geometrical properties of transitional channel
    flow we trace turbulence to far lower Reynolds numbers (Re) than previously possible
    and identify the complete path that reversibly links fully turbulent motion to
    an invariant solution. This precursor of turbulence destabilizes rapidly with
    Re, and the accompanying explosive increase in attractor dimension effectively
    marks the transition between deterministic and de facto stochastic dynamics.
acknowledgement: We thank Baofang Song as well as the developers of Channelflow for
  sharing their numerical codes, and Mukund Vasudevan and Holger Kantz for fruitful
  discussions. This work was supported by a grant from the Simons Foundation (662960,
  B. H.).
article_number: '034002'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Chaitanya S
  full_name: Paranjape, Chaitanya S
  id: 3D85B7C4-F248-11E8-B48F-1D18A9856A87
  last_name: Paranjape
- first_name: Gökhan
  full_name: Yalniz, Gökhan
  id: 66E74FA2-D8BF-11E9-8249-8DE2E5697425
  last_name: Yalniz
  orcid: 0000-0002-8490-9312
- first_name: Yohann
  full_name: Duguet, Yohann
  last_name: Duguet
- first_name: Nazmi B
  full_name: Budanur, Nazmi B
  id: 3EA1010E-F248-11E8-B48F-1D18A9856A87
  last_name: Budanur
  orcid: 0000-0003-0423-5010
- first_name: Björn
  full_name: Hof, Björn
  id: 3A374330-F248-11E8-B48F-1D18A9856A87
  last_name: Hof
  orcid: 0000-0003-2057-2754
citation:
  ama: Paranjape CS, Yalniz G, Duguet Y, Budanur NB, Hof B. Direct path from turbulence
    to time-periodic solutions. <i>Physical Review Letters</i>. 2023;131(3). doi:<a
    href="https://doi.org/10.1103/physrevlett.131.034002">10.1103/physrevlett.131.034002</a>
  apa: Paranjape, C. S., Yalniz, G., Duguet, Y., Budanur, N. B., &#38; Hof, B. (2023).
    Direct path from turbulence to time-periodic solutions. <i>Physical Review Letters</i>.
    American Physical Society. <a href="https://doi.org/10.1103/physrevlett.131.034002">https://doi.org/10.1103/physrevlett.131.034002</a>
  chicago: Paranjape, Chaitanya S, Gökhan Yalniz, Yohann Duguet, Nazmi B Budanur,
    and Björn Hof. “Direct Path from Turbulence to Time-Periodic Solutions.” <i>Physical
    Review Letters</i>. American Physical Society, 2023. <a href="https://doi.org/10.1103/physrevlett.131.034002">https://doi.org/10.1103/physrevlett.131.034002</a>.
  ieee: C. S. Paranjape, G. Yalniz, Y. Duguet, N. B. Budanur, and B. Hof, “Direct
    path from turbulence to time-periodic solutions,” <i>Physical Review Letters</i>,
    vol. 131, no. 3. American Physical Society, 2023.
  ista: Paranjape CS, Yalniz G, Duguet Y, Budanur NB, Hof B. 2023. Direct path from
    turbulence to time-periodic solutions. Physical Review Letters. 131(3), 034002.
  mla: Paranjape, Chaitanya S., et al. “Direct Path from Turbulence to Time-Periodic
    Solutions.” <i>Physical Review Letters</i>, vol. 131, no. 3, 034002, American
    Physical Society, 2023, doi:<a href="https://doi.org/10.1103/physrevlett.131.034002">10.1103/physrevlett.131.034002</a>.
  short: C.S. Paranjape, G. Yalniz, Y. Duguet, N.B. Budanur, B. Hof, Physical Review
    Letters 131 (2023).
date_created: 2023-07-24T09:43:59Z
date_published: 2023-07-21T00:00:00Z
date_updated: 2023-12-13T11:40:19Z
day: '21'
department:
- _id: GradSch
- _id: BjHo
doi: 10.1103/physrevlett.131.034002
external_id:
  arxiv:
  - '2306.05098'
  isi:
  - '001052929900004'
intvolume: '       131'
isi: 1
issue: '3'
keyword:
- General Physics and Astronomy
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2306.05098
month: '07'
oa: 1
oa_version: Preprint
project:
- _id: 238598C6-32DE-11EA-91FC-C7463DDC885E
  grant_number: '662960'
  name: 'Revisiting the Turbulence Problem Using Statistical Mechanics: Experimental
    Studies on Transitional and Turbulent Flows'
publication: Physical Review Letters
publication_identifier:
  eissn:
  - 1079-7114
  issn:
  - 0031-9007
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
status: public
title: Direct path from turbulence to time-periodic solutions
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 131
year: '2023'
...
---
_id: '13275'
abstract:
- lang: eng
  text: We introduce a generic and accessible implementation of an exact diagonalization
    method for studying few-fermion models. Our aim is to provide a testbed for the
    newcomers to the field as well as a stepping stone for trying out novel optimizations
    and approximations. This userguide consists of a description of the algorithm,
    and several examples in varying orders of sophistication. In particular, we exemplify
    our routine using an effective-interaction approach that fixes the low-energy
    physics. We benchmark this approach against the existing data, and show that it
    is able to deliver state-of-the-art numerical results at a significantly reduced
    computational cost.
article_processing_charge: No
author:
- first_name: Lukas
  full_name: Rammelmüller, Lukas
  last_name: Rammelmüller
- first_name: David
  full_name: Huber, David
  last_name: Huber
- first_name: Artem
  full_name: Volosniev, Artem
  id: 37D278BC-F248-11E8-B48F-1D18A9856A87
  last_name: Volosniev
  orcid: 0000-0003-0393-5525
citation:
  ama: Rammelmüller L, Huber D, Volosniev A. Codebase release 1.0 for FermiFCI. 2023.
    doi:<a href="https://doi.org/10.21468/scipostphyscodeb.12-r1.0">10.21468/scipostphyscodeb.12-r1.0</a>
  apa: Rammelmüller, L., Huber, D., &#38; Volosniev, A. (2023). Codebase release 1.0
    for FermiFCI. SciPost Foundation. <a href="https://doi.org/10.21468/scipostphyscodeb.12-r1.0">https://doi.org/10.21468/scipostphyscodeb.12-r1.0</a>
  chicago: Rammelmüller, Lukas, David Huber, and Artem Volosniev. “Codebase Release
    1.0 for FermiFCI.” SciPost Foundation, 2023. <a href="https://doi.org/10.21468/scipostphyscodeb.12-r1.0">https://doi.org/10.21468/scipostphyscodeb.12-r1.0</a>.
  ieee: L. Rammelmüller, D. Huber, and A. Volosniev, “Codebase release 1.0 for FermiFCI.”
    SciPost Foundation, 2023.
  ista: Rammelmüller L, Huber D, Volosniev A. 2023. Codebase release 1.0 for FermiFCI,
    SciPost Foundation, <a href="https://doi.org/10.21468/scipostphyscodeb.12-r1.0">10.21468/scipostphyscodeb.12-r1.0</a>.
  mla: Rammelmüller, Lukas, et al. <i>Codebase Release 1.0 for FermiFCI</i>. SciPost
    Foundation, 2023, doi:<a href="https://doi.org/10.21468/scipostphyscodeb.12-r1.0">10.21468/scipostphyscodeb.12-r1.0</a>.
  short: L. Rammelmüller, D. Huber, A. Volosniev, (2023).
date_created: 2023-07-24T10:46:23Z
date_published: 2023-04-19T00:00:00Z
date_updated: 2023-07-31T09:16:02Z
day: '19'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.21468/scipostphyscodeb.12-r1.0
ec_funded: 1
main_file_link:
- open_access: '1'
  url: https://doi.org/10.21468/SciPostPhysCodeb.12-r1.0
month: '04'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '754411'
  name: ISTplus - Postdoctoral Fellowships
publisher: SciPost Foundation
related_material:
  record:
  - id: '13276'
    relation: used_in_publication
    status: public
status: public
title: Codebase release 1.0 for FermiFCI
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13276'
abstract:
- lang: eng
  text: <jats:p>We introduce a generic and accessible implementation of an exact diagonalization
    method for studying few-fermion models. Our aim is to provide a testbed for the
    newcomers to the field as well as a stepping stone for trying out novel optimizations
    and approximations. This userguide consists of a description of the algorithm,
    and several examples in varying orders of sophistication. In particular, we exemplify
    our routine using an effective-interaction approach that fixes the low-energy
    physics. We benchmark this approach against the existing data, and show that it
    is able to deliver state-of-the-art numerical results at a significantly reduced
    computational cost.</jats:p>
acknowledgement: "We acknowledge fruitful discussions with Hans-Werner Hammer and
  thank Gerhard Zürn and\r\nPietro Massignan for sending us their data. We thank Fabian
  Brauneis for beta-testing the\r\nprovided code-package, and comments on the manuscript.\r\nL.R.
  is supported by FP7/ERC Consolidator Grant QSIMCORR, No.\r\n771891, and the Deutsche
  Forschungsgemeinschaft (DFG, German Research Foundation) under\r\nGermany’s Excellence
  Strategy –EXC–2111–390814868. A.G.V. acknowledges support\r\nby European Union’s
  Horizon 2020 research and innovation programme under the Marie\r\nSkłodowska-Curie
  Grant Agreement No. 754411."
article_number: '12'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Lukas
  full_name: Rammelmüller, Lukas
  last_name: Rammelmüller
- first_name: David
  full_name: Huber, David
  last_name: Huber
- first_name: Artem
  full_name: Volosniev, Artem
  id: 37D278BC-F248-11E8-B48F-1D18A9856A87
  last_name: Volosniev
  orcid: 0000-0003-0393-5525
citation:
  ama: Rammelmüller L, Huber D, Volosniev A. A modular implementation of an effective
    interaction approach for harmonically trapped fermions in 1D. <i>SciPost Physics
    Codebases</i>. 2023. doi:<a href="https://doi.org/10.21468/scipostphyscodeb.12">10.21468/scipostphyscodeb.12</a>
  apa: Rammelmüller, L., Huber, D., &#38; Volosniev, A. (2023). A modular implementation
    of an effective interaction approach for harmonically trapped fermions in 1D.
    <i>SciPost Physics Codebases</i>. SciPost Foundation. <a href="https://doi.org/10.21468/scipostphyscodeb.12">https://doi.org/10.21468/scipostphyscodeb.12</a>
  chicago: Rammelmüller, Lukas, David Huber, and Artem Volosniev. “A Modular Implementation
    of an Effective Interaction Approach for Harmonically Trapped Fermions in 1D.”
    <i>SciPost Physics Codebases</i>. SciPost Foundation, 2023. <a href="https://doi.org/10.21468/scipostphyscodeb.12">https://doi.org/10.21468/scipostphyscodeb.12</a>.
  ieee: L. Rammelmüller, D. Huber, and A. Volosniev, “A modular implementation of
    an effective interaction approach for harmonically trapped fermions in 1D,” <i>SciPost
    Physics Codebases</i>. SciPost Foundation, 2023.
  ista: Rammelmüller L, Huber D, Volosniev A. 2023. A modular implementation of an
    effective interaction approach for harmonically trapped fermions in 1D. SciPost
    Physics Codebases., 12.
  mla: Rammelmüller, Lukas, et al. “A Modular Implementation of an Effective Interaction
    Approach for Harmonically Trapped Fermions in 1D.” <i>SciPost Physics Codebases</i>,
    12, SciPost Foundation, 2023, doi:<a href="https://doi.org/10.21468/scipostphyscodeb.12">10.21468/scipostphyscodeb.12</a>.
  short: L. Rammelmüller, D. Huber, A. Volosniev, SciPost Physics Codebases (2023).
date_created: 2023-07-24T10:47:15Z
date_published: 2023-04-19T00:00:00Z
date_updated: 2023-07-31T09:16:02Z
day: '19'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.21468/scipostphyscodeb.12
ec_funded: 1
external_id:
  arxiv:
  - '2202.04603'
file:
- access_level: open_access
  checksum: f583a70fe915d2208c803f5afb426daa
  content_type: application/pdf
  creator: dernst
  date_created: 2023-07-31T09:09:23Z
  date_updated: 2023-07-31T09:09:23Z
  file_id: '13330'
  file_name: 2023_SciPostPhysCodebase_Rammelmueller.pdf
  file_size: 551418
  relation: main_file
  success: 1
file_date_updated: 2023-07-31T09:09:23Z
has_accepted_license: '1'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '754411'
  name: ISTplus - Postdoctoral Fellowships
publication: SciPost Physics Codebases
publication_identifier:
  issn:
  - 2949-804X
publication_status: published
publisher: SciPost Foundation
quality_controlled: '1'
related_material:
  record:
  - id: '13275'
    relation: research_data
    status: public
status: public
title: A modular implementation of an effective interaction approach for harmonically
  trapped fermions in 1D
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
year: '2023'
...
---
_id: '13277'
abstract:
- lang: eng
  text: Recent experimental advances have inspired the development of theoretical
    tools to describe the non-equilibrium dynamics of quantum systems. Among them
    an exact representation of quantum spin systems in terms of classical stochastic
    processes has been proposed. Here we provide first steps towards the extension
    of this stochastic approach to bosonic systems by considering the one-dimensional
    quantum quartic oscillator. We show how to exactly parameterize the time evolution
    of this prototypical model via the dynamics of a set of classical variables. We
    interpret these variables as stochastic processes, which allows us to propose
    a novel way to numerically simulate the time evolution of the system. We benchmark
    our findings by considering analytically solvable limits and providing alternative
    derivations of known results.
acknowledgement: 'S. De Nicola acknowledges funding from the Institute of Science
  and Technology Austria (ISTA), and from the European Union’s Horizon 2020 research
  and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 754411.
  S. De Nicola also acknowledges funding from the EPSRC Center for Doctoral Training
  in Cross-Disciplinary Approaches to NonEquilibrium Systems (CANES) under Grant EP/L015854/1. '
article_number: '029'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Gennaro
  full_name: Tucci, Gennaro
  last_name: Tucci
- first_name: Stefano
  full_name: De Nicola, Stefano
  id: 42832B76-F248-11E8-B48F-1D18A9856A87
  last_name: De Nicola
  orcid: 0000-0002-4842-6671
- first_name: Sascha
  full_name: Wald, Sascha
  last_name: Wald
- first_name: Andrea
  full_name: Gambassi, Andrea
  last_name: Gambassi
citation:
  ama: Tucci G, De Nicola S, Wald S, Gambassi A. Stochastic representation of the
    quantum quartic oscillator. <i>SciPost Physics Core</i>. 2023;6(2). doi:<a href="https://doi.org/10.21468/scipostphyscore.6.2.029">10.21468/scipostphyscore.6.2.029</a>
  apa: Tucci, G., De Nicola, S., Wald, S., &#38; Gambassi, A. (2023). Stochastic representation
    of the quantum quartic oscillator. <i>SciPost Physics Core</i>. SciPost Foundation.
    <a href="https://doi.org/10.21468/scipostphyscore.6.2.029">https://doi.org/10.21468/scipostphyscore.6.2.029</a>
  chicago: Tucci, Gennaro, Stefano De Nicola, Sascha Wald, and Andrea Gambassi. “Stochastic
    Representation of the Quantum Quartic Oscillator.” <i>SciPost Physics Core</i>.
    SciPost Foundation, 2023. <a href="https://doi.org/10.21468/scipostphyscore.6.2.029">https://doi.org/10.21468/scipostphyscore.6.2.029</a>.
  ieee: G. Tucci, S. De Nicola, S. Wald, and A. Gambassi, “Stochastic representation
    of the quantum quartic oscillator,” <i>SciPost Physics Core</i>, vol. 6, no. 2.
    SciPost Foundation, 2023.
  ista: Tucci G, De Nicola S, Wald S, Gambassi A. 2023. Stochastic representation
    of the quantum quartic oscillator. SciPost Physics Core. 6(2), 029.
  mla: Tucci, Gennaro, et al. “Stochastic Representation of the Quantum Quartic Oscillator.”
    <i>SciPost Physics Core</i>, vol. 6, no. 2, 029, SciPost Foundation, 2023, doi:<a
    href="https://doi.org/10.21468/scipostphyscore.6.2.029">10.21468/scipostphyscore.6.2.029</a>.
  short: G. Tucci, S. De Nicola, S. Wald, A. Gambassi, SciPost Physics Core 6 (2023).
date_created: 2023-07-24T10:47:46Z
date_published: 2023-04-14T00:00:00Z
date_updated: 2023-07-31T09:03:28Z
day: '14'
ddc:
- '530'
department:
- _id: MaSe
doi: 10.21468/scipostphyscore.6.2.029
ec_funded: 1
external_id:
  arxiv:
  - '2211.01923'
file:
- access_level: open_access
  checksum: b472bc82108747eda5d52adf9e2ac7f3
  content_type: application/pdf
  creator: dernst
  date_created: 2023-07-31T09:02:27Z
  date_updated: 2023-07-31T09:02:27Z
  file_id: '13329'
  file_name: 2023_SciPostPhysCore_Tucci.pdf
  file_size: 523236
  relation: main_file
  success: 1
file_date_updated: 2023-07-31T09:02:27Z
has_accepted_license: '1'
intvolume: '         6'
issue: '2'
keyword:
- Statistical and Nonlinear Physics
- Atomic and Molecular Physics
- and Optics
- Nuclear and High Energy Physics
- Condensed Matter Physics
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '754411'
  name: ISTplus - Postdoctoral Fellowships
publication: SciPost Physics Core
publication_identifier:
  issn:
  - 2666-9366
publication_status: published
publisher: SciPost Foundation
quality_controlled: '1'
status: public
title: Stochastic representation of the quantum quartic oscillator
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2023'
...
---
_id: '13278'
abstract:
- lang: eng
  text: We present a numerical analysis of spin-1/2 fermions in a one-dimensional
    harmonic potential in the presence of a magnetic point-like impurity at the center
    of the trap. The model represents a few-body analogue of a magnetic impurity in
    the vicinity of an s-wave superconductor. Already for a few particles we find
    a ground-state level crossing between sectors with different fermion parities.
    We interpret this crossing as a few-body precursor of a quantum phase transition,
    which occurs when the impurity "breaks" a Cooper pair. This picture is further
    corroborated by analyzing density-density correlations in momentum space. Finally,
    we discuss how the system may be realized with existing cold-atoms platforms.
article_number: '006'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Lukas
  full_name: Rammelmüller, Lukas
  last_name: Rammelmüller
- first_name: David
  full_name: Huber, David
  last_name: Huber
- first_name: Matija
  full_name: Čufar, Matija
  last_name: Čufar
- first_name: Joachim
  full_name: Brand, Joachim
  last_name: Brand
- first_name: Hans-Werner
  full_name: Hammer, Hans-Werner
  last_name: Hammer
- first_name: Artem
  full_name: Volosniev, Artem
  id: 37D278BC-F248-11E8-B48F-1D18A9856A87
  last_name: Volosniev
  orcid: 0000-0003-0393-5525
citation:
  ama: Rammelmüller L, Huber D, Čufar M, Brand J, Hammer H-W, Volosniev A. Magnetic
    impurity in a one-dimensional few-fermion system. <i>SciPost Physics</i>. 2023;14(1).
    doi:<a href="https://doi.org/10.21468/scipostphys.14.1.006">10.21468/scipostphys.14.1.006</a>
  apa: Rammelmüller, L., Huber, D., Čufar, M., Brand, J., Hammer, H.-W., &#38; Volosniev,
    A. (2023). Magnetic impurity in a one-dimensional few-fermion system. <i>SciPost
    Physics</i>. SciPost Foundation. <a href="https://doi.org/10.21468/scipostphys.14.1.006">https://doi.org/10.21468/scipostphys.14.1.006</a>
  chicago: Rammelmüller, Lukas, David Huber, Matija Čufar, Joachim Brand, Hans-Werner
    Hammer, and Artem Volosniev. “Magnetic Impurity in a One-Dimensional Few-Fermion
    System.” <i>SciPost Physics</i>. SciPost Foundation, 2023. <a href="https://doi.org/10.21468/scipostphys.14.1.006">https://doi.org/10.21468/scipostphys.14.1.006</a>.
  ieee: L. Rammelmüller, D. Huber, M. Čufar, J. Brand, H.-W. Hammer, and A. Volosniev,
    “Magnetic impurity in a one-dimensional few-fermion system,” <i>SciPost Physics</i>,
    vol. 14, no. 1. SciPost Foundation, 2023.
  ista: Rammelmüller L, Huber D, Čufar M, Brand J, Hammer H-W, Volosniev A. 2023.
    Magnetic impurity in a one-dimensional few-fermion system. SciPost Physics. 14(1),
    006.
  mla: Rammelmüller, Lukas, et al. “Magnetic Impurity in a One-Dimensional Few-Fermion
    System.” <i>SciPost Physics</i>, vol. 14, no. 1, 006, SciPost Foundation, 2023,
    doi:<a href="https://doi.org/10.21468/scipostphys.14.1.006">10.21468/scipostphys.14.1.006</a>.
  short: L. Rammelmüller, D. Huber, M. Čufar, J. Brand, H.-W. Hammer, A. Volosniev,
    SciPost Physics 14 (2023).
date_created: 2023-07-24T10:48:23Z
date_published: 2023-01-24T00:00:00Z
date_updated: 2023-12-13T11:39:32Z
day: '24'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.21468/scipostphys.14.1.006
external_id:
  arxiv:
  - '2204.01606'
  isi:
  - '001000325800008'
file:
- access_level: open_access
  checksum: ffdb70b9ae7aa45ea4ea6096ecbd6431
  content_type: application/pdf
  creator: dernst
  date_created: 2023-07-31T08:44:38Z
  date_updated: 2023-07-31T08:44:38Z
  file_id: '13328'
  file_name: 2023_SciPostPhysics_Rammelmueller.pdf
  file_size: 1163444
  relation: main_file
  success: 1
file_date_updated: 2023-07-31T08:44:38Z
has_accepted_license: '1'
intvolume: '        14'
isi: 1
issue: '1'
keyword:
- General Physics and Astronomy
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: SciPost Physics
publication_identifier:
  issn:
  - 2542-4653
publication_status: published
publisher: SciPost Foundation
quality_controlled: '1'
scopus_import: '1'
status: public
title: Magnetic impurity in a one-dimensional few-fermion system
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: 14
year: '2023'
...
---
_id: '13286'
abstract:
- lang: eng
  text: Semiconductor-superconductor hybrid systems are the harbour of many intriguing
    mesoscopic phenomena. This material combination leads to spatial variations of
    the superconducting properties, which gives rise to Andreev bound states (ABSs).
    Some of these states might exhibit remarkable properties that render them highly
    desirable for topological quantum computing. The most prominent and hunted of
    such states are Majorana zero modes (MZMs), quasiparticles equals to their own
    quasiparticles that they follow non-abelian statistics. In this thesis, we first
    introduce the general framework of such hybrid systems and, then, we unveil a
    series of mesoscopic phenomena that we discovered. Firstly, we show tunneling
    spectroscopy experiments on full-shell nanowires (NWs) showing that unwanted quantum-dot
    states coupled to superconductors (Yu-Shiba-Rusinov states) can mimic MZMs signatures.
    Then, we introduce a novel protocol which allowed the integration of tunneling
    spectroscopy with Coulomb spectroscopy within the same device. Employing this
    approach on both full-shell NWs and partial-shell NWs, we demonstrated that longitudinally
    confined states reveal charge transport phenomenology similar to the one expected
    for MZMs. These findings shed light on the intricate interplay between superconductivity
    and quantum confinement, which brought us to explore another material platform,
    i.e. a two-dimensional Germanium hole gas. After developing a robust way to induce
    superconductivity in such system, we showed how to engineer the proximity effect
    and we revealed a superconducting hard gap. Finally, we created a superconducting
    radio frequency driven ideal diode and a generator of non-sinusoidal current-phase
    relations. Our results open the path for the exploration of protected superconducting
    qubits and more complex hybrid devices in planar Germanium, like Kitaev chains
    and hybrid qubit devices.
acknowledged_ssus:
- _id: NanoFab
- _id: M-Shop
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Marco
  full_name: Valentini, Marco
  id: C0BB2FAC-D767-11E9-B658-BC13E6697425
  last_name: Valentini
citation:
  ama: 'Valentini M. Mesoscopic phenomena in hybrid semiconductor-superconductor nanodevices :
    From full-shell nanowires to two-dimensional hole gas in germanium. 2023. doi:<a
    href="https://doi.org/10.15479/at:ista:13286">10.15479/at:ista:13286</a>'
  apa: 'Valentini, M. (2023). <i>Mesoscopic phenomena in hybrid semiconductor-superconductor
    nanodevices : From full-shell nanowires to two-dimensional hole gas in germanium</i>.
    Institute of Science and Technology Austria. <a href="https://doi.org/10.15479/at:ista:13286">https://doi.org/10.15479/at:ista:13286</a>'
  chicago: 'Valentini, Marco. “Mesoscopic Phenomena in Hybrid Semiconductor-Superconductor
    Nanodevices : From Full-Shell Nanowires to Two-Dimensional Hole Gas in Germanium.”
    Institute of Science and Technology Austria, 2023. <a href="https://doi.org/10.15479/at:ista:13286">https://doi.org/10.15479/at:ista:13286</a>.'
  ieee: 'M. Valentini, “Mesoscopic phenomena in hybrid semiconductor-superconductor
    nanodevices : From full-shell nanowires to two-dimensional hole gas in germanium,”
    Institute of Science and Technology Austria, 2023.'
  ista: 'Valentini M. 2023. Mesoscopic phenomena in hybrid semiconductor-superconductor
    nanodevices : From full-shell nanowires to two-dimensional hole gas in germanium.
    Institute of Science and Technology Austria.'
  mla: 'Valentini, Marco. <i>Mesoscopic Phenomena in Hybrid Semiconductor-Superconductor
    Nanodevices : From Full-Shell Nanowires to Two-Dimensional Hole Gas in Germanium</i>.
    Institute of Science and Technology Austria, 2023, doi:<a href="https://doi.org/10.15479/at:ista:13286">10.15479/at:ista:13286</a>.'
  short: 'M. Valentini, Mesoscopic Phenomena in Hybrid Semiconductor-Superconductor
    Nanodevices : From Full-Shell Nanowires to Two-Dimensional Hole Gas in Germanium,
    Institute of Science and Technology Austria, 2023.'
date_created: 2023-07-24T14:10:45Z
date_published: 2023-07-21T00:00:00Z
date_updated: 2024-02-21T12:35:34Z
day: '21'
ddc:
- '530'
degree_awarded: PhD
department:
- _id: GradSch
- _id: GeKa
doi: 10.15479/at:ista:13286
ec_funded: 1
file:
- access_level: closed
  checksum: 666ee31c7eade89679806287c062fa14
  content_type: application/x-zip-compressed
  creator: mvalenti
  date_created: 2023-08-11T09:27:39Z
  date_updated: 2023-08-11T10:01:34Z
  file_id: '14033'
  file_name: PhD_thesis_Valentini_final.zip
  file_size: 56121429
  relation: source_file
- access_level: open_access
  checksum: 0992f2ebef152dee8e70055350ebbb55
  content_type: application/pdf
  creator: mvalenti
  date_created: 2023-08-11T14:39:17Z
  date_updated: 2023-08-11T14:39:17Z
  file_id: '14035'
  file_name: PhD_thesis_Valentini_final_validated.pdf
  file_size: 38199711
  relation: main_file
file_date_updated: 2023-08-11T14:39:17Z
has_accepted_license: '1'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-sa/4.0/
month: '07'
oa: 1
oa_version: Published Version
page: '184'
project:
- _id: 262116AA-B435-11E9-9278-68D0E5697425
  name: Hybrid Semiconductor - Superconductor Quantum Devices
- _id: 237E5020-32DE-11EA-91FC-C7463DDC885E
  call_identifier: H2020
  grant_number: '862046'
  name: TOPOLOGICALLY PROTECTED AND SCALABLE QUANTUM BITS
- _id: 34a66131-11ca-11ed-8bc3-a31681c6b03e
  grant_number: F8606
  name: Conventional and unconventional topological superconductors
publication_identifier:
  issn:
  - 2663 - 337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
  record:
  - id: '13312'
    relation: part_of_dissertation
    status: public
  - id: '12118'
    relation: part_of_dissertation
    status: public
  - id: '8910'
    relation: part_of_dissertation
    status: public
  - id: '12522'
    relation: research_data
    status: public
status: public
supervisor:
- first_name: Georgios
  full_name: Katsaros, Georgios
  id: 38DB5788-F248-11E8-B48F-1D18A9856A87
  last_name: Katsaros
  orcid: 0000-0001-8342-202X
title: 'Mesoscopic phenomena in hybrid semiconductor-superconductor nanodevices :
  From full-shell nanowires to two-dimensional hole gas in germanium'
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: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2023'
...
---
_id: '13292'
abstract:
- lang: eng
  text: The operator precedence languages (OPLs) represent the largest known subclass
    of the context-free languages which enjoys all desirable closure and decidability
    properties. This includes the decidability of language inclusion, which is the
    ultimate verification problem. Operator precedence grammars, automata, and logics
    have been investigated and used, for example, to verify programs with arithmetic
    expressions and exceptions (both of which are deterministic pushdown but lie outside
    the scope of the visibly pushdown languages). In this paper, we complete the picture
    and give, for the first time, an algebraic characterization of the class of OPLs
    in the form of a syntactic congruence that has finitely many equivalence classes
    exactly for the operator precedence languages. This is a generalization of the
    celebrated Myhill-Nerode theorem for the regular languages to OPLs. As one of
    the consequences, we show that universality and language inclusion for nondeterministic
    operator precedence automata can be solved by an antichain algorithm. Antichain
    algorithms avoid determinization and complementation through an explicit subset
    construction, by leveraging a quasi-order on words, which allows the pruning of
    the search space for counterexample words without sacrificing completeness. Antichain
    algorithms can be implemented symbolically, and these implementations are today
    the best-performing algorithms in practice for the inclusion of finite automata.
    We give a generic construction of the quasi-order needed for antichain algorithms
    from a finite syntactic congruence. This yields the first antichain algorithm
    for OPLs, an algorithm that solves the ExpTime-hard language inclusion problem
    for OPLs in exponential time.
acknowledgement: "This work was supported in part by the ERC-2020-AdG 101020093.\r\nWe
  thank Pierre Ganty for early discussions and the anonymous reviewers for their helpful
  comments.\r\n"
alternative_title:
- LIPIcs
article_processing_charge: Yes
arxiv: 1
author:
- first_name: Thomas A
  full_name: Henzinger, Thomas A
  id: 40876CD8-F248-11E8-B48F-1D18A9856A87
  last_name: Henzinger
  orcid: 0000-0002-2985-7724
- first_name: Pavol
  full_name: Kebis, Pavol
  last_name: Kebis
- first_name: Nicolas Adrien
  full_name: Mazzocchi, Nicolas Adrien
  id: b26baa86-3308-11ec-87b0-8990f34baa85
  last_name: Mazzocchi
- first_name: Naci E
  full_name: Sarac, Naci E
  id: 8C6B42F8-C8E6-11E9-A03A-F2DCE5697425
  last_name: Sarac
citation:
  ama: 'Henzinger TA, Kebis P, Mazzocchi NA, Sarac NE. Regular methods for operator
    precedence languages. In: <i>50th International Colloquium on Automata, Languages,
    and Programming</i>. Vol 261. Schloss Dagstuhl - Leibniz-Zentrum für Informatik;
    2023:129:1--129:20. doi:<a href="https://doi.org/10.4230/LIPIcs.ICALP.2023.129">10.4230/LIPIcs.ICALP.2023.129</a>'
  apa: 'Henzinger, T. A., Kebis, P., Mazzocchi, N. A., &#38; Sarac, N. E. (2023).
    Regular methods for operator precedence languages. In <i>50th International Colloquium
    on Automata, Languages, and Programming</i> (Vol. 261, p. 129:1--129:20). Paderborn,
    Germany: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href="https://doi.org/10.4230/LIPIcs.ICALP.2023.129">https://doi.org/10.4230/LIPIcs.ICALP.2023.129</a>'
  chicago: Henzinger, Thomas A, Pavol Kebis, Nicolas Adrien Mazzocchi, and Naci E
    Sarac. “Regular Methods for Operator Precedence Languages.” In <i>50th International
    Colloquium on Automata, Languages, and Programming</i>, 261:129:1--129:20. Schloss
    Dagstuhl - Leibniz-Zentrum für Informatik, 2023. <a href="https://doi.org/10.4230/LIPIcs.ICALP.2023.129">https://doi.org/10.4230/LIPIcs.ICALP.2023.129</a>.
  ieee: T. A. Henzinger, P. Kebis, N. A. Mazzocchi, and N. E. Sarac, “Regular methods
    for operator precedence languages,” in <i>50th International Colloquium on Automata,
    Languages, and Programming</i>, Paderborn, Germany, 2023, vol. 261, p. 129:1--129:20.
  ista: 'Henzinger TA, Kebis P, Mazzocchi NA, Sarac NE. 2023. Regular methods for
    operator precedence languages. 50th International Colloquium on Automata, Languages,
    and Programming. ICALP: International Colloquium on Automata, Languages, and Programming,
    LIPIcs, vol. 261, 129:1--129:20.'
  mla: Henzinger, Thomas A., et al. “Regular Methods for Operator Precedence Languages.”
    <i>50th International Colloquium on Automata, Languages, and Programming</i>,
    vol. 261, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023, p. 129:1--129:20,
    doi:<a href="https://doi.org/10.4230/LIPIcs.ICALP.2023.129">10.4230/LIPIcs.ICALP.2023.129</a>.
  short: T.A. Henzinger, P. Kebis, N.A. Mazzocchi, N.E. Sarac, in:, 50th International
    Colloquium on Automata, Languages, and Programming, Schloss Dagstuhl - Leibniz-Zentrum
    für Informatik, 2023, p. 129:1--129:20.
conference:
  end_date: 2023-07-14
  location: Paderborn, Germany
  name: 'ICALP: International Colloquium on Automata, Languages, and Programming'
  start_date: 2023-07-10
date_created: 2023-07-24T15:11:41Z
date_published: 2023-07-05T00:00:00Z
date_updated: 2023-07-31T08:38:38Z
day: '05'
ddc:
- '000'
department:
- _id: GradSch
- _id: ToHe
doi: 10.4230/LIPIcs.ICALP.2023.129
ec_funded: 1
external_id:
  arxiv:
  - '2305.03447'
file:
- access_level: open_access
  checksum: 5d4c8932ef3450615a53b9bb15d92eb2
  content_type: application/pdf
  creator: esarac
  date_created: 2023-07-24T15:11:05Z
  date_updated: 2023-07-24T15:11:05Z
  file_id: '13293'
  file_name: icalp23.pdf
  file_size: 859379
  relation: main_file
  success: 1
file_date_updated: 2023-07-24T15:11:05Z
has_accepted_license: '1'
intvolume: '       261'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 129:1--129:20
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
  call_identifier: H2020
  grant_number: '101020093'
  name: Vigilant Algorithmic Monitoring of Software
publication: 50th International Colloquium on Automata, Languages, and Programming
publication_identifier:
  eissn:
  - 1868-8969
  isbn:
  - '9783959772785'
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
status: public
title: Regular methods for operator precedence languages
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: 261
year: '2023'
...
---
_id: '13310'
abstract:
- lang: eng
  text: Machine-learned systems are in widespread use for making decisions about humans,
    and it is important that they are fair, i.e., not biased against individuals based
    on sensitive attributes. We present runtime verification of algorithmic fairness
    for systems whose models are unknown, but are assumed to have a Markov chain structure.
    We introduce a specification language that can model many common algorithmic fairness
    properties, such as demographic parity, equal opportunity, and social burden.
    We build monitors that observe a long sequence of events as generated by a given
    system, and output, after each observation, a quantitative estimate of how fair
    or biased the system was on that run until that point in time. The estimate is
    proven to be correct modulo a variable error bound and a given confidence level,
    where the error bound gets tighter as the observed sequence gets longer. Our monitors
    are of two types, and use, respectively, frequentist and Bayesian statistical
    inference techniques. While the frequentist monitors compute estimates that are
    objectively correct with respect to the ground truth, the Bayesian monitors compute
    estimates that are correct subject to a given prior belief about the system’s
    model. Using a prototype implementation, we show how we can monitor if a bank
    is fair in giving loans to applicants from different social backgrounds, and if
    a college is fair in admitting students while maintaining a reasonable financial
    burden on the society. Although they exhibit different theoretical complexities
    in certain cases, in our experiments, both frequentist and Bayesian monitors took
    less than a millisecond to update their verdicts after each observation.
acknowledgement: 'This work is supported by the European Research Council under Grant
  No.: ERC-2020-AdG101020093.'
alternative_title:
- LNCS
article_processing_charge: Yes (in subscription journal)
arxiv: 1
author:
- first_name: Thomas A
  full_name: Henzinger, Thomas A
  id: 40876CD8-F248-11E8-B48F-1D18A9856A87
  last_name: Henzinger
  orcid: 0000-0002-2985-7724
- first_name: Mahyar
  full_name: Karimi, Mahyar
  id: f1dedef5-2f78-11ee-989a-c4c97bccf506
  last_name: Karimi
  orcid: 0009-0005-0820-1696
- first_name: Konstantin
  full_name: Kueffner, Konstantin
  id: 8121a2d0-dc85-11ea-9058-af578f3b4515
  last_name: Kueffner
  orcid: 0000-0001-8974-2542
- first_name: Kaushik
  full_name: Mallik, Kaushik
  id: 0834ff3c-6d72-11ec-94e0-b5b0a4fb8598
  last_name: Mallik
  orcid: 0000-0001-9864-7475
citation:
  ama: 'Henzinger TA, Karimi M, Kueffner K, Mallik K. Monitoring algorithmic fairness.
    In: <i>Computer Aided Verification</i>. Vol 13965. Springer Nature; 2023:358–382.
    doi:<a href="https://doi.org/10.1007/978-3-031-37703-7_17">10.1007/978-3-031-37703-7_17</a>'
  apa: 'Henzinger, T. A., Karimi, M., Kueffner, K., &#38; Mallik, K. (2023). Monitoring
    algorithmic fairness. In <i>Computer Aided Verification</i> (Vol. 13965, pp. 358–382).
    Paris, France: Springer Nature. <a href="https://doi.org/10.1007/978-3-031-37703-7_17">https://doi.org/10.1007/978-3-031-37703-7_17</a>'
  chicago: Henzinger, Thomas A, Mahyar Karimi, Konstantin Kueffner, and Kaushik Mallik.
    “Monitoring Algorithmic Fairness.” In <i>Computer Aided Verification</i>, 13965:358–382.
    Springer Nature, 2023. <a href="https://doi.org/10.1007/978-3-031-37703-7_17">https://doi.org/10.1007/978-3-031-37703-7_17</a>.
  ieee: T. A. Henzinger, M. Karimi, K. Kueffner, and K. Mallik, “Monitoring algorithmic
    fairness,” in <i>Computer Aided Verification</i>, Paris, France, 2023, vol. 13965,
    pp. 358–382.
  ista: 'Henzinger TA, Karimi M, Kueffner K, Mallik K. 2023. Monitoring algorithmic
    fairness. Computer Aided Verification. CAV: Computer Aided Verification, LNCS,
    vol. 13965, 358–382.'
  mla: Henzinger, Thomas A., et al. “Monitoring Algorithmic Fairness.” <i>Computer
    Aided Verification</i>, vol. 13965, Springer Nature, 2023, pp. 358–382, doi:<a
    href="https://doi.org/10.1007/978-3-031-37703-7_17">10.1007/978-3-031-37703-7_17</a>.
  short: T.A. Henzinger, M. Karimi, K. Kueffner, K. Mallik, in:, Computer Aided Verification,
    Springer Nature, 2023, pp. 358–382.
conference:
  end_date: 2023-07-22
  location: Paris, France
  name: 'CAV: Computer Aided Verification'
  start_date: 2023-07-17
date_created: 2023-07-25T18:32:40Z
date_published: 2023-07-18T00:00:00Z
date_updated: 2023-09-05T15:14:00Z
day: '18'
ddc:
- '000'
department:
- _id: GradSch
- _id: ToHe
doi: 10.1007/978-3-031-37703-7_17
ec_funded: 1
external_id:
  arxiv:
  - '2305.15979'
file:
- access_level: open_access
  checksum: ccaf94bf7d658ba012c016e11869b54c
  content_type: application/pdf
  creator: dernst
  date_created: 2023-07-31T08:11:20Z
  date_updated: 2023-07-31T08:11:20Z
  file_id: '13327'
  file_name: 2023_LNCS_CAV_HenzingerT.pdf
  file_size: 647760
  relation: main_file
  success: 1
file_date_updated: 2023-07-31T08:11:20Z
has_accepted_license: '1'
intvolume: '     13965'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 358–382
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
  call_identifier: H2020
  grant_number: '101020093'
  name: Vigilant Algorithmic Monitoring of Software
publication: Computer Aided Verification
publication_identifier:
  eisbn:
  - '9783031377037'
  eissn:
  - 1611-3349
  isbn:
  - '9783031377020'
  issn:
  - 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Monitoring algorithmic fairness
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 13965
year: '2023'
...
---
_id: '13312'
abstract:
- lang: eng
  text: "Superconductor/semiconductor hybrid devices have attracted increasing\r\ninterest
    in the past years. Superconducting electronics aims to complement\r\nsemiconductor
    technology, while hybrid architectures are at the forefront of\r\nnew ideas such
    as topological superconductivity and protected qubits. In this\r\nwork, we engineer
    the induced superconductivity in two-dimensional germanium\r\nhole gas by varying
    the distance between the quantum well and the aluminum. We\r\ndemonstrate a hard
    superconducting gap and realize an electrically and flux\r\ntunable superconducting
    diode using a superconducting quantum interference\r\ndevice (SQUID). This allows
    to tune the current phase relation (CPR), to a\r\nregime where single Cooper pair
    tunneling is suppressed, creating a $ \\sin\r\n\\left( 2 \\varphi \\right)$ CPR.
    Shapiro experiments complement this\r\ninterpretation and the microwave drive
    allows to create a diode with $ \\approx\r\n100 \\%$ efficiency. The reported
    results open up the path towards monolithic\r\nintegration of spin qubit devices,
    microwave resonators and (protected)\r\nsuperconducting qubits on a silicon technology
    compatible platform."
acknowledged_ssus:
- _id: M-Shop
- _id: NanoFab
acknowledgement: "The authors acknowledge Alexander Brinkmann, Alessandro Crippa,
  Andrew Higginbotham, Andrea Iorio, Giordano\r\nScappucci and Christian Schonenberger
  for helpful discussions. We thank Marcel Verheijen for the support in the\r\nTEM
  analysis. This research and related results were made\r\npossible with the support
  of the NOMIS Foundation. It was\r\nsupported by the Scientific Service Units of
  ISTA through resources provided by the MIBA Machine Shop and the\r\nnanofabrication
  facility, the European Union’s Horizon 2020\r\nresearch and innovation programme
  under Grant Agreement\r\nNo 862046, the HORIZON-RIA 101069515 project and the\r\nFWF
  Projects #P-32235, #P-36507 and #F-8606. R.S.S.\r\nacknowledges Spanish CM “Talento
  Program” Project No.\r\n2022-T1/IND-24070."
article_number: '2306.07109'
article_processing_charge: No
arxiv: 1
author:
- first_name: Marco
  full_name: Valentini, Marco
  id: C0BB2FAC-D767-11E9-B658-BC13E6697425
  last_name: Valentini
- first_name: Oliver
  full_name: Sagi, Oliver
  id: 71616374-A8E9-11E9-A7CA-09ECE5697425
  last_name: Sagi
- first_name: Levon
  full_name: Baghumyan, Levon
  last_name: Baghumyan
- first_name: Thijs de
  full_name: Gijsel, Thijs de
  last_name: Gijsel
- first_name: Jason
  full_name: Jung, Jason
  id: 4C9ACE7A-F248-11E8-B48F-1D18A9856A87
  last_name: Jung
- first_name: Stefano
  full_name: Calcaterra, Stefano
  last_name: Calcaterra
- first_name: Andrea
  full_name: Ballabio, Andrea
  last_name: Ballabio
- first_name: Juan Aguilera
  full_name: Servin, Juan Aguilera
  last_name: Servin
- first_name: Kushagra
  full_name: Aggarwal, Kushagra
  id: b22ab905-3539-11eb-84c3-fc159dcd79cb
  last_name: Aggarwal
  orcid: 0000-0001-9985-9293
- first_name: Marian
  full_name: Janik, Marian
  id: 396A1950-F248-11E8-B48F-1D18A9856A87
  last_name: Janik
- first_name: Thomas
  full_name: Adletzberger, Thomas
  id: 38756BB2-F248-11E8-B48F-1D18A9856A87
  last_name: Adletzberger
- first_name: Rubén Seoane
  full_name: Souto, Rubén Seoane
  last_name: Souto
- first_name: Martin
  full_name: Leijnse, Martin
  last_name: Leijnse
- first_name: Jeroen
  full_name: Danon, Jeroen
  last_name: Danon
- first_name: Constantin
  full_name: Schrade, Constantin
  last_name: Schrade
- first_name: Erik
  full_name: Bakkers, Erik
  last_name: Bakkers
- first_name: Daniel
  full_name: Chrastina, Daniel
  last_name: Chrastina
- first_name: Giovanni
  full_name: Isella, Giovanni
  last_name: Isella
- first_name: Georgios
  full_name: Katsaros, Georgios
  id: 38DB5788-F248-11E8-B48F-1D18A9856A87
  last_name: Katsaros
  orcid: 0000-0001-8342-202X
citation:
  ama: Valentini M, Sagi O, Baghumyan L, et al. Radio frequency driven superconducting
    diode and parity conserving  Cooper pair transport in a two-dimensional germanium
    hole gas. <i>arXiv</i>. doi:<a href="https://doi.org/10.48550/arXiv.2306.07109">10.48550/arXiv.2306.07109</a>
  apa: Valentini, M., Sagi, O., Baghumyan, L., Gijsel, T. de, Jung, J., Calcaterra,
    S., … Katsaros, G. (n.d.). Radio frequency driven superconducting diode and parity
    conserving  Cooper pair transport in a two-dimensional germanium hole gas. <i>arXiv</i>.
    <a href="https://doi.org/10.48550/arXiv.2306.07109">https://doi.org/10.48550/arXiv.2306.07109</a>
  chicago: Valentini, Marco, Oliver Sagi, Levon Baghumyan, Thijs de Gijsel, Jason
    Jung, Stefano Calcaterra, Andrea Ballabio, et al. “Radio Frequency Driven Superconducting
    Diode and Parity Conserving  Cooper Pair Transport in a Two-Dimensional Germanium
    Hole Gas.” <i>ArXiv</i>, n.d. <a href="https://doi.org/10.48550/arXiv.2306.07109">https://doi.org/10.48550/arXiv.2306.07109</a>.
  ieee: M. Valentini <i>et al.</i>, “Radio frequency driven superconducting diode
    and parity conserving  Cooper pair transport in a two-dimensional germanium hole
    gas,” <i>arXiv</i>. .
  ista: Valentini M, Sagi O, Baghumyan L, Gijsel T de, Jung J, Calcaterra S, Ballabio
    A, Servin JA, Aggarwal K, Janik M, Adletzberger T, Souto RS, Leijnse M, Danon
    J, Schrade C, Bakkers E, Chrastina D, Isella G, Katsaros G. Radio frequency driven
    superconducting diode and parity conserving  Cooper pair transport in a two-dimensional
    germanium hole gas. arXiv, 2306.07109.
  mla: Valentini, Marco, et al. “Radio Frequency Driven Superconducting Diode and
    Parity Conserving  Cooper Pair Transport in a Two-Dimensional Germanium Hole Gas.”
    <i>ArXiv</i>, 2306.07109, doi:<a href="https://doi.org/10.48550/arXiv.2306.07109">10.48550/arXiv.2306.07109</a>.
  short: M. Valentini, O. Sagi, L. Baghumyan, T. de Gijsel, J. Jung, S. Calcaterra,
    A. Ballabio, J.A. Servin, K. Aggarwal, M. Janik, T. Adletzberger, R.S. Souto,
    M. Leijnse, J. Danon, C. Schrade, E. Bakkers, D. Chrastina, G. Isella, G. Katsaros,
    ArXiv (n.d.).
date_created: 2023-07-26T11:17:20Z
date_published: 2023-06-13T00:00:00Z
date_updated: 2024-02-07T07:52:32Z
day: '13'
ddc:
- '530'
department:
- _id: GeKa
- _id: M-Shop
doi: 10.48550/arXiv.2306.07109
ec_funded: 1
external_id:
  arxiv:
  - '2306.07109'
keyword:
- Mesoscale and Nanoscale Physics
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2306.07109
month: '06'
oa: 1
oa_version: Preprint
project:
- _id: 237E5020-32DE-11EA-91FC-C7463DDC885E
  call_identifier: H2020
  grant_number: '862046'
  name: TOPOLOGICALLY PROTECTED AND SCALABLE QUANTUM BITS
- _id: 237B3DA4-32DE-11EA-91FC-C7463DDC885E
  call_identifier: FWF
  grant_number: P32235
  name: Towards scalable hut wire quantum devices
- _id: bd8bd29e-d553-11ed-ba76-f0070d4b237a
  grant_number: P36507
  name: Merging spin and superconducting qubits in planar Ge
- _id: 34a66131-11ca-11ed-8bc3-a31681c6b03e
  grant_number: F8606
  name: Conventional and unconventional topological superconductors
- _id: bd5b4ec5-d553-11ed-ba76-a6eedb083344
  name: Protected states of quantum matter
publication: arXiv
publication_status: submitted
related_material:
  record:
  - id: '13286'
    relation: dissertation_contains
    status: public
status: public
title: Radio frequency driven superconducting diode and parity conserving  Cooper
  pair transport in a two-dimensional germanium hole gas
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: preprint
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2023'
...
---
_id: '13314'
abstract:
- lang: eng
  text: The emergence of large-scale order in self-organized systems relies on local
    interactions between individual components. During bacterial cell division, FtsZ—a
    prokaryotic homologue of the eukaryotic protein tubulin—polymerizes into treadmilling
    filaments that further organize into a cytoskeletal ring. In vitro, FtsZ filaments
    can form dynamic chiral assemblies. However, how the active and passive properties
    of individual filaments relate to these large-scale self-organized structures
    remains poorly understood. Here we connect single-filament properties with the
    mesoscopic scale by combining minimal active matter simulations and biochemical
    reconstitution experiments. We show that the density and flexibility of active
    chiral filaments define their global order. At intermediate densities, curved,
    flexible filaments organize into chiral rings and polar bands. An effectively
    nematic organization dominates for high densities and for straight, mutant filaments
    with increased rigidity. Our predicted phase diagram quantitatively captures these
    features, demonstrating how the flexibility, density and chirality of the active
    filaments affect their collective behaviour. Our findings shed light on the fundamental
    properties of active chiral matter and explain how treadmilling FtsZ filaments
    organize during bacterial cell division.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
acknowledgement: 'This work was supported by the European Research Council through
  grant ERC 2015-StG-679239 and by the Austrian Science Fund (FWF) StandAlone P34607
  to M.L., B. P.M. was also supported by the Kanazawa University WPI- NanoLSI Bio-SPM
  collaborative research program. Z.D. has received funding from Doctoral Programme
  of the Austrian Academy of Sciences (OeAW): Grant agreement 26360. We thank Jan
  Brugues (MPI CBG, Dresden, Germany), Andela Saric (ISTA, Klosterneuburg, Austria),
  Daniel Pearce (Uni Geneva, Switzerland) for valuable scientific input and comments
  on the manuscript. We are also thankful for the support by the Scientific Service
  Units (SSU) of IST Austria through resources provided by the Imaging and Optics
  Facility (IOF) and the Lab Support Facility (LSF).'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Zuzana
  full_name: Dunajova, Zuzana
  id: 4B39F286-F248-11E8-B48F-1D18A9856A87
  last_name: Dunajova
- first_name: Batirtze
  full_name: Prats Mateu, Batirtze
  id: 299FE892-F248-11E8-B48F-1D18A9856A87
  last_name: Prats Mateu
- first_name: Philipp
  full_name: Radler, Philipp
  id: 40136C2A-F248-11E8-B48F-1D18A9856A87
  last_name: Radler
  orcid: '0000-0001-9198-2182 '
- first_name: Keesiang
  full_name: Lim, Keesiang
  last_name: Lim
- first_name: Dörte
  full_name: Brandis, Dörte
  id: 21d64d35-f128-11eb-9611-b8bcca7a12fd
  last_name: Brandis
- first_name: Philipp
  full_name: Velicky, Philipp
  id: 39BDC62C-F248-11E8-B48F-1D18A9856A87
  last_name: Velicky
  orcid: 0000-0002-2340-7431
- first_name: Johann G
  full_name: Danzl, Johann G
  id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
  last_name: Danzl
  orcid: 0000-0001-8559-3973
- first_name: Richard W.
  full_name: Wong, Richard W.
  last_name: Wong
- first_name: Jens
  full_name: Elgeti, Jens
  last_name: Elgeti
- first_name: Edouard B
  full_name: Hannezo, Edouard B
  id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
  last_name: Hannezo
  orcid: 0000-0001-6005-1561
- first_name: Martin
  full_name: Loose, Martin
  id: 462D4284-F248-11E8-B48F-1D18A9856A87
  last_name: Loose
  orcid: 0000-0001-7309-9724
citation:
  ama: Dunajova Z, Prats Mateu B, Radler P, et al. Chiral and nematic phases of flexible
    active filaments. <i>Nature Physics</i>. 2023;19:1916-1926. doi:<a href="https://doi.org/10.1038/s41567-023-02218-w">10.1038/s41567-023-02218-w</a>
  apa: Dunajova, Z., Prats Mateu, B., Radler, P., Lim, K., Brandis, D., Velicky, P.,
    … Loose, M. (2023). Chiral and nematic phases of flexible active filaments. <i>Nature
    Physics</i>. Springer Nature. <a href="https://doi.org/10.1038/s41567-023-02218-w">https://doi.org/10.1038/s41567-023-02218-w</a>
  chicago: Dunajova, Zuzana, Batirtze Prats Mateu, Philipp Radler, Keesiang Lim, Dörte
    Brandis, Philipp Velicky, Johann G Danzl, et al. “Chiral and Nematic Phases of
    Flexible Active Filaments.” <i>Nature Physics</i>. Springer Nature, 2023. <a href="https://doi.org/10.1038/s41567-023-02218-w">https://doi.org/10.1038/s41567-023-02218-w</a>.
  ieee: Z. Dunajova <i>et al.</i>, “Chiral and nematic phases of flexible active filaments,”
    <i>Nature Physics</i>, vol. 19. Springer Nature, pp. 1916–1926, 2023.
  ista: Dunajova Z, Prats Mateu B, Radler P, Lim K, Brandis D, Velicky P, Danzl JG,
    Wong RW, Elgeti J, Hannezo EB, Loose M. 2023. Chiral and nematic phases of flexible
    active filaments. Nature Physics. 19, 1916–1926.
  mla: Dunajova, Zuzana, et al. “Chiral and Nematic Phases of Flexible Active Filaments.”
    <i>Nature Physics</i>, vol. 19, Springer Nature, 2023, pp. 1916–26, doi:<a href="https://doi.org/10.1038/s41567-023-02218-w">10.1038/s41567-023-02218-w</a>.
  short: Z. Dunajova, B. Prats Mateu, P. Radler, K. Lim, D. Brandis, P. Velicky, J.G.
    Danzl, R.W. Wong, J. Elgeti, E.B. Hannezo, M. Loose, Nature Physics 19 (2023)
    1916–1926.
date_created: 2023-07-27T14:44:45Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2024-02-21T12:19:08Z
day: '01'
ddc:
- '530'
department:
- _id: JoDa
- _id: EdHa
- _id: MaLo
- _id: GradSch
doi: 10.1038/s41567-023-02218-w
ec_funded: 1
external_id:
  pmid:
  - '38075437'
file:
- access_level: open_access
  checksum: bc7673ca07d37309013a86166577b2f7
  content_type: application/pdf
  creator: dernst
  date_created: 2024-01-30T14:28:30Z
  date_updated: 2024-01-30T14:28:30Z
  file_id: '14916'
  file_name: 2023_NaturePhysics_Dunajova.pdf
  file_size: 22471673
  relation: main_file
  success: 1
file_date_updated: 2024-01-30T14:28:30Z
has_accepted_license: '1'
intvolume: '        19'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 1916-1926
pmid: 1
project:
- _id: 2595697A-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '679239'
  name: Self-Organization of the Bacterial Cell
- _id: fc38323b-9c52-11eb-aca3-ff8afb4a011d
  grant_number: P34607
  name: "Understanding bacterial cell division by in vitro\r\nreconstitution"
- _id: 34d75525-11ca-11ed-8bc3-89b6307fee9d
  grant_number: '26360'
  name: Motile active matter models of migrating cells and chiral filaments
publication: Nature Physics
publication_identifier:
  eissn:
  - 1745-2481
  issn:
  - 1745-2473
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
  record:
  - id: '13116'
    relation: research_data
    status: public
scopus_import: '1'
status: public
title: Chiral and nematic phases of flexible active filaments
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: 19
year: '2023'
...
---
_id: '13315'
abstract:
- lang: eng
  text: How do statistical dependencies in measurement noise influence high-dimensional
    inference? To answer this, we study the paradigmatic spiked matrix model of principal
    components analysis (PCA), where a rank-one matrix is corrupted by additive noise.
    We go beyond the usual independence assumption on the noise entries, by drawing
    the noise from a low-order polynomial orthogonal matrix ensemble. The resulting
    noise correlations make the setting relevant for applications but analytically
    challenging. We provide characterization of the Bayes optimal limits of inference
    in this model. If the spike is rotation invariant, we show that standard spectral
    PCA is optimal. However, for more general priors, both PCA and the existing approximate
    message-passing algorithm (AMP) fall short of achieving the information-theoretic
    limits, which we compute using the replica method from statistical physics. We
    thus propose an AMP, inspired by the theory of adaptive Thouless–Anderson–Palmer
    equations, which is empirically observed to saturate the conjectured theoretical
    limit. This AMP comes with a rigorous state evolution analysis tracking its performance.
    Although we focus on specific noise distributions, our methodology can be generalized
    to a wide class of trace matrix ensembles at the cost of more involved expressions.
    Finally, despite the seemingly strong assumption of rotation-invariant noise,
    our theory empirically predicts algorithmic performance on real data, pointing
    at strong universality properties.
acknowledgement: J.B. was funded by the European Union (ERC, CHORAL, project number
  101039794). Views and opinions expressed are however those of the author(s) only
  and do not necessarily reflect those of the European Union or the European Research
  Council. Neither the European Union nor the granting authority can be held responsible
  for them. M.M. was supported by the 2019 Lopez-Loreta Prize. We would like to thank
  the reviewers for the insightful comments and, in particular, for suggesting the
  BAMP-inspired denoisers leading to AMP-AP.
article_number: e2302028120
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Jean
  full_name: Barbier, Jean
  last_name: Barbier
- first_name: Francesco
  full_name: Camilli, Francesco
  last_name: Camilli
- first_name: Marco
  full_name: Mondelli, Marco
  id: 27EB676C-8706-11E9-9510-7717E6697425
  last_name: Mondelli
  orcid: 0000-0002-3242-7020
- first_name: Manuel
  full_name: Sáenz, Manuel
  last_name: Sáenz
citation:
  ama: Barbier J, Camilli F, Mondelli M, Sáenz M. Fundamental limits in structured
    principal component analysis and how to reach them. <i>Proceedings of the National
    Academy of Sciences of the United States of America</i>. 2023;120(30). doi:<a
    href="https://doi.org/10.1073/pnas.2302028120">10.1073/pnas.2302028120</a>
  apa: Barbier, J., Camilli, F., Mondelli, M., &#38; Sáenz, M. (2023). Fundamental
    limits in structured principal component analysis and how to reach them. <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.2302028120">https://doi.org/10.1073/pnas.2302028120</a>
  chicago: Barbier, Jean, Francesco Camilli, Marco Mondelli, and Manuel Sáenz. “Fundamental
    Limits in Structured Principal Component Analysis and How to Reach Them.” <i>Proceedings
    of the National Academy of Sciences of the United States of America</i>. National
    Academy of Sciences, 2023. <a href="https://doi.org/10.1073/pnas.2302028120">https://doi.org/10.1073/pnas.2302028120</a>.
  ieee: J. Barbier, F. Camilli, M. Mondelli, and M. Sáenz, “Fundamental limits in
    structured principal component analysis and how to reach them,” <i>Proceedings
    of the National Academy of Sciences of the United States of America</i>, vol.
    120, no. 30. National Academy of Sciences, 2023.
  ista: Barbier J, Camilli F, Mondelli M, Sáenz M. 2023. Fundamental limits in structured
    principal component analysis and how to reach them. Proceedings of the National
    Academy of Sciences of the United States of America. 120(30), e2302028120.
  mla: Barbier, Jean, et al. “Fundamental Limits in Structured Principal Component
    Analysis and How to Reach Them.” <i>Proceedings of the National Academy of Sciences
    of the United States of America</i>, vol. 120, no. 30, e2302028120, National Academy
    of Sciences, 2023, doi:<a href="https://doi.org/10.1073/pnas.2302028120">10.1073/pnas.2302028120</a>.
  short: J. Barbier, F. Camilli, M. Mondelli, M. Sáenz, Proceedings of the National
    Academy of Sciences of the United States of America 120 (2023).
date_created: 2023-07-30T22:01:02Z
date_published: 2023-07-25T00:00:00Z
date_updated: 2024-09-10T13:03:18Z
day: '25'
ddc:
- '000'
department:
- _id: MaMo
doi: 10.1073/pnas.2302028120
external_id:
  pmid:
  - '37463204'
file:
- access_level: open_access
  checksum: 1fc06228afdb3aa80cf8e7766bcf9dc5
  content_type: application/pdf
  creator: dernst
  date_created: 2023-07-31T07:30:48Z
  date_updated: 2023-07-31T07:30:48Z
  file_id: '13323'
  file_name: 2023_PNAS_Barbier.pdf
  file_size: 995933
  relation: main_file
  success: 1
file_date_updated: 2023-07-31T07:30:48Z
has_accepted_license: '1'
intvolume: '       120'
issue: '30'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 059876FA-7A3F-11EA-A408-12923DDC885E
  name: Prix Lopez-Loretta 2019 - Marco Mondelli
publication: Proceedings of the National Academy of Sciences of the United States
  of America
publication_identifier:
  eissn:
  - 1091-6490
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
related_material:
  link:
  - relation: software
    url: https://github.com/fcamilli95/Structured-PCA-
scopus_import: '1'
status: public
title: Fundamental limits in structured principal component analysis and how to reach
  them
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: 120
year: '2023'
...
---
_id: '13316'
abstract:
- lang: eng
  text: Although budding yeast has been extensively used as a model organism for studying
    organelle functions and intracellular vesicle trafficking, whether it possesses
    an independent endocytic early/sorting compartment that sorts endocytic cargos
    to the endo-lysosomal pathway or the recycling pathway has long been unclear.
    The structure and properties of the endocytic early/sorting compartment differ
    significantly between organisms; in plant cells, the trans-Golgi network (TGN)
    serves this role, whereas in mammalian cells a separate intracellular structure
    performs this function. The yeast syntaxin homolog Tlg2p, widely localizing to
    the TGN and endosomal compartments, is presumed to act as a Q-SNARE for endocytic
    vesicles, but which compartment is the direct target for endocytic vesicles remained
    unanswered. Here we demonstrate by high-speed and high-resolution 4D imaging of
    fluorescently labeled endocytic cargos that the Tlg2p-residing compartment within
    the TGN functions as the early/sorting compartment. After arriving here, endocytic
    cargos are recycled to the plasma membrane or transported to the yeast Rab5-residing
    endosomal compartment through the pathway requiring the clathrin adaptors GGAs.
    Interestingly, Gga2p predominantly localizes at the Tlg2p-residing compartment,
    and the deletion of GGAs has little effect on another TGN region where Sec7p is
    present but suppresses dynamics of the Tlg2-residing early/sorting compartment,
    indicating that the Tlg2p- and Sec7p-residing regions are discrete entities in
    the mutant. Thus, the Tlg2p-residing region seems to serve as an early/sorting
    compartment and function independently of the Sec7p-residing region within the
    TGN.
acknowledgement: 'This work was supported by JSPS KAKENHI grant #18K062291, and the
  Takeda Science Foundation to JYT., as well as JSPS KAKENHI grant #19K065710, the
  Takeda Science Foundation, and Life Science Foundation of Japan to JT.'
article_number: e84850
article_processing_charge: Yes
article_type: original
author:
- first_name: Junko Y.
  full_name: Toshima, Junko Y.
  last_name: Toshima
- first_name: Ayana
  full_name: Tsukahara, Ayana
  last_name: Tsukahara
- first_name: Makoto
  full_name: Nagano, Makoto
  last_name: Nagano
- first_name: Takuro
  full_name: Tojima, Takuro
  last_name: Tojima
- first_name: Daria E
  full_name: Siekhaus, Daria E
  id: 3D224B9E-F248-11E8-B48F-1D18A9856A87
  last_name: Siekhaus
  orcid: 0000-0001-8323-8353
- first_name: Akihiko
  full_name: Nakano, Akihiko
  last_name: Nakano
- first_name: Jiro
  full_name: Toshima, Jiro
  last_name: Toshima
citation:
  ama: Toshima JY, Tsukahara A, Nagano M, et al. The yeast endocytic early/sorting
    compartment exists as an independent sub-compartment within the trans-Golgi network.
    <i>eLife</i>. 2023;12. doi:<a href="https://doi.org/10.7554/eLife.84850">10.7554/eLife.84850</a>
  apa: Toshima, J. Y., Tsukahara, A., Nagano, M., Tojima, T., Siekhaus, D. E., Nakano,
    A., &#38; Toshima, J. (2023). The yeast endocytic early/sorting compartment exists
    as an independent sub-compartment within the trans-Golgi network. <i>ELife</i>.
    eLife Sciences Publications. <a href="https://doi.org/10.7554/eLife.84850">https://doi.org/10.7554/eLife.84850</a>
  chicago: Toshima, Junko Y., Ayana Tsukahara, Makoto Nagano, Takuro Tojima, Daria
    E Siekhaus, Akihiko Nakano, and Jiro Toshima. “The Yeast Endocytic Early/Sorting
    Compartment Exists as an Independent Sub-Compartment within the Trans-Golgi Network.”
    <i>ELife</i>. eLife Sciences Publications, 2023. <a href="https://doi.org/10.7554/eLife.84850">https://doi.org/10.7554/eLife.84850</a>.
  ieee: J. Y. Toshima <i>et al.</i>, “The yeast endocytic early/sorting compartment
    exists as an independent sub-compartment within the trans-Golgi network,” <i>eLife</i>,
    vol. 12. eLife Sciences Publications, 2023.
  ista: Toshima JY, Tsukahara A, Nagano M, Tojima T, Siekhaus DE, Nakano A, Toshima
    J. 2023. The yeast endocytic early/sorting compartment exists as an independent
    sub-compartment within the trans-Golgi network. eLife. 12, e84850.
  mla: Toshima, Junko Y., et al. “The Yeast Endocytic Early/Sorting Compartment Exists
    as an Independent Sub-Compartment within the Trans-Golgi Network.” <i>ELife</i>,
    vol. 12, e84850, eLife Sciences Publications, 2023, doi:<a href="https://doi.org/10.7554/eLife.84850">10.7554/eLife.84850</a>.
  short: J.Y. Toshima, A. Tsukahara, M. Nagano, T. Tojima, D.E. Siekhaus, A. Nakano,
    J. Toshima, ELife 12 (2023).
date_created: 2023-07-30T22:01:02Z
date_published: 2023-07-21T00:00:00Z
date_updated: 2023-12-13T11:37:36Z
day: '21'
ddc:
- '570'
department:
- _id: DaSi
doi: 10.7554/eLife.84850
external_id:
  isi:
  - '001035372800001'
  pmid:
  - '37477116'
file:
- access_level: open_access
  checksum: 2af111a00cf5e3a956f7f0fd13199b15
  content_type: application/pdf
  creator: dernst
  date_created: 2023-07-31T07:43:00Z
  date_updated: 2023-07-31T07:43:00Z
  file_id: '13324'
  file_name: 2023_eLife_Toshima.pdf
  file_size: 11980913
  relation: main_file
  success: 1
file_date_updated: 2023-07-31T07:43:00Z
has_accepted_license: '1'
intvolume: '        12'
isi: 1
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
publication: eLife
publication_identifier:
  eissn:
  - 2050-084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: The yeast endocytic early/sorting compartment exists as an independent sub-compartment
  within the trans-Golgi network
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: 12
year: '2023'
...
---
_id: '13317'
abstract:
- lang: eng
  text: We prove the Eigenstate Thermalisation Hypothesis (ETH) for local observables
    in a typical translation invariant system of quantum spins with L-body interactions,
    where L is the number of spins. This mathematically verifies the observation first
    made by Santos and Rigol (Phys Rev E 82(3):031130, 2010, https://doi.org/10.1103/PhysRevE.82.031130)
    that the ETH may hold for systems with additional translational symmetries for
    a naturally restricted class of observables. We also present numerical support
    for the same phenomenon for Hamiltonians with local interaction.
acknowledgement: "LE, JH, and VR were supported by ERC Advanced Grant “RMTBeyond”
  No. 101020331. SS was supported by KAKENHI Grant Number JP22J14935 from the Japan
  Society for the Promotion of Science (JSPS) and Forefront Physics and Mathematics
  Program to Drive Transformation (FoPM), a World-leading Innovative Graduate Study
  (WINGS) Program, the University of Tokyo.\r\nOpen access funding provided by The
  University of Tokyo."
article_number: '128'
article_processing_charge: Yes (in subscription journal)
article_type: original
arxiv: 1
author:
- first_name: Shoki
  full_name: Sugimoto, Shoki
  last_name: Sugimoto
- first_name: Sven Joscha
  full_name: Henheik, Sven Joscha
  id: 31d731d7-d235-11ea-ad11-b50331c8d7fb
  last_name: Henheik
  orcid: 0000-0003-1106-327X
- first_name: Volodymyr
  full_name: Riabov, Volodymyr
  id: 1949f904-edfb-11eb-afb5-e2dfddabb93b
  last_name: Riabov
- first_name: László
  full_name: Erdös, László
  id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
  last_name: Erdös
  orcid: 0000-0001-5366-9603
citation:
  ama: Sugimoto S, Henheik SJ, Riabov V, Erdös L. Eigenstate thermalisation hypothesis
    for translation invariant spin systems. <i>Journal of Statistical Physics</i>.
    2023;190(7). doi:<a href="https://doi.org/10.1007/s10955-023-03132-4">10.1007/s10955-023-03132-4</a>
  apa: Sugimoto, S., Henheik, S. J., Riabov, V., &#38; Erdös, L. (2023). Eigenstate
    thermalisation hypothesis for translation invariant spin systems. <i>Journal of
    Statistical Physics</i>. Springer Nature. <a href="https://doi.org/10.1007/s10955-023-03132-4">https://doi.org/10.1007/s10955-023-03132-4</a>
  chicago: Sugimoto, Shoki, Sven Joscha Henheik, Volodymyr Riabov, and László Erdös.
    “Eigenstate Thermalisation Hypothesis for Translation Invariant Spin Systems.”
    <i>Journal of Statistical Physics</i>. Springer Nature, 2023. <a href="https://doi.org/10.1007/s10955-023-03132-4">https://doi.org/10.1007/s10955-023-03132-4</a>.
  ieee: S. Sugimoto, S. J. Henheik, V. Riabov, and L. Erdös, “Eigenstate thermalisation
    hypothesis for translation invariant spin systems,” <i>Journal of Statistical
    Physics</i>, vol. 190, no. 7. Springer Nature, 2023.
  ista: Sugimoto S, Henheik SJ, Riabov V, Erdös L. 2023. Eigenstate thermalisation
    hypothesis for translation invariant spin systems. Journal of Statistical Physics.
    190(7), 128.
  mla: Sugimoto, Shoki, et al. “Eigenstate Thermalisation Hypothesis for Translation
    Invariant Spin Systems.” <i>Journal of Statistical Physics</i>, vol. 190, no.
    7, 128, Springer Nature, 2023, doi:<a href="https://doi.org/10.1007/s10955-023-03132-4">10.1007/s10955-023-03132-4</a>.
  short: S. Sugimoto, S.J. Henheik, V. Riabov, L. Erdös, Journal of Statistical Physics
    190 (2023).
date_created: 2023-07-30T22:01:02Z
date_published: 2023-07-21T00:00:00Z
date_updated: 2023-12-13T11:38:44Z
day: '21'
ddc:
- '510'
- '530'
department:
- _id: LaEr
doi: 10.1007/s10955-023-03132-4
ec_funded: 1
external_id:
  arxiv:
  - '2304.04213'
  isi:
  - '001035677200002'
file:
- access_level: open_access
  checksum: c2ef6b2aecfee1ad6d03fab620507c2c
  content_type: application/pdf
  creator: dernst
  date_created: 2023-07-31T07:49:31Z
  date_updated: 2023-07-31T07:49:31Z
  file_id: '13325'
  file_name: 2023_JourStatPhysics_Sugimoto.pdf
  file_size: 612755
  relation: main_file
  success: 1
file_date_updated: 2023-07-31T07:49:31Z
has_accepted_license: '1'
intvolume: '       190'
isi: 1
issue: '7'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 62796744-2b32-11ec-9570-940b20777f1d
  call_identifier: H2020
  grant_number: '101020331'
  name: Random matrices beyond Wigner-Dyson-Mehta
publication: Journal of Statistical Physics
publication_identifier:
  eissn:
  - 1572-9613
  issn:
  - 0022-4715
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Eigenstate thermalisation hypothesis for translation invariant spin systems
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: 190
year: '2023'
...
---
_id: '13318'
abstract:
- lang: eng
  text: Bohnenblust–Hille inequalities for Boolean cubes have been proven with dimension-free
    constants that grow subexponentially in the degree (Defant et al. in Math Ann
    374(1):653–680, 2019). Such inequalities have found great applications in learning
    low-degree Boolean functions (Eskenazis and Ivanisvili in Proceedings of the 54th
    annual ACM SIGACT symposium on theory of computing, pp 203–207, 2022). Motivated
    by learning quantum observables, a qubit analogue of Bohnenblust–Hille inequality
    for Boolean cubes was recently conjectured in Rouzé et al. (Quantum Talagrand,
    KKL and Friedgut’s theorems and the learnability of quantum Boolean functions,
    2022. arXiv preprint arXiv:2209.07279). The conjecture was resolved in Huang et
    al. (Learning to predict arbitrary quantum processes, 2022. arXiv preprint arXiv:2210.14894).
    In this paper, we give a new proof of these Bohnenblust–Hille inequalities for
    qubit system with constants that are dimension-free and of exponential growth
    in the degree. As a consequence, we obtain a junta theorem for low-degree polynomials.
    Using similar ideas, we also study learning problems of low degree quantum observables
    and Bohr’s radius phenomenon on quantum Boolean cubes.
acknowledgement: The research of A.V. is supported by NSF DMS-1900286, DMS-2154402
  and by Hausdorff Center for Mathematics. H.Z. is supported by the Lise Meitner fellowship,
  Austrian Science Fund (FWF) M3337. This work is partially supported by NSF DMS-1929284
  while both authors were in residence at the Institute for Computational and Experimental
  Research in Mathematics in Providence, RI, during the Harmonic Analysis and Convexity
  program.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Alexander
  full_name: Volberg, Alexander
  last_name: Volberg
- first_name: Haonan
  full_name: Zhang, Haonan
  id: D8F41E38-9E66-11E9-A9E2-65C2E5697425
  last_name: Zhang
citation:
  ama: Volberg A, Zhang H. Noncommutative Bohnenblust–Hille inequalities. <i>Mathematische
    Annalen</i>. 2023. doi:<a href="https://doi.org/10.1007/s00208-023-02680-0">10.1007/s00208-023-02680-0</a>
  apa: Volberg, A., &#38; Zhang, H. (2023). Noncommutative Bohnenblust–Hille inequalities.
    <i>Mathematische Annalen</i>. Springer Nature. <a href="https://doi.org/10.1007/s00208-023-02680-0">https://doi.org/10.1007/s00208-023-02680-0</a>
  chicago: Volberg, Alexander, and Haonan Zhang. “Noncommutative Bohnenblust–Hille
    Inequalities.” <i>Mathematische Annalen</i>. Springer Nature, 2023. <a href="https://doi.org/10.1007/s00208-023-02680-0">https://doi.org/10.1007/s00208-023-02680-0</a>.
  ieee: A. Volberg and H. Zhang, “Noncommutative Bohnenblust–Hille inequalities,”
    <i>Mathematische Annalen</i>. Springer Nature, 2023.
  ista: Volberg A, Zhang H. 2023. Noncommutative Bohnenblust–Hille inequalities. Mathematische
    Annalen.
  mla: Volberg, Alexander, and Haonan Zhang. “Noncommutative Bohnenblust–Hille Inequalities.”
    <i>Mathematische Annalen</i>, Springer Nature, 2023, doi:<a href="https://doi.org/10.1007/s00208-023-02680-0">10.1007/s00208-023-02680-0</a>.
  short: A. Volberg, H. Zhang, Mathematische Annalen (2023).
date_created: 2023-07-30T22:01:03Z
date_published: 2023-07-24T00:00:00Z
date_updated: 2023-12-13T11:36:20Z
day: '24'
department:
- _id: JaMa
doi: 10.1007/s00208-023-02680-0
external_id:
  arxiv:
  - '2210.14468'
  isi:
  - '001035665500001'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1007/s00208-023-02680-0
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: eb958bca-77a9-11ec-83b8-c565cb50d8d6
  grant_number: M03337
  name: Curvature-dimension in noncommutative analysis
publication: Mathematische Annalen
publication_identifier:
  eissn:
  - 1432-1807
  issn:
  - 0025-5831
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Noncommutative Bohnenblust–Hille inequalities
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
