---
_id: '13129'
abstract:
- lang: eng
  text: "We study the representative volume element (RVE) method, which is a method
    to approximately infer the effective behavior ahom of a stationary random medium.
    The latter is described by a coefficient field a(x) generated from a given ensemble
    ⟨⋅⟩ and the corresponding linear elliptic operator −∇⋅a∇. In line with the theory
    of homogenization, the method proceeds by computing d=3 correctors (d denoting
    the space dimension). To be numerically tractable, this computation has to be
    done on a finite domain: the so-called representative volume element, i.e., a
    large box with, say, periodic boundary conditions. The main message of this article
    is: Periodize the ensemble instead of its realizations. By this, we mean that
    it is better to sample from a suitably periodized ensemble than to periodically
    extend the restriction of a realization a(x) from the whole-space ensemble ⟨⋅⟩.
    We make this point by investigating the bias (or systematic error), i.e., the
    difference between ahom and the expected value of the RVE method, in terms of
    its scaling w.r.t. the lateral size L of the box. In case of periodizing a(x),
    we heuristically argue that this error is generically O(L−1). In case of a suitable
    periodization of ⟨⋅⟩\r\n, we rigorously show that it is O(L−d). In fact, we give
    a characterization of the leading-order error term for both strategies and argue
    that even in the isotropic case it is generically non-degenerate. We carry out
    the rigorous analysis in the convenient setting of ensembles ⟨⋅⟩\r\n of Gaussian
    type, which allow for a straightforward periodization, passing via the (integrable)
    covariance function. This setting has also the advantage of making the Price theorem
    and the Malliavin calculus available for optimal stochastic estimates of correctors.
    We actually need control of second-order correctors to capture the leading-order
    error term. This is due to inversion symmetry when applying the two-scale expansion
    to the Green function. As a bonus, we present a stream-lined strategy to estimate
    the error in a higher-order two-scale expansion of the Green function."
acknowledgement: Open access funding provided by Institute of Science and Technology
  (IST Austria).
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Nicolas
  full_name: Clozeau, Nicolas
  id: fea1b376-906f-11eb-847d-b2c0cf46455b
  last_name: Clozeau
- first_name: Marc
  full_name: Josien, Marc
  last_name: Josien
- first_name: Felix
  full_name: Otto, Felix
  last_name: Otto
- first_name: Qiang
  full_name: Xu, Qiang
  last_name: Xu
citation:
  ama: 'Clozeau N, Josien M, Otto F, Xu Q. Bias in the representative volume element
    method: Periodize the ensemble instead of its realizations. <i>Foundations of
    Computational Mathematics</i>. 2023. doi:<a href="https://doi.org/10.1007/s10208-023-09613-y">10.1007/s10208-023-09613-y</a>'
  apa: 'Clozeau, N., Josien, M., Otto, F., &#38; Xu, Q. (2023). Bias in the representative
    volume element method: Periodize the ensemble instead of its realizations. <i>Foundations
    of Computational Mathematics</i>. Springer Nature. <a href="https://doi.org/10.1007/s10208-023-09613-y">https://doi.org/10.1007/s10208-023-09613-y</a>'
  chicago: 'Clozeau, Nicolas, Marc Josien, Felix Otto, and Qiang Xu. “Bias in the
    Representative Volume Element Method: Periodize the Ensemble Instead of Its Realizations.”
    <i>Foundations of Computational Mathematics</i>. Springer Nature, 2023. <a href="https://doi.org/10.1007/s10208-023-09613-y">https://doi.org/10.1007/s10208-023-09613-y</a>.'
  ieee: 'N. Clozeau, M. Josien, F. Otto, and Q. Xu, “Bias in the representative volume
    element method: Periodize the ensemble instead of its realizations,” <i>Foundations
    of Computational Mathematics</i>. Springer Nature, 2023.'
  ista: 'Clozeau N, Josien M, Otto F, Xu Q. 2023. Bias in the representative volume
    element method: Periodize the ensemble instead of its realizations. Foundations
    of Computational Mathematics.'
  mla: 'Clozeau, Nicolas, et al. “Bias in the Representative Volume Element Method:
    Periodize the Ensemble Instead of Its Realizations.” <i>Foundations of Computational
    Mathematics</i>, Springer Nature, 2023, doi:<a href="https://doi.org/10.1007/s10208-023-09613-y">10.1007/s10208-023-09613-y</a>.'
  short: N. Clozeau, M. Josien, F. Otto, Q. Xu, Foundations of Computational Mathematics
    (2023).
date_created: 2023-06-11T22:00:40Z
date_published: 2023-05-30T00:00:00Z
date_updated: 2023-08-02T06:12:39Z
day: '30'
ddc:
- '510'
department:
- _id: JuFi
doi: 10.1007/s10208-023-09613-y
external_id:
  isi:
  - '000999623100001'
has_accepted_license: '1'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1007/s10208-023-09613-y
month: '05'
oa: 1
oa_version: Published Version
publication: Foundations of Computational Mathematics
publication_identifier:
  eissn:
  - 1615-3383
  issn:
  - 1615-3375
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Bias in the representative volume element method: Periodize the ensemble instead
  of its realizations'
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
year: '2023'
...
---
_id: '13134'
abstract:
- lang: eng
  text: We propose a characterization of discrete analytical spheres, planes and lines
    in the body-centered cubic (BCC) grid, both in the Cartesian and in the recently
    proposed alternative compact coordinate system, in which each integer triplet
    addresses some voxel in the grid. We define spheres and planes through double
    Diophantine inequalities and investigate their relevant topological features,
    such as functionality or the interrelation between the thickness of the objects
    and their connectivity and separation properties. We define lines as the intersection
    of planes. The number of the planes (up to six) is equal to the number of the
    pairs of faces of a BCC voxel that are parallel to the line.
acknowledgement: The first author has been partially supported by the Ministry of
  Science, Technological Development and Innovation of the Republic of Serbia through
  the project no. 451-03-47/2023-01/200156. The fourth author is funded by the DFG
  Collaborative Research Center TRR 109, ‘Discretization in Geometry and Dynamics’,
  Austrian Science Fund (FWF), grant no. I 02979-N35.
article_number: '109693'
article_processing_charge: No
article_type: original
author:
- first_name: Lidija
  full_name: Čomić, Lidija
  last_name: Čomić
- first_name: Gaëlle
  full_name: Largeteau-Skapin, Gaëlle
  last_name: Largeteau-Skapin
- first_name: Rita
  full_name: Zrour, Rita
  last_name: Zrour
- first_name: Ranita
  full_name: Biswas, Ranita
  id: 3C2B033E-F248-11E8-B48F-1D18A9856A87
  last_name: Biswas
  orcid: 0000-0002-5372-7890
- first_name: Eric
  full_name: Andres, Eric
  last_name: Andres
citation:
  ama: Čomić L, Largeteau-Skapin G, Zrour R, Biswas R, Andres E. Discrete analytical
    objects in the body-centered cubic grid. <i>Pattern Recognition</i>. 2023;142(10).
    doi:<a href="https://doi.org/10.1016/j.patcog.2023.109693">10.1016/j.patcog.2023.109693</a>
  apa: Čomić, L., Largeteau-Skapin, G., Zrour, R., Biswas, R., &#38; Andres, E. (2023).
    Discrete analytical objects in the body-centered cubic grid. <i>Pattern Recognition</i>.
    Elsevier. <a href="https://doi.org/10.1016/j.patcog.2023.109693">https://doi.org/10.1016/j.patcog.2023.109693</a>
  chicago: Čomić, Lidija, Gaëlle Largeteau-Skapin, Rita Zrour, Ranita Biswas, and
    Eric Andres. “Discrete Analytical Objects in the Body-Centered Cubic Grid.” <i>Pattern
    Recognition</i>. Elsevier, 2023. <a href="https://doi.org/10.1016/j.patcog.2023.109693">https://doi.org/10.1016/j.patcog.2023.109693</a>.
  ieee: L. Čomić, G. Largeteau-Skapin, R. Zrour, R. Biswas, and E. Andres, “Discrete
    analytical objects in the body-centered cubic grid,” <i>Pattern Recognition</i>,
    vol. 142, no. 10. Elsevier, 2023.
  ista: Čomić L, Largeteau-Skapin G, Zrour R, Biswas R, Andres E. 2023. Discrete analytical
    objects in the body-centered cubic grid. Pattern Recognition. 142(10), 109693.
  mla: Čomić, Lidija, et al. “Discrete Analytical Objects in the Body-Centered Cubic
    Grid.” <i>Pattern Recognition</i>, vol. 142, no. 10, 109693, Elsevier, 2023, doi:<a
    href="https://doi.org/10.1016/j.patcog.2023.109693">10.1016/j.patcog.2023.109693</a>.
  short: L. Čomić, G. Largeteau-Skapin, R. Zrour, R. Biswas, E. Andres, Pattern Recognition
    142 (2023).
date_created: 2023-06-18T22:00:45Z
date_published: 2023-10-01T00:00:00Z
date_updated: 2023-10-10T07:37:16Z
day: '01'
department:
- _id: HeEd
doi: 10.1016/j.patcog.2023.109693
external_id:
  isi:
  - '001013526000001'
intvolume: '       142'
isi: 1
issue: '10'
language:
- iso: eng
month: '10'
oa_version: None
project:
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: I02979-N35
  name: Persistence and stability of geometric complexes
- _id: 0aa4bc98-070f-11eb-9043-e6fff9c6a316
  grant_number: I4887
  name: Discretization in Geometry and Dynamics
publication: Pattern Recognition
publication_identifier:
  issn:
  - 0031-3203
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Discrete analytical objects in the body-centered cubic grid
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 142
year: '2023'
...
---
_id: '13135'
abstract:
- lang: eng
  text: In this paper we consider a class of stochastic reaction-diffusion equations.
    We provide local well-posedness, regularity, blow-up criteria and positivity of
    solutions. The key novelties of this work are related to the use transport noise,
    critical spaces and the proof of higher order regularity of solutions – even in
    case of non-smooth initial data. Crucial tools are Lp(Lp)-theory, maximal regularity
    estimates and sharp blow-up criteria. We view the results of this paper as a general
    toolbox for establishing global well-posedness for a large class of reaction-diffusion
    systems of practical interest, of which many are completely open. In our follow-up
    work [8], the results of this paper are applied in the specific cases of the Lotka-Volterra
    equations and the Brusselator model.
acknowledgement: The first author has received funding from the European Research
  Council (ERC) under the European Union's Horizon 2020 research and innovation programme
  (grant agreement No. 948819) Image 1. The second author is supported by the VICI
  subsidy VI.C.212.027 of the Netherlands Organisation for Scientific Research (NWO).
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Antonio
  full_name: Agresti, Antonio
  id: 673cd0cc-9b9a-11eb-b144-88f30e1fbb72
  last_name: Agresti
  orcid: 0000-0002-9573-2962
- first_name: Mark
  full_name: Veraar, Mark
  last_name: Veraar
citation:
  ama: 'Agresti A, Veraar M. Reaction-diffusion equations with transport noise and
    critical superlinear diffusion: Local well-posedness and positivity. <i>Journal
    of Differential Equations</i>. 2023;368(9):247-300. doi:<a href="https://doi.org/10.1016/j.jde.2023.05.038">10.1016/j.jde.2023.05.038</a>'
  apa: 'Agresti, A., &#38; Veraar, M. (2023). Reaction-diffusion equations with transport
    noise and critical superlinear diffusion: Local well-posedness and positivity.
    <i>Journal of Differential Equations</i>. Elsevier. <a href="https://doi.org/10.1016/j.jde.2023.05.038">https://doi.org/10.1016/j.jde.2023.05.038</a>'
  chicago: 'Agresti, Antonio, and Mark Veraar. “Reaction-Diffusion Equations with
    Transport Noise and Critical Superlinear Diffusion: Local Well-Posedness and Positivity.”
    <i>Journal of Differential Equations</i>. Elsevier, 2023. <a href="https://doi.org/10.1016/j.jde.2023.05.038">https://doi.org/10.1016/j.jde.2023.05.038</a>.'
  ieee: 'A. Agresti and M. Veraar, “Reaction-diffusion equations with transport noise
    and critical superlinear diffusion: Local well-posedness and positivity,” <i>Journal
    of Differential Equations</i>, vol. 368, no. 9. Elsevier, pp. 247–300, 2023.'
  ista: 'Agresti A, Veraar M. 2023. Reaction-diffusion equations with transport noise
    and critical superlinear diffusion: Local well-posedness and positivity. Journal
    of Differential Equations. 368(9), 247–300.'
  mla: 'Agresti, Antonio, and Mark Veraar. “Reaction-Diffusion Equations with Transport
    Noise and Critical Superlinear Diffusion: Local Well-Posedness and Positivity.”
    <i>Journal of Differential Equations</i>, vol. 368, no. 9, Elsevier, 2023, pp.
    247–300, doi:<a href="https://doi.org/10.1016/j.jde.2023.05.038">10.1016/j.jde.2023.05.038</a>.'
  short: A. Agresti, M. Veraar, Journal of Differential Equations 368 (2023) 247–300.
date_created: 2023-06-18T22:00:45Z
date_published: 2023-09-25T00:00:00Z
date_updated: 2024-01-29T11:04:41Z
day: '25'
ddc:
- '510'
department:
- _id: JuFi
doi: 10.1016/j.jde.2023.05.038
ec_funded: 1
external_id:
  isi:
  - '001019018700001'
file:
- access_level: open_access
  checksum: 246b703b091dfe047bfc79abf0891a63
  content_type: application/pdf
  creator: dernst
  date_created: 2024-01-29T11:03:09Z
  date_updated: 2024-01-29T11:03:09Z
  file_id: '14895'
  file_name: 2023_JourDifferentialEquations_Agresti.pdf
  file_size: 834638
  relation: main_file
  success: 1
file_date_updated: 2024-01-29T11:03:09Z
has_accepted_license: '1'
intvolume: '       368'
isi: 1
issue: '9'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 247-300
project:
- _id: 0aa76401-070f-11eb-9043-b5bb049fa26d
  call_identifier: H2020
  grant_number: '948819'
  name: Bridging Scales in Random Materials
publication: Journal of Differential Equations
publication_identifier:
  eissn:
  - 1090-2732
  issn:
  - 0022-0396
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Reaction-diffusion equations with transport noise and critical superlinear
  diffusion: Local well-posedness and positivity'
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: 368
year: '2023'
...
---
_id: '13136'
abstract:
- lang: eng
  text: Despite its fundamental importance for development, the question of how organs
    achieve their correct size and shape is poorly understood. This complex process
    requires coordination between the generation of cell mass and the morphogenetic
    mechanisms that sculpt tissues. These processes are regulated by morphogen signalling
    pathways and mechanical forces. Yet, in many systems, it is unclear how biochemical
    and mechanical signalling are quantitatively interpreted to determine the behaviours
    of individual cells and how they contribute to growth and morphogenesis at the
    tissue scale. In this review, we discuss the development of the vertebrate neural
    tube and somites as an example of the state of knowledge, as well as the challenges
    in understanding the mechanisms of tissue size control in vertebrate organogenesis.
    We highlight how the recent advances in stem cell differentiation and organoid
    approaches can be harnessed to provide new insights into this question.
acknowledgement: 'We thank J. Briscoe for comments on the manuscript. Work in the
  AK lab is supported by ISTA, the European Research Council under Horizon Europe:
  grant 101044579, and Austrian Science Fund (FWF): F78 (Stem Cell Modulation). SR
  is supported by Gesellschaft für Forschungsförderung Niederösterreich m.b.H. fellowship
  SC19-011.'
article_number: '100459'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Thomas
  full_name: Minchington, Thomas
  id: 7d1648cb-19e9-11eb-8e7a-f8c037fb3e3f
  last_name: Minchington
- first_name: Stefanie
  full_name: Rus, Stefanie
  id: 4D9EC9B6-F248-11E8-B48F-1D18A9856A87
  last_name: Rus
  orcid: 0000-0001-8703-1093
- first_name: Anna
  full_name: Kicheva, Anna
  id: 3959A2A0-F248-11E8-B48F-1D18A9856A87
  last_name: Kicheva
  orcid: 0000-0003-4509-4998
citation:
  ama: Minchington T, Rus S, Kicheva A. Control of tissue dimensions in the developing
    neural tube and somites. <i>Current Opinion in Systems Biology</i>. 2023;35. doi:<a
    href="https://doi.org/10.1016/j.coisb.2023.100459">10.1016/j.coisb.2023.100459</a>
  apa: Minchington, T., Rus, S., &#38; Kicheva, A. (2023). Control of tissue dimensions
    in the developing neural tube and somites. <i>Current Opinion in Systems Biology</i>.
    Elsevier. <a href="https://doi.org/10.1016/j.coisb.2023.100459">https://doi.org/10.1016/j.coisb.2023.100459</a>
  chicago: Minchington, Thomas, Stefanie Rus, and Anna Kicheva. “Control of Tissue
    Dimensions in the Developing Neural Tube and Somites.” <i>Current Opinion in Systems
    Biology</i>. Elsevier, 2023. <a href="https://doi.org/10.1016/j.coisb.2023.100459">https://doi.org/10.1016/j.coisb.2023.100459</a>.
  ieee: T. Minchington, S. Rus, and A. Kicheva, “Control of tissue dimensions in the
    developing neural tube and somites,” <i>Current Opinion in Systems Biology</i>,
    vol. 35. Elsevier, 2023.
  ista: Minchington T, Rus S, Kicheva A. 2023. Control of tissue dimensions in the
    developing neural tube and somites. Current Opinion in Systems Biology. 35, 100459.
  mla: Minchington, Thomas, et al. “Control of Tissue Dimensions in the Developing
    Neural Tube and Somites.” <i>Current Opinion in Systems Biology</i>, vol. 35,
    100459, Elsevier, 2023, doi:<a href="https://doi.org/10.1016/j.coisb.2023.100459">10.1016/j.coisb.2023.100459</a>.
  short: T. Minchington, S. Rus, A. Kicheva, Current Opinion in Systems Biology 35
    (2023).
date_created: 2023-06-18T22:00:46Z
date_published: 2023-09-01T00:00:00Z
date_updated: 2024-01-29T11:07:47Z
day: '01'
ddc:
- '570'
department:
- _id: AnKi
doi: 10.1016/j.coisb.2023.100459
file:
- access_level: open_access
  checksum: 8a75c4e29fd9b62e3c50663c2265b173
  content_type: application/pdf
  creator: dernst
  date_created: 2024-01-29T11:06:45Z
  date_updated: 2024-01-29T11:06:45Z
  file_id: '14896'
  file_name: 2023_CurrOpSystBioloy_Minchington.pdf
  file_size: 598842
  relation: main_file
  success: 1
file_date_updated: 2024-01-29T11:06:45Z
has_accepted_license: '1'
intvolume: '        35'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: bd7e737f-d553-11ed-ba76-d69ffb5ee3aa
  grant_number: '101044579'
  name: Mechanisms of tissue size regulation in spinal cord development
- _id: 059DF620-7A3F-11EA-A408-12923DDC885E
  grant_number: F07802
  name: Morphogen control of growth and pattern in the spinal cord
- _id: 9B9B39FA-BA93-11EA-9121-9846C619BF3A
  grant_number: SC19-011
  name: The regulatory logic of pattern formation in the vertebrate dorsal neural
    tube
publication: Current Opinion in Systems Biology
publication_identifier:
  eissn:
  - 2452-3100
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Control of tissue dimensions in the developing neural tube and somites
tmp:
  image: /images/cc_by_nc_nd.png
  legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
  name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
    (CC BY-NC-ND 4.0)
  short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2023'
...
---
_id: '13138'
abstract:
- lang: eng
  text: "We consider the spin-\r\n1\r\n2\r\n Heisenberg chain (XXX model) weakly perturbed
    away from integrability by an isotropic next-to-nearest neighbor exchange interaction.
    Recently, it was conjectured that this model possesses an infinite tower of quasiconserved
    integrals of motion (charges) [D. Kurlov et al., Phys. Rev. B 105, 104302 (2022)].
    In this work we first test this conjecture by investigating how the norm of the
    adiabatic gauge potential (AGP) scales with the system size, which is known to
    be a remarkably accurate measure of chaos. We find that for the perturbed XXX
    chain the behavior of the AGP norm corresponds to neither an integrable nor a
    chaotic regime, which supports the conjectured quasi-integrability of the model.
    We then prove the conjecture and explicitly construct the infinite set of quasiconserved
    charges. Our proof relies on the fact that the XXX chain perturbed by next-to-nearest
    exchange interaction can be viewed as a truncation of an integrable long-range
    deformation of the Heisenberg spin chain."
acknowledgement: "The numerical computations in this work were performed using QuSpin
  [83, 84]. We acknowledge useful discussions with Igor Aleiner, Boris Altshuler,
  Jacopo de Nardis, Anatoli Polkovnikov, and Gora Shlyapnikov. We thank Piotr Sierant
  and Dario Rosa for drawing our attention to Refs. [31, 42, 46] and Ref. [47], respectively.
  We are grateful to an anonymous referee for very useful comments and for drawing
  our attention to Refs. [80, 81]. The work of VG is part of the DeltaITP consortium,
  a program of the Netherlands Organization for Scientific\r\nResearch (NWO) funded
  by the Dutch Ministry of Education, Culture and Science (OCW). VG is also partially
  supported by RSF 19-71-10092. The work of AT was supported by the ERC Starting Grant
  101042293 (HEPIQ). RS acknowledges support from Slovenian Research Agency (ARRS)
  - research programme P1-0402. "
article_number: '184312'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Pavel
  full_name: Orlov, Pavel
  last_name: Orlov
- first_name: Anastasiia
  full_name: Tiutiakina, Anastasiia
  last_name: Tiutiakina
- first_name: Rustem
  full_name: Sharipov, Rustem
  last_name: Sharipov
- first_name: Elena
  full_name: Petrova, Elena
  id: 0ac84990-897b-11ed-a09c-f5abb56a4ede
  last_name: Petrova
- first_name: Vladimir
  full_name: Gritsev, Vladimir
  last_name: Gritsev
- first_name: Denis V.
  full_name: Kurlov, Denis V.
  last_name: Kurlov
citation:
  ama: Orlov P, Tiutiakina A, Sharipov R, Petrova E, Gritsev V, Kurlov DV. Adiabatic
    eigenstate deformations and weak integrability breaking of Heisenberg chain. <i>Physical
    Review B</i>. 2023;107(18). doi:<a href="https://doi.org/10.1103/PhysRevB.107.184312">10.1103/PhysRevB.107.184312</a>
  apa: Orlov, P., Tiutiakina, A., Sharipov, R., Petrova, E., Gritsev, V., &#38; Kurlov,
    D. V. (2023). Adiabatic eigenstate deformations and weak integrability breaking
    of Heisenberg chain. <i>Physical Review B</i>. American Physical Society. <a href="https://doi.org/10.1103/PhysRevB.107.184312">https://doi.org/10.1103/PhysRevB.107.184312</a>
  chicago: Orlov, Pavel, Anastasiia Tiutiakina, Rustem Sharipov, Elena Petrova, Vladimir
    Gritsev, and Denis V. Kurlov. “Adiabatic Eigenstate Deformations and Weak Integrability
    Breaking of Heisenberg Chain.” <i>Physical Review B</i>. American Physical Society,
    2023. <a href="https://doi.org/10.1103/PhysRevB.107.184312">https://doi.org/10.1103/PhysRevB.107.184312</a>.
  ieee: P. Orlov, A. Tiutiakina, R. Sharipov, E. Petrova, V. Gritsev, and D. V. Kurlov,
    “Adiabatic eigenstate deformations and weak integrability breaking of Heisenberg
    chain,” <i>Physical Review B</i>, vol. 107, no. 18. American Physical Society,
    2023.
  ista: Orlov P, Tiutiakina A, Sharipov R, Petrova E, Gritsev V, Kurlov DV. 2023.
    Adiabatic eigenstate deformations and weak integrability breaking of Heisenberg
    chain. Physical Review B. 107(18), 184312.
  mla: Orlov, Pavel, et al. “Adiabatic Eigenstate Deformations and Weak Integrability
    Breaking of Heisenberg Chain.” <i>Physical Review B</i>, vol. 107, no. 18, 184312,
    American Physical Society, 2023, doi:<a href="https://doi.org/10.1103/PhysRevB.107.184312">10.1103/PhysRevB.107.184312</a>.
  short: P. Orlov, A. Tiutiakina, R. Sharipov, E. Petrova, V. Gritsev, D.V. Kurlov,
    Physical Review B 107 (2023).
date_created: 2023-06-18T22:00:46Z
date_published: 2023-05-01T00:00:00Z
date_updated: 2023-08-02T06:16:02Z
day: '01'
department:
- _id: GradSch
doi: 10.1103/PhysRevB.107.184312
external_id:
  arxiv:
  - '2303.00729'
  isi:
  - '001003686900004'
intvolume: '       107'
isi: 1
issue: '18'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2303.00729
month: '05'
oa: 1
oa_version: Preprint
publication: Physical Review B
publication_identifier:
  eissn:
  - 2469-9969
  issn:
  - 2469-9950
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Adiabatic eigenstate deformations and weak integrability breaking of Heisenberg
  chain
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 107
year: '2023'
...
---
_id: '13139'
abstract:
- lang: eng
  text: A classical problem for Markov chains is determining their stationary (or
    steady-state) distribution. This problem has an equally classical solution based
    on eigenvectors and linear equation systems. However, this approach does not scale
    to large instances, and iterative solutions are desirable. It turns out that a
    naive approach, as used by current model checkers, may yield completely wrong
    results. We present a new approach, which utilizes recent advances in partial
    exploration and mean payoff computation to obtain a correct, converging approximation.
alternative_title:
- LNCS
article_processing_charge: No
arxiv: 1
author:
- first_name: Tobias
  full_name: Meggendorfer, Tobias
  id: b21b0c15-30a2-11eb-80dc-f13ca25802e1
  last_name: Meggendorfer
  orcid: 0000-0002-1712-2165
citation:
  ama: 'Meggendorfer T. Correct approximation of stationary distributions. In: <i>TACAS
    2023: Tools and Algorithms for the Construction and Analysis of Systems</i>. Vol
    13993. Springer Nature; 2023:489-507. doi:<a href="https://doi.org/10.1007/978-3-031-30823-9_25">10.1007/978-3-031-30823-9_25</a>'
  apa: 'Meggendorfer, T. (2023). Correct approximation of stationary distributions.
    In <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i>
    (Vol. 13993, pp. 489–507). Paris, France: Springer Nature. <a href="https://doi.org/10.1007/978-3-031-30823-9_25">https://doi.org/10.1007/978-3-031-30823-9_25</a>'
  chicago: 'Meggendorfer, Tobias. “Correct Approximation of Stationary Distributions.”
    In <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i>,
    13993:489–507. Springer Nature, 2023. <a href="https://doi.org/10.1007/978-3-031-30823-9_25">https://doi.org/10.1007/978-3-031-30823-9_25</a>.'
  ieee: 'T. Meggendorfer, “Correct approximation of stationary distributions,” in
    <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i>,
    Paris, France, 2023, vol. 13993, pp. 489–507.'
  ista: 'Meggendorfer T. 2023. Correct approximation of stationary distributions.
    TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems.
    TACAS: Tools and Algorithms for the Construction and Analysis of Systems, LNCS,
    vol. 13993, 489–507.'
  mla: 'Meggendorfer, Tobias. “Correct Approximation of Stationary Distributions.”
    <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i>,
    vol. 13993, Springer Nature, 2023, pp. 489–507, doi:<a href="https://doi.org/10.1007/978-3-031-30823-9_25">10.1007/978-3-031-30823-9_25</a>.'
  short: 'T. Meggendorfer, in:, TACAS 2023: Tools and Algorithms for the Construction
    and Analysis of Systems, Springer Nature, 2023, pp. 489–507.'
conference:
  end_date: 2023-04-27
  location: Paris, France
  name: 'TACAS: Tools and Algorithms for the Construction and Analysis of Systems'
  start_date: 2023-04-22
date_created: 2023-06-18T22:00:46Z
date_published: 2023-04-22T00:00:00Z
date_updated: 2024-02-27T07:19:33Z
day: '22'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1007/978-3-031-30823-9_25
external_id:
  arxiv:
  - '2301.08137'
file:
- access_level: open_access
  checksum: 59f707a3949c03793251b0d04c62542a
  content_type: application/pdf
  creator: dernst
  date_created: 2023-06-19T07:18:40Z
  date_updated: 2023-06-19T07:18:40Z
  file_id: '13148'
  file_name: 2023_LNCS_Meggendorfer.pdf
  file_size: 521951
  relation: main_file
  success: 1
file_date_updated: 2023-06-19T07:18:40Z
has_accepted_license: '1'
intvolume: '     13993'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 489-507
publication: 'TACAS 2023: Tools and Algorithms for the Construction and Analysis of
  Systems'
publication_identifier:
  eissn:
  - 1611-3349
  isbn:
  - '9783031308222'
  issn:
  - 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
  record:
  - id: '14990'
    relation: research_data
    status: public
scopus_import: '1'
status: public
title: Correct approximation of stationary distributions
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: 13993
year: '2023'
...
---
_id: '13141'
abstract:
- lang: eng
  text: "We automatically compute a new class of environment assumptions in two-player
    turn-based finite graph games which characterize an “adequate cooperation” needed
    from the environment to allow the system player to win. Given an ω-regular winning
    condition Φ for the system player, we compute an ω-regular assumption Ψ for the
    environment player, such that (i) every environment strategy compliant with Ψ
    allows the system to fulfill Φ (sufficiency), (ii) Ψ\r\n can be fulfilled by the
    environment for every strategy of the system (implementability), and (iii) Ψ does
    not prevent any cooperative strategy choice (permissiveness).\r\nFor parity games,
    which are canonical representations of ω-regular games, we present a polynomial-time
    algorithm for the symbolic computation of adequately permissive assumptions and
    show that our algorithm runs faster and produces better assumptions than existing
    approaches—both theoretically and empirically. To the best of our knowledge, for
    ω\r\n-regular games, we provide the first algorithm to compute sufficient and
    implementable environment assumptions that are also permissive."
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Ashwani
  full_name: Anand, Ashwani
  last_name: Anand
- first_name: Kaushik
  full_name: Mallik, Kaushik
  id: 0834ff3c-6d72-11ec-94e0-b5b0a4fb8598
  last_name: Mallik
  orcid: 0000-0001-9864-7475
- first_name: Satya Prakash
  full_name: Nayak, Satya Prakash
  last_name: Nayak
- first_name: Anne Kathrin
  full_name: Schmuck, Anne Kathrin
  last_name: Schmuck
citation:
  ama: 'Anand A, Mallik K, Nayak SP, Schmuck AK. Computing adequately permissive assumptions
    for synthesis. In: <i>TACAS 2023: Tools and Algorithms for the Construction and
    Analysis of Systems</i>. Vol 13994. Springer Nature; 2023:211-228. doi:<a href="https://doi.org/10.1007/978-3-031-30820-8_15">10.1007/978-3-031-30820-8_15</a>'
  apa: 'Anand, A., Mallik, K., Nayak, S. P., &#38; Schmuck, A. K. (2023). Computing
    adequately permissive assumptions for synthesis. In <i>TACAS 2023: Tools and Algorithms
    for the Construction and Analysis of Systems</i> (Vol. 13994, pp. 211–228). Paris,
    France: Springer Nature. <a href="https://doi.org/10.1007/978-3-031-30820-8_15">https://doi.org/10.1007/978-3-031-30820-8_15</a>'
  chicago: 'Anand, Ashwani, Kaushik Mallik, Satya Prakash Nayak, and Anne Kathrin
    Schmuck. “Computing Adequately Permissive Assumptions for Synthesis.” In <i>TACAS
    2023: Tools and Algorithms for the Construction and Analysis of Systems</i>, 13994:211–28.
    Springer Nature, 2023. <a href="https://doi.org/10.1007/978-3-031-30820-8_15">https://doi.org/10.1007/978-3-031-30820-8_15</a>.'
  ieee: 'A. Anand, K. Mallik, S. P. Nayak, and A. K. Schmuck, “Computing adequately
    permissive assumptions for synthesis,” in <i>TACAS 2023: Tools and Algorithms
    for the Construction and Analysis of Systems</i>, Paris, France, 2023, vol. 13994,
    pp. 211–228.'
  ista: 'Anand A, Mallik K, Nayak SP, Schmuck AK. 2023. Computing adequately permissive
    assumptions for synthesis. TACAS 2023: Tools and Algorithms for the Construction
    and Analysis of Systems. TACAS: Tools and Algorithms for the Construction and
    Analysis of Systems, LNCS, vol. 13994, 211–228.'
  mla: 'Anand, Ashwani, et al. “Computing Adequately Permissive Assumptions for Synthesis.”
    <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i>,
    vol. 13994, Springer Nature, 2023, pp. 211–28, doi:<a href="https://doi.org/10.1007/978-3-031-30820-8_15">10.1007/978-3-031-30820-8_15</a>.'
  short: 'A. Anand, K. Mallik, S.P. Nayak, A.K. Schmuck, in:, TACAS 2023: Tools and
    Algorithms for the Construction and Analysis of Systems, Springer Nature, 2023,
    pp. 211–228.'
conference:
  end_date: 2023-04-27
  location: Paris, France
  name: 'TACAS: Tools and Algorithms for the Construction and Analysis of Systems'
  start_date: 2023-04-22
date_created: 2023-06-18T22:00:47Z
date_published: 2023-04-20T00:00:00Z
date_updated: 2023-06-19T08:49:46Z
day: '20'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1007/978-3-031-30820-8_15
file:
- access_level: open_access
  checksum: 60dcafc1b4f6f070be43bad3fe877974
  content_type: application/pdf
  creator: dernst
  date_created: 2023-06-19T08:43:21Z
  date_updated: 2023-06-19T08:43:21Z
  file_id: '13151'
  file_name: 2023_LNCS_Anand.pdf
  file_size: 521425
  relation: main_file
  success: 1
file_date_updated: 2023-06-19T08:43:21Z
has_accepted_license: '1'
intvolume: '     13994'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 211-228
publication: 'TACAS 2023: Tools and Algorithms for the Construction and Analysis of
  Systems'
publication_identifier:
  eissn:
  - 1611-3349
  isbn:
  - '9783031308192'
  issn:
  - 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Computing adequately permissive assumptions for synthesis
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: 13994
year: '2023'
...
---
_id: '13142'
abstract:
- lang: eng
  text: Reinforcement learning has received much attention for learning controllers
    of deterministic systems. We consider a learner-verifier framework for stochastic
    control systems and survey recent methods that formally guarantee a conjunction
    of reachability and safety properties. Given a property and a lower bound on the
    probability of the property being satisfied, our framework jointly learns a control
    policy and a formal certificate to ensure the satisfaction of the property with
    a desired probability threshold. Both the control policy and the formal certificate
    are continuous functions from states to reals, which are learned as parameterized
    neural networks. While in the deterministic case, the certificates are invariant
    and barrier functions for safety, or Lyapunov and ranking functions for liveness,
    in the stochastic case the certificates are supermartingales. For certificate
    verification, we use interval arithmetic abstract interpretation to bound the
    expected values of neural network functions.
acknowledgement: This work was supported in part by the ERC-2020-AdG 101020093, ERC
  CoG 863818 (FoRM-SMArt) and the European Union’s Horizon 2020 research and innovation
  programme under the Marie Skłodowska-Curie Grant Agreement No. 665385.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Krishnendu
  full_name: Chatterjee, Krishnendu
  id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
  last_name: Chatterjee
  orcid: 0000-0002-4561-241X
- 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: Mathias
  full_name: Lechner, Mathias
  id: 3DC22916-F248-11E8-B48F-1D18A9856A87
  last_name: Lechner
- first_name: Dorde
  full_name: Zikelic, Dorde
  id: 294AA7A6-F248-11E8-B48F-1D18A9856A87
  last_name: Zikelic
  orcid: 0000-0002-4681-1699
citation:
  ama: 'Chatterjee K, Henzinger TA, Lechner M, Zikelic D. A learner-verifier framework
    for neural network controllers and certificates of stochastic systems. In: <i>Tools
    and Algorithms for the Construction and Analysis of Systems </i>. Vol 13993. Springer
    Nature; 2023:3-25. doi:<a href="https://doi.org/10.1007/978-3-031-30823-9_1">10.1007/978-3-031-30823-9_1</a>'
  apa: 'Chatterjee, K., Henzinger, T. A., Lechner, M., &#38; Zikelic, D. (2023). A
    learner-verifier framework for neural network controllers and certificates of
    stochastic systems. In <i>Tools and Algorithms for the Construction and Analysis
    of Systems </i> (Vol. 13993, pp. 3–25). Paris, France: Springer Nature. <a href="https://doi.org/10.1007/978-3-031-30823-9_1">https://doi.org/10.1007/978-3-031-30823-9_1</a>'
  chicago: Chatterjee, Krishnendu, Thomas A Henzinger, Mathias Lechner, and Dorde
    Zikelic. “A Learner-Verifier Framework for Neural Network Controllers and Certificates
    of Stochastic Systems.” In <i>Tools and Algorithms for the Construction and Analysis
    of Systems </i>, 13993:3–25. Springer Nature, 2023. <a href="https://doi.org/10.1007/978-3-031-30823-9_1">https://doi.org/10.1007/978-3-031-30823-9_1</a>.
  ieee: K. Chatterjee, T. A. Henzinger, M. Lechner, and D. Zikelic, “A learner-verifier
    framework for neural network controllers and certificates of stochastic systems,”
    in <i>Tools and Algorithms for the Construction and Analysis of Systems </i>,
    Paris, France, 2023, vol. 13993, pp. 3–25.
  ista: 'Chatterjee K, Henzinger TA, Lechner M, Zikelic D. 2023. A learner-verifier
    framework for neural network controllers and certificates of stochastic systems.
    Tools and Algorithms for the Construction and Analysis of Systems . TACAS: Tools
    and Algorithms for the Construction and Analysis of Systems, LNCS, vol. 13993,
    3–25.'
  mla: Chatterjee, Krishnendu, et al. “A Learner-Verifier Framework for Neural Network
    Controllers and Certificates of Stochastic Systems.” <i>Tools and Algorithms for
    the Construction and Analysis of Systems </i>, vol. 13993, Springer Nature, 2023,
    pp. 3–25, doi:<a href="https://doi.org/10.1007/978-3-031-30823-9_1">10.1007/978-3-031-30823-9_1</a>.
  short: K. Chatterjee, T.A. Henzinger, M. Lechner, D. Zikelic, in:, Tools and Algorithms
    for the Construction and Analysis of Systems , Springer Nature, 2023, pp. 3–25.
conference:
  end_date: 2023-04-27
  location: Paris, France
  name: 'TACAS: Tools and Algorithms for the Construction and Analysis of Systems'
  start_date: 2023-04-22
date_created: 2023-06-18T22:00:47Z
date_published: 2023-04-22T00:00:00Z
date_updated: 2025-07-14T09:09:52Z
day: '22'
ddc:
- '000'
department:
- _id: KrCh
- _id: ToHe
doi: 10.1007/978-3-031-30823-9_1
ec_funded: 1
file:
- access_level: open_access
  checksum: 3d8a8bb24d211bc83360dfc2fd744307
  content_type: application/pdf
  creator: dernst
  date_created: 2023-06-19T08:29:30Z
  date_updated: 2023-06-19T08:29:30Z
  file_id: '13150'
  file_name: 2023_LNCS_Chatterjee.pdf
  file_size: 528455
  relation: main_file
  success: 1
file_date_updated: 2023-06-19T08:29:30Z
has_accepted_license: '1'
intvolume: '     13993'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 3-25
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
  call_identifier: H2020
  grant_number: '863818'
  name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '665385'
  name: International IST Doctoral Program
publication: 'Tools and Algorithms for the Construction and Analysis of Systems '
publication_identifier:
  eissn:
  - 1611-3349
  isbn:
  - '9783031308222'
  issn:
  - 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: A learner-verifier framework for neural network controllers and certificates
  of stochastic 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: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13993
year: '2023'
...
---
_id: '13143'
abstract:
- lang: eng
  text: "GIMPS and PrimeGrid are large-scale distributed projects dedicated to searching
    giant prime numbers, usually of special forms like Mersenne and Proth primes.
    The numbers in the current search-space are millions of digits large and the participating
    volunteers need to run resource-consuming primality tests. Once a candidate prime
    N has been found, the only way for another party to independently verify the primality
    of N used to be by repeating the expensive primality test. To avoid the need for
    second recomputation of each primality test, these projects have recently adopted
    certifying mechanisms that enable efficient verification of performed tests. However,
    the mechanisms presently in place only detect benign errors and there is no guarantee
    against adversarial behavior: a malicious volunteer can mislead the project to
    reject a giant prime as being non-prime.\r\nIn this paper, we propose a practical,
    cryptographically-sound mechanism for certifying the non-primality of Proth numbers.
    That is, a volunteer can – parallel to running the primality test for N – generate
    an efficiently verifiable proof at a little extra cost certifying that N is not
    prime. The interactive protocol has statistical soundness and can be made non-interactive
    using the Fiat-Shamir heuristic.\r\nOur approach is based on a cryptographic primitive
    called Proof of Exponentiation (PoE) which, for a group G, certifies that a tuple
    (x,y,T)∈G2×N satisfies x2T=y (Pietrzak, ITCS 2019 and Wesolowski, J. Cryptol.
    2020). In particular, we show how to adapt Pietrzak’s PoE at a moderate additional
    cost to make it a cryptographically-sound certificate of non-primality."
acknowledgement: 'We are grateful to Pavel Atnashev for clarifying via e-mail several
  aspects of the primality tests implementated in the PrimeGrid project. Pavel Hubáček
  is supported by the Czech Academy of Sciences (RVO 67985840), the Grant Agency of
  the Czech Republic under the grant agreement no. 19-27871X, and by the Charles University
  project UNCE/SCI/004. Chethan Kamath is supported by Azrieli International Postdoctoral
  Fellowship, ISF grants 484/18 and 1789/19, and ERC StG project SPP: Secrecy Preserving
  Proofs.'
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Charlotte
  full_name: Hoffmann, Charlotte
  id: 0f78d746-dc7d-11ea-9b2f-83f92091afe7
  last_name: Hoffmann
- first_name: Pavel
  full_name: Hubáček, Pavel
  last_name: Hubáček
- first_name: Chethan
  full_name: Kamath, Chethan
  last_name: Kamath
- first_name: Krzysztof Z
  full_name: Pietrzak, Krzysztof Z
  id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
  last_name: Pietrzak
  orcid: 0000-0002-9139-1654
citation:
  ama: 'Hoffmann C, Hubáček P, Kamath C, Pietrzak KZ. Certifying giant nonprimes.
    In: <i>Public-Key Cryptography - PKC 2023</i>. Vol 13940. Springer Nature; 2023:530-553.
    doi:<a href="https://doi.org/10.1007/978-3-031-31368-4_19">10.1007/978-3-031-31368-4_19</a>'
  apa: 'Hoffmann, C., Hubáček, P., Kamath, C., &#38; Pietrzak, K. Z. (2023). Certifying
    giant nonprimes. In <i>Public-Key Cryptography - PKC 2023</i> (Vol. 13940, pp.
    530–553). Atlanta, GA, United States: Springer Nature. <a href="https://doi.org/10.1007/978-3-031-31368-4_19">https://doi.org/10.1007/978-3-031-31368-4_19</a>'
  chicago: Hoffmann, Charlotte, Pavel Hubáček, Chethan Kamath, and Krzysztof Z Pietrzak.
    “Certifying Giant Nonprimes.” In <i>Public-Key Cryptography - PKC 2023</i>, 13940:530–53.
    Springer Nature, 2023. <a href="https://doi.org/10.1007/978-3-031-31368-4_19">https://doi.org/10.1007/978-3-031-31368-4_19</a>.
  ieee: C. Hoffmann, P. Hubáček, C. Kamath, and K. Z. Pietrzak, “Certifying giant
    nonprimes,” in <i>Public-Key Cryptography - PKC 2023</i>, Atlanta, GA, United
    States, 2023, vol. 13940, pp. 530–553.
  ista: 'Hoffmann C, Hubáček P, Kamath C, Pietrzak KZ. 2023. Certifying giant nonprimes.
    Public-Key Cryptography - PKC 2023. PKC: Public-Key Cryptography, LNCS, vol. 13940,
    530–553.'
  mla: Hoffmann, Charlotte, et al. “Certifying Giant Nonprimes.” <i>Public-Key Cryptography
    - PKC 2023</i>, vol. 13940, Springer Nature, 2023, pp. 530–53, doi:<a href="https://doi.org/10.1007/978-3-031-31368-4_19">10.1007/978-3-031-31368-4_19</a>.
  short: C. Hoffmann, P. Hubáček, C. Kamath, K.Z. Pietrzak, in:, Public-Key Cryptography
    - PKC 2023, Springer Nature, 2023, pp. 530–553.
conference:
  end_date: 2023-05-10
  location: Atlanta, GA, United States
  name: 'PKC: Public-Key Cryptography'
  start_date: 2023-05-07
date_created: 2023-06-18T22:00:47Z
date_published: 2023-05-02T00:00:00Z
date_updated: 2023-06-19T08:03:37Z
day: '02'
department:
- _id: KrPi
doi: 10.1007/978-3-031-31368-4_19
intvolume: '     13940'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://eprint.iacr.org/2023/238
month: '05'
oa: 1
oa_version: Submitted Version
page: 530-553
publication: Public-Key Cryptography - PKC 2023
publication_identifier:
  eissn:
  - 1611-3349
  isbn:
  - '9783031313677'
  issn:
  - 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Certifying giant nonprimes
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13940
year: '2023'
...
---
_id: '13145'
abstract:
- lang: eng
  text: We prove a characterization of the Dirichlet–Ferguson measure over an arbitrary
    finite diffuse measure space. We provide an interpretation of this characterization
    in analogy with the Mecke identity for Poisson point processes.
acknowledgement: Research supported by the Sfb 1060 The Mathematics of Emergent Effects
  (University of Bonn). L.D.S. gratefully acknowledges funding of his current position
  by the Austrian Science Fund (FWF) through project ESPRIT 208.
article_processing_charge: No
article_type: original
author:
- first_name: Lorenzo
  full_name: Dello Schiavo, Lorenzo
  id: ECEBF480-9E4F-11EA-B557-B0823DDC885E
  last_name: Dello Schiavo
  orcid: 0000-0002-9881-6870
- first_name: Eugene
  full_name: Lytvynov, Eugene
  last_name: Lytvynov
citation:
  ama: Dello Schiavo L, Lytvynov E. A Mecke-type characterization of the Dirichlet–Ferguson
    measure. <i>Electronic Communications in Probability</i>. 2023;28:1-12. doi:<a
    href="https://doi.org/10.1214/23-ECP528">10.1214/23-ECP528</a>
  apa: Dello Schiavo, L., &#38; Lytvynov, E. (2023). A Mecke-type characterization
    of the Dirichlet–Ferguson measure. <i>Electronic Communications in Probability</i>.
    Institute of Mathematical Statistics. <a href="https://doi.org/10.1214/23-ECP528">https://doi.org/10.1214/23-ECP528</a>
  chicago: Dello Schiavo, Lorenzo, and Eugene Lytvynov. “A Mecke-Type Characterization
    of the Dirichlet–Ferguson Measure.” <i>Electronic Communications in Probability</i>.
    Institute of Mathematical Statistics, 2023. <a href="https://doi.org/10.1214/23-ECP528">https://doi.org/10.1214/23-ECP528</a>.
  ieee: L. Dello Schiavo and E. Lytvynov, “A Mecke-type characterization of the Dirichlet–Ferguson
    measure,” <i>Electronic Communications in Probability</i>, vol. 28. Institute
    of Mathematical Statistics, pp. 1–12, 2023.
  ista: Dello Schiavo L, Lytvynov E. 2023. A Mecke-type characterization of the Dirichlet–Ferguson
    measure. Electronic Communications in Probability. 28, 1–12.
  mla: Dello Schiavo, Lorenzo, and Eugene Lytvynov. “A Mecke-Type Characterization
    of the Dirichlet–Ferguson Measure.” <i>Electronic Communications in Probability</i>,
    vol. 28, Institute of Mathematical Statistics, 2023, pp. 1–12, doi:<a href="https://doi.org/10.1214/23-ECP528">10.1214/23-ECP528</a>.
  short: L. Dello Schiavo, E. Lytvynov, Electronic Communications in Probability 28
    (2023) 1–12.
date_created: 2023-06-18T22:00:48Z
date_published: 2023-05-05T00:00:00Z
date_updated: 2023-12-13T11:24:57Z
day: '05'
ddc:
- '510'
department:
- _id: JaMa
doi: 10.1214/23-ECP528
external_id:
  isi:
  - '001042025400001'
file:
- access_level: open_access
  checksum: 4a543fe4b3f9e747cc52167c17bfb524
  content_type: application/pdf
  creator: dernst
  date_created: 2023-06-19T09:37:40Z
  date_updated: 2023-06-19T09:37:40Z
  file_id: '13152'
  file_name: 2023_ElectronCommProbability_Schiavo.pdf
  file_size: 271434
  relation: main_file
  success: 1
file_date_updated: 2023-06-19T09:37:40Z
has_accepted_license: '1'
intvolume: '        28'
isi: 1
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 1-12
project:
- _id: 34dbf174-11ca-11ed-8bc3-afe9d43d4b9c
  grant_number: E208
  name: Configuration Spaces over Non-Smooth Spaces
publication: Electronic Communications in Probability
publication_identifier:
  eissn:
  - 1083-589X
publication_status: published
publisher: Institute of Mathematical Statistics
quality_controlled: '1'
scopus_import: '1'
status: public
title: A Mecke-type characterization of the Dirichlet–Ferguson measure
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: 28
year: '2023'
...
---
_id: '13161'
acknowledgement: Thanks to Jesse Hansen for his suggestions on improving the abstract.
article_processing_charge: No
author:
- first_name: Alois
  full_name: Schlögl, Alois
  id: 45BF87EE-F248-11E8-B48F-1D18A9856A87
  last_name: Schlögl
  orcid: 0000-0002-5621-8100
- first_name: Stefano
  full_name: Elefante, Stefano
  id: 490F40CE-F248-11E8-B48F-1D18A9856A87
  last_name: Elefante
- first_name: Victor-Valentin
  full_name: Hodirnau, Victor-Valentin
  id: 3661B498-F248-11E8-B48F-1D18A9856A87
  last_name: Hodirnau
citation:
  ama: 'Schlögl A, Elefante S, Hodirnau V-V. Running Windows-applications on a Linux
    HPC cluster using WINE. In: <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>.
    EuroCC; :59-59.'
  apa: 'Schlögl, A., Elefante, S., &#38; Hodirnau, V.-V. (n.d.). Running Windows-applications
    on a Linux HPC cluster using WINE. In <i>ASHPC23 - Austrian-Slovenian HPC Meeting
    2023</i> (pp. 59–59). Maribor, Slovenia: EuroCC.'
  chicago: Schlögl, Alois, Stefano Elefante, and Victor-Valentin Hodirnau. “Running
    Windows-Applications on a Linux HPC Cluster Using WINE.” In <i>ASHPC23 - Austrian-Slovenian
    HPC Meeting 2023</i>, 59–59. EuroCC, n.d.
  ieee: A. Schlögl, S. Elefante, and V.-V. Hodirnau, “Running Windows-applications
    on a Linux HPC cluster using WINE,” in <i>ASHPC23 - Austrian-Slovenian HPC Meeting
    2023</i>, Maribor, Slovenia, pp. 59–59.
  ista: 'Schlögl A, Elefante S, Hodirnau V-V. Running Windows-applications on a Linux
    HPC cluster using WINE. ASHPC23 - Austrian-Slovenian HPC Meeting 2023. ASHPC:
    Austrian-Slovenian HPC Meeting, 59–59.'
  mla: Schlögl, Alois, et al. “Running Windows-Applications on a Linux HPC Cluster
    Using WINE.” <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, EuroCC, pp.
    59–59.
  short: A. Schlögl, S. Elefante, V.-V. Hodirnau, in:, ASHPC23 - Austrian-Slovenian
    HPC Meeting 2023, EuroCC, n.d., pp. 59–59.
conference:
  end_date: 2023-06-15
  location: Maribor, Slovenia
  name: 'ASHPC: Austrian-Slovenian HPC Meeting'
  start_date: 2023-06-13
date_created: 2023-06-23T11:01:23Z
date_published: 2023-07-01T00:00:00Z
date_updated: 2023-07-18T09:30:54Z
day: '01'
ddc:
- '000'
department:
- _id: ScienComp
- _id: EM-Fac
file:
- access_level: open_access
  checksum: ec8e4295d54171032cdd1b01423eb4a6
  content_type: application/pdf
  creator: dernst
  date_created: 2023-07-18T09:18:55Z
  date_updated: 2023-07-18T09:18:55Z
  file_id: '13249'
  file_name: 2023_ASHPC_Schloegl.pdf
  file_size: 316959
  relation: main_file
  success: 1
file_date_updated: 2023-07-18T09:18:55Z
has_accepted_license: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Submitted Version
page: 59-59
publication: ASHPC23 - Austrian-Slovenian HPC Meeting 2023
publication_status: inpress
publisher: EuroCC
quality_controlled: '1'
status: public
title: Running Windows-applications on a Linux HPC cluster using WINE
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_abstract
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13162'
article_processing_charge: No
author:
- first_name: Stefano
  full_name: Elefante, Stefano
  id: 490F40CE-F248-11E8-B48F-1D18A9856A87
  last_name: Elefante
- first_name: Stephan
  full_name: Stadlbauer, Stephan
  id: 4D0BC184-F248-11E8-B48F-1D18A9856A87
  last_name: Stadlbauer
- first_name: Michael F
  full_name: Alexander, Michael F
  id: 3A02A8FA-F248-11E8-B48F-1D18A9856A87
  last_name: Alexander
- first_name: Alois
  full_name: Schlögl, Alois
  id: 45BF87EE-F248-11E8-B48F-1D18A9856A87
  last_name: Schlögl
  orcid: 0000-0002-5621-8100
citation:
  ama: 'Elefante S, Stadlbauer S, Alexander MF, Schlögl A. Cryo-EM software packages:
    A sys-admins point of view. In: <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>.
    EuroCC; :42-42.'
  apa: 'Elefante, S., Stadlbauer, S., Alexander, M. F., &#38; Schlögl, A. (n.d.).
    Cryo-EM software packages: A sys-admins point of view. In <i>ASHPC23 - Austrian-Slovenian
    HPC Meeting 2023</i> (pp. 42–42). Maribor, Slovenia: EuroCC.'
  chicago: 'Elefante, Stefano, Stephan Stadlbauer, Michael F Alexander, and Alois
    Schlögl. “Cryo-EM Software Packages: A Sys-Admins Point of View.” In <i>ASHPC23
    - Austrian-Slovenian HPC Meeting 2023</i>, 42–42. EuroCC, n.d.'
  ieee: 'S. Elefante, S. Stadlbauer, M. F. Alexander, and A. Schlögl, “Cryo-EM software
    packages: A sys-admins point of view,” in <i>ASHPC23 - Austrian-Slovenian HPC
    Meeting 2023</i>, Maribor, Slovenia, pp. 42–42.'
  ista: 'Elefante S, Stadlbauer S, Alexander MF, Schlögl A. Cryo-EM software packages:
    A sys-admins point of view. ASHPC23 - Austrian-Slovenian HPC Meeting 2023. ASHPC:
    Austrian-Slovenian HPC Meeting, 42–42.'
  mla: 'Elefante, Stefano, et al. “Cryo-EM Software Packages: A Sys-Admins Point of
    View.” <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, EuroCC, pp. 42–42.'
  short: S. Elefante, S. Stadlbauer, M.F. Alexander, A. Schlögl, in:, ASHPC23 - Austrian-Slovenian
    HPC Meeting 2023, EuroCC, n.d., pp. 42–42.
conference:
  end_date: 2023-06-15
  location: Maribor, Slovenia
  name: 'ASHPC: Austrian-Slovenian HPC Meeting'
  start_date: 2023-06-12
date_created: 2023-06-23T11:03:18Z
date_published: 2023-07-01T00:00:00Z
date_updated: 2023-07-18T09:32:16Z
day: '01'
ddc:
- '000'
department:
- _id: ScienComp
file:
- access_level: open_access
  checksum: 0ab6173cd5c5634ed773cd37ff012681
  content_type: application/pdf
  creator: dernst
  date_created: 2023-07-18T09:28:30Z
  date_updated: 2023-07-18T09:28:30Z
  file_id: '13250'
  file_name: 2023_ASHPC_Elefante.pdf
  file_size: 380354
  relation: main_file
  success: 1
file_date_updated: 2023-07-18T09:28:30Z
has_accepted_license: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Submitted Version
page: 42-42
publication: ASHPC23 - Austrian-Slovenian HPC Meeting 2023
publication_status: accepted
publisher: EuroCC
quality_controlled: '1'
status: public
title: 'Cryo-EM software packages: A sys-admins point of view'
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_abstract
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13164'
abstract:
- lang: eng
  text: Molecular compatibility between gametes is a prerequisite for successful fertilization.
    As long as a sperm and egg can recognize and bind each other via their surface
    proteins, gamete fusion may occur even between members of separate species, resulting
    in hybrids that can impact speciation. The egg membrane protein Bouncer confers
    species specificity to gamete interactions between medaka and zebrafish, preventing
    their cross-fertilization. Here, we leverage this specificity to uncover distinct
    amino acid residues and N-glycosylation patterns that differentially influence
    the function of medaka and zebrafish Bouncer and contribute to cross-species incompatibility.
    Curiously, in contrast to the specificity observed for medaka and zebrafish Bouncer,
    seahorse and fugu Bouncer are compatible with both zebrafish and medaka sperm,
    in line with the pervasive purifying selection that dominates Bouncer’s evolution.
    The Bouncer-sperm interaction is therefore the product of seemingly opposing evolutionary
    forces that, for some species, restrict fertilization to closely related fish,
    and for others, allow broad gamete compatibility that enables hybridization.
acknowledgement: We thank Manfred Schartl for sharing RNA-seq data from medaka ovaries
  and testes prior to publication; Maria Novatchkova for help with RNA-seq analysis;
  Katharina Lust for advice on medaka techniques; Milan Malinsky for input on Lake
  Malawi cichlid Bouncer sequences; Felicia Spitzer, Mirjam Binner, and Anna Bandura
  for help with genotyping; Friedrich Puhl, Kerstin Rattner, Julia Koenig, and Dijana
  Sunjic for taking care of zebrafish and medaka; and the Pauli lab for helpful discussions
  about the project and feedback on the manuscript. K.R.B.G. was supported by a DOC
  Fellowship from the Austrian Academy of Sciences. Work in the Pauli lab was supported
  by the FWF START program (Y 1031-B28 to A.P.), the ERC CoG 101044495/GaMe, the HFSP
  Career Development Award (CDA00066/2015 to A.P.), a HFSP Young Investigator Award
  (RGY0079/2020 to A.P.) and the FWF SFB RNA-Deco (project number F80). The IMP receives
  institutional funding from Boehringer Ingelheim and the Austrian Research Promotion
  Agency (Headquarter grant FFG-852936). Work by J.S. and Y.M. in this project was
  supported by the Israel Science Foundation grant 636/21 to Y.M. Work by L.J. was
  supported by the Swedish Research Council grant 2020-04936 and the Knut and Alice
  Wallenberg Foundation grant 2018.0042. For the purpose of Open Access, the author
  has applied a CC BY public copyright license to any Author Accepted Manuscript (AAM)
  version arising from this submission.
article_number: '3506'
article_processing_charge: No
article_type: original
author:
- first_name: Krista R.B.
  full_name: Gert, Krista R.B.
  last_name: Gert
- first_name: Karin
  full_name: Panser, Karin
  last_name: Panser
- first_name: Joachim
  full_name: Surm, Joachim
  last_name: Surm
- first_name: Benjamin S.
  full_name: Steinmetz, Benjamin S.
  last_name: Steinmetz
- first_name: Alexander
  full_name: Schleiffer, Alexander
  last_name: Schleiffer
- first_name: Luca
  full_name: Jovine, Luca
  last_name: Jovine
- first_name: Yehu
  full_name: Moran, Yehu
  last_name: Moran
- first_name: Fyodor
  full_name: Kondrashov, Fyodor
  id: 44FDEF62-F248-11E8-B48F-1D18A9856A87
  last_name: Kondrashov
  orcid: 0000-0001-8243-4694
- first_name: Andrea
  full_name: Pauli, Andrea
  last_name: Pauli
citation:
  ama: Gert KRB, Panser K, Surm J, et al. Divergent molecular signatures in fish Bouncer
    proteins define cross-fertilization boundaries. <i>Nature Communications</i>.
    2023;14. doi:<a href="https://doi.org/10.1038/s41467-023-39317-4">10.1038/s41467-023-39317-4</a>
  apa: Gert, K. R. B., Panser, K., Surm, J., Steinmetz, B. S., Schleiffer, A., Jovine,
    L., … Pauli, A. (2023). Divergent molecular signatures in fish Bouncer proteins
    define cross-fertilization boundaries. <i>Nature Communications</i>. Springer
    Nature. <a href="https://doi.org/10.1038/s41467-023-39317-4">https://doi.org/10.1038/s41467-023-39317-4</a>
  chicago: Gert, Krista R.B., Karin Panser, Joachim Surm, Benjamin S. Steinmetz, Alexander
    Schleiffer, Luca Jovine, Yehu Moran, Fyodor Kondrashov, and Andrea Pauli. “Divergent
    Molecular Signatures in Fish Bouncer Proteins Define Cross-Fertilization Boundaries.”
    <i>Nature Communications</i>. Springer Nature, 2023. <a href="https://doi.org/10.1038/s41467-023-39317-4">https://doi.org/10.1038/s41467-023-39317-4</a>.
  ieee: K. R. B. Gert <i>et al.</i>, “Divergent molecular signatures in fish Bouncer
    proteins define cross-fertilization boundaries,” <i>Nature Communications</i>,
    vol. 14. Springer Nature, 2023.
  ista: Gert KRB, Panser K, Surm J, Steinmetz BS, Schleiffer A, Jovine L, Moran Y,
    Kondrashov F, Pauli A. 2023. Divergent molecular signatures in fish Bouncer proteins
    define cross-fertilization boundaries. Nature Communications. 14, 3506.
  mla: Gert, Krista R. B., et al. “Divergent Molecular Signatures in Fish Bouncer
    Proteins Define Cross-Fertilization Boundaries.” <i>Nature Communications</i>,
    vol. 14, 3506, Springer Nature, 2023, doi:<a href="https://doi.org/10.1038/s41467-023-39317-4">10.1038/s41467-023-39317-4</a>.
  short: K.R.B. Gert, K. Panser, J. Surm, B.S. Steinmetz, A. Schleiffer, L. Jovine,
    Y. Moran, F. Kondrashov, A. Pauli, Nature Communications 14 (2023).
date_created: 2023-06-25T22:00:45Z
date_published: 2023-06-14T00:00:00Z
date_updated: 2023-12-13T11:26:34Z
day: '14'
ddc:
- '570'
department:
- _id: FyKo
doi: 10.1038/s41467-023-39317-4
external_id:
  isi:
  - '001048208600023'
file:
- access_level: open_access
  checksum: d6165f41c7f1c2c04b04256ec9f003fb
  content_type: application/pdf
  creator: dernst
  date_created: 2023-06-26T10:26:04Z
  date_updated: 2023-06-26T10:26:04Z
  file_id: '13172'
  file_name: 2023_NatureComm_Gert.pdf
  file_size: 1555006
  relation: main_file
  success: 1
file_date_updated: 2023-06-26T10:26:04Z
has_accepted_license: '1'
intvolume: '        14'
isi: 1
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
  eissn:
  - 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Divergent molecular signatures in fish Bouncer proteins define cross-fertilization
  boundaries
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: '13165'
abstract:
- lang: eng
  text: "A graph G=(V, E) is called fully regular if for every independent set I c
    V, the number of vertices in V\\I  that are not connected to any element of I
    depends only on the size of I. A linear ordering of the vertices of G is called
    successive if for every i, the first i vertices induce a connected subgraph of
    G. We give an explicit formula for the number of successive vertex orderings of
    a fully regular graph.\r\nAs an application of our results, we give alternative
    proofs of two theorems of Stanley and Gao & Peng, determining the number of linear
    edge orderings of complete graphs and complete bipartite graphs, respectively,
    with the property that the first i edges induce a connected subgraph.\r\nAs another
    application, we give a simple product formula for the number of linear orderings
    of the hyperedges of a complete 3-partite 3-uniform hypergraph such that, for
    every i, the first i hyperedges induce a connected subgraph. We found similar
    formulas for complete (non-partite) 3-uniform hypergraphs and in another closely
    related case, but we managed to verify them only when the number of vertices is
    small."
article_number: '105776'
article_processing_charge: Yes (in subscription journal)
article_type: original
arxiv: 1
author:
- first_name: Lixing
  full_name: Fang, Lixing
  last_name: Fang
- first_name: Hao
  full_name: Huang, Hao
  last_name: Huang
- first_name: János
  full_name: Pach, János
  id: E62E3130-B088-11EA-B919-BF823C25FEA4
  last_name: Pach
- first_name: Gábor
  full_name: Tardos, Gábor
  last_name: Tardos
- first_name: Junchi
  full_name: Zuo, Junchi
  last_name: Zuo
citation:
  ama: Fang L, Huang H, Pach J, Tardos G, Zuo J. Successive vertex orderings of fully
    regular graphs. <i>Journal of Combinatorial Theory Series A</i>. 2023;199(10).
    doi:<a href="https://doi.org/10.1016/j.jcta.2023.105776">10.1016/j.jcta.2023.105776</a>
  apa: Fang, L., Huang, H., Pach, J., Tardos, G., &#38; Zuo, J. (2023). Successive
    vertex orderings of fully regular graphs. <i>Journal of Combinatorial Theory.
    Series A</i>. Elsevier. <a href="https://doi.org/10.1016/j.jcta.2023.105776">https://doi.org/10.1016/j.jcta.2023.105776</a>
  chicago: Fang, Lixing, Hao Huang, János Pach, Gábor Tardos, and Junchi Zuo. “Successive
    Vertex Orderings of Fully Regular Graphs.” <i>Journal of Combinatorial Theory.
    Series A</i>. Elsevier, 2023. <a href="https://doi.org/10.1016/j.jcta.2023.105776">https://doi.org/10.1016/j.jcta.2023.105776</a>.
  ieee: L. Fang, H. Huang, J. Pach, G. Tardos, and J. Zuo, “Successive vertex orderings
    of fully regular graphs,” <i>Journal of Combinatorial Theory. Series A</i>, vol.
    199, no. 10. Elsevier, 2023.
  ista: Fang L, Huang H, Pach J, Tardos G, Zuo J. 2023. Successive vertex orderings
    of fully regular graphs. Journal of Combinatorial Theory. Series A. 199(10), 105776.
  mla: Fang, Lixing, et al. “Successive Vertex Orderings of Fully Regular Graphs.”
    <i>Journal of Combinatorial Theory. Series A</i>, vol. 199, no. 10, 105776, Elsevier,
    2023, doi:<a href="https://doi.org/10.1016/j.jcta.2023.105776">10.1016/j.jcta.2023.105776</a>.
  short: L. Fang, H. Huang, J. Pach, G. Tardos, J. Zuo, Journal of Combinatorial Theory.
    Series A 199 (2023).
date_created: 2023-06-25T22:00:45Z
date_published: 2023-10-01T00:00:00Z
date_updated: 2024-01-30T12:03:51Z
day: '01'
ddc:
- '510'
department:
- _id: HeEd
doi: 10.1016/j.jcta.2023.105776
external_id:
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  - '2206.13592'
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language:
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license: https://creativecommons.org/licenses/by-nc-sa/4.0/
month: '10'
oa: 1
oa_version: Published Version
publication: Journal of Combinatorial Theory. Series A
publication_identifier:
  eissn:
  - 1096-0899
  issn:
  - 0097-3165
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Successive vertex orderings of fully regular graphs
tmp:
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  legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
  name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
    BY-NC-SA 4.0)
  short: CC BY-NC-SA (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 199
year: '2023'
...
---
_id: '13166'
abstract:
- lang: eng
  text: Brachyury, a member of T-box gene family, is widely known for its major role
    in mesoderm specification in bilaterians. It is also present in non-bilaterian
    metazoans, such as cnidarians, where it acts as a component of an axial patterning
    system. In this study, we present a phylogenetic analysis of Brachyury genes within
    phylum Cnidaria, investigate differential expression and address a functional
    framework of Brachyury paralogs in hydrozoan Dynamena pumila. Our analysis indicates
    two duplication events of Brachyury within the cnidarian lineage. The first duplication
    likely appeared in the medusozoan ancestor, resulting in two copies in medusozoans,
    while the second duplication arose in the hydrozoan ancestor, resulting in three
    copies in hydrozoans. Brachyury1 and 2 display a conservative expression pattern
    marking the oral pole of the body axis in D. pumila. On the contrary, Brachyury3
    expression was detected in scattered presumably nerve cells of the D. pumila larva.
    Pharmacological modulations indicated that Brachyury3 is not under regulation
    of cWnt signaling in contrast to the other two Brachyury genes. Divergence in
    expression patterns and regulation suggest neofunctionalization of Brachyury3
    in hydrozoans.
acknowledgement: "We thank N.A. Pertsov White Sea Biological Station of Moscow State
  University for the help and support in obtaining samples and providing access to
  all required facilities and equipment of the “Center of Microscopy WSBS MSU”. We
  are grateful to Dr. Amro Hamdoun for pCS2+8 plasmid (Addgene plasmid # 34931).\r\nWork
  in the Walentek lab is supported by the Deutsche Forschungsgemeinschaft (DFG) under
  the Emmy Noether Programme (grant WA3365/2-2) and under Germany’s Excellence Strategy
  (CIBSS-EXC-2189-Project ID 390939984). SK is supported by the project No. 0088-2021-0009
  of the Koltzov Institute of Developmental Biology of the RAS. The study of molecular
  patterning of D. pumila colony was funded by RFBR, project number 20-04-00978a (to
  S.K.)."
article_number: '9382'
article_processing_charge: No
article_type: original
author:
- first_name: Alexandra A.
  full_name: Vetrova, Alexandra A.
  last_name: Vetrova
- first_name: Daria M.
  full_name: Kupaeva, Daria M.
  last_name: Kupaeva
- first_name: Alena
  full_name: Kizenko, Alena
  id: a521c60b-0815-11ed-9b02-b8bd522477c8
  last_name: Kizenko
- first_name: Tatiana S.
  full_name: Lebedeva, Tatiana S.
  last_name: Lebedeva
- first_name: Peter
  full_name: Walentek, Peter
  last_name: Walentek
- first_name: Nikoloz
  full_name: Tsikolia, Nikoloz
  last_name: Tsikolia
- first_name: Stanislav V.
  full_name: Kremnyov, Stanislav V.
  last_name: Kremnyov
citation:
  ama: Vetrova AA, Kupaeva DM, Kizenko A, et al. The evolutionary history of Brachyury
    genes in Hydrozoa involves duplications, divergence, and neofunctionalization.
    <i>Scientific Reports</i>. 2023;13. doi:<a href="https://doi.org/10.1038/s41598-023-35979-8">10.1038/s41598-023-35979-8</a>
  apa: Vetrova, A. A., Kupaeva, D. M., Kizenko, A., Lebedeva, T. S., Walentek, P.,
    Tsikolia, N., &#38; Kremnyov, S. V. (2023). The evolutionary history of Brachyury
    genes in Hydrozoa involves duplications, divergence, and neofunctionalization.
    <i>Scientific Reports</i>. Springer Nature. <a href="https://doi.org/10.1038/s41598-023-35979-8">https://doi.org/10.1038/s41598-023-35979-8</a>
  chicago: Vetrova, Alexandra A., Daria M. Kupaeva, Alena Kizenko, Tatiana S. Lebedeva,
    Peter Walentek, Nikoloz Tsikolia, and Stanislav V. Kremnyov. “The Evolutionary
    History of Brachyury Genes in Hydrozoa Involves Duplications, Divergence, and
    Neofunctionalization.” <i>Scientific Reports</i>. Springer Nature, 2023. <a href="https://doi.org/10.1038/s41598-023-35979-8">https://doi.org/10.1038/s41598-023-35979-8</a>.
  ieee: A. A. Vetrova <i>et al.</i>, “The evolutionary history of Brachyury genes
    in Hydrozoa involves duplications, divergence, and neofunctionalization,” <i>Scientific
    Reports</i>, vol. 13. Springer Nature, 2023.
  ista: Vetrova AA, Kupaeva DM, Kizenko A, Lebedeva TS, Walentek P, Tsikolia N, Kremnyov
    SV. 2023. The evolutionary history of Brachyury genes in Hydrozoa involves duplications,
    divergence, and neofunctionalization. Scientific Reports. 13, 9382.
  mla: Vetrova, Alexandra A., et al. “The Evolutionary History of Brachyury Genes
    in Hydrozoa Involves Duplications, Divergence, and Neofunctionalization.” <i>Scientific
    Reports</i>, vol. 13, 9382, Springer Nature, 2023, doi:<a href="https://doi.org/10.1038/s41598-023-35979-8">10.1038/s41598-023-35979-8</a>.
  short: A.A. Vetrova, D.M. Kupaeva, A. Kizenko, T.S. Lebedeva, P. Walentek, N. Tsikolia,
    S.V. Kremnyov, Scientific Reports 13 (2023).
date_created: 2023-06-25T22:00:46Z
date_published: 2023-06-09T00:00:00Z
date_updated: 2023-08-02T06:17:18Z
day: '09'
ddc:
- '570'
department:
- _id: GradSch
doi: 10.1038/s41598-023-35979-8
external_id:
  isi:
  - '001006690200045'
  pmid:
  - '37296138'
file:
- access_level: open_access
  checksum: baddf6b2fa9adf88263d4a3b0998f0f2
  content_type: application/pdf
  creator: dernst
  date_created: 2023-06-26T09:58:53Z
  date_updated: 2023-06-26T09:58:53Z
  file_id: '13170'
  file_name: 2023_ScientificReports_Vetrova.pdf
  file_size: 4844149
  relation: main_file
  success: 1
file_date_updated: 2023-06-26T09:58:53Z
has_accepted_license: '1'
intvolume: '        13'
isi: 1
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
pmid: 1
publication: Scientific Reports
publication_identifier:
  eissn:
  - 2045-2322
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: The evolutionary history of Brachyury genes in Hydrozoa involves duplications,
  divergence, and neofunctionalization
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 13
year: '2023'
...
---
_id: '13168'
abstract:
- lang: eng
  text: Urban-living individuals are exposed to many environmental factors that may
    combine and interact to influence mental health. While individual factors of an
    urban environment have been investigated in isolation, no attempt has been made
    to model how complex, real-life exposure to living in the city relates to brain
    and mental health, and how this is moderated by genetic factors. Using the data
    of 156,075 participants from the UK Biobank, we carried out sparse canonical correlation
    analyses to investigate the relationships between urban environments and psychiatric
    symptoms. We found an environmental profile of social deprivation, air pollution,
    street network and urban land-use density that was positively correlated with
    an affective symptom group (r = 0.22, Pperm < 0.001), mediated by brain volume
    differences consistent with reward processing, and moderated by genes enriched
    for stress response, including CRHR1, explaining 2.01% of the variance in brain
    volume differences. Protective factors such as greenness and generous destination
    accessibility were negatively correlated with an anxiety symptom group (r = 0.10,
    Pperm < 0.001), mediated by brain regions necessary for emotion regulation and
    moderated by EXD3, explaining 1.65% of the variance. The third urban environmental
    profile was correlated with an emotional instability symptom group (r = 0.03,
    Pperm < 0.001). Our findings suggest that different environmental profiles of
    urban living may influence specific psychiatric symptom groups through distinct
    neurobiological pathways.
acknowledgement: This work received support from the European Union-funded Horizon
  Europe project ‘environMENTAL’ (no. 101057429 to G.S., A.M. and M.M.N.) and cofunding
  by UK Research and Innovation under the UK Government’s Horizon Europe funding guarantee
  (nos. 10041392 and 10038599) for study design and data analysis; the Horizon 2020-funded
  European Research Council Advanced Grant ‘STRATIFY’ (no. 695313 to G.S. for study
  design and data analysis); the Human Brain Project (HBP SGA3, no. 945539 to G.S.
  for study design and data analysis); the National Institutes of Health (grant no.
  R01DA049238 to G.S. for study design and data analysis); the German Research Foundation
  (COPE; grant no. 675346 to G.S. for study design and data analysis); the National
  Natural Science Foundation of China (grant no. 82001797 to J.X., grant no. 82030053
  to C.Y., grant no. 82202093 to J.T. and grant no. 82150710554 to G.S. for study
  design, data analysis and preparation of the manuscript); National Key Research
  and Development Program of China (grant no. 2018YFC1314301 to C.Y. for study design
  and data analysis); Tianjin Applied Basic Research Diversified Investment Foundation
  (grant no. 21JCYBJC01360 to J.X. for study design and data analysis); Tianjin Health
  Technology Project (grant no. TJWJ2021QN002 to J.X. for preparation of the manuscript);
  Science & Technology Development Fund of the Tianjin Education Commission for Higher
  Education (grant no. 2019KJ195 to J.X. for preparation of the manuscript); the Tianjin
  Medical University ‘Clinical Talent Training 123 Climbing Plan’ to J.X. for the
  preparation of the manuscript; Tianjin Key Medical Discipline (Specialty) Construction
  Project (grant no. TJYXZDXK-001A to C.Y. for preparation of the manuscript); the
  National Key R&D Program of China (grant no. 2022YFE0209400 to L.Y. for study design
  and data analysis); the Tsinghua University Initiative Scientific Research Program
  (grant no. 2021Z11GHX002 to L.Y. for study design and data analysis); the National
  Key Scientific and Technological Infrastructure Project ‘Earth System Science Numerical
  Simulator Facility’ (EarthLab to L.Y. for study design and data analysis); the Chinese
  National High-end Foreign Expert Recruitment Plan to G.S.; and the Alexander von
  Humboldt Foundation to G.S. for study design and data analysis.
article_processing_charge: No
article_type: original
author:
- first_name: Jiayuan
  full_name: Xu, Jiayuan
  last_name: Xu
- first_name: Nana
  full_name: Liu, Nana
  last_name: Liu
- first_name: Elli
  full_name: Polemiti, Elli
  last_name: Polemiti
- first_name: Liliana
  full_name: Garcia-Mondragon, Liliana
  last_name: Garcia-Mondragon
- first_name: Jie
  full_name: Tang, Jie
  last_name: Tang
- first_name: Xiaoxuan
  full_name: Liu, Xiaoxuan
  last_name: Liu
- first_name: Tristram
  full_name: Lett, Tristram
  last_name: Lett
- first_name: Le
  full_name: Yu, Le
  last_name: Yu
- first_name: Markus M.
  full_name: Nöthen, Markus M.
  last_name: Nöthen
- first_name: Jianfeng
  full_name: Feng, Jianfeng
  last_name: Feng
- first_name: Chunshui
  full_name: Yu, Chunshui
  last_name: Yu
- first_name: Andre
  full_name: Marquand, Andre
  last_name: Marquand
- first_name: Gunter
  full_name: Schumann, Gunter
  last_name: Schumann
- first_name: Henrik
  full_name: Walter, Henrik
  last_name: Walter
- first_name: Andreas
  full_name: Heinz, Andreas
  last_name: Heinz
- first_name: Markus
  full_name: Ralser, Markus
  last_name: Ralser
- first_name: Sven
  full_name: Twardziok, Sven
  last_name: Twardziok
- first_name: Nilakshi
  full_name: Vaidya, Nilakshi
  last_name: Vaidya
- first_name: Emin
  full_name: Serin, Emin
  last_name: Serin
- first_name: Marcel
  full_name: Jentsch, Marcel
  last_name: Jentsch
- first_name: Esther
  full_name: Hitchen, Esther
  last_name: Hitchen
- first_name: Roland
  full_name: Eils, Roland
  last_name: Eils
- first_name: Ulrike Helene
  full_name: Taron, Ulrike Helene
  last_name: Taron
- first_name: Tatjana
  full_name: Schütz, Tatjana
  last_name: Schütz
- first_name: Kerstin
  full_name: Schepanski, Kerstin
  last_name: Schepanski
- first_name: Jamie
  full_name: Banks, Jamie
  last_name: Banks
- first_name: Tobias
  full_name: Banaschewski, Tobias
  last_name: Banaschewski
- first_name: Karina
  full_name: Jansone, Karina
  last_name: Jansone
- first_name: Nina
  full_name: Christmann, Nina
  last_name: Christmann
- first_name: Andreas
  full_name: Meyer-Lindenberg, Andreas
  last_name: Meyer-Lindenberg
- first_name: Heike
  full_name: Tost, Heike
  last_name: Tost
- first_name: Nathalie
  full_name: Holz, Nathalie
  last_name: Holz
- first_name: Emanuel
  full_name: Schwarz, Emanuel
  last_name: Schwarz
- first_name: Argyris
  full_name: Stringaris, Argyris
  last_name: Stringaris
- first_name: Maja
  full_name: Neidhart, Maja
  last_name: Neidhart
- first_name: Frauke
  full_name: Nees, Frauke
  last_name: Nees
- first_name: Sebastian
  full_name: Siehl, Sebastian
  last_name: Siehl
- first_name: Ole
  full_name: A. Andreassen, Ole
  last_name: A. Andreassen
- first_name: Lars
  full_name: T. Westlye, Lars
  last_name: T. Westlye
- first_name: Dennis
  full_name: Van Der Meer, Dennis
  last_name: Van Der Meer
- first_name: Sara
  full_name: Fernandez, Sara
  last_name: Fernandez
- first_name: Rikka
  full_name: Kjelkenes, Rikka
  last_name: Kjelkenes
- first_name: Helga
  full_name: Ask, Helga
  last_name: Ask
- first_name: Michael
  full_name: Rapp, Michael
  last_name: Rapp
- first_name: Mira
  full_name: Tschorn, Mira
  last_name: Tschorn
- first_name: Sarah Jane
  full_name: Böttger, Sarah Jane
  last_name: Böttger
- first_name: Gaia
  full_name: Novarino, Gaia
  id: 3E57A680-F248-11E8-B48F-1D18A9856A87
  last_name: Novarino
  orcid: 0000-0002-7673-7178
- first_name: Lena
  full_name: Marr, Lena
  id: 4406F586-F248-11E8-B48F-1D18A9856A87
  last_name: Marr
- first_name: Mel
  full_name: Slater, Mel
  last_name: Slater
- first_name: Guillem Feixas
  full_name: Viapiana, Guillem Feixas
  last_name: Viapiana
- first_name: Francisco Eiroa
  full_name: Orosa, Francisco Eiroa
  last_name: Orosa
- first_name: Jaime
  full_name: Gallego, Jaime
  last_name: Gallego
- first_name: Alvaro
  full_name: Pastor, Alvaro
  last_name: Pastor
- first_name: Andreas
  full_name: Forstner, Andreas
  last_name: Forstner
- first_name: Per
  full_name: Hoffmann, Per
  last_name: Hoffmann
- first_name: Markus
  full_name: M. Nöthen, Markus
  last_name: M. Nöthen
- first_name: Andreas
  full_name: J. Forstner, Andreas
  last_name: J. Forstner
- first_name: Isabelle
  full_name: Claus, Isabelle
  last_name: Claus
- first_name: Abbi
  full_name: Miller, Abbi
  last_name: Miller
- first_name: Stefanie
  full_name: Heilmann-Heimbach, Stefanie
  last_name: Heilmann-Heimbach
- first_name: Peter
  full_name: Sommer, Peter
  last_name: Sommer
- first_name: Mona
  full_name: Boye, Mona
  last_name: Boye
- first_name: Johannes
  full_name: Wilbertz, Johannes
  last_name: Wilbertz
- first_name: Karen
  full_name: Schmitt, Karen
  last_name: Schmitt
- first_name: Viktor
  full_name: Jirsa, Viktor
  last_name: Jirsa
- first_name: Spase
  full_name: Petkoski, Spase
  last_name: Petkoski
- first_name: Séverine
  full_name: Pitel, Séverine
  last_name: Pitel
- first_name: Lisa
  full_name: Otten, Lisa
  last_name: Otten
- first_name: Anastasios Polykarpos
  full_name: Athanasiadis, Anastasios Polykarpos
  last_name: Athanasiadis
- first_name: Charlie
  full_name: Pearmund, Charlie
  last_name: Pearmund
- first_name: Bernhard
  full_name: Spanlang, Bernhard
  last_name: Spanlang
- first_name: Elena
  full_name: Alvarez, Elena
  last_name: Alvarez
- first_name: Mavi
  full_name: Sanchez, Mavi
  last_name: Sanchez
- first_name: Arantxa
  full_name: Giner, Arantxa
  last_name: Giner
- first_name: Sören
  full_name: Hese, Sören
  last_name: Hese
- first_name: Paul
  full_name: Renner, Paul
  last_name: Renner
- first_name: Tianye
  full_name: Jia, Tianye
  last_name: Jia
- first_name: Yanting
  full_name: Gong, Yanting
  last_name: Gong
- first_name: Yunman
  full_name: Xia, Yunman
  last_name: Xia
- first_name: Xiao
  full_name: Chang, Xiao
  last_name: Chang
- first_name: Vince
  full_name: Calhoun, Vince
  last_name: Calhoun
- first_name: Jingyu
  full_name: Liu, Jingyu
  last_name: Liu
- first_name: Paul
  full_name: Thompson, Paul
  last_name: Thompson
- first_name: Nicholas
  full_name: Clinton, Nicholas
  last_name: Clinton
- first_name: Sylvane
  full_name: Desrivieres, Sylvane
  last_name: Desrivieres
- first_name: Allan
  full_name: H. Young, Allan
  last_name: H. Young
- first_name: Bernd
  full_name: Stahl, Bernd
  last_name: Stahl
- first_name: George
  full_name: Ogoh, George
  last_name: Ogoh
citation:
  ama: Xu J, Liu N, Polemiti E, et al. Effects of urban living environments on mental
    health in adults. <i>Nature Medicine</i>. 2023;29:1456-1467. doi:<a href="https://doi.org/10.1038/s41591-023-02365-w">10.1038/s41591-023-02365-w</a>
  apa: Xu, J., Liu, N., Polemiti, E., Garcia-Mondragon, L., Tang, J., Liu, X., … Ogoh,
    G. (2023). Effects of urban living environments on mental health in adults. <i>Nature
    Medicine</i>. Springer Nature. <a href="https://doi.org/10.1038/s41591-023-02365-w">https://doi.org/10.1038/s41591-023-02365-w</a>
  chicago: Xu, Jiayuan, Nana Liu, Elli Polemiti, Liliana Garcia-Mondragon, Jie Tang,
    Xiaoxuan Liu, Tristram Lett, et al. “Effects of Urban Living Environments on Mental
    Health in Adults.” <i>Nature Medicine</i>. Springer Nature, 2023. <a href="https://doi.org/10.1038/s41591-023-02365-w">https://doi.org/10.1038/s41591-023-02365-w</a>.
  ieee: J. Xu <i>et al.</i>, “Effects of urban living environments on mental health
    in adults,” <i>Nature Medicine</i>, vol. 29. Springer Nature, pp. 1456–1467, 2023.
  ista: Xu J, Liu N, Polemiti E, Garcia-Mondragon L, Tang J, Liu X, Lett T, Yu L,
    Nöthen MM, Feng J, Yu C, Marquand A, Schumann G, Walter H, Heinz A, Ralser M,
    Twardziok S, Vaidya N, Serin E, Jentsch M, Hitchen E, Eils R, Taron UH, Schütz
    T, Schepanski K, Banks J, Banaschewski T, Jansone K, Christmann N, Meyer-Lindenberg
    A, Tost H, Holz N, Schwarz E, Stringaris A, Neidhart M, Nees F, Siehl S, A. Andreassen
    O, T. Westlye L, Van Der Meer D, Fernandez S, Kjelkenes R, Ask H, Rapp M, Tschorn
    M, Böttger SJ, Novarino G, Marr L, Slater M, Viapiana GF, Orosa FE, Gallego J,
    Pastor A, Forstner A, Hoffmann P, M. Nöthen M, J. Forstner A, Claus I, Miller
    A, Heilmann-Heimbach S, Sommer P, Boye M, Wilbertz J, Schmitt K, Jirsa V, Petkoski
    S, Pitel S, Otten L, Athanasiadis AP, Pearmund C, Spanlang B, Alvarez E, Sanchez
    M, Giner A, Hese S, Renner P, Jia T, Gong Y, Xia Y, Chang X, Calhoun V, Liu J,
    Thompson P, Clinton N, Desrivieres S, H. Young A, Stahl B, Ogoh G. 2023. Effects
    of urban living environments on mental health in adults. Nature Medicine. 29,
    1456–1467.
  mla: Xu, Jiayuan, et al. “Effects of Urban Living Environments on Mental Health
    in Adults.” <i>Nature Medicine</i>, vol. 29, Springer Nature, 2023, pp. 1456–67,
    doi:<a href="https://doi.org/10.1038/s41591-023-02365-w">10.1038/s41591-023-02365-w</a>.
  short: J. Xu, N. Liu, E. Polemiti, L. Garcia-Mondragon, J. Tang, X. Liu, T. Lett,
    L. Yu, M.M. Nöthen, J. Feng, C. Yu, A. Marquand, G. Schumann, H. Walter, A. Heinz,
    M. Ralser, S. Twardziok, N. Vaidya, E. Serin, M. Jentsch, E. Hitchen, R. Eils,
    U.H. Taron, T. Schütz, K. Schepanski, J. Banks, T. Banaschewski, K. Jansone, N.
    Christmann, A. Meyer-Lindenberg, H. Tost, N. Holz, E. Schwarz, A. Stringaris,
    M. Neidhart, F. Nees, S. Siehl, O. A. Andreassen, L. T. Westlye, D. Van Der Meer,
    S. Fernandez, R. Kjelkenes, H. Ask, M. Rapp, M. Tschorn, S.J. Böttger, G. Novarino,
    L. Marr, M. Slater, G.F. Viapiana, F.E. Orosa, J. Gallego, A. Pastor, A. Forstner,
    P. Hoffmann, M. M. Nöthen, A. J. Forstner, I. Claus, A. Miller, S. Heilmann-Heimbach,
    P. Sommer, M. Boye, J. Wilbertz, K. Schmitt, V. Jirsa, S. Petkoski, S. Pitel,
    L. Otten, A.P. Athanasiadis, C. Pearmund, B. Spanlang, E. Alvarez, M. Sanchez,
    A. Giner, S. Hese, P. Renner, T. Jia, Y. Gong, Y. Xia, X. Chang, V. Calhoun, J.
    Liu, P. Thompson, N. Clinton, S. Desrivieres, A. H. Young, B. Stahl, G. Ogoh,
    Nature Medicine 29 (2023) 1456–1467.
date_created: 2023-06-25T22:00:46Z
date_published: 2023-06-15T00:00:00Z
date_updated: 2023-12-13T11:25:55Z
day: '15'
ddc:
- '570'
department:
- _id: GaNo
doi: 10.1038/s41591-023-02365-w
external_id:
  isi:
  - '001013172700001'
file:
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  file_size: 7365360
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  success: 1
file_date_updated: 2023-06-26T10:15:44Z
has_accepted_license: '1'
intvolume: '        29'
isi: 1
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 1456-1467
publication: Nature Medicine
publication_identifier:
  eissn:
  - 1546-170X
  issn:
  - 1078-8956
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Effects of urban living environments on mental health in adults
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: 29
year: '2023'
...
---
_id: '13173'
abstract:
- lang: eng
  text: GABAB receptor (GBR) activation inhibits neurotransmitter release in axon
    terminals in the brain, except in medial habenula (MHb) terminals, which show
    robust potentiation. However, mechanisms underlying this enigmatic potentiation
    remain elusive. Here, we report that GBR activation on MHb terminals induces an
    activity-dependent transition from a facilitating, tonic to a depressing, phasic
    neurotransmitter release mode. This transition is accompanied by a 4.1-fold increase
    in readily releasable vesicle pool (RRP) size and a 3.5-fold increase of docked
    synaptic vesicles at the presynaptic active zone (AZ). Strikingly, tonic and phasic
    release exhibit distinct coupling distances and are selectively affected by deletion
    of synaptoporin (SPO) and Ca2+-dependent activator protein for secretion 2 (CAPS2),
    respectively. SPO modulates augmentation, the short-term plasticity associated
    with tonic release, and CAPS2 retains the increased RRP for initial responses
    in phasic response trains. Double pre-embedding immunolabeling confirmed the co-localization
    of CAPS2 and SPO inside the same terminal. The cytosolic protein CAPS2 showed
    a synaptic vesicle (SV)-associated distribution similar to the vesicular transmembrane
    protein SPO. A newly developed “Flash and Freeze-fracture” method revealed the
    release of SPO-associated vesicles in both tonic and phasic modes and activity-dependent
    recruitment of CAPS2 to the AZ during phasic release, which lasted several minutes.
    Overall, these results indicate that GBR activation translocates CAPS2 to the
    AZ along with the fusion of CAPS2-associated SVs, contributing to a persistent
    RRP increase. Thus, we discovered structural and molecular mechanisms underlying
    tonic and phasic neurotransmitter release and their transition by GBR activation
    in MHb terminals.
article_processing_charge: No
author:
- first_name: Ryuichi
  full_name: Shigemoto, Ryuichi
  id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
  last_name: Shigemoto
  orcid: 0000-0001-8761-9444
citation:
  ama: Shigemoto R. Transition from tonic to phasic neurotransmitter release by presynaptic
    GABAB receptor activation in medial habenula terminals. 2023. doi:<a href="https://doi.org/10.15479/AT:ISTA:13173">10.15479/AT:ISTA:13173</a>
  apa: Shigemoto, R. (2023). Transition from tonic to phasic neurotransmitter release
    by presynaptic GABAB receptor activation in medial habenula terminals. Institute
    of Science and Technology Austria. <a href="https://doi.org/10.15479/AT:ISTA:13173">https://doi.org/10.15479/AT:ISTA:13173</a>
  chicago: Shigemoto, Ryuichi. “Transition from Tonic to Phasic Neurotransmitter Release
    by Presynaptic GABAB Receptor Activation in Medial Habenula Terminals.” Institute
    of Science and Technology Austria, 2023. <a href="https://doi.org/10.15479/AT:ISTA:13173">https://doi.org/10.15479/AT:ISTA:13173</a>.
  ieee: R. Shigemoto, “Transition from tonic to phasic neurotransmitter release by
    presynaptic GABAB receptor activation in medial habenula terminals.” Institute
    of Science and Technology Austria, 2023.
  ista: Shigemoto R. 2023. Transition from tonic to phasic neurotransmitter release
    by presynaptic GABAB receptor activation in medial habenula terminals, Institute
    of Science and Technology Austria, <a href="https://doi.org/10.15479/AT:ISTA:13173">10.15479/AT:ISTA:13173</a>.
  mla: Shigemoto, Ryuichi. <i>Transition from Tonic to Phasic Neurotransmitter Release
    by Presynaptic GABAB Receptor Activation in Medial Habenula Terminals</i>. Institute
    of Science and Technology Austria, 2023, doi:<a href="https://doi.org/10.15479/AT:ISTA:13173">10.15479/AT:ISTA:13173</a>.
  short: R. Shigemoto, (2023).
date_created: 2023-06-29T13:16:42Z
date_published: 2023-07-29T00:00:00Z
date_updated: 2024-02-21T12:19:26Z
day: '29'
ddc:
- '571'
department:
- _id: RySh
doi: 10.15479/AT:ISTA:13173
file:
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  date_created: 2023-06-29T13:11:22Z
  date_updated: 2023-11-17T14:30:44Z
  description: After review an updated version of the data is provided
  file_id: '13174'
  file_name: Raw data for Koppensteiner et al.zip
  file_size: 542873672
  relation: main_file
  title: Outdated Version
- access_level: open_access
  checksum: c07860eb82b4d367245f1b589fe5c250
  content_type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet
  creator: patrickd
  date_created: 2023-11-17T14:13:02Z
  date_updated: 2023-11-17T14:13:02Z
  file_id: '14550'
  file_name: 11-17-23 Updated Koppensteiner et al. raw data.xlsx
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  success: 1
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  creator: dernst
  date_created: 2024-02-06T07:21:43Z
  date_updated: 2024-02-06T07:21:43Z
  file_id: '14942'
  file_name: EM_Images.zip
  file_size: 544868924
  relation: main_file
  success: 1
file_date_updated: 2024-02-06T07:21:43Z
has_accepted_license: '1'
keyword:
- medial habenula
- GABAB receptor
- vesicle release
- Flash and Freeze
- Flash and Freeze-fracture
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '07'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Transition from tonic to phasic neurotransmitter release by presynaptic GABAB
  receptor activation in medial habenula terminals
tmp:
  image: /images/cc_by_nc.png
  legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
  name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
  short: CC BY-NC (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13175'
abstract:
- lang: eng
  text: "About a 100 years ago, we discovered that our universe is inherently noisy,
    that is, measuring any physical quantity with a precision beyond a certain point
    is not possible because of an omnipresent inherent noise. We call this - the quantum
    noise. Certain physical processes allow this quantum noise to get correlated in
    conjugate physical variables. These quantum correlations can be used to go beyond
    the potential of our inherently noisy universe and obtain a quantum advantage
    over the classical applications. \r\n\r\nQuantum noise being inherent also means
    that, at the fundamental level, the physical quantities are not well defined and
    therefore, objects can stay in multiple states at the same time. For example,
    the position of a particle not being well defined means that the particle is in
    multiple positions at the same time. About 4 decades ago, we started exploring
    the possibility of using objects which can be in multiple states at the same time
    to increase the dimensionality in computation. Thus, the field of quantum computing
    was born. We discovered that using quantum entanglement, a property closely related
    to quantum correlations, can be used to speed up computation of certain problems,
    such as factorisation of large numbers, faster than any known classical algorithm.
    Thus began the pursuit to make quantum computers a reality. \r\n\r\nTill date,
    we have explored quantum control over many physical systems including photons,
    spins, atoms, ions and even simple circuits made up of superconducting material.
    However, there persists one ubiquitous theme. The more readily a system interacts
    with an external field or matter, the more easily we can control it. But this
    also means that such a system can easily interact with a noisy environment and
    quickly lose its coherence. Consequently, such systems like electron spins need
    to be protected from the environment to ensure the longevity of their coherence.
    Other systems like nuclear spins are naturally protected as they do not interact
    easily with the environment. But, due to the same reason, it is harder to interact
    with such systems. \r\n\r\nAfter decades of experimentation with various systems,
    we are convinced that no one type of quantum system would be the best for all
    the quantum applications. We would need hybrid systems which are all interconnected
    - much like the current internet where all sorts of devices can all talk to each
    other - but now for quantum devices. A quantum internet. \r\n\r\nOptical photons
    are the best contenders to carry information for the quantum internet. They can
    carry quantum information cheaply and without much loss - the same reasons which
    has made them the backbone of our current internet. Following this direction,
    many systems, like trapped ions, have already demonstrated successful quantum
    links over a large distances using optical photons. However, some of the most
    promising contenders for quantum computing which are based on microwave frequencies
    have been left behind. This is because high energy optical photons can adversely
    affect fragile low-energy microwave systems. \r\n\r\nIn this thesis, we present
    substantial progress on this missing quantum link between microwave and optics
    using electrooptical nonlinearities in lithium niobate. The nonlinearities are
    enhanced by using resonant cavities for all the involved modes leading to observation
    of strong direct coupling between optical and microwave frequencies. With this
    strong coupling we are not only able to achieve almost 100\\% internal conversion
    efficiency with low added noise, thus presenting a quantum-enabled transducer,
    but also we are able to observe novel effects such as cooling of a microwave mode
    using optics. The strong coupling regime also leads to direct observation of dynamical
    backaction effect between microwave and optical frequencies which are studied
    in detail here. Finally, we also report first observation of microwave-optics
    entanglement in form of two-mode squeezed vacuum squeezed 0.7dB below vacuum level.
    \r\nWith this new bridge between microwave and optics, the microwave-based quantum
    technologies can finally be a part of a quantum network which is based on optical
    photons - putting us one step closer to a future with quantum internet. "
acknowledged_ssus:
- _id: M-Shop
- _id: SSU
- _id: NanoFab
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Rishabh
  full_name: Sahu, Rishabh
  id: 47D26E34-F248-11E8-B48F-1D18A9856A87
  last_name: Sahu
  orcid: 0000-0001-6264-2162
citation:
  ama: Sahu R. Cavity quantum electrooptics. 2023. doi:<a href="https://doi.org/10.15479/at:ista:13175">10.15479/at:ista:13175</a>
  apa: Sahu, R. (2023). <i>Cavity quantum electrooptics</i>. Institute of Science
    and Technology Austria. <a href="https://doi.org/10.15479/at:ista:13175">https://doi.org/10.15479/at:ista:13175</a>
  chicago: Sahu, Rishabh. “Cavity Quantum Electrooptics.” Institute of Science and
    Technology Austria, 2023. <a href="https://doi.org/10.15479/at:ista:13175">https://doi.org/10.15479/at:ista:13175</a>.
  ieee: R. Sahu, “Cavity quantum electrooptics,” Institute of Science and Technology
    Austria, 2023.
  ista: Sahu R. 2023. Cavity quantum electrooptics. Institute of Science and Technology
    Austria.
  mla: Sahu, Rishabh. <i>Cavity Quantum Electrooptics</i>. Institute of Science and
    Technology Austria, 2023, doi:<a href="https://doi.org/10.15479/at:ista:13175">10.15479/at:ista:13175</a>.
  short: R. Sahu, Cavity Quantum Electrooptics, Institute of Science and Technology
    Austria, 2023.
date_created: 2023-06-30T08:07:43Z
date_published: 2023-05-05T00:00:00Z
date_updated: 2024-10-29T09:11:06Z
day: '05'
ddc:
- '537'
- '535'
- '539'
degree_awarded: PhD
department:
- _id: GradSch
- _id: JoFi
doi: 10.15479/at:ista:13175
ec_funded: 1
file:
- access_level: open_access
  checksum: 7d03f1a5a5258ee43dfc3323dea4e08f
  content_type: application/pdf
  creator: cchlebak
  date_created: 2023-06-30T08:17:25Z
  date_updated: 2023-06-30T08:17:25Z
  file_id: '13176'
  file_name: thesis_pdfa.pdf
  file_size: 18688376
  relation: main_file
  success: 1
- access_level: closed
  checksum: c3b45317ae58e0527533f98c202d81b7
  content_type: application/x-zip-compressed
  creator: cchlebak
  date_created: 2023-07-06T11:35:15Z
  date_updated: 2023-07-06T11:35:15Z
  file_id: '13196'
  file_name: thesis.zip
  file_size: 37847025
  relation: source_file
file_date_updated: 2023-07-06T11:35:15Z
has_accepted_license: '1'
keyword:
- quantum optics
- electrooptics
- quantum networks
- quantum communication
- transduction
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: '202'
project:
- _id: 26336814-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '758053'
  name: A Fiber Optic Transceiver for Superconducting Qubits
- _id: 9B868D20-BA93-11EA-9121-9846C619BF3A
  call_identifier: H2020
  grant_number: '899354'
  name: Quantum Local Area Networks with Superconducting Qubits
- _id: bdb108fd-d553-11ed-ba76-83dc74a9864f
  name: QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration
    of Superconducting Quantum Circuits
publication_identifier:
  isbn:
  - 978-3-99078-030-5
  issn:
  - 2663 - 337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
  record:
  - id: '12900'
    relation: old_edition
    status: public
  - id: '9114'
    relation: part_of_dissertation
    status: public
  - id: '10924'
    relation: part_of_dissertation
    status: public
status: public
supervisor:
- first_name: Johannes M
  full_name: Fink, Johannes M
  id: 4B591CBA-F248-11E8-B48F-1D18A9856A87
  last_name: Fink
  orcid: 0000-0001-8112-028X
title: Cavity quantum electrooptics
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: '13177'
abstract:
- lang: eng
  text: In this note we study the eigenvalue growth of infinite graphs with discrete
    spectrum. We assume that the corresponding Dirichlet forms satisfy certain Sobolev-type
    inequalities and that the total measure is finite. In this sense, the associated
    operators on these graphs display similarities to elliptic operators on bounded
    domains in the continuum. Specifically, we prove lower bounds on the eigenvalue
    growth and show by examples that corresponding upper bounds cannot be established.
acknowledgement: The second author was supported by the priority program SPP2026 of
  the German Research Foundation (DFG). The fourth author was supported by the German
  Academic Scholarship Foundation (Studienstiftung des deutschen Volkes) and by the
  German Research Foundation (DFG) via RTG 1523/2.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Bobo
  full_name: Hua, Bobo
  last_name: Hua
- first_name: Matthias
  full_name: Keller, Matthias
  last_name: Keller
- first_name: Michael
  full_name: Schwarz, Michael
  last_name: Schwarz
- first_name: Melchior
  full_name: Wirth, Melchior
  id: 88644358-0A0E-11EA-8FA5-49A33DDC885E
  last_name: Wirth
  orcid: 0000-0002-0519-4241
citation:
  ama: Hua B, Keller M, Schwarz M, Wirth M. Sobolev-type inequalities and eigenvalue
    growth on graphs with finite measure. <i>Proceedings of the American Mathematical
    Society</i>. 2023;151(8):3401-3414. doi:<a href="https://doi.org/10.1090/proc/14361">10.1090/proc/14361</a>
  apa: Hua, B., Keller, M., Schwarz, M., &#38; Wirth, M. (2023). Sobolev-type inequalities
    and eigenvalue growth on graphs with finite measure. <i>Proceedings of the American
    Mathematical Society</i>. American Mathematical Society. <a href="https://doi.org/10.1090/proc/14361">https://doi.org/10.1090/proc/14361</a>
  chicago: Hua, Bobo, Matthias Keller, Michael Schwarz, and Melchior Wirth. “Sobolev-Type
    Inequalities and Eigenvalue Growth on Graphs with Finite Measure.” <i>Proceedings
    of the American Mathematical Society</i>. American Mathematical Society, 2023.
    <a href="https://doi.org/10.1090/proc/14361">https://doi.org/10.1090/proc/14361</a>.
  ieee: B. Hua, M. Keller, M. Schwarz, and M. Wirth, “Sobolev-type inequalities and
    eigenvalue growth on graphs with finite measure,” <i>Proceedings of the American
    Mathematical Society</i>, vol. 151, no. 8. American Mathematical Society, pp.
    3401–3414, 2023.
  ista: Hua B, Keller M, Schwarz M, Wirth M. 2023. Sobolev-type inequalities and eigenvalue
    growth on graphs with finite measure. Proceedings of the American Mathematical
    Society. 151(8), 3401–3414.
  mla: Hua, Bobo, et al. “Sobolev-Type Inequalities and Eigenvalue Growth on Graphs
    with Finite Measure.” <i>Proceedings of the American Mathematical Society</i>,
    vol. 151, no. 8, American Mathematical Society, 2023, pp. 3401–14, doi:<a href="https://doi.org/10.1090/proc/14361">10.1090/proc/14361</a>.
  short: B. Hua, M. Keller, M. Schwarz, M. Wirth, Proceedings of the American Mathematical
    Society 151 (2023) 3401–3414.
date_created: 2023-07-02T22:00:43Z
date_published: 2023-08-01T00:00:00Z
date_updated: 2023-11-14T13:07:09Z
day: '01'
department:
- _id: JaMa
doi: 10.1090/proc/14361
external_id:
  arxiv:
  - '1804.08353'
  isi:
  - '000988204400001'
intvolume: '       151'
isi: 1
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: ' https://doi.org/10.48550/arXiv.1804.08353'
month: '08'
oa: 1
oa_version: Preprint
page: 3401-3414
publication: Proceedings of the American Mathematical Society
publication_identifier:
  eissn:
  - 1088-6826
  issn:
  - 0002-9939
publication_status: published
publisher: American Mathematical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Sobolev-type inequalities and eigenvalue growth on graphs with finite measure
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 151
year: '2023'
...
---
_id: '13178'
abstract:
- lang: eng
  text: We consider the large polaron described by the Fröhlich Hamiltonian and study
    its energy-momentum relation defined as the lowest possible energy as a function
    of the total momentum. Using a suitable family of trial states, we derive an optimal
    parabolic upper bound for the energy-momentum relation in the limit of strong
    coupling. The upper bound consists of a momentum independent term that agrees
    with the predicted two-term expansion for the ground state energy of the strongly
    coupled polaron at rest and a term that is quadratic in the momentum with coefficient
    given by the inverse of twice the classical effective mass introduced by Landau
    and Pekar.
acknowledgement: This research was supported by the European Research Council (ERC)
  under the European Union’s Horizon 2020 research and innovation programme grant
  agreement No. 694227 (R.S.) and the Maria Skłodowska-Curie grant agreement No. 665386
  (K.M.).
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: David Johannes
  full_name: Mitrouskas, David Johannes
  id: cbddacee-2b11-11eb-a02e-a2e14d04e52d
  last_name: Mitrouskas
- first_name: Krzysztof
  full_name: Mysliwy, Krzysztof
  id: 316457FC-F248-11E8-B48F-1D18A9856A87
  last_name: Mysliwy
- first_name: Robert
  full_name: Seiringer, Robert
  id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
  last_name: Seiringer
  orcid: 0000-0002-6781-0521
citation:
  ama: Mitrouskas DJ, Mysliwy K, Seiringer R. Optimal parabolic upper bound for the
    energy-momentum relation of a strongly coupled polaron. <i>Forum of Mathematics</i>.
    2023;11:1-52. doi:<a href="https://doi.org/10.1017/fms.2023.45">10.1017/fms.2023.45</a>
  apa: Mitrouskas, D. J., Mysliwy, K., &#38; Seiringer, R. (2023). Optimal parabolic
    upper bound for the energy-momentum relation of a strongly coupled polaron. <i>Forum
    of Mathematics</i>. Cambridge University Press. <a href="https://doi.org/10.1017/fms.2023.45">https://doi.org/10.1017/fms.2023.45</a>
  chicago: Mitrouskas, David Johannes, Krzysztof Mysliwy, and Robert Seiringer. “Optimal
    Parabolic Upper Bound for the Energy-Momentum Relation of a Strongly Coupled Polaron.”
    <i>Forum of Mathematics</i>. Cambridge University Press, 2023. <a href="https://doi.org/10.1017/fms.2023.45">https://doi.org/10.1017/fms.2023.45</a>.
  ieee: D. J. Mitrouskas, K. Mysliwy, and R. Seiringer, “Optimal parabolic upper bound
    for the energy-momentum relation of a strongly coupled polaron,” <i>Forum of Mathematics</i>,
    vol. 11. Cambridge University Press, pp. 1–52, 2023.
  ista: Mitrouskas DJ, Mysliwy K, Seiringer R. 2023. Optimal parabolic upper bound
    for the energy-momentum relation of a strongly coupled polaron. Forum of Mathematics.
    11, 1–52.
  mla: Mitrouskas, David Johannes, et al. “Optimal Parabolic Upper Bound for the Energy-Momentum
    Relation of a Strongly Coupled Polaron.” <i>Forum of Mathematics</i>, vol. 11,
    Cambridge University Press, 2023, pp. 1–52, doi:<a href="https://doi.org/10.1017/fms.2023.45">10.1017/fms.2023.45</a>.
  short: D.J. Mitrouskas, K. Mysliwy, R. Seiringer, Forum of Mathematics 11 (2023)
    1–52.
date_created: 2023-07-02T22:00:43Z
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title: Optimal parabolic upper bound for the energy-momentum relation of a strongly
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