---
_id: '13998'
abstract:
- lang: eng
  text: The interaction of strong near-infrared (NIR) laser pulses with wide-bandgap
    dielectrics produces high harmonics in the extreme ultraviolet (XUV) wavelength
    range. These observations have opened up the possibility of attosecond metrology
    in solids, which would benefit from a precise measurement of the emission times
    of individual harmonics with respect to the NIR laser field. Here we show that,
    when high-harmonics are detected from the input surface of a magnesium oxide crystal,
    a bichromatic probing of the XUV emission shows a clear synchronization largely
    consistent with a semiclassical model of electron–hole recollisions in bulk solids.
    On the other hand, the bichromatic spectrogram of harmonics originating from the
    exit surface of the 200 μm-thick crystal is strongly modified, indicating the
    influence of laser field distortions during propagation. Our tracking of sub-cycle
    electron and hole re-collisions at XUV energies is relevant to the development
    of solid-state sources of attosecond pulses.
article_number: '144003'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Giulio
  full_name: Vampa, Giulio
  last_name: Vampa
- first_name: Jian
  full_name: Lu, Jian
  last_name: Lu
- first_name: Yong Sing
  full_name: You, Yong Sing
  last_name: You
- first_name: Denitsa Rangelova
  full_name: Baykusheva, Denitsa Rangelova
  id: 71b4d059-2a03-11ee-914d-dfa3beed6530
  last_name: Baykusheva
- first_name: Mengxi
  full_name: Wu, Mengxi
  last_name: Wu
- first_name: Hanzhe
  full_name: Liu, Hanzhe
  last_name: Liu
- first_name: Kenneth J
  full_name: Schafer, Kenneth J
  last_name: Schafer
- first_name: Mette B
  full_name: Gaarde, Mette B
  last_name: Gaarde
- first_name: David A
  full_name: Reis, David A
  last_name: Reis
- first_name: Shambhu
  full_name: Ghimire, Shambhu
  last_name: Ghimire
citation:
  ama: 'Vampa G, Lu J, You YS, et al. Attosecond synchronization of extreme ultraviolet
    high harmonics from crystals. <i>Journal of Physics B: Atomic, Molecular and Optical
    Physics</i>. 2020;53(14). doi:<a href="https://doi.org/10.1088/1361-6455/ab8e56">10.1088/1361-6455/ab8e56</a>'
  apa: 'Vampa, G., Lu, J., You, Y. S., Baykusheva, D. R., Wu, M., Liu, H., … Ghimire,
    S. (2020). Attosecond synchronization of extreme ultraviolet high harmonics from
    crystals. <i>Journal of Physics B: Atomic, Molecular and Optical Physics</i>.
    IOP Publishing. <a href="https://doi.org/10.1088/1361-6455/ab8e56">https://doi.org/10.1088/1361-6455/ab8e56</a>'
  chicago: 'Vampa, Giulio, Jian Lu, Yong Sing You, Denitsa Rangelova Baykusheva, Mengxi
    Wu, Hanzhe Liu, Kenneth J Schafer, Mette B Gaarde, David A Reis, and Shambhu Ghimire.
    “Attosecond Synchronization of Extreme Ultraviolet High Harmonics from Crystals.”
    <i>Journal of Physics B: Atomic, Molecular and Optical Physics</i>. IOP Publishing,
    2020. <a href="https://doi.org/10.1088/1361-6455/ab8e56">https://doi.org/10.1088/1361-6455/ab8e56</a>.'
  ieee: 'G. Vampa <i>et al.</i>, “Attosecond synchronization of extreme ultraviolet
    high harmonics from crystals,” <i>Journal of Physics B: Atomic, Molecular and
    Optical Physics</i>, vol. 53, no. 14. IOP Publishing, 2020.'
  ista: 'Vampa G, Lu J, You YS, Baykusheva DR, Wu M, Liu H, Schafer KJ, Gaarde MB,
    Reis DA, Ghimire S. 2020. Attosecond synchronization of extreme ultraviolet high
    harmonics from crystals. Journal of Physics B: Atomic, Molecular and Optical Physics.
    53(14), 144003.'
  mla: 'Vampa, Giulio, et al. “Attosecond Synchronization of Extreme Ultraviolet High
    Harmonics from Crystals.” <i>Journal of Physics B: Atomic, Molecular and Optical
    Physics</i>, vol. 53, no. 14, 144003, IOP Publishing, 2020, doi:<a href="https://doi.org/10.1088/1361-6455/ab8e56">10.1088/1361-6455/ab8e56</a>.'
  short: 'G. Vampa, J. Lu, Y.S. You, D.R. Baykusheva, M. Wu, H. Liu, K.J. Schafer,
    M.B. Gaarde, D.A. Reis, S. Ghimire, Journal of Physics B: Atomic, Molecular and
    Optical Physics 53 (2020).'
date_created: 2023-08-09T13:09:51Z
date_published: 2020-06-17T00:00:00Z
date_updated: 2023-08-22T07:36:36Z
day: '17'
doi: 10.1088/1361-6455/ab8e56
extern: '1'
external_id:
  arxiv:
  - '2001.09951'
intvolume: '        53'
issue: '14'
keyword:
- Condensed Matter Physics
- Atomic and Molecular Physics
- and Optics
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://arxiv.org/abs/2001.09951
month: '06'
oa: 1
oa_version: Preprint
publication: 'Journal of Physics B: Atomic, Molecular and Optical Physics'
publication_identifier:
  eissn:
  - 1361-6455
  issn:
  - 0953-4075
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Attosecond synchronization of extreme ultraviolet high harmonics from crystals
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 53
year: '2020'
...
---
_id: '13999'
abstract:
- lang: eng
  text: Attosecond chronoscopy has revealed small but measurable delays in photoionization,
    characterized by the ejection of an electron on absorption of a single photon.
    Ionization-delay measurements in atomic targets provide a wealth of information
    about the timing of the photoelectric effect, resonances, electron correlations
    and transport. However, extending this approach to molecules presents challenges,
    such as identifying the correct ionization channels and the effect of the anisotropic
    molecular landscape on the measured delays. Here, we measure ionization delays
    from ethyl iodide around a giant dipole resonance. By using the theoretical value
    for the iodine atom as a reference, we disentangle the contribution from the functional
    ethyl group, which is responsible for the characteristic chemical reactivity of
    a molecule. We find a substantial additional delay caused by the presence of a
    functional group, which encodes the effect of the molecular potential on the departing
    electron. Such information is inaccessible to the conventional approach of measuring
    photoionization cross-sections. The results establish ionization-delay measurements
    as a valuable tool in investigating the electronic properties of molecules.
article_processing_charge: No
article_type: original
author:
- first_name: Shubhadeep
  full_name: Biswas, Shubhadeep
  last_name: Biswas
- first_name: Benjamin
  full_name: Förg, Benjamin
  last_name: Förg
- first_name: Lisa
  full_name: Ortmann, Lisa
  last_name: Ortmann
- first_name: Johannes
  full_name: Schötz, Johannes
  last_name: Schötz
- first_name: Wolfgang
  full_name: Schweinberger, Wolfgang
  last_name: Schweinberger
- first_name: Tomáš
  full_name: Zimmermann, Tomáš
  last_name: Zimmermann
- first_name: Liangwen
  full_name: Pi, Liangwen
  last_name: Pi
- first_name: Denitsa Rangelova
  full_name: Baykusheva, Denitsa Rangelova
  id: 71b4d059-2a03-11ee-914d-dfa3beed6530
  last_name: Baykusheva
- first_name: Hafiz A.
  full_name: Masood, Hafiz A.
  last_name: Masood
- first_name: Ioannis
  full_name: Liontos, Ioannis
  last_name: Liontos
- first_name: Amgad M.
  full_name: Kamal, Amgad M.
  last_name: Kamal
- first_name: Nora G.
  full_name: Kling, Nora G.
  last_name: Kling
- first_name: Abdullah F.
  full_name: Alharbi, Abdullah F.
  last_name: Alharbi
- first_name: Meshaal
  full_name: Alharbi, Meshaal
  last_name: Alharbi
- first_name: Abdallah M.
  full_name: Azzeer, Abdallah M.
  last_name: Azzeer
- first_name: Gregor
  full_name: Hartmann, Gregor
  last_name: Hartmann
- first_name: Hans J.
  full_name: Wörner, Hans J.
  last_name: Wörner
- first_name: Alexandra S.
  full_name: Landsman, Alexandra S.
  last_name: Landsman
- first_name: Matthias F.
  full_name: Kling, Matthias F.
  last_name: Kling
citation:
  ama: Biswas S, Förg B, Ortmann L, et al. Probing molecular environment through photoemission
    delays. <i>Nature Physics</i>. 2020;16(7):778-783. doi:<a href="https://doi.org/10.1038/s41567-020-0887-8">10.1038/s41567-020-0887-8</a>
  apa: Biswas, S., Förg, B., Ortmann, L., Schötz, J., Schweinberger, W., Zimmermann,
    T., … Kling, M. F. (2020). Probing molecular environment through photoemission
    delays. <i>Nature Physics</i>. Springer Nature. <a href="https://doi.org/10.1038/s41567-020-0887-8">https://doi.org/10.1038/s41567-020-0887-8</a>
  chicago: Biswas, Shubhadeep, Benjamin Förg, Lisa Ortmann, Johannes Schötz, Wolfgang
    Schweinberger, Tomáš Zimmermann, Liangwen Pi, et al. “Probing Molecular Environment
    through Photoemission Delays.” <i>Nature Physics</i>. Springer Nature, 2020. <a
    href="https://doi.org/10.1038/s41567-020-0887-8">https://doi.org/10.1038/s41567-020-0887-8</a>.
  ieee: S. Biswas <i>et al.</i>, “Probing molecular environment through photoemission
    delays,” <i>Nature Physics</i>, vol. 16, no. 7. Springer Nature, pp. 778–783,
    2020.
  ista: Biswas S, Förg B, Ortmann L, Schötz J, Schweinberger W, Zimmermann T, Pi L,
    Baykusheva DR, Masood HA, Liontos I, Kamal AM, Kling NG, Alharbi AF, Alharbi M,
    Azzeer AM, Hartmann G, Wörner HJ, Landsman AS, Kling MF. 2020. Probing molecular
    environment through photoemission delays. Nature Physics. 16(7), 778–783.
  mla: Biswas, Shubhadeep, et al. “Probing Molecular Environment through Photoemission
    Delays.” <i>Nature Physics</i>, vol. 16, no. 7, Springer Nature, 2020, pp. 778–83,
    doi:<a href="https://doi.org/10.1038/s41567-020-0887-8">10.1038/s41567-020-0887-8</a>.
  short: S. Biswas, B. Förg, L. Ortmann, J. Schötz, W. Schweinberger, T. Zimmermann,
    L. Pi, D.R. Baykusheva, H.A. Masood, I. Liontos, A.M. Kamal, N.G. Kling, A.F.
    Alharbi, M. Alharbi, A.M. Azzeer, G. Hartmann, H.J. Wörner, A.S. Landsman, M.F.
    Kling, Nature Physics 16 (2020) 778–783.
date_created: 2023-08-09T13:10:07Z
date_published: 2020-07-01T00:00:00Z
date_updated: 2023-08-22T07:38:04Z
day: '01'
doi: 10.1038/s41567-020-0887-8
extern: '1'
intvolume: '        16'
issue: '7'
keyword:
- General Physics and Astronomy
language:
- iso: eng
month: '07'
oa_version: None
page: 778-783
publication: Nature Physics
publication_identifier:
  eissn:
  - 1745-2481
  issn:
  - 1745-2473
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Probing molecular environment through photoemission delays
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 16
year: '2020'
...
---
_id: '14000'
abstract:
- lang: eng
  text: This chapter presents an overview of the state of the art in attosecond time-resolved
    spectroscopy. The theoretical foundations of strong-field light–matter interaction
    and attosecond pulse generation are described. The enabling laser technologies
    are reviewed from chirped-pulse amplification and carrier-envelope-phase stabilization
    to the generation and characterization of attosecond pulses. The applications
    of attosecond pulses and pulse trains in electron- or ion-imaging experiments
    are presented, followed by attosecond electron spectroscopy in larger molecules.
    After this, high-harmonic spectroscopy and its applications to probing charge
    migration on attosecond time scales is reviewed. The rapidly evolving field of
    molecular photoionization delays is discussed. Finally, the applications of attosecond
    transient absorption to probing molecular dynamics are presented.
article_processing_charge: No
author:
- first_name: Denitsa Rangelova
  full_name: Baykusheva, Denitsa Rangelova
  id: 71b4d059-2a03-11ee-914d-dfa3beed6530
  last_name: Baykusheva
- first_name: Hans Jakob
  full_name: Wörner, Hans Jakob
  last_name: Wörner
citation:
  ama: 'Baykusheva DR, Wörner HJ. Attosecond Molecular Dynamics and Spectroscopy.
    In: Marquardt R, Quack M, eds. <i>Molecular Spectroscopy and Quantum Dynamics</i>.
    1st ed. Elsevier; 2020:113-161. doi:<a href="https://doi.org/10.1016/b978-0-12-817234-6.00009-x">10.1016/b978-0-12-817234-6.00009-x</a>'
  apa: Baykusheva, D. R., &#38; Wörner, H. J. (2020). Attosecond Molecular Dynamics
    and Spectroscopy. In R. Marquardt &#38; M. Quack (Eds.), <i>Molecular Spectroscopy
    and Quantum Dynamics</i> (1st ed., pp. 113–161). Elsevier. <a href="https://doi.org/10.1016/b978-0-12-817234-6.00009-x">https://doi.org/10.1016/b978-0-12-817234-6.00009-x</a>
  chicago: Baykusheva, Denitsa Rangelova, and Hans Jakob Wörner. “Attosecond Molecular
    Dynamics and Spectroscopy.” In <i>Molecular Spectroscopy and Quantum Dynamics</i>,
    edited by Roberto Marquardt and Martin Quack, 1st ed., 113–61. Elsevier, 2020.
    <a href="https://doi.org/10.1016/b978-0-12-817234-6.00009-x">https://doi.org/10.1016/b978-0-12-817234-6.00009-x</a>.
  ieee: D. R. Baykusheva and H. J. Wörner, “Attosecond Molecular Dynamics and Spectroscopy,”
    in <i>Molecular Spectroscopy and Quantum Dynamics</i>, 1st ed., R. Marquardt and
    M. Quack, Eds. Elsevier, 2020, pp. 113–161.
  ista: 'Baykusheva DR, Wörner HJ. 2020.Attosecond Molecular Dynamics and Spectroscopy.
    In: Molecular Spectroscopy and Quantum Dynamics. , 113–161.'
  mla: Baykusheva, Denitsa Rangelova, and Hans Jakob Wörner. “Attosecond Molecular
    Dynamics and Spectroscopy.” <i>Molecular Spectroscopy and Quantum Dynamics</i>,
    edited by Roberto Marquardt and Martin Quack, 1st ed., Elsevier, 2020, pp. 113–61,
    doi:<a href="https://doi.org/10.1016/b978-0-12-817234-6.00009-x">10.1016/b978-0-12-817234-6.00009-x</a>.
  short: D.R. Baykusheva, H.J. Wörner, in:, R. Marquardt, M. Quack (Eds.), Molecular
    Spectroscopy and Quantum Dynamics, 1st ed., Elsevier, 2020, pp. 113–161.
date_created: 2023-08-09T13:10:23Z
date_published: 2020-09-25T00:00:00Z
date_updated: 2024-10-14T12:26:39Z
day: '25'
doi: 10.1016/b978-0-12-817234-6.00009-x
edition: '1'
editor:
- first_name: Roberto
  full_name: Marquardt, Roberto
  last_name: Marquardt
- first_name: Martin
  full_name: Quack, Martin
  last_name: Quack
extern: '1'
language:
- iso: eng
month: '09'
oa_version: None
page: 113-161
publication: Molecular Spectroscopy and Quantum Dynamics
publication_identifier:
  eisbn:
  - '0128172355'
  isbn:
  - '9780128172353'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Attosecond Molecular Dynamics and Spectroscopy
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '14028'
abstract:
- lang: eng
  text: 'The present review addresses the technical advances and the theoretical developments
    to realize and rationalize attosecond-science experiments that reveal a new dynamical
    time scale (10−15-10−18 s), with a particular emphasis on molecular systems and
    the implications of attosecond processes for chemical dynamics. After a brief
    outline of the theoretical framework for treating non-perturbative phenomena in
    Section 2, we introduce the physical mechanisms underlying high-harmonic generation
    and attosecond technology. The relevant technological developments and experimental
    schemes are covered in Section 3. Throughout the remainder of the chapter, we
    report on selected applications in molecular attosecond physics, thereby addressing
    specific phenomena mediated by purely electronic dynamics: charge localization
    in molecular hydrogen, charge migration in biorelevant molecules, high-harmonic
    spectroscopy, and delays in molecular photoionization.'
article_processing_charge: No
arxiv: 1
author:
- first_name: Denitsa Rangelova
  full_name: Baykusheva, Denitsa Rangelova
  id: 71b4d059-2a03-11ee-914d-dfa3beed6530
  last_name: Baykusheva
- first_name: Hans Jakob
  full_name: Wörner, Hans Jakob
  last_name: Wörner
citation:
  ama: Baykusheva DR, Wörner HJ. Attosecond molecular spectroscopy and dynamics. doi:<a
    href="https://doi.org/10.48550/arXiv.2002.02111">10.48550/arXiv.2002.02111</a>
  apa: Baykusheva, D. R., &#38; Wörner, H. J. (n.d.). Attosecond molecular spectroscopy
    and dynamics. <a href="https://doi.org/10.48550/arXiv.2002.02111">https://doi.org/10.48550/arXiv.2002.02111</a>
  chicago: Baykusheva, Denitsa Rangelova, and Hans Jakob Wörner. “Attosecond Molecular
    Spectroscopy and Dynamics,” n.d. <a href="https://doi.org/10.48550/arXiv.2002.02111">https://doi.org/10.48550/arXiv.2002.02111</a>.
  ieee: D. R. Baykusheva and H. J. Wörner, “Attosecond molecular spectroscopy and
    dynamics.” .
  ista: Baykusheva DR, Wörner HJ. Attosecond molecular spectroscopy and dynamics.
    <a href="https://doi.org/10.48550/arXiv.2002.02111">10.48550/arXiv.2002.02111</a>.
  mla: Baykusheva, Denitsa Rangelova, and Hans Jakob Wörner. <i>Attosecond Molecular
    Spectroscopy and Dynamics</i>. doi:<a href="https://doi.org/10.48550/arXiv.2002.02111">10.48550/arXiv.2002.02111</a>.
  short: D.R. Baykusheva, H.J. Wörner, (n.d.).
date_created: 2023-08-10T06:47:45Z
date_published: 2020-02-01T00:00:00Z
date_updated: 2023-08-22T09:17:34Z
day: '01'
doi: 10.48550/arXiv.2002.02111
extern: '1'
external_id:
  arxiv:
  - '2002.02111'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2002.02111
month: '02'
oa: 1
oa_version: Preprint
page: '2002.02111'
publication_status: submitted
status: public
title: Attosecond molecular spectroscopy and dynamics
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '14095'
abstract:
- lang: eng
  text: 'The Habitable Exoplanet Observatory, or HabEx, has been designed to be the
    Great Observatory of the 2030s. For the first time in human history, technologies
    have matured sufficiently to enable an affordable space-based telescope mission
    capable of discovering and characterizing Earthlike planets orbiting nearby bright
    sunlike stars in order to search for signs of habitability and biosignatures.
    Such a mission can also be equipped with instrumentation that will enable broad
    and exciting general astrophysics and planetary science not possible from current
    or planned facilities. HabEx is a space telescope with unique imaging and multi-object
    spectroscopic capabilities at wavelengths ranging from ultraviolet (UV) to near-IR.
    These capabilities allow for a broad suite of compelling science that cuts across
    the entire NASA astrophysics portfolio. HabEx has three primary science goals:
    (1) Seek out nearby worlds and explore their habitability; (2) Map out nearby
    planetary systems and understand the diversity of the worlds they contain; (3)
    Enable new explorations of astrophysical systems from our own solar system to
    external galaxies by extending our reach in the UV through near-IR. This Great
    Observatory science will be selected through a competed GO program, and will account
    for about 50% of the HabEx primary mission. The preferred HabEx architecture is
    a 4m, monolithic, off-axis telescope that is diffraction-limited at 0.4 microns
    and is in an L2 orbit. HabEx employs two starlight suppression systems: a coronagraph
    and a starshade, each with their own dedicated instrument.'
article_number: '2001.06683'
article_processing_charge: No
arxiv: 1
author:
- first_name: B. Scott
  full_name: Gaudi, B. Scott
  last_name: Gaudi
- first_name: Sara
  full_name: Seager, Sara
  last_name: Seager
- first_name: Bertrand
  full_name: Mennesson, Bertrand
  last_name: Mennesson
- first_name: Alina
  full_name: Kiessling, Alina
  last_name: Kiessling
- first_name: Keith
  full_name: Warfield, Keith
  last_name: Warfield
- first_name: Kerri
  full_name: Cahoy, Kerri
  last_name: Cahoy
- first_name: John T.
  full_name: Clarke, John T.
  last_name: Clarke
- first_name: Shawn Domagal-Goldman
  full_name: Shawn Domagal-Goldman, Shawn Domagal-Goldman
  last_name: Shawn Domagal-Goldman
- first_name: Lee
  full_name: Feinberg, Lee
  last_name: Feinberg
- first_name: Olivier
  full_name: Guyon, Olivier
  last_name: Guyon
- first_name: Jeremy
  full_name: Kasdin, Jeremy
  last_name: Kasdin
- first_name: Dimitri
  full_name: Mawet, Dimitri
  last_name: Mawet
- first_name: Peter
  full_name: Plavchan, Peter
  last_name: Plavchan
- first_name: Tyler
  full_name: Robinson, Tyler
  last_name: Robinson
- first_name: Leslie
  full_name: Rogers, Leslie
  last_name: Rogers
- first_name: Paul
  full_name: Scowen, Paul
  last_name: Scowen
- first_name: Rachel
  full_name: Somerville, Rachel
  last_name: Somerville
- first_name: Karl
  full_name: Stapelfeldt, Karl
  last_name: Stapelfeldt
- first_name: Christopher
  full_name: Stark, Christopher
  last_name: Stark
- first_name: Daniel
  full_name: Stern, Daniel
  last_name: Stern
- first_name: Margaret
  full_name: Turnbull, Margaret
  last_name: Turnbull
- first_name: Rashied
  full_name: Amini, Rashied
  last_name: Amini
- first_name: Gary
  full_name: Kuan, Gary
  last_name: Kuan
- first_name: Stefan
  full_name: Martin, Stefan
  last_name: Martin
- first_name: Rhonda
  full_name: Morgan, Rhonda
  last_name: Morgan
- first_name: David
  full_name: Redding, David
  last_name: Redding
- first_name: H. Philip
  full_name: Stahl, H. Philip
  last_name: Stahl
- first_name: Ryan
  full_name: Webb, Ryan
  last_name: Webb
- first_name: Oscar Alvarez-Salazar
  full_name: Oscar Alvarez-Salazar, Oscar Alvarez-Salazar
  last_name: Oscar Alvarez-Salazar
- first_name: William L.
  full_name: Arnold, William L.
  last_name: Arnold
- first_name: Manan
  full_name: Arya, Manan
  last_name: Arya
- first_name: Bala
  full_name: Balasubramanian, Bala
  last_name: Balasubramanian
- first_name: Mike
  full_name: Baysinger, Mike
  last_name: Baysinger
- first_name: Ray
  full_name: Bell, Ray
  last_name: Bell
- first_name: Chris
  full_name: Below, Chris
  last_name: Below
- first_name: Jonathan
  full_name: Benson, Jonathan
  last_name: Benson
- first_name: Lindsey
  full_name: Blais, Lindsey
  last_name: Blais
- first_name: Jeff
  full_name: Booth, Jeff
  last_name: Booth
- first_name: Robert
  full_name: Bourgeois, Robert
  last_name: Bourgeois
- first_name: Case
  full_name: Bradford, Case
  last_name: Bradford
- first_name: Alden
  full_name: Brewer, Alden
  last_name: Brewer
- first_name: Thomas
  full_name: Brooks, Thomas
  last_name: Brooks
- first_name: Eric
  full_name: Cady, Eric
  last_name: Cady
- first_name: Mary
  full_name: Caldwell, Mary
  last_name: Caldwell
- first_name: Rob
  full_name: Calvet, Rob
  last_name: Calvet
- first_name: Steven
  full_name: Carr, Steven
  last_name: Carr
- first_name: Derek
  full_name: Chan, Derek
  last_name: Chan
- first_name: Velibor
  full_name: Cormarkovic, Velibor
  last_name: Cormarkovic
- first_name: Keith
  full_name: Coste, Keith
  last_name: Coste
- first_name: Charlie
  full_name: Cox, Charlie
  last_name: Cox
- first_name: Rolf
  full_name: Danner, Rolf
  last_name: Danner
- first_name: Jacqueline
  full_name: Davis, Jacqueline
  last_name: Davis
- first_name: Larry
  full_name: Dewell, Larry
  last_name: Dewell
- first_name: Lisa
  full_name: Dorsett, Lisa
  last_name: Dorsett
- first_name: Daniel
  full_name: Dunn, Daniel
  last_name: Dunn
- first_name: Matthew
  full_name: East, Matthew
  last_name: East
- first_name: Michael
  full_name: Effinger, Michael
  last_name: Effinger
- first_name: Ron
  full_name: Eng, Ron
  last_name: Eng
- first_name: Greg
  full_name: Freebury, Greg
  last_name: Freebury
- first_name: Jay
  full_name: Garcia, Jay
  last_name: Garcia
- first_name: Jonathan
  full_name: Gaskin, Jonathan
  last_name: Gaskin
- first_name: Suzan
  full_name: Greene, Suzan
  last_name: Greene
- first_name: John
  full_name: Hennessy, John
  last_name: Hennessy
- first_name: Evan
  full_name: Hilgemann, Evan
  last_name: Hilgemann
- first_name: Brad
  full_name: Hood, Brad
  last_name: Hood
- first_name: Wolfgang
  full_name: Holota, Wolfgang
  last_name: Holota
- first_name: Scott
  full_name: Howe, Scott
  last_name: Howe
- first_name: Pei
  full_name: Huang, Pei
  last_name: Huang
- first_name: Tony
  full_name: Hull, Tony
  last_name: Hull
- first_name: Ron
  full_name: Hunt, Ron
  last_name: Hunt
- first_name: Kevin
  full_name: Hurd, Kevin
  last_name: Hurd
- first_name: Sandra
  full_name: Johnson, Sandra
  last_name: Johnson
- first_name: Andrew
  full_name: Kissil, Andrew
  last_name: Kissil
- first_name: Brent
  full_name: Knight, Brent
  last_name: Knight
- first_name: Daniel
  full_name: Kolenz, Daniel
  last_name: Kolenz
- first_name: Oliver
  full_name: Kraus, Oliver
  last_name: Kraus
- first_name: John
  full_name: Krist, John
  last_name: Krist
- first_name: Mary
  full_name: Li, Mary
  last_name: Li
- first_name: Doug
  full_name: Lisman, Doug
  last_name: Lisman
- first_name: Milan
  full_name: Mandic, Milan
  last_name: Mandic
- first_name: John
  full_name: Mann, John
  last_name: Mann
- first_name: Luis
  full_name: Marchen, Luis
  last_name: Marchen
- first_name: Colleen Marrese-Reading
  full_name: Colleen Marrese-Reading, Colleen Marrese-Reading
  last_name: Colleen Marrese-Reading
- first_name: Jonathan
  full_name: McCready, Jonathan
  last_name: McCready
- first_name: Jim
  full_name: McGown, Jim
  last_name: McGown
- first_name: Jessica
  full_name: Missun, Jessica
  last_name: Missun
- first_name: Andrew
  full_name: Miyaguchi, Andrew
  last_name: Miyaguchi
- first_name: Bradley
  full_name: Moore, Bradley
  last_name: Moore
- first_name: Bijan
  full_name: Nemati, Bijan
  last_name: Nemati
- first_name: Shouleh
  full_name: Nikzad, Shouleh
  last_name: Nikzad
- first_name: Joel
  full_name: Nissen, Joel
  last_name: Nissen
- first_name: Megan
  full_name: Novicki, Megan
  last_name: Novicki
- first_name: Todd
  full_name: Perrine, Todd
  last_name: Perrine
- first_name: Claudia
  full_name: Pineda, Claudia
  last_name: Pineda
- first_name: Otto
  full_name: Polanco, Otto
  last_name: Polanco
- first_name: Dustin
  full_name: Putnam, Dustin
  last_name: Putnam
- first_name: Atif
  full_name: Qureshi, Atif
  last_name: Qureshi
- first_name: Michael
  full_name: Richards, Michael
  last_name: Richards
- first_name: A. J. Eldorado
  full_name: Riggs, A. J. Eldorado
  last_name: Riggs
- first_name: Michael
  full_name: Rodgers, Michael
  last_name: Rodgers
- first_name: Mike
  full_name: Rud, Mike
  last_name: Rud
- first_name: Navtej
  full_name: Saini, Navtej
  last_name: Saini
- first_name: Dan
  full_name: Scalisi, Dan
  last_name: Scalisi
- first_name: Dan
  full_name: Scharf, Dan
  last_name: Scharf
- first_name: Kevin
  full_name: Schulz, Kevin
  last_name: Schulz
- first_name: Gene
  full_name: Serabyn, Gene
  last_name: Serabyn
- first_name: Norbert
  full_name: Sigrist, Norbert
  last_name: Sigrist
- first_name: Glory
  full_name: Sikkia, Glory
  last_name: Sikkia
- first_name: Andrew
  full_name: Singleton, Andrew
  last_name: Singleton
- first_name: Stuart
  full_name: Shaklan, Stuart
  last_name: Shaklan
- first_name: Scott
  full_name: Smith, Scott
  last_name: Smith
- first_name: Bart
  full_name: Southerd, Bart
  last_name: Southerd
- first_name: Mark
  full_name: Stahl, Mark
  last_name: Stahl
- first_name: John
  full_name: Steeves, John
  last_name: Steeves
- first_name: Brian
  full_name: Sturges, Brian
  last_name: Sturges
- first_name: Chris
  full_name: Sullivan, Chris
  last_name: Sullivan
- first_name: Hao
  full_name: Tang, Hao
  last_name: Tang
- first_name: Neil
  full_name: Taras, Neil
  last_name: Taras
- first_name: Jonathan
  full_name: Tesch, Jonathan
  last_name: Tesch
- first_name: Melissa
  full_name: Therrell, Melissa
  last_name: Therrell
- first_name: Howard
  full_name: Tseng, Howard
  last_name: Tseng
- first_name: Marty
  full_name: Valente, Marty
  last_name: Valente
- first_name: David Van
  full_name: Buren, David Van
  last_name: Buren
- first_name: Juan
  full_name: Villalvazo, Juan
  last_name: Villalvazo
- first_name: Steve
  full_name: Warwick, Steve
  last_name: Warwick
- first_name: David
  full_name: Webb, David
  last_name: Webb
- first_name: Thomas
  full_name: Westerhoff, Thomas
  last_name: Westerhoff
- first_name: Rush
  full_name: Wofford, Rush
  last_name: Wofford
- first_name: Gordon
  full_name: Wu, Gordon
  last_name: Wu
- first_name: Jahning
  full_name: Woo, Jahning
  last_name: Woo
- first_name: Milana
  full_name: Wood, Milana
  last_name: Wood
- first_name: John
  full_name: Ziemer, John
  last_name: Ziemer
- first_name: Giada
  full_name: Arney, Giada
  last_name: Arney
- first_name: Jay
  full_name: Anderson, Jay
  last_name: Anderson
- first_name: Jesús Maíz-Apellániz
  full_name: Jesús Maíz-Apellániz, Jesús Maíz-Apellániz
  last_name: Jesús Maíz-Apellániz
- first_name: James
  full_name: Bartlett, James
  last_name: Bartlett
- first_name: Ruslan
  full_name: Belikov, Ruslan
  last_name: Belikov
- first_name: Eduardo
  full_name: Bendek, Eduardo
  last_name: Bendek
- first_name: Brad
  full_name: Cenko, Brad
  last_name: Cenko
- first_name: Ewan
  full_name: Douglas, Ewan
  last_name: Douglas
- first_name: Shannon
  full_name: Dulz, Shannon
  last_name: Dulz
- first_name: Chris
  full_name: Evans, Chris
  last_name: Evans
- first_name: Virginie
  full_name: Faramaz, Virginie
  last_name: Faramaz
- first_name: Y. Katherina
  full_name: Feng, Y. Katherina
  last_name: Feng
- first_name: Harry
  full_name: Ferguson, Harry
  last_name: Ferguson
- first_name: Kate
  full_name: Follette, Kate
  last_name: Follette
- first_name: Saavik
  full_name: Ford, Saavik
  last_name: Ford
- first_name: Miriam
  full_name: García, Miriam
  last_name: García
- first_name: Marla
  full_name: Geha, Marla
  last_name: Geha
- first_name: Dawn
  full_name: Gelino, Dawn
  last_name: Gelino
- first_name: Ylva Louise Linsdotter
  full_name: Götberg, Ylva Louise Linsdotter
  id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d
  last_name: Götberg
  orcid: 0000-0002-6960-6911
- first_name: Sergi
  full_name: Hildebrandt, Sergi
  last_name: Hildebrandt
- first_name: Renyu
  full_name: Hu, Renyu
  last_name: Hu
- first_name: Knud
  full_name: Jahnke, Knud
  last_name: Jahnke
- first_name: Grant
  full_name: Kennedy, Grant
  last_name: Kennedy
- first_name: Laura
  full_name: Kreidberg, Laura
  last_name: Kreidberg
- first_name: Andrea
  full_name: Isella, Andrea
  last_name: Isella
- first_name: Eric
  full_name: Lopez, Eric
  last_name: Lopez
- first_name: Franck
  full_name: Marchis, Franck
  last_name: Marchis
- first_name: Lucas
  full_name: Macri, Lucas
  last_name: Macri
- first_name: Mark
  full_name: Marley, Mark
  last_name: Marley
- first_name: William
  full_name: Matzko, William
  last_name: Matzko
- first_name: Johan
  full_name: Mazoyer, Johan
  last_name: Mazoyer
- first_name: Stephan
  full_name: McCandliss, Stephan
  last_name: McCandliss
- first_name: Tiffany
  full_name: Meshkat, Tiffany
  last_name: Meshkat
- first_name: Christoph
  full_name: Mordasini, Christoph
  last_name: Mordasini
- first_name: Patrick
  full_name: Morris, Patrick
  last_name: Morris
- first_name: Eric
  full_name: Nielsen, Eric
  last_name: Nielsen
- first_name: Patrick
  full_name: Newman, Patrick
  last_name: Newman
- first_name: Erik
  full_name: Petigura, Erik
  last_name: Petigura
- first_name: Marc
  full_name: Postman, Marc
  last_name: Postman
- first_name: Amy
  full_name: Reines, Amy
  last_name: Reines
- first_name: Aki
  full_name: Roberge, Aki
  last_name: Roberge
- first_name: Ian
  full_name: Roederer, Ian
  last_name: Roederer
- first_name: Garreth
  full_name: Ruane, Garreth
  last_name: Ruane
- first_name: Edouard
  full_name: Schwieterman, Edouard
  last_name: Schwieterman
- first_name: Dan
  full_name: Sirbu, Dan
  last_name: Sirbu
- first_name: Christopher
  full_name: Spalding, Christopher
  last_name: Spalding
- first_name: Harry
  full_name: Teplitz, Harry
  last_name: Teplitz
- first_name: Jason
  full_name: Tumlinson, Jason
  last_name: Tumlinson
- first_name: Neal
  full_name: Turner, Neal
  last_name: Turner
- first_name: Jessica
  full_name: Werk, Jessica
  last_name: Werk
- first_name: Aida
  full_name: Wofford, Aida
  last_name: Wofford
- first_name: Mark
  full_name: Wyatt, Mark
  last_name: Wyatt
- first_name: Amber
  full_name: Young, Amber
  last_name: Young
- first_name: Rob
  full_name: Zellem, Rob
  last_name: Zellem
citation:
  ama: Gaudi BS, Seager S, Mennesson B, et al. The habitable exoplanet observatory
    (HabEx) mission concept study final report. <i>arXiv</i>. doi:<a href="https://doi.org/10.48550/arXiv.2001.06683">10.48550/arXiv.2001.06683</a>
  apa: Gaudi, B. S., Seager, S., Mennesson, B., Kiessling, A., Warfield, K., Cahoy,
    K., … Zellem, R. (n.d.). The habitable exoplanet observatory (HabEx) mission concept
    study final report. <i>arXiv</i>. <a href="https://doi.org/10.48550/arXiv.2001.06683">https://doi.org/10.48550/arXiv.2001.06683</a>
  chicago: Gaudi, B. Scott, Sara Seager, Bertrand Mennesson, Alina Kiessling, Keith
    Warfield, Kerri Cahoy, John T. Clarke, et al. “The Habitable Exoplanet Observatory
    (HabEx) Mission Concept Study Final Report.” <i>ArXiv</i>, n.d. <a href="https://doi.org/10.48550/arXiv.2001.06683">https://doi.org/10.48550/arXiv.2001.06683</a>.
  ieee: B. S. Gaudi <i>et al.</i>, “The habitable exoplanet observatory (HabEx) mission
    concept study final report,” <i>arXiv</i>. .
  ista: Gaudi BS et al. The habitable exoplanet observatory (HabEx) mission concept
    study final report. arXiv, 2001.06683.
  mla: Gaudi, B. Scott, et al. “The Habitable Exoplanet Observatory (HabEx) Mission
    Concept Study Final Report.” <i>ArXiv</i>, 2001.06683, doi:<a href="https://doi.org/10.48550/arXiv.2001.06683">10.48550/arXiv.2001.06683</a>.
  short: B.S. Gaudi, S. Seager, B. Mennesson, A. Kiessling, K. Warfield, K. Cahoy,
    J.T. Clarke, S.D.-G. Shawn Domagal-Goldman, L. Feinberg, O. Guyon, J. Kasdin,
    D. Mawet, P. Plavchan, T. Robinson, L. Rogers, P. Scowen, R. Somerville, K. Stapelfeldt,
    C. Stark, D. Stern, M. Turnbull, R. Amini, G. Kuan, S. Martin, R. Morgan, D. Redding,
    H.P. Stahl, R. Webb, O.A.-S. Oscar Alvarez-Salazar, W.L. Arnold, M. Arya, B. Balasubramanian,
    M. Baysinger, R. Bell, C. Below, J. Benson, L. Blais, J. Booth, R. Bourgeois,
    C. Bradford, A. Brewer, T. Brooks, E. Cady, M. Caldwell, R. Calvet, S. Carr, D.
    Chan, V. Cormarkovic, K. Coste, C. Cox, R. Danner, J. Davis, L. Dewell, L. Dorsett,
    D. Dunn, M. East, M. Effinger, R. Eng, G. Freebury, J. Garcia, J. Gaskin, S. Greene,
    J. Hennessy, E. Hilgemann, B. Hood, W. Holota, S. Howe, P. Huang, T. Hull, R.
    Hunt, K. Hurd, S. Johnson, A. Kissil, B. Knight, D. Kolenz, O. Kraus, J. Krist,
    M. Li, D. Lisman, M. Mandic, J. Mann, L. Marchen, C.M.-R. Colleen Marrese-Reading,
    J. McCready, J. McGown, J. Missun, A. Miyaguchi, B. Moore, B. Nemati, S. Nikzad,
    J. Nissen, M. Novicki, T. Perrine, C. Pineda, O. Polanco, D. Putnam, A. Qureshi,
    M. Richards, A.J.E. Riggs, M. Rodgers, M. Rud, N. Saini, D. Scalisi, D. Scharf,
    K. Schulz, G. Serabyn, N. Sigrist, G. Sikkia, A. Singleton, S. Shaklan, S. Smith,
    B. Southerd, M. Stahl, J. Steeves, B. Sturges, C. Sullivan, H. Tang, N. Taras,
    J. Tesch, M. Therrell, H. Tseng, M. Valente, D.V. Buren, J. Villalvazo, S. Warwick,
    D. Webb, T. Westerhoff, R. Wofford, G. Wu, J. Woo, M. Wood, J. Ziemer, G. Arney,
    J. Anderson, J.M.-A. Jesús Maíz-Apellániz, J. Bartlett, R. Belikov, E. Bendek,
    B. Cenko, E. Douglas, S. Dulz, C. Evans, V. Faramaz, Y.K. Feng, H. Ferguson, K.
    Follette, S. Ford, M. García, M. Geha, D. Gelino, Y.L.L. Götberg, S. Hildebrandt,
    R. Hu, K. Jahnke, G. Kennedy, L. Kreidberg, A. Isella, E. Lopez, F. Marchis, L.
    Macri, M. Marley, W. Matzko, J. Mazoyer, S. McCandliss, T. Meshkat, C. Mordasini,
    P. Morris, E. Nielsen, P. Newman, E. Petigura, M. Postman, A. Reines, A. Roberge,
    I. Roederer, G. Ruane, E. Schwieterman, D. Sirbu, C. Spalding, H. Teplitz, J.
    Tumlinson, N. Turner, J. Werk, A. Wofford, M. Wyatt, A. Young, R. Zellem, ArXiv
    (n.d.).
date_created: 2023-08-21T10:10:21Z
date_published: 2020-01-18T00:00:00Z
date_updated: 2023-08-22T13:13:18Z
day: '18'
doi: 10.48550/arXiv.2001.06683
extern: '1'
external_id:
  arxiv:
  - '2001.06683'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: ' https://doi.org/10.48550/arXiv.2001.06683'
month: '01'
oa: 1
oa_version: Preprint
publication: arXiv
publication_status: submitted
status: public
title: The habitable exoplanet observatory (HabEx) mission concept study final report
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '14096'
abstract:
- lang: eng
  text: A binary neutron star merger has been observed in a multi-messenger detection
    of gravitational wave (GW) and electromagnetic (EM) radiation. Binary neutron
    stars that merge within a Hubble time, as well as many other compact binaries,
    are expected to form via common envelope evolution. Yet five decades of research
    on common envelope evolution have not yet resulted in a satisfactory understanding
    of the multi-spatial multi-timescale evolution for the systems that lead to compact
    binaries. In this paper, we report on the first successful simulations of common
    envelope ejection leading to binary neutron star formation in 3D hydrodynamics.
    We simulate the dynamical inspiral phase of the interaction between a 12M⊙ red
    supergiant and a 1.4M⊙ neutron star for different initial separations and initial
    conditions. For all of our simulations, we find complete envelope ejection and
    final orbital separations of af≈1.3-5.1R⊙ depending on the simulation and criterion,
    leading to binary neutron stars that can merge within a Hubble time. We find αCE-equivalent
    efficiencies of ≈0.1-2.7 depending on the simulation and criterion, but this may
    be specific for these extended progenitors. We fully resolve the core of the star
    to ≲0.005R⊙ and our 3D hydrodynamics simulations are informed by an adjusted 1D
    analytic energy formalism and a 2D kinematics study in order to overcome the prohibitive
    computational cost of simulating these systems. The framework we develop in this
    paper can be used to simulate a wide variety of interactions between stars, from
    stellar mergers to common envelope episodes leading to GW sources.
article_number: '2011.06630'
article_processing_charge: No
arxiv: 1
author:
- first_name: Jamie A. P. Law-Smith
  full_name: Jamie A. P. Law-Smith, Jamie A. P. Law-Smith
  last_name: Jamie A. P. Law-Smith
- first_name: Rosa Wallace
  full_name: Everson, Rosa Wallace
  last_name: Everson
- first_name: Enrico Ramirez-Ruiz
  full_name: Enrico Ramirez-Ruiz, Enrico Ramirez-Ruiz
  last_name: Enrico Ramirez-Ruiz
- first_name: Selma E. de
  full_name: Mink, Selma E. de
  last_name: Mink
- first_name: Lieke A. C. van
  full_name: Son, Lieke A. C. van
  last_name: Son
- first_name: Ylva Louise Linsdotter
  full_name: Götberg, Ylva Louise Linsdotter
  id: d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d
  last_name: Götberg
  orcid: 0000-0002-6960-6911
- first_name: Stefan
  full_name: Zellmann, Stefan
  last_name: Zellmann
- first_name: Alejandro Vigna-Gómez
  full_name: Alejandro Vigna-Gómez, Alejandro Vigna-Gómez
  last_name: Alejandro Vigna-Gómez
- first_name: Mathieu
  full_name: Renzo, Mathieu
  last_name: Renzo
- first_name: Samantha
  full_name: Wu, Samantha
  last_name: Wu
- first_name: Sophie L.
  full_name: Schrøder, Sophie L.
  last_name: Schrøder
- first_name: Ryan J.
  full_name: Foley, Ryan J.
  last_name: Foley
- first_name: Tenley Hutchinson-Smith
  full_name: Tenley Hutchinson-Smith, Tenley Hutchinson-Smith
  last_name: Tenley Hutchinson-Smith
citation:
  ama: Jamie A. P. Law-Smith JAPL-S, Everson RW, Enrico Ramirez-Ruiz ER-R, et al.
    Successful common envelope ejection and binary neutron star formation in 3D hydrodynamics.
    <i>arXiv</i>. doi:<a href="https://doi.org/10.48550/arXiv.2011.06630">10.48550/arXiv.2011.06630</a>
  apa: Jamie A. P. Law-Smith, J. A. P. L.-S., Everson, R. W., Enrico Ramirez-Ruiz,
    E. R.-R., Mink, S. E. de, Son, L. A. C. van, Götberg, Y. L. L., … Tenley Hutchinson-Smith,
    T. H.-S. (n.d.). Successful common envelope ejection and binary neutron star formation
    in 3D hydrodynamics. <i>arXiv</i>. <a href="https://doi.org/10.48550/arXiv.2011.06630">https://doi.org/10.48550/arXiv.2011.06630</a>
  chicago: Jamie A. P. Law-Smith, Jamie A. P. Law-Smith, Rosa Wallace Everson, Enrico
    Ramirez-Ruiz Enrico Ramirez-Ruiz, Selma E. de Mink, Lieke A. C. van Son, Ylva
    Louise Linsdotter Götberg, Stefan Zellmann, et al. “Successful Common Envelope
    Ejection and Binary Neutron Star Formation in 3D Hydrodynamics.” <i>ArXiv</i>,
    n.d. <a href="https://doi.org/10.48550/arXiv.2011.06630">https://doi.org/10.48550/arXiv.2011.06630</a>.
  ieee: J. A. P. L.-S. Jamie A. P. Law-Smith <i>et al.</i>, “Successful common envelope
    ejection and binary neutron star formation in 3D hydrodynamics,” <i>arXiv</i>.
    .
  ista: Jamie A. P. Law-Smith JAPL-S, Everson RW, Enrico Ramirez-Ruiz ER-R, Mink SE
    de, Son LAC van, Götberg YLL, Zellmann S, Alejandro Vigna-Gómez AV-G, Renzo M,
    Wu S, Schrøder SL, Foley RJ, Tenley Hutchinson-Smith TH-S. Successful common envelope
    ejection and binary neutron star formation in 3D hydrodynamics. arXiv, 2011.06630.
  mla: Jamie A. P. Law-Smith, Jamie A. P. Law-Smith, et al. “Successful Common Envelope
    Ejection and Binary Neutron Star Formation in 3D Hydrodynamics.” <i>ArXiv</i>,
    2011.06630, doi:<a href="https://doi.org/10.48550/arXiv.2011.06630">10.48550/arXiv.2011.06630</a>.
  short: J.A.P.L.-S. Jamie A. P. Law-Smith, R.W. Everson, E.R.-R. Enrico Ramirez-Ruiz,
    S.E. de Mink, L.A.C. van Son, Y.L.L. Götberg, S. Zellmann, A.V.-G. Alejandro Vigna-Gómez,
    M. Renzo, S. Wu, S.L. Schrøder, R.J. Foley, T.H.-S. Tenley Hutchinson-Smith, ArXiv
    (n.d.).
date_created: 2023-08-21T10:10:41Z
date_published: 2020-11-12T00:00:00Z
date_updated: 2025-01-14T14:22:04Z
day: '12'
doi: 10.48550/arXiv.2011.06630
extern: '1'
external_id:
  arxiv:
  - '2011.06630'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2011.06630
month: '11'
oa: 1
oa_version: Preprint
publication: arXiv
publication_status: submitted
status: public
title: Successful common envelope ejection and binary neutron star formation in 3D
  hydrodynamics
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '14125'
abstract:
- lang: eng
  text: "Motivation: Recent technological advances have led to an increase in the
    production and availability of single-cell data. The ability to integrate a set
    of multi-technology measurements would allow the identification of biologically
    or clinically meaningful observations through the unification of the perspectives
    afforded by each technology. In most cases, however, profiling technologies consume
    the used cells and thus pairwise correspondences between datasets are lost. Due
    to the sheer size single-cell datasets can acquire, scalable algorithms that are
    able to universally match single-cell measurements carried out in one cell to
    its corresponding sibling in another technology are needed.\r\nResults: We propose
    Single-Cell data Integration via Matching (SCIM), a scalable approach to recover
    such correspondences in two or more technologies. SCIM assumes that cells share
    a common (low-dimensional) underlying structure and that the underlying cell distribution
    is approximately constant across technologies. It constructs a technology-invariant
    latent space using an autoencoder framework with an adversarial objective. Multi-modal
    datasets are integrated by pairing cells across technologies using a bipartite
    matching scheme that operates on the low-dimensional latent representations. We
    evaluate SCIM on a simulated cellular branching process and show that the cell-to-cell
    matches derived by SCIM reflect the same pseudotime on the simulated dataset.
    Moreover, we apply our method to two real-world scenarios, a melanoma tumor sample
    and a human bone marrow sample, where we pair cells from a scRNA dataset to their
    sibling cells in a CyTOF dataset achieving 90% and 78% cell-matching accuracy
    for each one of the samples, respectively."
article_processing_charge: No
article_type: original
author:
- first_name: Stefan G
  full_name: Stark, Stefan G
  last_name: Stark
- first_name: Joanna
  full_name: Ficek, Joanna
  last_name: Ficek
- first_name: Francesco
  full_name: Locatello, Francesco
  id: 26cfd52f-2483-11ee-8040-88983bcc06d4
  last_name: Locatello
  orcid: 0000-0002-4850-0683
- first_name: Ximena
  full_name: Bonilla, Ximena
  last_name: Bonilla
- first_name: Stéphane
  full_name: Chevrier, Stéphane
  last_name: Chevrier
- first_name: Franziska
  full_name: Singer, Franziska
  last_name: Singer
- first_name: Rudolf
  full_name: Aebersold, Rudolf
  last_name: Aebersold
- first_name: Faisal S
  full_name: Al-Quaddoomi, Faisal S
  last_name: Al-Quaddoomi
- first_name: Jonas
  full_name: Albinus, Jonas
  last_name: Albinus
- first_name: Ilaria
  full_name: Alborelli, Ilaria
  last_name: Alborelli
- first_name: Sonali
  full_name: Andani, Sonali
  last_name: Andani
- first_name: Per-Olof
  full_name: Attinger, Per-Olof
  last_name: Attinger
- first_name: Marina
  full_name: Bacac, Marina
  last_name: Bacac
- first_name: Daniel
  full_name: Baumhoer, Daniel
  last_name: Baumhoer
- first_name: Beatrice
  full_name: Beck-Schimmer, Beatrice
  last_name: Beck-Schimmer
- first_name: Niko
  full_name: Beerenwinkel, Niko
  last_name: Beerenwinkel
- first_name: Christian
  full_name: Beisel, Christian
  last_name: Beisel
- first_name: Lara
  full_name: Bernasconi, Lara
  last_name: Bernasconi
- first_name: Anne
  full_name: Bertolini, Anne
  last_name: Bertolini
- first_name: Bernd
  full_name: Bodenmiller, Bernd
  last_name: Bodenmiller
- first_name: Ximena
  full_name: Bonilla, Ximena
  last_name: Bonilla
- first_name: Ruben
  full_name: Casanova, Ruben
  last_name: Casanova
- first_name: Stéphane
  full_name: Chevrier, Stéphane
  last_name: Chevrier
- first_name: Natalia
  full_name: Chicherova, Natalia
  last_name: Chicherova
- first_name: Maya
  full_name: D'Costa, Maya
  last_name: D'Costa
- first_name: Esther
  full_name: Danenberg, Esther
  last_name: Danenberg
- first_name: Natalie
  full_name: Davidson, Natalie
  last_name: Davidson
- first_name: Monica-Andreea Dră
  full_name: gan, Monica-Andreea Dră
  last_name: gan
- first_name: Reinhard
  full_name: Dummer, Reinhard
  last_name: Dummer
- first_name: Stefanie
  full_name: Engler, Stefanie
  last_name: Engler
- first_name: Martin
  full_name: Erkens, Martin
  last_name: Erkens
- first_name: Katja
  full_name: Eschbach, Katja
  last_name: Eschbach
- first_name: Cinzia
  full_name: Esposito, Cinzia
  last_name: Esposito
- first_name: André
  full_name: Fedier, André
  last_name: Fedier
- first_name: Pedro
  full_name: Ferreira, Pedro
  last_name: Ferreira
- first_name: Joanna
  full_name: Ficek, Joanna
  last_name: Ficek
- first_name: Anja L
  full_name: Frei, Anja L
  last_name: Frei
- first_name: Bruno
  full_name: Frey, Bruno
  last_name: Frey
- first_name: Sandra
  full_name: Goetze, Sandra
  last_name: Goetze
- first_name: Linda
  full_name: Grob, Linda
  last_name: Grob
- first_name: Gabriele
  full_name: Gut, Gabriele
  last_name: Gut
- first_name: Detlef
  full_name: Günther, Detlef
  last_name: Günther
- first_name: Martina
  full_name: Haberecker, Martina
  last_name: Haberecker
- first_name: Pirmin
  full_name: Haeuptle, Pirmin
  last_name: Haeuptle
- first_name: Viola
  full_name: Heinzelmann-Schwarz, Viola
  last_name: Heinzelmann-Schwarz
- first_name: Sylvia
  full_name: Herter, Sylvia
  last_name: Herter
- first_name: Rene
  full_name: Holtackers, Rene
  last_name: Holtackers
- first_name: Tamara
  full_name: Huesser, Tamara
  last_name: Huesser
- first_name: Anja
  full_name: Irmisch, Anja
  last_name: Irmisch
- first_name: Francis
  full_name: Jacob, Francis
  last_name: Jacob
- first_name: Andrea
  full_name: Jacobs, Andrea
  last_name: Jacobs
- first_name: Tim M
  full_name: Jaeger, Tim M
  last_name: Jaeger
- first_name: Katharina
  full_name: Jahn, Katharina
  last_name: Jahn
- first_name: Alva R
  full_name: James, Alva R
  last_name: James
- first_name: Philip M
  full_name: Jermann, Philip M
  last_name: Jermann
- first_name: André
  full_name: Kahles, André
  last_name: Kahles
- first_name: Abdullah
  full_name: Kahraman, Abdullah
  last_name: Kahraman
- first_name: Viktor H
  full_name: Koelzer, Viktor H
  last_name: Koelzer
- first_name: Werner
  full_name: Kuebler, Werner
  last_name: Kuebler
- first_name: Jack
  full_name: Kuipers, Jack
  last_name: Kuipers
- first_name: Christian P
  full_name: Kunze, Christian P
  last_name: Kunze
- first_name: Christian
  full_name: Kurzeder, Christian
  last_name: Kurzeder
- first_name: Kjong-Van
  full_name: Lehmann, Kjong-Van
  last_name: Lehmann
- first_name: Mitchell
  full_name: Levesque, Mitchell
  last_name: Levesque
- first_name: Sebastian
  full_name: Lugert, Sebastian
  last_name: Lugert
- first_name: Gerd
  full_name: Maass, Gerd
  last_name: Maass
- first_name: Markus
  full_name: Manz, Markus
  last_name: Manz
- first_name: Philipp
  full_name: Markolin, Philipp
  last_name: Markolin
- first_name: Julien
  full_name: Mena, Julien
  last_name: Mena
- first_name: Ulrike
  full_name: Menzel, Ulrike
  last_name: Menzel
- first_name: Julian M
  full_name: Metzler, Julian M
  last_name: Metzler
- first_name: Nicola
  full_name: Miglino, Nicola
  last_name: Miglino
- first_name: Emanuela S
  full_name: Milani, Emanuela S
  last_name: Milani
- first_name: Holger
  full_name: Moch, Holger
  last_name: Moch
- first_name: Simone
  full_name: Muenst, Simone
  last_name: Muenst
- first_name: Riccardo
  full_name: Murri, Riccardo
  last_name: Murri
- first_name: Charlotte KY
  full_name: Ng, Charlotte KY
  last_name: Ng
- first_name: Stefan
  full_name: Nicolet, Stefan
  last_name: Nicolet
- first_name: Marta
  full_name: Nowak, Marta
  last_name: Nowak
- first_name: Patrick GA
  full_name: Pedrioli, Patrick GA
  last_name: Pedrioli
- first_name: Lucas
  full_name: Pelkmans, Lucas
  last_name: Pelkmans
- first_name: Salvatore
  full_name: Piscuoglio, Salvatore
  last_name: Piscuoglio
- first_name: Michael
  full_name: Prummer, Michael
  last_name: Prummer
- first_name: Mathilde
  full_name: Ritter, Mathilde
  last_name: Ritter
- first_name: Christian
  full_name: Rommel, Christian
  last_name: Rommel
- first_name: María L
  full_name: Rosano-González, María L
  last_name: Rosano-González
- first_name: Gunnar
  full_name: Rätsch, Gunnar
  last_name: Rätsch
- first_name: Natascha
  full_name: Santacroce, Natascha
  last_name: Santacroce
- first_name: Jacobo Sarabia del
  full_name: Castillo, Jacobo Sarabia del
  last_name: Castillo
- first_name: Ramona
  full_name: Schlenker, Ramona
  last_name: Schlenker
- first_name: Petra C
  full_name: Schwalie, Petra C
  last_name: Schwalie
- first_name: Severin
  full_name: Schwan, Severin
  last_name: Schwan
- first_name: Tobias
  full_name: Schär, Tobias
  last_name: Schär
- first_name: Gabriela
  full_name: Senti, Gabriela
  last_name: Senti
- first_name: Franziska
  full_name: Singer, Franziska
  last_name: Singer
- first_name: Sujana
  full_name: Sivapatham, Sujana
  last_name: Sivapatham
- first_name: Berend
  full_name: Snijder, Berend
  last_name: Snijder
- first_name: Bettina
  full_name: Sobottka, Bettina
  last_name: Sobottka
- first_name: Vipin T
  full_name: Sreedharan, Vipin T
  last_name: Sreedharan
- first_name: Stefan
  full_name: Stark, Stefan
  last_name: Stark
- first_name: Daniel J
  full_name: Stekhoven, Daniel J
  last_name: Stekhoven
- first_name: Alexandre PA
  full_name: Theocharides, Alexandre PA
  last_name: Theocharides
- first_name: Tinu M
  full_name: Thomas, Tinu M
  last_name: Thomas
- first_name: Markus
  full_name: Tolnay, Markus
  last_name: Tolnay
- first_name: Vinko
  full_name: Tosevski, Vinko
  last_name: Tosevski
- first_name: Nora C
  full_name: Toussaint, Nora C
  last_name: Toussaint
- first_name: Mustafa A
  full_name: Tuncel, Mustafa A
  last_name: Tuncel
- first_name: Marina
  full_name: Tusup, Marina
  last_name: Tusup
- first_name: Audrey Van
  full_name: Drogen, Audrey Van
  last_name: Drogen
- first_name: Marcus
  full_name: Vetter, Marcus
  last_name: Vetter
- first_name: Tatjana
  full_name: Vlajnic, Tatjana
  last_name: Vlajnic
- first_name: Sandra
  full_name: Weber, Sandra
  last_name: Weber
- first_name: Walter P
  full_name: Weber, Walter P
  last_name: Weber
- first_name: Rebekka
  full_name: Wegmann, Rebekka
  last_name: Wegmann
- first_name: Michael
  full_name: Weller, Michael
  last_name: Weller
- first_name: Fabian
  full_name: Wendt, Fabian
  last_name: Wendt
- first_name: Norbert
  full_name: Wey, Norbert
  last_name: Wey
- first_name: Andreas
  full_name: Wicki, Andreas
  last_name: Wicki
- first_name: Bernd
  full_name: Wollscheid, Bernd
  last_name: Wollscheid
- first_name: Shuqing
  full_name: Yu, Shuqing
  last_name: Yu
- first_name: Johanna
  full_name: Ziegler, Johanna
  last_name: Ziegler
- first_name: Marc
  full_name: Zimmermann, Marc
  last_name: Zimmermann
- first_name: Martin
  full_name: Zoche, Martin
  last_name: Zoche
- first_name: Gregor
  full_name: Zuend, Gregor
  last_name: Zuend
- first_name: Gunnar
  full_name: Rätsch, Gunnar
  last_name: Rätsch
- first_name: Kjong-Van
  full_name: Lehmann, Kjong-Van
  last_name: Lehmann
citation:
  ama: 'Stark SG, Ficek J, Locatello F, et al. SCIM: Universal single-cell matching
    with unpaired feature sets. <i>Bioinformatics</i>. 2020;36(Supplement_2):i919-i927.
    doi:<a href="https://doi.org/10.1093/bioinformatics/btaa843">10.1093/bioinformatics/btaa843</a>'
  apa: 'Stark, S. G., Ficek, J., Locatello, F., Bonilla, X., Chevrier, S., Singer,
    F., … Lehmann, K.-V. (2020). SCIM: Universal single-cell matching with unpaired
    feature sets. <i>Bioinformatics</i>. Oxford University Press. <a href="https://doi.org/10.1093/bioinformatics/btaa843">https://doi.org/10.1093/bioinformatics/btaa843</a>'
  chicago: 'Stark, Stefan G, Joanna Ficek, Francesco Locatello, Ximena Bonilla, Stéphane
    Chevrier, Franziska Singer, Rudolf Aebersold, et al. “SCIM: Universal Single-Cell
    Matching with Unpaired Feature Sets.” <i>Bioinformatics</i>. Oxford University
    Press, 2020. <a href="https://doi.org/10.1093/bioinformatics/btaa843">https://doi.org/10.1093/bioinformatics/btaa843</a>.'
  ieee: 'S. G. Stark <i>et al.</i>, “SCIM: Universal single-cell matching with unpaired
    feature sets,” <i>Bioinformatics</i>, vol. 36, no. Supplement_2. Oxford University
    Press, pp. i919–i927, 2020.'
  ista: 'Stark SG et al. 2020. SCIM: Universal single-cell matching with unpaired
    feature sets. Bioinformatics. 36(Supplement_2), i919–i927.'
  mla: 'Stark, Stefan G., et al. “SCIM: Universal Single-Cell Matching with Unpaired
    Feature Sets.” <i>Bioinformatics</i>, vol. 36, no. Supplement_2, Oxford University
    Press, 2020, pp. i919–27, doi:<a href="https://doi.org/10.1093/bioinformatics/btaa843">10.1093/bioinformatics/btaa843</a>.'
  short: S.G. Stark, J. Ficek, F. Locatello, X. Bonilla, S. Chevrier, F. Singer, R.
    Aebersold, F.S. Al-Quaddoomi, J. Albinus, I. Alborelli, S. Andani, P.-O. Attinger,
    M. Bacac, D. Baumhoer, B. Beck-Schimmer, N. Beerenwinkel, C. Beisel, L. Bernasconi,
    A. Bertolini, B. Bodenmiller, X. Bonilla, R. Casanova, S. Chevrier, N. Chicherova,
    M. D’Costa, E. Danenberg, N. Davidson, M.-A.D. gan, R. Dummer, S. Engler, M. Erkens,
    K. Eschbach, C. Esposito, A. Fedier, P. Ferreira, J. Ficek, A.L. Frei, B. Frey,
    S. Goetze, L. Grob, G. Gut, D. Günther, M. Haberecker, P. Haeuptle, V. Heinzelmann-Schwarz,
    S. Herter, R. Holtackers, T. Huesser, A. Irmisch, F. Jacob, A. Jacobs, T.M. Jaeger,
    K. Jahn, A.R. James, P.M. Jermann, A. Kahles, A. Kahraman, V.H. Koelzer, W. Kuebler,
    J. Kuipers, C.P. Kunze, C. Kurzeder, K.-V. Lehmann, M. Levesque, S. Lugert, G.
    Maass, M. Manz, P. Markolin, J. Mena, U. Menzel, J.M. Metzler, N. Miglino, E.S.
    Milani, H. Moch, S. Muenst, R. Murri, C.K. Ng, S. Nicolet, M. Nowak, P.G. Pedrioli,
    L. Pelkmans, S. Piscuoglio, M. Prummer, M. Ritter, C. Rommel, M.L. Rosano-González,
    G. Rätsch, N. Santacroce, J.S. del Castillo, R. Schlenker, P.C. Schwalie, S. Schwan,
    T. Schär, G. Senti, F. Singer, S. Sivapatham, B. Snijder, B. Sobottka, V.T. Sreedharan,
    S. Stark, D.J. Stekhoven, A.P. Theocharides, T.M. Thomas, M. Tolnay, V. Tosevski,
    N.C. Toussaint, M.A. Tuncel, M. Tusup, A.V. Drogen, M. Vetter, T. Vlajnic, S.
    Weber, W.P. Weber, R. Wegmann, M. Weller, F. Wendt, N. Wey, A. Wicki, B. Wollscheid,
    S. Yu, J. Ziegler, M. Zimmermann, M. Zoche, G. Zuend, G. Rätsch, K.-V. Lehmann,
    Bioinformatics 36 (2020) i919–i927.
date_created: 2023-08-21T12:28:20Z
date_published: 2020-12-01T00:00:00Z
date_updated: 2023-09-11T10:21:00Z
day: '01'
department:
- _id: FrLo
doi: 10.1093/bioinformatics/btaa843
extern: '1'
external_id:
  pmid:
  - '33381818'
intvolume: '        36'
issue: Supplement_2
keyword:
- Computational Mathematics
- Computational Theory and Mathematics
- Computer Science Applications
- Molecular Biology
- Biochemistry
- Statistics and Probability
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1093/bioinformatics/btaa843
month: '12'
oa: 1
oa_version: Published Version
page: i919-i927
pmid: 1
publication: Bioinformatics
publication_identifier:
  eissn:
  - 1367-4811
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
related_material:
  link:
  - relation: software
    url: https://github.com/ratschlab/scim
scopus_import: '1'
status: public
title: 'SCIM: Universal single-cell matching with unpaired feature sets'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 36
year: '2020'
...
---
_id: '14186'
abstract:
- lang: eng
  text: "The goal of the unsupervised learning of disentangled representations is
    to\r\nseparate the independent explanatory factors of variation in the data without\r\naccess
    to supervision. In this paper, we summarize the results of Locatello et\r\nal.,
    2019, and focus on their implications for practitioners. We discuss the\r\ntheoretical
    result showing that the unsupervised learning of disentangled\r\nrepresentations
    is fundamentally impossible without inductive biases and the\r\npractical challenges
    it entails. Finally, we comment on our experimental\r\nfindings, highlighting
    the limitations of state-of-the-art approaches and\r\ndirections for future research."
article_processing_charge: No
arxiv: 1
author:
- first_name: Francesco
  full_name: Locatello, Francesco
  id: 26cfd52f-2483-11ee-8040-88983bcc06d4
  last_name: Locatello
  orcid: 0000-0002-4850-0683
- first_name: Stefan
  full_name: Bauer, Stefan
  last_name: Bauer
- first_name: Mario
  full_name: Lucic, Mario
  last_name: Lucic
- first_name: Gunnar
  full_name: Rätsch, Gunnar
  last_name: Rätsch
- first_name: Sylvain
  full_name: Gelly, Sylvain
  last_name: Gelly
- first_name: Bernhard
  full_name: Schölkopf, Bernhard
  last_name: Schölkopf
- first_name: Olivier
  full_name: Bachem, Olivier
  last_name: Bachem
citation:
  ama: 'Locatello F, Bauer S, Lucic M, et al. A commentary on the unsupervised learning
    of disentangled representations. In: <i>The 34th AAAI Conference on Artificial
    Intelligence</i>. Vol 34. Association for the Advancement of Artificial Intelligence;
    2020:13681-13684. doi:<a href="https://doi.org/10.1609/aaai.v34i09.7120">10.1609/aaai.v34i09.7120</a>'
  apa: 'Locatello, F., Bauer, S., Lucic, M., Rätsch, G., Gelly, S., Schölkopf, B.,
    &#38; Bachem, O. (2020). A commentary on the unsupervised learning of disentangled
    representations. In <i>The 34th AAAI Conference on Artificial Intelligence</i>
    (Vol. 34, pp. 13681–13684). New York, NY, United States: Association for the Advancement
    of Artificial Intelligence. <a href="https://doi.org/10.1609/aaai.v34i09.7120">https://doi.org/10.1609/aaai.v34i09.7120</a>'
  chicago: Locatello, Francesco, Stefan Bauer, Mario Lucic, Gunnar Rätsch, Sylvain
    Gelly, Bernhard Schölkopf, and Olivier Bachem. “A Commentary on the Unsupervised
    Learning of Disentangled Representations.” In <i>The 34th AAAI Conference on Artificial
    Intelligence</i>, 34:13681–84. Association for the Advancement of Artificial Intelligence,
    2020. <a href="https://doi.org/10.1609/aaai.v34i09.7120">https://doi.org/10.1609/aaai.v34i09.7120</a>.
  ieee: F. Locatello <i>et al.</i>, “A commentary on the unsupervised learning of
    disentangled representations,” in <i>The 34th AAAI Conference on Artificial Intelligence</i>,
    New York, NY, United States, 2020, vol. 34, no. 9, pp. 13681–13684.
  ista: 'Locatello F, Bauer S, Lucic M, Rätsch G, Gelly S, Schölkopf B, Bachem O.
    2020. A commentary on the unsupervised learning of disentangled representations.
    The 34th AAAI Conference on Artificial Intelligence. AAAI: Conference on Artificial
    Intelligence vol. 34, 13681–13684.'
  mla: Locatello, Francesco, et al. “A Commentary on the Unsupervised Learning of
    Disentangled Representations.” <i>The 34th AAAI Conference on Artificial Intelligence</i>,
    vol. 34, no. 9, Association for the Advancement of Artificial Intelligence, 2020,
    pp. 13681–84, doi:<a href="https://doi.org/10.1609/aaai.v34i09.7120">10.1609/aaai.v34i09.7120</a>.
  short: F. Locatello, S. Bauer, M. Lucic, G. Rätsch, S. Gelly, B. Schölkopf, O. Bachem,
    in:, The 34th AAAI Conference on Artificial Intelligence, Association for the
    Advancement of Artificial Intelligence, 2020, pp. 13681–13684.
conference:
  end_date: 2020-02-12
  location: New York, NY, United States
  name: 'AAAI: Conference on Artificial Intelligence'
  start_date: 2020-02-07
date_created: 2023-08-22T14:07:26Z
date_published: 2020-07-28T00:00:00Z
date_updated: 2023-09-12T07:44:48Z
day: '28'
department:
- _id: FrLo
doi: 10.1609/aaai.v34i09.7120
extern: '1'
external_id:
  arxiv:
  - '2007.14184'
intvolume: '        34'
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://arxiv.org/abs/2007.14184
month: '07'
oa: 1
oa_version: Preprint
page: 13681-13684
publication: The 34th AAAI Conference on Artificial Intelligence
publication_identifier:
  eissn:
  - 2374-3468
  isbn:
  - '9781577358350'
publication_status: published
publisher: Association for the Advancement of Artificial Intelligence
quality_controlled: '1'
scopus_import: '1'
status: public
title: A commentary on the unsupervised learning of disentangled representations
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 34
year: '2020'
...
---
_id: '14187'
abstract:
- lang: eng
  text: "We propose a novel Stochastic Frank-Wolfe (a.k.a. conditional gradient)\r\nalgorithm
    for constrained smooth finite-sum minimization with a generalized\r\nlinear prediction/structure.
    This class of problems includes empirical risk\r\nminimization with sparse, low-rank,
    or other structured constraints. The\r\nproposed method is simple to implement,
    does not require step-size tuning, and\r\nhas a constant per-iteration cost that
    is independent of the dataset size.\r\nFurthermore, as a byproduct of the method
    we obtain a stochastic estimator of\r\nthe Frank-Wolfe gap that can be used as
    a stopping criterion. Depending on the\r\nsetting, the proposed method matches
    or improves on the best computational\r\nguarantees for Stochastic Frank-Wolfe
    algorithms. Benchmarks on several\r\ndatasets highlight different regimes in which
    the proposed method exhibits a\r\nfaster empirical convergence than related methods.
    Finally, we provide an\r\nimplementation of all considered methods in an open-source
    package."
alternative_title:
- PMLR
article_processing_charge: No
arxiv: 1
author:
- first_name: Geoffrey
  full_name: Négiar, Geoffrey
  last_name: Négiar
- first_name: Gideon
  full_name: Dresdner, Gideon
  last_name: Dresdner
- first_name: Alicia
  full_name: Tsai, Alicia
  last_name: Tsai
- first_name: Laurent El
  full_name: Ghaoui, Laurent El
  last_name: Ghaoui
- first_name: Francesco
  full_name: Locatello, Francesco
  id: 26cfd52f-2483-11ee-8040-88983bcc06d4
  last_name: Locatello
  orcid: 0000-0002-4850-0683
- first_name: Robert M.
  full_name: Freund, Robert M.
  last_name: Freund
- first_name: Fabian
  full_name: Pedregosa, Fabian
  last_name: Pedregosa
citation:
  ama: 'Négiar G, Dresdner G, Tsai A, et al. Stochastic Frank-Wolfe for constrained
    finite-sum minimization. In: <i>Proceedings of the 37th International Conference
    on Machine Learning</i>. Vol 119. ; 2020:7253-7262.'
  apa: Négiar, G., Dresdner, G., Tsai, A., Ghaoui, L. E., Locatello, F., Freund, R.
    M., &#38; Pedregosa, F. (2020). Stochastic Frank-Wolfe for constrained finite-sum
    minimization. In <i>Proceedings of the 37th International Conference on Machine
    Learning</i> (Vol. 119, pp. 7253–7262). Virtual.
  chicago: Négiar, Geoffrey, Gideon Dresdner, Alicia Tsai, Laurent El Ghaoui, Francesco
    Locatello, Robert M. Freund, and Fabian Pedregosa. “Stochastic Frank-Wolfe for
    Constrained Finite-Sum Minimization.” In <i>Proceedings of the 37th International
    Conference on Machine Learning</i>, 119:7253–62, 2020.
  ieee: G. Négiar <i>et al.</i>, “Stochastic Frank-Wolfe for constrained finite-sum
    minimization,” in <i>Proceedings of the 37th International Conference on Machine
    Learning</i>, Virtual, 2020, vol. 119, pp. 7253–7262.
  ista: Négiar G, Dresdner G, Tsai A, Ghaoui LE, Locatello F, Freund RM, Pedregosa
    F. 2020. Stochastic Frank-Wolfe for constrained finite-sum minimization. Proceedings
    of the 37th International Conference on Machine Learning. International Conference
    on Machine Learning, PMLR, vol. 119, 7253–7262.
  mla: Négiar, Geoffrey, et al. “Stochastic Frank-Wolfe for Constrained Finite-Sum
    Minimization.” <i>Proceedings of the 37th International Conference on Machine
    Learning</i>, vol. 119, 2020, pp. 7253–62.
  short: G. Négiar, G. Dresdner, A. Tsai, L.E. Ghaoui, F. Locatello, R.M. Freund,
    F. Pedregosa, in:, Proceedings of the 37th International Conference on Machine
    Learning, 2020, pp. 7253–7262.
conference:
  end_date: 2020-07-18
  location: Virtual
  name: International Conference on Machine Learning
  start_date: 2020-07-13
date_created: 2023-08-22T14:07:52Z
date_published: 2020-07-27T00:00:00Z
date_updated: 2023-09-12T08:03:40Z
day: '27'
department:
- _id: FrLo
extern: '1'
external_id:
  arxiv:
  - '2002.11860'
intvolume: '       119'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://arxiv.org/abs/2002.11860
month: '07'
oa: 1
oa_version: Preprint
page: 7253-7262
publication: Proceedings of the 37th International Conference on Machine Learning
publication_status: published
quality_controlled: '1'
status: public
title: Stochastic Frank-Wolfe for constrained finite-sum minimization
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 119
year: '2020'
...
---
_id: '14188'
abstract:
- lang: eng
  text: "Intelligent agents should be able to learn useful representations by\r\nobserving
    changes in their environment. We model such observations as pairs of\r\nnon-i.i.d.
    images sharing at least one of the underlying factors of variation.\r\nFirst,
    we theoretically show that only knowing how many factors have changed,\r\nbut
    not which ones, is sufficient to learn disentangled representations.\r\nSecond,
    we provide practical algorithms that learn disentangled representations\r\nfrom
    pairs of images without requiring annotation of groups, individual\r\nfactors,
    or the number of factors that have changed. Third, we perform a\r\nlarge-scale
    empirical study and show that such pairs of observations are\r\nsufficient to
    reliably learn disentangled representations on several benchmark\r\ndata sets.
    Finally, we evaluate our learned representations and find that they\r\nare simultaneously
    useful on a diverse suite of tasks, including generalization\r\nunder covariate
    shifts, fairness, and abstract reasoning. Overall, our results\r\ndemonstrate
    that weak supervision enables learning of useful disentangled\r\nrepresentations
    in realistic scenarios."
alternative_title:
- PMLR
article_processing_charge: No
arxiv: 1
author:
- first_name: Francesco
  full_name: Locatello, Francesco
  id: 26cfd52f-2483-11ee-8040-88983bcc06d4
  last_name: Locatello
  orcid: 0000-0002-4850-0683
- first_name: Ben
  full_name: Poole, Ben
  last_name: Poole
- first_name: Gunnar
  full_name: Rätsch, Gunnar
  last_name: Rätsch
- first_name: Bernhard
  full_name: Schölkopf, Bernhard
  last_name: Schölkopf
- first_name: Olivier
  full_name: Bachem, Olivier
  last_name: Bachem
- first_name: Michael
  full_name: Tschannen, Michael
  last_name: Tschannen
citation:
  ama: 'Locatello F, Poole B, Rätsch G, Schölkopf B, Bachem O, Tschannen M. Weakly-supervised
    disentanglement without compromises. In: <i>Proceedings of the 37th International
    Conference on Machine Learning</i>. Vol 119. ; 2020:6348–6359.'
  apa: Locatello, F., Poole, B., Rätsch, G., Schölkopf, B., Bachem, O., &#38; Tschannen,
    M. (2020). Weakly-supervised disentanglement without compromises. In <i>Proceedings
    of the 37th International Conference on Machine Learning</i> (Vol. 119, pp. 6348–6359).
    Virtual.
  chicago: Locatello, Francesco, Ben Poole, Gunnar Rätsch, Bernhard Schölkopf, Olivier
    Bachem, and Michael Tschannen. “Weakly-Supervised Disentanglement without Compromises.”
    In <i>Proceedings of the 37th International Conference on Machine Learning</i>,
    119:6348–6359, 2020.
  ieee: F. Locatello, B. Poole, G. Rätsch, B. Schölkopf, O. Bachem, and M. Tschannen,
    “Weakly-supervised disentanglement without compromises,” in <i>Proceedings of
    the 37th International Conference on Machine Learning</i>, Virtual, 2020, vol.
    119, pp. 6348–6359.
  ista: Locatello F, Poole B, Rätsch G, Schölkopf B, Bachem O, Tschannen M. 2020.
    Weakly-supervised disentanglement without compromises. Proceedings of the 37th
    International Conference on Machine Learning. International Conference on Machine
    Learning, PMLR, vol. 119, 6348–6359.
  mla: Locatello, Francesco, et al. “Weakly-Supervised Disentanglement without Compromises.”
    <i>Proceedings of the 37th International Conference on Machine Learning</i>, vol.
    119, 2020, pp. 6348–6359.
  short: F. Locatello, B. Poole, G. Rätsch, B. Schölkopf, O. Bachem, M. Tschannen,
    in:, Proceedings of the 37th International Conference on Machine Learning, 2020,
    pp. 6348–6359.
conference:
  end_date: 2020-07-18
  location: Virtual
  name: International Conference on Machine Learning
  start_date: 2020-07-13
date_created: 2023-08-22T14:08:14Z
date_published: 2020-07-07T00:00:00Z
date_updated: 2024-10-14T12:28:02Z
day: '07'
department:
- _id: FrLo
extern: '1'
external_id:
  arxiv:
  - '2002.02886'
intvolume: '       119'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://arxiv.org/abs/2002.02886
month: '07'
oa: 1
oa_version: Preprint
page: 6348–6359
publication: Proceedings of the 37th International Conference on Machine Learning
publication_status: published
quality_controlled: '1'
scopus_import: '1'
status: public
title: Weakly-supervised disentanglement without compromises
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 119
year: '2020'
...
---
_id: '14195'
abstract:
- lang: eng
  text: "The idea behind the unsupervised learning of disentangled representations
    is that real-world data is generated by a few explanatory factors of variation
    which can be recovered by unsupervised learning algorithms. In this paper, we
    provide a sober look at recent progress in the field and challenge some common
    assumptions. We first theoretically show that the unsupervised learning of disentangled
    representations is fundamentally impossible without inductive biases on both the
    models and the data. Then, we train over 14000\r\n models covering most prominent
    methods and evaluation metrics in a reproducible large-scale experimental study
    on eight data sets. We observe that while the different methods successfully enforce
    properties “encouraged” by the corresponding losses, well-disentangled models
    seemingly cannot be identified without supervision. Furthermore, different evaluation
    metrics do not always agree on what should be considered “disentangled” and exhibit
    systematic differences in the estimation. Finally, increased disentanglement does
    not seem to necessarily lead to a decreased sample complexity of learning for
    downstream tasks. Our results suggest that future work on disentanglement learning
    should be explicit about the role of inductive biases and (implicit) supervision,
    investigate concrete benefits of enforcing disentanglement of the learned representations,
    and consider a reproducible experimental setup covering several data sets."
article_number: '209'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Francesco
  full_name: Locatello, Francesco
  id: 26cfd52f-2483-11ee-8040-88983bcc06d4
  last_name: Locatello
  orcid: 0000-0002-4850-0683
- first_name: Stefan
  full_name: Bauer, Stefan
  last_name: Bauer
- first_name: Mario
  full_name: Lucic, Mario
  last_name: Lucic
- first_name: Gunnar
  full_name: Rätsch, Gunnar
  last_name: Rätsch
- first_name: Sylvain
  full_name: Gelly, Sylvain
  last_name: Gelly
- first_name: Bernhard
  full_name: Schölkopf, Bernhard
  last_name: Schölkopf
- first_name: Olivier
  full_name: Bachem, Olivier
  last_name: Bachem
citation:
  ama: Locatello F, Bauer S, Lucic M, et al. A sober look at the unsupervised learning
    of disentangled representations and their evaluation. <i>Journal of Machine Learning
    Research</i>. 2020;21.
  apa: Locatello, F., Bauer, S., Lucic, M., Rätsch, G., Gelly, S., Schölkopf, B.,
    &#38; Bachem, O. (2020). A sober look at the unsupervised learning of disentangled
    representations and their evaluation. <i>Journal of Machine Learning Research</i>.
    MIT Press.
  chicago: Locatello, Francesco, Stefan Bauer, Mario Lucic, Gunnar Rätsch, Sylvain
    Gelly, Bernhard Schölkopf, and Olivier Bachem. “A Sober Look at the Unsupervised
    Learning of Disentangled Representations and Their Evaluation.” <i>Journal of
    Machine Learning Research</i>. MIT Press, 2020.
  ieee: F. Locatello <i>et al.</i>, “A sober look at the unsupervised learning of
    disentangled representations and their evaluation,” <i>Journal of Machine Learning
    Research</i>, vol. 21. MIT Press, 2020.
  ista: Locatello F, Bauer S, Lucic M, Rätsch G, Gelly S, Schölkopf B, Bachem O. 2020.
    A sober look at the unsupervised learning of disentangled representations and
    their evaluation. Journal of Machine Learning Research. 21, 209.
  mla: Locatello, Francesco, et al. “A Sober Look at the Unsupervised Learning of
    Disentangled Representations and Their Evaluation.” <i>Journal of Machine Learning
    Research</i>, vol. 21, 209, MIT Press, 2020.
  short: F. Locatello, S. Bauer, M. Lucic, G. Rätsch, S. Gelly, B. Schölkopf, O. Bachem,
    Journal of Machine Learning Research 21 (2020).
date_created: 2023-08-22T14:10:34Z
date_published: 2020-09-01T00:00:00Z
date_updated: 2024-10-14T12:28:26Z
day: '01'
ddc:
- '000'
department:
- _id: FrLo
extern: '1'
external_id:
  arxiv:
  - '2010.14766'
has_accepted_license: '1'
intvolume: '        21'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
main_file_link:
- open_access: '1'
  url: https://jmlr.csail.mit.edu/papers/v21/19-976.html
month: '09'
oa: 1
oa_version: Published Version
publication: Journal of Machine Learning Research
publication_status: published
publisher: MIT Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: A sober look at the unsupervised learning of disentangled representations and
  their evaluation
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: 21
year: '2020'
...
---
_id: '14326'
abstract:
- lang: eng
  text: "Learning object-centric representations of complex scenes is a promising
    step towards enabling efficient abstract reasoning from low-level perceptual features.
    Yet, most deep learning approaches learn distributed representations that do not
    capture the compositional properties of natural scenes. In this paper, we present
    the Slot Attention module, an architectural component that interfaces with perceptual
    representations such as the output of a convolutional neural network and produces
    a set of task-dependent abstract representations which we call slots. These slots
    are exchangeable and can bind to any object in the input by specializing through
    a competitive procedure over multiple rounds of attention. We empirically demonstrate
    that Slot Attention can extract object-centric representations that enable generalization
    to unseen compositions when trained on unsupervised object discovery and supervised
    property prediction tasks.\r\n\r\n"
alternative_title:
- Advances in Neural Information Processing Systems
article_processing_charge: No
arxiv: 1
author:
- first_name: Francesco
  full_name: Locatello, Francesco
  id: 26cfd52f-2483-11ee-8040-88983bcc06d4
  last_name: Locatello
  orcid: 0000-0002-4850-0683
- first_name: Dirk
  full_name: Weissenborn, Dirk
  last_name: Weissenborn
- first_name: Thomas
  full_name: Unterthiner, Thomas
  last_name: Unterthiner
- first_name: Aravindh
  full_name: Mahendran, Aravindh
  last_name: Mahendran
- first_name: Georg
  full_name: Heigold, Georg
  last_name: Heigold
- first_name: Jakob
  full_name: Uszkoreit, Jakob
  last_name: Uszkoreit
- first_name: Alexey
  full_name: Dosovitskiy, Alexey
  last_name: Dosovitskiy
- first_name: Thomas
  full_name: Kipf, Thomas
  last_name: Kipf
citation:
  ama: 'Locatello F, Weissenborn D, Unterthiner T, et al. Object-centric learning
    with slot attention. In: <i>34th International Conference on Neural Information
    Processing Systems</i>. Vol 33. Neural Information Processing Systems Foundation;
    2020:11525-11538.'
  apa: 'Locatello, F., Weissenborn, D., Unterthiner, T., Mahendran, A., Heigold, G.,
    Uszkoreit, J., … Kipf, T. (2020). Object-centric learning with slot attention.
    In <i>34th International Conference on Neural Information Processing Systems</i>
    (Vol. 33, pp. 11525–11538). Virtual: Neural Information Processing Systems Foundation.'
  chicago: Locatello, Francesco, Dirk Weissenborn, Thomas Unterthiner, Aravindh Mahendran,
    Georg Heigold, Jakob Uszkoreit, Alexey Dosovitskiy, and Thomas Kipf. “Object-Centric
    Learning with Slot Attention.” In <i>34th International Conference on Neural Information
    Processing Systems</i>, 33:11525–38. Neural Information Processing Systems Foundation,
    2020.
  ieee: F. Locatello <i>et al.</i>, “Object-centric learning with slot attention,”
    in <i>34th International Conference on Neural Information Processing Systems</i>,
    Virtual, 2020, vol. 33, pp. 11525–11538.
  ista: 'Locatello F, Weissenborn D, Unterthiner T, Mahendran A, Heigold G, Uszkoreit
    J, Dosovitskiy A, Kipf T. 2020. Object-centric learning with slot attention. 34th
    International Conference on Neural Information Processing Systems. NeurIPS: Neural
    Information Processing Systems, Advances in Neural Information Processing Systems,
    vol. 33, 11525–11538.'
  mla: Locatello, Francesco, et al. “Object-Centric Learning with Slot Attention.”
    <i>34th International Conference on Neural Information Processing Systems</i>,
    vol. 33, Neural Information Processing Systems Foundation, 2020, pp. 11525–38.
  short: F. Locatello, D. Weissenborn, T. Unterthiner, A. Mahendran, G. Heigold, J.
    Uszkoreit, A. Dosovitskiy, T. Kipf, in:, 34th International Conference on Neural
    Information Processing Systems, Neural Information Processing Systems Foundation,
    2020, pp. 11525–11538.
conference:
  end_date: 2020-12-12
  location: Virtual
  name: 'NeurIPS: Neural Information Processing Systems'
  start_date: 2020-12-06
date_created: 2023-09-13T12:03:46Z
date_published: 2020-12-20T00:00:00Z
date_updated: 2025-07-10T11:50:47Z
day: '20'
department:
- _id: FrLo
extern: '1'
external_id:
  arxiv:
  - '2006.15055'
intvolume: '        33'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2006.15055
month: '12'
oa: 1
oa_version: Preprint
page: 11525-11538
publication: 34th International Conference on Neural Information Processing Systems
publication_identifier:
  eissn:
  - 1049-5258
  isbn:
  - '9781713829546'
publication_status: published
publisher: Neural Information Processing Systems Foundation
quality_controlled: '1'
status: public
title: Object-centric learning with slot attention
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 33
year: '2020'
...
---
_id: '14592'
abstract:
- lang: eng
  text: Cryo-electron microscopy (cryo-EM) of cellular specimens provides insights
    into biological processes and structures within a native context. However, a major
    challenge still lies in the efficient and reproducible preparation of adherent
    cells for subsequent cryo-EM analysis. This is due to the sensitivity of many
    cellular specimens to the varying seeding and culturing conditions required for
    EM experiments, the often limited amount of cellular material and also the fragility
    of EM grids and their substrate. Here, we present low-cost and reusable 3D printed
    grid holders, designed to improve specimen preparation when culturing challenging
    cellular samples directly on grids. The described grid holders increase cell culture
    reproducibility and throughput, and reduce the resources required for cell culturing.
    We show that grid holders can be integrated into various cryo-EM workflows, including
    micro-patterning approaches to control cell seeding on grids, and for generating
    samples for cryo-focused ion beam milling and cryo-electron tomography experiments.
    Their adaptable design allows for the generation of specialized grid holders customized
    to a large variety of applications.
article_processing_charge: No
author:
- first_name: Florian KM
  full_name: Schur, Florian KM
  id: 48AD8942-F248-11E8-B48F-1D18A9856A87
  last_name: Schur
  orcid: 0000-0003-4790-8078
citation:
  ama: Schur FK. STL-files for 3D-printed grid holders described in  Fäßler F, Zens
    B, et al.; 3D printed cell culture grid holders for improved cellular specimen
    preparation in cryo-electron microscopy. 2020. doi:<a href="https://doi.org/10.15479/AT:ISTA:14592">10.15479/AT:ISTA:14592</a>
  apa: Schur, F. K. (2020). STL-files for 3D-printed grid holders described in  Fäßler
    F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular
    specimen preparation in cryo-electron microscopy. Institute of Science and Technology
    Austria. <a href="https://doi.org/10.15479/AT:ISTA:14592">https://doi.org/10.15479/AT:ISTA:14592</a>
  chicago: Schur, Florian KM. “STL-Files for 3D-Printed Grid Holders Described in 
    Fäßler F, Zens B, et Al.; 3D Printed Cell Culture Grid Holders for Improved Cellular
    Specimen Preparation in Cryo-Electron Microscopy.” Institute of Science and Technology
    Austria, 2020. <a href="https://doi.org/10.15479/AT:ISTA:14592">https://doi.org/10.15479/AT:ISTA:14592</a>.
  ieee: F. K. Schur, “STL-files for 3D-printed grid holders described in  Fäßler F,
    Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen
    preparation in cryo-electron microscopy.” Institute of Science and Technology
    Austria, 2020.
  ista: Schur FK. 2020. STL-files for 3D-printed grid holders described in  Fäßler
    F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular
    specimen preparation in cryo-electron microscopy, Institute of Science and Technology
    Austria, <a href="https://doi.org/10.15479/AT:ISTA:14592">10.15479/AT:ISTA:14592</a>.
  mla: Schur, Florian KM. <i>STL-Files for 3D-Printed Grid Holders Described in  Fäßler
    F, Zens B, et Al.; 3D Printed Cell Culture Grid Holders for Improved Cellular
    Specimen Preparation in Cryo-Electron Microscopy</i>. Institute of Science and
    Technology Austria, 2020, doi:<a href="https://doi.org/10.15479/AT:ISTA:14592">10.15479/AT:ISTA:14592</a>.
  short: F.K. Schur, (2020).
contributor:
- contributor_type: researcher
  first_name: Florian
  id: 404F5528-F248-11E8-B48F-1D18A9856A87
  last_name: Fäßler
  orcid: 0000-0001-7149-769X
- contributor_type: researcher
  first_name: Bettina
  id: 45FD126C-F248-11E8-B48F-1D18A9856A87
  last_name: Zens
- contributor_type: researcher
  first_name: Robert
  id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
  last_name: Hauschild
- contributor_type: researcher
  first_name: Florian KM
  id: 48AD8942-F248-11E8-B48F-1D18A9856A87
  last_name: Schur
  orcid: 0000-0003-4790-8078
corr_author: '1'
date_created: 2023-11-22T15:00:57Z
date_published: 2020-12-01T00:00:00Z
date_updated: 2025-06-12T07:35:28Z
day: '01'
ddc:
- '570'
department:
- _id: FlSc
doi: 10.15479/AT:ISTA:14592
file:
- access_level: open_access
  checksum: 0108616e2a59e51879ea51299a29b091
  content_type: application/zip
  creator: fschur
  date_created: 2023-11-22T14:58:44Z
  date_updated: 2023-11-22T14:58:44Z
  file_id: '14593'
  file_name: 3Dprint-files_download_v2.zip
  file_size: 49297
  relation: main_file
  success: 1
- access_level: open_access
  checksum: 4c66ddedee4d01c1c4a7978208350cfc
  content_type: text/plain
  creator: cchlebak
  date_created: 2023-12-01T10:39:59Z
  date_updated: 2023-12-01T10:39:59Z
  file_id: '14637'
  file_name: readme.txt
  file_size: 641
  relation: main_file
  success: 1
file_date_updated: 2023-12-01T10:39:59Z
has_accepted_license: '1'
license: https://creativecommons.org/licenses/by-nc-sa/4.0/
month: '12'
oa: 1
oa_version: Published Version
project:
- _id: 9B954C5C-BA93-11EA-9121-9846C619BF3A
  grant_number: P33367
  name: Structure and isoform diversity of the Arp2/3 complex
publisher: Institute of Science and Technology Austria
related_material:
  record:
  - id: '8586'
    relation: research_data
    status: public
status: public
title: STL-files for 3D-printed grid holders described in  Fäßler F, Zens B, et al.;
  3D printed cell culture grid holders for improved cellular specimen preparation
  in cryo-electron microscopy
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '14694'
abstract:
- lang: eng
  text: We study the unique solution m of the Dyson equation \( -m(z)^{-1} = z\1 -
    a + S[m(z)] \) on a von Neumann algebra A with the constraint Imm≥0. Here, z lies
    in the complex upper half-plane, a is a self-adjoint element of A and S is a positivity-preserving
    linear operator on A. We show that m is the Stieltjes transform of a compactly
    supported A-valued measure on R. Under suitable assumptions, we establish that
    this measure has a uniformly 1/3-Hölder continuous density with respect to the
    Lebesgue measure, which is supported on finitely many intervals, called bands.
    In fact, the density is analytic inside the bands with a square-root growth at
    the edges and internal cubic root cusps whenever the gap between two bands vanishes.
    The shape of these singularities is universal and no other singularity may occur.
    We give a precise asymptotic description of m near the singular points. These
    asymptotics generalize the analysis at the regular edges given in the companion
    paper on the Tracy-Widom universality for the edge eigenvalue statistics for correlated
    random matrices [the first author et al., Ann. Probab. 48, No. 2, 963--1001 (2020;
    Zbl 1434.60017)] and they play a key role in the proof of the Pearcey universality
    at the cusp for Wigner-type matrices [G. Cipolloni et al., Pure Appl. Anal. 1,
    No. 4, 615--707 (2019; Zbl 07142203); the second author et al., Commun. Math.
    Phys. 378, No. 2, 1203--1278 (2020; Zbl 07236118)]. We also extend the finite
    dimensional band mass formula from [the first author et al., loc. cit.] to the
    von Neumann algebra setting by showing that the spectral mass of the bands is
    topologically rigid under deformations and we conclude that these masses are quantized
    in some important cases.
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: Johannes
  full_name: Alt, Johannes
  id: 36D3D8B6-F248-11E8-B48F-1D18A9856A87
  last_name: Alt
- first_name: László
  full_name: Erdös, László
  id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
  last_name: Erdös
  orcid: 0000-0001-5366-9603
- first_name: Torben H
  full_name: Krüger, Torben H
  id: 3020C786-F248-11E8-B48F-1D18A9856A87
  last_name: Krüger
  orcid: 0000-0002-4821-3297
citation:
  ama: 'Alt J, Erdös L, Krüger TH. The Dyson equation with linear self-energy: Spectral
    bands, edges and cusps. <i>Documenta Mathematica</i>. 2020;25:1421-1539. doi:<a
    href="https://doi.org/10.4171/dm/780">10.4171/dm/780</a>'
  apa: 'Alt, J., Erdös, L., &#38; Krüger, T. H. (2020). The Dyson equation with linear
    self-energy: Spectral bands, edges and cusps. <i>Documenta Mathematica</i>. EMS
    Press. <a href="https://doi.org/10.4171/dm/780">https://doi.org/10.4171/dm/780</a>'
  chicago: 'Alt, Johannes, László Erdös, and Torben H Krüger. “The Dyson Equation
    with Linear Self-Energy: Spectral Bands, Edges and Cusps.” <i>Documenta Mathematica</i>.
    EMS Press, 2020. <a href="https://doi.org/10.4171/dm/780">https://doi.org/10.4171/dm/780</a>.'
  ieee: 'J. Alt, L. Erdös, and T. H. Krüger, “The Dyson equation with linear self-energy:
    Spectral bands, edges and cusps,” <i>Documenta Mathematica</i>, vol. 25. EMS Press,
    pp. 1421–1539, 2020.'
  ista: 'Alt J, Erdös L, Krüger TH. 2020. The Dyson equation with linear self-energy:
    Spectral bands, edges and cusps. Documenta Mathematica. 25, 1421–1539.'
  mla: 'Alt, Johannes, et al. “The Dyson Equation with Linear Self-Energy: Spectral
    Bands, Edges and Cusps.” <i>Documenta Mathematica</i>, vol. 25, EMS Press, 2020,
    pp. 1421–539, doi:<a href="https://doi.org/10.4171/dm/780">10.4171/dm/780</a>.'
  short: J. Alt, L. Erdös, T.H. Krüger, Documenta Mathematica 25 (2020) 1421–1539.
corr_author: '1'
date_created: 2023-12-18T10:37:43Z
date_published: 2020-09-01T00:00:00Z
date_updated: 2025-04-15T08:05:00Z
day: '01'
ddc:
- '510'
department:
- _id: LaEr
doi: 10.4171/dm/780
external_id:
  arxiv:
  - '1804.07752'
file:
- access_level: open_access
  checksum: 12aacc1d63b852ff9a51c1f6b218d4a6
  content_type: application/pdf
  creator: dernst
  date_created: 2023-12-18T10:42:32Z
  date_updated: 2023-12-18T10:42:32Z
  file_id: '14695'
  file_name: 2020_DocumentaMathematica_Alt.pdf
  file_size: 1374708
  relation: main_file
  success: 1
file_date_updated: 2023-12-18T10:42:32Z
has_accepted_license: '1'
intvolume: '        25'
keyword:
- General Mathematics
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 1421-1539
publication: Documenta Mathematica
publication_identifier:
  eissn:
  - 1431-0643
  issn:
  - 1431-0635
publication_status: published
publisher: EMS Press
quality_controlled: '1'
related_material:
  record:
  - id: '6183'
    relation: earlier_version
    status: public
status: public
title: 'The Dyson equation with linear self-energy: Spectral bands, edges and cusps'
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: 25
year: '2020'
...
---
_id: '14891'
abstract:
- lang: eng
  text: We give the first mathematically rigorous justification of the local density
    approximation in density functional theory. We provide a quantitative estimate
    on the difference between the grand-canonical Levy–Lieb energy of a given density
    (the lowest possible energy of all quantum states having this density) and the
    integral over the uniform electron gas energy of this density. The error involves
    gradient terms and justifies the use of the local density approximation in the
    situation where the density is very flat on sufficiently large regions in space.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Mathieu
  full_name: Lewin, Mathieu
  last_name: Lewin
- first_name: Elliott H.
  full_name: Lieb, Elliott H.
  last_name: Lieb
- first_name: Robert
  full_name: Seiringer, Robert
  id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
  last_name: Seiringer
  orcid: 0000-0002-6781-0521
citation:
  ama: Lewin M, Lieb EH, Seiringer R.  The local density approximation in density
    functional theory. <i>Pure and Applied Analysis</i>. 2020;2(1):35-73. doi:<a href="https://doi.org/10.2140/paa.2020.2.35">10.2140/paa.2020.2.35</a>
  apa: Lewin, M., Lieb, E. H., &#38; Seiringer, R. (2020).  The local density approximation
    in density functional theory. <i>Pure and Applied Analysis</i>. Mathematical Sciences
    Publishers. <a href="https://doi.org/10.2140/paa.2020.2.35">https://doi.org/10.2140/paa.2020.2.35</a>
  chicago: Lewin, Mathieu, Elliott H. Lieb, and Robert Seiringer. “ The Local Density
    Approximation in Density Functional Theory.” <i>Pure and Applied Analysis</i>.
    Mathematical Sciences Publishers, 2020. <a href="https://doi.org/10.2140/paa.2020.2.35">https://doi.org/10.2140/paa.2020.2.35</a>.
  ieee: M. Lewin, E. H. Lieb, and R. Seiringer, “ The local density approximation
    in density functional theory,” <i>Pure and Applied Analysis</i>, vol. 2, no. 1.
    Mathematical Sciences Publishers, pp. 35–73, 2020.
  ista: Lewin M, Lieb EH, Seiringer R. 2020.  The local density approximation in density
    functional theory. Pure and Applied Analysis. 2(1), 35–73.
  mla: Lewin, Mathieu, et al. “ The Local Density Approximation in Density Functional
    Theory.” <i>Pure and Applied Analysis</i>, vol. 2, no. 1, Mathematical Sciences
    Publishers, 2020, pp. 35–73, doi:<a href="https://doi.org/10.2140/paa.2020.2.35">10.2140/paa.2020.2.35</a>.
  short: M. Lewin, E.H. Lieb, R. Seiringer, Pure and Applied Analysis 2 (2020) 35–73.
corr_author: '1'
date_created: 2024-01-28T23:01:44Z
date_published: 2020-01-01T00:00:00Z
date_updated: 2024-10-09T21:08:02Z
day: '01'
department:
- _id: RoSe
doi: 10.2140/paa.2020.2.35
external_id:
  arxiv:
  - '1903.04046'
intvolume: '         2'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.1903.04046
month: '01'
oa: 1
oa_version: Preprint
page: 35-73
publication: Pure and Applied Analysis
publication_identifier:
  eissn:
  - 2578-5885
  issn:
  - 2578-5893
publication_status: published
publisher: Mathematical Sciences Publishers
quality_controlled: '1'
scopus_import: '1'
status: public
title: ' The local density approximation in density functional theory'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2020'
...
---
_id: '15036'
abstract:
- lang: eng
  text: The assembly of a septin filament requires that homologous monomers must distinguish
    between one another in establishing appropriate interfaces with their neighbors.
    To understand this phenomenon at the molecular level, we present the first four
    crystal structures of heterodimeric septin complexes. We describe in detail the
    two distinct types of G-interface present within the octameric particles, which
    must polymerize to form filaments. These are formed between SEPT2 and SEPT6 and
    between SEPT7 and SEPT3, and their description permits an understanding of the
    structural basis for the selectivity necessary for correct filament assembly.
    By replacing SEPT6 by SEPT8 or SEPT11, it is possible to rationalize Kinoshita's
    postulate, which predicts the exchangeability of septins from within a subgroup.
    Switches I and II, which in classical small GTPases provide a mechanism for nucleotide-dependent
    conformational change, have been repurposed in septins to play a fundamental role
    in molecular recognition. Specifically, it is switch I which holds the key to
    discriminating between the two different G-interfaces. Moreover, residues which
    are characteristic for a given subgroup play subtle, but pivotal, roles in guaranteeing
    that the correct interfaces are formed.
article_processing_charge: No
article_type: original
author:
- first_name: Higor Vinícius Dias
  full_name: Rosa, Higor Vinícius Dias
  last_name: Rosa
- first_name: Diego Antonio
  full_name: Leonardo, Diego Antonio
  last_name: Leonardo
- first_name: Gabriel
  full_name: Brognara, Gabriel
  id: D96FFDA0-A884-11E9-9968-DC26E6697425
  last_name: Brognara
- first_name: José
  full_name: Brandão-Neto, José
  last_name: Brandão-Neto
- first_name: Humberto
  full_name: D'Muniz Pereira, Humberto
  last_name: D'Muniz Pereira
- first_name: Ana Paula Ulian
  full_name: Araújo, Ana Paula Ulian
  last_name: Araújo
- first_name: Richard Charles
  full_name: Garratt, Richard Charles
  last_name: Garratt
citation:
  ama: 'Rosa HVD, Leonardo DA, Brognara G, et al. Molecular recognition at septin
    interfaces: The switches hold the key. <i>Journal of Molecular Biology</i>. 2020;432(21):5784-5801.
    doi:<a href="https://doi.org/10.1016/j.jmb.2020.09.001">10.1016/j.jmb.2020.09.001</a>'
  apa: 'Rosa, H. V. D., Leonardo, D. A., Brognara, G., Brandão-Neto, J., D’Muniz Pereira,
    H., Araújo, A. P. U., &#38; Garratt, R. C. (2020). Molecular recognition at septin
    interfaces: The switches hold the key. <i>Journal of Molecular Biology</i>. Elsevier.
    <a href="https://doi.org/10.1016/j.jmb.2020.09.001">https://doi.org/10.1016/j.jmb.2020.09.001</a>'
  chicago: 'Rosa, Higor Vinícius Dias, Diego Antonio Leonardo, Gabriel Brognara, José
    Brandão-Neto, Humberto D’Muniz Pereira, Ana Paula Ulian Araújo, and Richard Charles
    Garratt. “Molecular Recognition at Septin Interfaces: The Switches Hold the Key.”
    <i>Journal of Molecular Biology</i>. Elsevier, 2020. <a href="https://doi.org/10.1016/j.jmb.2020.09.001">https://doi.org/10.1016/j.jmb.2020.09.001</a>.'
  ieee: 'H. V. D. Rosa <i>et al.</i>, “Molecular recognition at septin interfaces:
    The switches hold the key,” <i>Journal of Molecular Biology</i>, vol. 432, no.
    21. Elsevier, pp. 5784–5801, 2020.'
  ista: 'Rosa HVD, Leonardo DA, Brognara G, Brandão-Neto J, D’Muniz Pereira H, Araújo
    APU, Garratt RC. 2020. Molecular recognition at septin interfaces: The switches
    hold the key. Journal of Molecular Biology. 432(21), 5784–5801.'
  mla: 'Rosa, Higor Vinícius Dias, et al. “Molecular Recognition at Septin Interfaces:
    The Switches Hold the Key.” <i>Journal of Molecular Biology</i>, vol. 432, no.
    21, Elsevier, 2020, pp. 5784–801, doi:<a href="https://doi.org/10.1016/j.jmb.2020.09.001">10.1016/j.jmb.2020.09.001</a>.'
  short: H.V.D. Rosa, D.A. Leonardo, G. Brognara, J. Brandão-Neto, H. D’Muniz Pereira,
    A.P.U. Araújo, R.C. Garratt, Journal of Molecular Biology 432 (2020) 5784–5801.
date_created: 2024-02-28T08:50:34Z
date_published: 2020-10-02T00:00:00Z
date_updated: 2026-06-18T17:44:49Z
day: '02'
ddc:
- '570'
department:
- _id: MaLo
doi: 10.1016/j.jmb.2020.09.001
external_id:
  pmid:
  - '32910969'
intvolume: '       432'
issue: '21'
keyword:
- Molecular Biology
- Structural Biology
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1016/j.jmb.2020.09.001
month: '10'
oa: 1
oa_version: Published Version
page: 5784-5801
pmid: 1
publication: Journal of Molecular Biology
publication_identifier:
  issn:
  - 0022-2836
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: 'Molecular recognition at septin interfaces: The switches hold the key'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 432
year: '2020'
...
---
_id: '15037'
abstract:
- lang: eng
  text: Protein abundance and localization at the plasma membrane (PM) shapes plant
    development and mediates adaptation to changing environmental conditions. It is
    regulated by ubiquitination, a post-translational modification crucial for the
    proper sorting of endocytosed PM proteins to the vacuole for subsequent degradation.
    To understand the significance and the variety of roles played by this reversible
    modification, the function of ubiquitin receptors, which translate the ubiquitin
    signature into a cellular response, needs to be elucidated. In this study, we
    show that TOL (TOM1-like) proteins function in plants as multivalent ubiquitin
    receptors, governing ubiquitinated cargo delivery to the vacuole via the conserved
    Endosomal Sorting Complex Required for Transport (ESCRT) pathway. TOL2 and TOL6
    interact with components of the ESCRT machinery and bind to K63-linked ubiquitin
    via two tandemly arranged conserved ubiquitin-binding domains. Mutation of these
    domains results not only in a loss of ubiquitin binding but also altered localization,
    abolishing TOL6 ubiquitin receptor activity. Function and localization of TOL6
    is itself regulated by ubiquitination, whereby TOL6 ubiquitination potentially
    modulates degradation of PM-localized cargoes, assisting in the fine-tuning of
    the delicate interplay between protein recycling and downregulation. Taken together,
    our findings demonstrate the function and regulation of a ubiquitin receptor that
    mediates vacuolar degradation of PM proteins in higher plants.
article_processing_charge: No
article_type: original
author:
- first_name: Jeanette
  full_name: Moulinier-Anzola, Jeanette
  last_name: Moulinier-Anzola
- first_name: Maximilian
  full_name: Schwihla, Maximilian
  last_name: Schwihla
- first_name: Lucinda
  full_name: De-Araújo, Lucinda
  last_name: De-Araújo
- first_name: Christina
  full_name: Artner, Christina
  id: 45DF286A-F248-11E8-B48F-1D18A9856A87
  last_name: Artner
- first_name: Lisa
  full_name: Jörg, Lisa
  last_name: Jörg
- first_name: Nataliia
  full_name: Konstantinova, Nataliia
  last_name: Konstantinova
- first_name: Christian
  full_name: Luschnig, Christian
  last_name: Luschnig
- first_name: Barbara
  full_name: Korbei, Barbara
  last_name: Korbei
citation:
  ama: Moulinier-Anzola J, Schwihla M, De-Araújo L, et al. TOLs function as ubiquitin
    receptors in the early steps of the ESCRT pathway in higher plants. <i>Molecular
    Plant</i>. 2020;13(5):717-731. doi:<a href="https://doi.org/10.1016/j.molp.2020.02.012">10.1016/j.molp.2020.02.012</a>
  apa: Moulinier-Anzola, J., Schwihla, M., De-Araújo, L., Artner, C., Jörg, L., Konstantinova,
    N., … Korbei, B. (2020). TOLs function as ubiquitin receptors in the early steps
    of the ESCRT pathway in higher plants. <i>Molecular Plant</i>. Elsevier. <a href="https://doi.org/10.1016/j.molp.2020.02.012">https://doi.org/10.1016/j.molp.2020.02.012</a>
  chicago: Moulinier-Anzola, Jeanette, Maximilian Schwihla, Lucinda De-Araújo, Christina
    Artner, Lisa Jörg, Nataliia Konstantinova, Christian Luschnig, and Barbara Korbei.
    “TOLs Function as Ubiquitin Receptors in the Early Steps of the ESCRT Pathway
    in Higher Plants.” <i>Molecular Plant</i>. Elsevier, 2020. <a href="https://doi.org/10.1016/j.molp.2020.02.012">https://doi.org/10.1016/j.molp.2020.02.012</a>.
  ieee: J. Moulinier-Anzola <i>et al.</i>, “TOLs function as ubiquitin receptors in
    the early steps of the ESCRT pathway in higher plants,” <i>Molecular Plant</i>,
    vol. 13, no. 5. Elsevier, pp. 717–731, 2020.
  ista: Moulinier-Anzola J, Schwihla M, De-Araújo L, Artner C, Jörg L, Konstantinova
    N, Luschnig C, Korbei B. 2020. TOLs function as ubiquitin receptors in the early
    steps of the ESCRT pathway in higher plants. Molecular Plant. 13(5), 717–731.
  mla: Moulinier-Anzola, Jeanette, et al. “TOLs Function as Ubiquitin Receptors in
    the Early Steps of the ESCRT Pathway in Higher Plants.” <i>Molecular Plant</i>,
    vol. 13, no. 5, Elsevier, 2020, pp. 717–31, doi:<a href="https://doi.org/10.1016/j.molp.2020.02.012">10.1016/j.molp.2020.02.012</a>.
  short: J. Moulinier-Anzola, M. Schwihla, L. De-Araújo, C. Artner, L. Jörg, N. Konstantinova,
    C. Luschnig, B. Korbei, Molecular Plant 13 (2020) 717–731.
date_created: 2024-02-28T08:55:56Z
date_published: 2020-05-04T00:00:00Z
date_updated: 2024-02-28T12:41:52Z
day: '04'
ddc:
- '580'
department:
- _id: EvBe
doi: 10.1016/j.molp.2020.02.012
external_id:
  pmid:
  - '32087370'
file:
- access_level: open_access
  checksum: c538a5008f7827f62d17d40a3bfabe65
  content_type: application/pdf
  creator: dernst
  date_created: 2024-02-28T12:39:56Z
  date_updated: 2024-02-28T12:39:56Z
  file_id: '15038'
  file_name: 2020_MolecularPlant_MoulinierAnzola.pdf
  file_size: 3089212
  relation: main_file
  success: 1
file_date_updated: 2024-02-28T12:39:56Z
has_accepted_license: '1'
intvolume: '        13'
issue: '5'
keyword:
- Plant Science
- Molecular Biology
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 717-731
pmid: 1
publication: Molecular Plant
publication_identifier:
  issn:
  - 1674-2052
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: TOLs function as ubiquitin receptors in the early steps of the ESCRT pathway
  in higher plants
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2020'
...
---
_id: '15055'
abstract:
- lang: eng
  text: <jats:p>Markov decision processes (MDPs) are the defacto framework for sequential
    decision making in the presence of stochastic uncertainty. A classical optimization
    criterion for MDPs is to maximize the expected discounted-sum payoff, which ignores
    low probability catastrophic events with highly negative impact on the system.
    On the other hand, risk-averse policies require the probability of undesirable
    events to be below a given threshold, but they do not account for optimization
    of the expected payoff. We consider MDPs with discounted-sum payoff with failure
    states which represent catastrophic outcomes. The objective of risk-constrained
    planning is to maximize the expected discounted-sum payoff among risk-averse policies
    that ensure the probability to encounter a failure state is below a desired threshold.
    Our main contribution is an efficient risk-constrained planning algorithm that
    combines UCT-like search with a predictor learned through interaction with the
    MDP (in the style of AlphaZero) and with a risk-constrained action selection via
    linear programming. We demonstrate the effectiveness of our approach with experiments
    on classical MDPs from the literature, including benchmarks with an order of 106
    states.</jats:p>
acknowledgement: Krishnendu Chatterjee is supported by the Austrian Science Fund (FWF)
  NFN Grant No. S11407-N23 (RiSE/SHiNE), and COST Action GAMENET. Tomas Brazdil is
  supported by the Grant Agency of Masaryk University grant no. MUNI/G/0739/2017 and
  by the Czech Science Foundation grant No. 18-11193S. Petr Novotny and Jirı Vahala
  are supported by the Czech Science Foundation grant No. GJ19-15134Y.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Tomáš
  full_name: Brázdil, Tomáš
  last_name: Brázdil
- first_name: Krishnendu
  full_name: Chatterjee, Krishnendu
  id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
  last_name: Chatterjee
  orcid: 0000-0002-4561-241X
- first_name: Petr
  full_name: Novotný, Petr
  last_name: Novotný
- first_name: Jiří
  full_name: Vahala, Jiří
  last_name: Vahala
citation:
  ama: Brázdil T, Chatterjee K, Novotný P, Vahala J. Reinforcement learning of risk-constrained
    policies in Markov decision processes. <i>Proceedings of the 34th AAAI Conference
    on Artificial Intelligence</i>. 2020;34(06):9794-9801. doi:<a href="https://doi.org/10.1609/aaai.v34i06.6531">10.1609/aaai.v34i06.6531</a>
  apa: 'Brázdil, T., Chatterjee, K., Novotný, P., &#38; Vahala, J. (2020). Reinforcement
    learning of risk-constrained policies in Markov decision processes. <i>Proceedings
    of the 34th AAAI Conference on Artificial Intelligence</i>. New York, NY, United
    States: Association for the Advancement of Artificial Intelligence. <a href="https://doi.org/10.1609/aaai.v34i06.6531">https://doi.org/10.1609/aaai.v34i06.6531</a>'
  chicago: Brázdil, Tomáš, Krishnendu Chatterjee, Petr Novotný, and Jiří Vahala. “Reinforcement
    Learning of Risk-Constrained Policies in Markov Decision Processes.” <i>Proceedings
    of the 34th AAAI Conference on Artificial Intelligence</i>. Association for the
    Advancement of Artificial Intelligence, 2020. <a href="https://doi.org/10.1609/aaai.v34i06.6531">https://doi.org/10.1609/aaai.v34i06.6531</a>.
  ieee: T. Brázdil, K. Chatterjee, P. Novotný, and J. Vahala, “Reinforcement learning
    of risk-constrained policies in Markov decision processes,” <i>Proceedings of
    the 34th AAAI Conference on Artificial Intelligence</i>, vol. 34, no. 06. Association
    for the Advancement of Artificial Intelligence, pp. 9794–9801, 2020.
  ista: Brázdil T, Chatterjee K, Novotný P, Vahala J. 2020. Reinforcement learning
    of risk-constrained policies in Markov decision processes. Proceedings of the
    34th AAAI Conference on Artificial Intelligence. 34(06), 9794–9801.
  mla: Brázdil, Tomáš, et al. “Reinforcement Learning of Risk-Constrained Policies
    in Markov Decision Processes.” <i>Proceedings of the 34th AAAI Conference on Artificial
    Intelligence</i>, vol. 34, no. 06, Association for the Advancement of Artificial
    Intelligence, 2020, pp. 9794–801, doi:<a href="https://doi.org/10.1609/aaai.v34i06.6531">10.1609/aaai.v34i06.6531</a>.
  short: T. Brázdil, K. Chatterjee, P. Novotný, J. Vahala, Proceedings of the 34th
    AAAI Conference on Artificial Intelligence 34 (2020) 9794–9801.
conference:
  end_date: 2020-02-12
  location: New York, NY, United States
  name: 'AAAI: Conference on Artificial Intelligence'
  start_date: 2020-02-07
date_created: 2024-03-04T08:07:22Z
date_published: 2020-04-03T00:00:00Z
date_updated: 2025-04-15T06:30:08Z
day: '03'
department:
- _id: KrCh
doi: 10.1609/aaai.v34i06.6531
external_id:
  arxiv:
  - '2002.12086'
intvolume: '        34'
issue: '06'
keyword:
- General Medicine
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2002.12086
month: '04'
oa: 1
oa_version: Preprint
page: 9794-9801
project:
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: S11407
  name: Game Theory
publication: Proceedings of the 34th AAAI Conference on Artificial Intelligence
publication_identifier:
  issn:
  - 2374-3468
publication_status: published
publisher: Association for the Advancement of Artificial Intelligence
quality_controlled: '1'
status: public
title: Reinforcement learning of risk-constrained policies in Markov decision processes
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 34
year: '2020'
...
---
_id: '15057'
abstract:
- lang: eng
  text: Vaccinia virus–related kinase (VRK) is an evolutionarily conserved nuclear
    protein kinase. VRK-1, the single Caenorhabditis elegans VRK ortholog, functions
    in cell division and germline proliferation. However, the role of VRK-1 in postmitotic
    cells and adult life span remains unknown. Here, we show that VRK-1 increases
    organismal longevity by activating the cellular energy sensor, AMP-activated protein
    kinase (AMPK), via direct phosphorylation. We found that overexpression of vrk-1
    in the soma of adult C. elegans increased life span and, conversely, inhibition
    of vrk-1 decreased life span. In addition, vrk-1 was required for longevity conferred
    by mutations that inhibit C. elegans mitochondrial respiration, which requires
    AMPK. VRK-1 directly phosphorylated and up-regulated AMPK in both C. elegans and
    cultured human cells. Thus, our data show that the somatic nuclear kinase, VRK-1,
    promotes longevity through AMPK activation, and this function appears to be conserved
    between C. elegans and humans.
acknowledgement: 'This research was supported by grants NRF-2019R1A3B2067745 and NRF-2017R1A5A1015366
  funded by the Korean Government (MSIT) through the National Research Foundation
  (NRF) of Korea to S.-J.V.L. and by grant Basic Science Research Program (No. 2019R1A2C2009440)
  funded by the Korean Government (MSIT) through the NRF of Korea to K.-T.K. '
article_number: aaw7824
article_processing_charge: No
article_type: original
author:
- first_name: Sangsoon
  full_name: Park, Sangsoon
  last_name: Park
- first_name: Murat
  full_name: Artan, Murat
  id: C407B586-6052-11E9-B3AE-7006E6697425
  last_name: Artan
  orcid: 0000-0001-8945-6992
- first_name: Seung Hyun
  full_name: Han, Seung Hyun
  last_name: Han
- first_name: Hae-Eun H.
  full_name: Park, Hae-Eun H.
  last_name: Park
- first_name: Yoonji
  full_name: Jung, Yoonji
  last_name: Jung
- first_name: Ara B.
  full_name: Hwang, Ara B.
  last_name: Hwang
- first_name: Won Sik
  full_name: Shin, Won Sik
  last_name: Shin
- first_name: Kyong-Tai
  full_name: Kim, Kyong-Tai
  last_name: Kim
- first_name: Seung-Jae V.
  full_name: Lee, Seung-Jae V.
  last_name: Lee
citation:
  ama: Park S, Artan M, Han SH, et al. VRK-1 extends life span by activation of AMPK
    via phosphorylation. <i>Science Advances</i>. 2020;6(27). doi:<a href="https://doi.org/10.1126/sciadv.aaw7824">10.1126/sciadv.aaw7824</a>
  apa: Park, S., Artan, M., Han, S. H., Park, H.-E. H., Jung, Y., Hwang, A. B., …
    Lee, S.-J. V. (2020). VRK-1 extends life span by activation of AMPK via phosphorylation.
    <i>Science Advances</i>. American Association for the Advancement of Science.
    <a href="https://doi.org/10.1126/sciadv.aaw7824">https://doi.org/10.1126/sciadv.aaw7824</a>
  chicago: Park, Sangsoon, Murat Artan, Seung Hyun Han, Hae-Eun H. Park, Yoonji Jung,
    Ara B. Hwang, Won Sik Shin, Kyong-Tai Kim, and Seung-Jae V. Lee. “VRK-1 Extends
    Life Span by Activation of AMPK via Phosphorylation.” <i>Science Advances</i>.
    American Association for the Advancement of Science, 2020. <a href="https://doi.org/10.1126/sciadv.aaw7824">https://doi.org/10.1126/sciadv.aaw7824</a>.
  ieee: S. Park <i>et al.</i>, “VRK-1 extends life span by activation of AMPK via
    phosphorylation,” <i>Science Advances</i>, vol. 6, no. 27. American Association
    for the Advancement of Science, 2020.
  ista: Park S, Artan M, Han SH, Park H-EH, Jung Y, Hwang AB, Shin WS, Kim K-T, Lee
    S-JV. 2020. VRK-1 extends life span by activation of AMPK via phosphorylation.
    Science Advances. 6(27), aaw7824.
  mla: Park, Sangsoon, et al. “VRK-1 Extends Life Span by Activation of AMPK via Phosphorylation.”
    <i>Science Advances</i>, vol. 6, no. 27, aaw7824, American Association for the
    Advancement of Science, 2020, doi:<a href="https://doi.org/10.1126/sciadv.aaw7824">10.1126/sciadv.aaw7824</a>.
  short: S. Park, M. Artan, S.H. Han, H.-E.H. Park, Y. Jung, A.B. Hwang, W.S. Shin,
    K.-T. Kim, S.-J.V. Lee, Science Advances 6 (2020).
date_created: 2024-03-04T09:41:57Z
date_published: 2020-07-01T00:00:00Z
date_updated: 2024-03-04T09:52:09Z
day: '01'
ddc:
- '570'
department:
- _id: MaDe
doi: 10.1126/sciadv.aaw7824
file:
- access_level: open_access
  checksum: a37157cd0de709dce5fe03f4a31cd0b6
  content_type: application/pdf
  creator: dernst
  date_created: 2024-03-04T09:46:41Z
  date_updated: 2024-03-04T09:46:41Z
  file_id: '15058'
  file_name: 2020_ScienceAdvances_Park.pdf
  file_size: 1864415
  relation: main_file
  success: 1
file_date_updated: 2024-03-04T09:46:41Z
has_accepted_license: '1'
intvolume: '         6'
issue: '27'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '07'
oa: 1
oa_version: Published Version
publication: Science Advances
publication_identifier:
  eissn:
  - 2375-2548
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
status: public
title: VRK-1 extends life span by activation of AMPK via phosphorylation
tmp:
  image: /images/cc_by_nc.png
  legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
  name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
  short: CC BY-NC (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2020'
...
---
_id: '15059'
abstract:
- lang: eng
  text: "In this paper we present a room temperature radiometer that can eliminate
    the need of using cryostats in satellite payload reducing its weight and improving
    reliability. The proposed radiometer is based on an electro-optic upconverter
    that boosts up microwave photons energy by upconverting them into an optical domain
    what makes them immune to thermal noise even if operating at room temperature.
    The converter uses a high-quality factor whispering gallery\r\nmode (WGM) resonator
    providing naturally narrow bandwidth and therefore might be useful for applications
    like microwave hyperspectral sensing. The upconversion process is explained by\r\nproviding
    essential information about photon conversion efficiency and sensitivity. To prove
    the concept, we describe an experiment which shows state-of-the-art photon conversion
    efficiency n=10-5 per mW of pump power at the frequency of 80 GHz."
acknowledgement: This work has been financially supported by Comunidad de Madrid S2018/NMT-4333
  ARTINLARA-CM projects, and “FUNDACIÓN SENER” REFTA projects.
article_processing_charge: No
author:
- first_name: Michal
  full_name: Wasiak, Michal
  last_name: Wasiak
- first_name: Gabriel Santamaria
  full_name: Botello, Gabriel Santamaria
  last_name: Botello
- first_name: Kerlos Atia
  full_name: Abdalmalak, Kerlos Atia
  last_name: Abdalmalak
- first_name: Florian
  full_name: Sedlmeir, Florian
  last_name: Sedlmeir
- first_name: Alfredo R
  full_name: Rueda Sanchez, Alfredo R
  id: 3B82B0F8-F248-11E8-B48F-1D18A9856A87
  last_name: Rueda Sanchez
  orcid: 0000-0001-6249-5860
- first_name: Daniel
  full_name: Segovia-Vargas, Daniel
  last_name: Segovia-Vargas
- first_name: Harald G. L.
  full_name: Schwefel, Harald G. L.
  last_name: Schwefel
- first_name: Luis Enrique Garcia
  full_name: Munoz, Luis Enrique Garcia
  last_name: Munoz
citation:
  ama: 'Wasiak M, Botello GS, Abdalmalak KA, et al. Compact millimeter and submillimeter-wave
    photonic radiometer for cubesats. In: <i>14th European Conference on Antennas
    and Propagation</i>. IEEE; 2020. doi:<a href="https://doi.org/10.23919/eucap48036.2020.9135962">10.23919/eucap48036.2020.9135962</a>'
  apa: 'Wasiak, M., Botello, G. S., Abdalmalak, K. A., Sedlmeir, F., Rueda Sanchez,
    A. R., Segovia-Vargas, D., … Munoz, L. E. G. (2020). Compact millimeter and submillimeter-wave
    photonic radiometer for cubesats. In <i>14th European Conference on Antennas and
    Propagation</i>. Copenhagen, Denmark: IEEE. <a href="https://doi.org/10.23919/eucap48036.2020.9135962">https://doi.org/10.23919/eucap48036.2020.9135962</a>'
  chicago: Wasiak, Michal, Gabriel Santamaria Botello, Kerlos Atia Abdalmalak, Florian
    Sedlmeir, Alfredo R Rueda Sanchez, Daniel Segovia-Vargas, Harald G. L. Schwefel,
    and Luis Enrique Garcia Munoz. “Compact Millimeter and Submillimeter-Wave Photonic
    Radiometer for Cubesats.” In <i>14th European Conference on Antennas and Propagation</i>.
    IEEE, 2020. <a href="https://doi.org/10.23919/eucap48036.2020.9135962">https://doi.org/10.23919/eucap48036.2020.9135962</a>.
  ieee: M. Wasiak <i>et al.</i>, “Compact millimeter and submillimeter-wave photonic
    radiometer for cubesats,” in <i>14th European Conference on Antennas and Propagation</i>,
    Copenhagen, Denmark, 2020.
  ista: 'Wasiak M, Botello GS, Abdalmalak KA, Sedlmeir F, Rueda Sanchez AR, Segovia-Vargas
    D, Schwefel HGL, Munoz LEG. 2020. Compact millimeter and submillimeter-wave photonic
    radiometer for cubesats. 14th European Conference on Antennas and Propagation.
    EuCAP: European Conference on Antennas and Propagation.'
  mla: Wasiak, Michal, et al. “Compact Millimeter and Submillimeter-Wave Photonic
    Radiometer for Cubesats.” <i>14th European Conference on Antennas and Propagation</i>,
    IEEE, 2020, doi:<a href="https://doi.org/10.23919/eucap48036.2020.9135962">10.23919/eucap48036.2020.9135962</a>.
  short: M. Wasiak, G.S. Botello, K.A. Abdalmalak, F. Sedlmeir, A.R. Rueda Sanchez,
    D. Segovia-Vargas, H.G.L. Schwefel, L.E.G. Munoz, in:, 14th European Conference
    on Antennas and Propagation, IEEE, 2020.
conference:
  end_date: 2020-03-20
  location: Copenhagen, Denmark
  name: 'EuCAP: European Conference on Antennas and Propagation'
  start_date: 2020-03-15
date_created: 2024-03-04T09:57:48Z
date_published: 2020-07-08T00:00:00Z
date_updated: 2024-03-04T10:02:49Z
day: '08'
department:
- _id: JoFi
doi: 10.23919/eucap48036.2020.9135962
language:
- iso: eng
month: '07'
oa_version: None
publication: 14th European Conference on Antennas and Propagation
publication_identifier:
  eisbn:
  - '9788831299008'
publication_status: published
publisher: IEEE
quality_controlled: '1'
status: public
title: Compact millimeter and submillimeter-wave photonic radiometer for cubesats
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
