---
_id: '160'
abstract:
- lang: eng
  text: We present layered concurrent programs, a compact and expressive notation
    for specifying refinement proofs of concurrent programs. A layered concurrent
    program specifies a sequence of connected concurrent programs, from most concrete
    to most abstract, such that common parts of different programs are written exactly
    once. These programs are expressed in the ordinary syntax of imperative concurrent
    programs using gated atomic actions, sequencing, choice, and (recursive) procedure
    calls. Each concurrent program is automatically extracted from the layered program.
    We reduce refinement to the safety of a sequence of concurrent checker programs,
    one each to justify the connection between every two consecutive concurrent programs.
    These checker programs are also automatically extracted from the layered program.
    Layered concurrent programs have been implemented in the CIVL verifier which has
    been successfully used for the verification of several complex concurrent programs.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Bernhard
  full_name: Kragl, Bernhard
  id: 320FC952-F248-11E8-B48F-1D18A9856A87
  last_name: Kragl
  orcid: 0000-0001-7745-9117
- first_name: Shaz
  full_name: Qadeer, Shaz
  last_name: Qadeer
citation:
  ama: 'Kragl B, Qadeer S. Layered Concurrent Programs. In: Vol 10981. Springer; 2018:79-102.
    doi:<a href="https://doi.org/10.1007/978-3-319-96145-3_5">10.1007/978-3-319-96145-3_5</a>'
  apa: 'Kragl, B., &#38; Qadeer, S. (2018). Layered Concurrent Programs (Vol. 10981,
    pp. 79–102). Presented at the CAV: Computer Aided Verification, Oxford, UK: Springer.
    <a href="https://doi.org/10.1007/978-3-319-96145-3_5">https://doi.org/10.1007/978-3-319-96145-3_5</a>'
  chicago: Kragl, Bernhard, and Shaz Qadeer. “Layered Concurrent Programs,” 10981:79–102.
    Springer, 2018. <a href="https://doi.org/10.1007/978-3-319-96145-3_5">https://doi.org/10.1007/978-3-319-96145-3_5</a>.
  ieee: 'B. Kragl and S. Qadeer, “Layered Concurrent Programs,” presented at the CAV:
    Computer Aided Verification, Oxford, UK, 2018, vol. 10981, pp. 79–102.'
  ista: 'Kragl B, Qadeer S. 2018. Layered Concurrent Programs. CAV: Computer Aided
    Verification, LNCS, vol. 10981, 79–102.'
  mla: Kragl, Bernhard, and Shaz Qadeer. <i>Layered Concurrent Programs</i>. Vol.
    10981, Springer, 2018, pp. 79–102, doi:<a href="https://doi.org/10.1007/978-3-319-96145-3_5">10.1007/978-3-319-96145-3_5</a>.
  short: B. Kragl, S. Qadeer, in:, Springer, 2018, pp. 79–102.
conference:
  end_date: 2018-07-17
  location: Oxford, UK
  name: 'CAV: Computer Aided Verification'
  start_date: 2018-07-14
date_created: 2018-12-11T11:44:57Z
date_published: 2018-07-18T00:00:00Z
date_updated: 2026-04-08T07:23:52Z
day: '18'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1007/978-3-319-96145-3_5
external_id:
  isi:
  - '000491481600005'
file:
- access_level: open_access
  checksum: c64fff560fe5a7532ec10626ad1c215e
  content_type: application/pdf
  creator: dernst
  date_created: 2018-12-17T12:52:12Z
  date_updated: 2020-07-14T12:45:04Z
  file_id: '5705'
  file_name: 2018_LNCS_Kragl.pdf
  file_size: 1603844
  relation: main_file
file_date_updated: 2020-07-14T12:45:04Z
has_accepted_license: '1'
intvolume: '     10981'
isi: 1
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 79 - 102
project:
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: Z211
  name: Formal methods for the design and analysis of complex systems
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: S 11407_N23
  name: Rigorous Systems Engineering
publication_status: published
publisher: Springer
publist_id: '7761'
quality_controlled: '1'
related_material:
  record:
  - id: '8332'
    relation: dissertation_contains
    status: public
scopus_import: '1'
status: public
title: Layered Concurrent Programs
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 10981
year: '2018'
...
---
_id: '161'
abstract:
- lang: eng
  text: 'Which properties of metabolic networks can be derived solely from stoichiometry?
    Predictive results have been obtained by flux balance analysis (FBA), by postulating
    that cells set metabolic fluxes to maximize growth rate. Here we consider a generalization
    of FBA to single-cell level using maximum entropy modeling, which we extend and
    test experimentally. Specifically, we define for Escherichia coli metabolism a
    flux distribution that yields the experimental growth rate: the model, containing
    FBA as a limit, provides a better match to measured fluxes and it makes a wide
    range of predictions: on flux variability, regulation, and correlations; on the
    relative importance of stoichiometry vs. optimization; on scaling relations for
    growth rate distributions. We validate the latter here with single-cell data at
    different sub-inhibitory antibiotic concentrations. The model quantifies growth
    optimization as emerging from the interplay of competitive dynamics in the population
    and regulation of metabolism at the level of single cells.'
article_number: '2988'
article_processing_charge: No
author:
- first_name: Daniele
  full_name: De Martino, Daniele
  id: 3FF5848A-F248-11E8-B48F-1D18A9856A87
  last_name: De Martino
  orcid: 0000-0002-5214-4706
- first_name: Andersson Anna
  full_name: Mc, Andersson Anna
  last_name: Mc
- first_name: Tobias
  full_name: Bergmiller, Tobias
  id: 2C471CFA-F248-11E8-B48F-1D18A9856A87
  last_name: Bergmiller
  orcid: 0000-0001-5396-4346
- first_name: Calin C
  full_name: Guet, Calin C
  id: 47F8433E-F248-11E8-B48F-1D18A9856A87
  last_name: Guet
  orcid: 0000-0001-6220-2052
- first_name: Gasper
  full_name: Tkacik, Gasper
  id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
  last_name: Tkacik
  orcid: 0000-0002-6699-1455
citation:
  ama: De Martino D, Mc AA, Bergmiller T, Guet CC, Tkačik G. Statistical mechanics
    for metabolic networks during steady state growth. <i>Nature Communications</i>.
    2018;9(1). doi:<a href="https://doi.org/10.1038/s41467-018-05417-9">10.1038/s41467-018-05417-9</a>
  apa: De Martino, D., Mc, A. A., Bergmiller, T., Guet, C. C., &#38; Tkačik, G. (2018).
    Statistical mechanics for metabolic networks during steady state growth. <i>Nature
    Communications</i>. Springer Nature. <a href="https://doi.org/10.1038/s41467-018-05417-9">https://doi.org/10.1038/s41467-018-05417-9</a>
  chicago: De Martino, Daniele, Andersson Anna Mc, Tobias Bergmiller, Calin C Guet,
    and Gašper Tkačik. “Statistical Mechanics for Metabolic Networks during Steady
    State Growth.” <i>Nature Communications</i>. Springer Nature, 2018. <a href="https://doi.org/10.1038/s41467-018-05417-9">https://doi.org/10.1038/s41467-018-05417-9</a>.
  ieee: D. De Martino, A. A. Mc, T. Bergmiller, C. C. Guet, and G. Tkačik, “Statistical
    mechanics for metabolic networks during steady state growth,” <i>Nature Communications</i>,
    vol. 9, no. 1. Springer Nature, 2018.
  ista: De Martino D, Mc AA, Bergmiller T, Guet CC, Tkačik G. 2018. Statistical mechanics
    for metabolic networks during steady state growth. Nature Communications. 9(1),
    2988.
  mla: De Martino, Daniele, et al. “Statistical Mechanics for Metabolic Networks during
    Steady State Growth.” <i>Nature Communications</i>, vol. 9, no. 1, 2988, Springer
    Nature, 2018, doi:<a href="https://doi.org/10.1038/s41467-018-05417-9">10.1038/s41467-018-05417-9</a>.
  short: D. De Martino, A.A. Mc, T. Bergmiller, C.C. Guet, G. Tkačik, Nature Communications
    9 (2018).
date_created: 2018-12-11T11:44:57Z
date_published: 2018-07-30T00:00:00Z
date_updated: 2025-04-15T06:50:08Z
day: '30'
ddc:
- '570'
department:
- _id: GaTk
- _id: CaGu
doi: 10.1038/s41467-018-05417-9
ec_funded: 1
external_id:
  isi:
  - '000440149300021'
file:
- access_level: open_access
  checksum: 3ba7ab27b27723c7dcf633e8fc1f8f18
  content_type: application/pdf
  creator: dernst
  date_created: 2018-12-17T16:44:28Z
  date_updated: 2020-07-14T12:45:06Z
  file_id: '5728'
  file_name: 2018_NatureComm_DeMartino.pdf
  file_size: 1043205
  relation: main_file
file_date_updated: 2020-07-14T12:45:06Z
has_accepted_license: '1'
intvolume: '         9'
isi: 1
issue: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 254E9036-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: P28844-B27
  name: Biophysics of information processing in gene regulation
- _id: 25681D80-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '291734'
  name: International IST Postdoc Fellowship Programme
publication: Nature Communications
publication_status: published
publisher: Springer Nature
publist_id: '7760'
quality_controlled: '1'
related_material:
  record:
  - id: '5587'
    relation: popular_science
    status: public
scopus_import: '1'
status: public
title: Statistical mechanics for metabolic networks during steady state growth
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 9
year: '2018'
...
---
_id: '162'
abstract:
- lang: eng
  text: 'Facial shape is the basis for facial recognition and categorization. Facial
    features reflect the underlying geometry of the skeletal structures. Here, we
    reveal that cartilaginous nasal capsule (corresponding to upper jaw and face)
    is shaped by signals generated by neural structures: brain and olfactory epithelium.
    Brain-derived Sonic Hedgehog (SHH) enables the induction of nasal septum and posterior
    nasal capsule, whereas the formation of a capsule roof is controlled by signals
    from the olfactory epithelium. Unexpectedly, the cartilage of the nasal capsule
    turned out to be important for shaping membranous facial bones during development.
    This suggests that conserved neurosensory structures could benefit from protection
    and have evolved signals inducing cranial cartilages encasing them. Experiments
    with mutant mice revealed that the genomic regulatory regions controlling production
    of SHH in the nervous system contribute to facial cartilage morphogenesis, which
    might be a mechanism responsible for the adaptive evolution of animal faces and
    snouts.'
article_number: e34465
article_processing_charge: No
author:
- first_name: Marketa
  full_name: Kaucka, Marketa
  last_name: Kaucka
- first_name: Julian
  full_name: Petersen, Julian
  last_name: Petersen
- first_name: Marketa
  full_name: Tesarova, Marketa
  last_name: Tesarova
- first_name: Bara
  full_name: Szarowska, Bara
  last_name: Szarowska
- first_name: Maria
  full_name: Kastriti, Maria
  last_name: Kastriti
- first_name: Meng
  full_name: Xie, Meng
  last_name: Xie
- first_name: Anna
  full_name: Kicheva, Anna
  id: 3959A2A0-F248-11E8-B48F-1D18A9856A87
  last_name: Kicheva
  orcid: 0000-0003-4509-4998
- first_name: Karl
  full_name: Annusver, Karl
  last_name: Annusver
- first_name: Maria
  full_name: Kasper, Maria
  last_name: Kasper
- first_name: Orsolya
  full_name: Symmons, Orsolya
  last_name: Symmons
- first_name: Leslie
  full_name: Pan, Leslie
  last_name: Pan
- first_name: Francois
  full_name: Spitz, Francois
  last_name: Spitz
- first_name: Jozef
  full_name: Kaiser, Jozef
  last_name: Kaiser
- first_name: Maria
  full_name: Hovorakova, Maria
  last_name: Hovorakova
- first_name: Tomas
  full_name: Zikmund, Tomas
  last_name: Zikmund
- first_name: Kazunori
  full_name: Sunadome, Kazunori
  last_name: Sunadome
- first_name: Michael P
  full_name: Matise, Michael P
  last_name: Matise
- first_name: Hui
  full_name: Wang, Hui
  last_name: Wang
- first_name: Ulrika
  full_name: Marklund, Ulrika
  last_name: Marklund
- first_name: Hind
  full_name: Abdo, Hind
  last_name: Abdo
- first_name: Patrik
  full_name: Ernfors, Patrik
  last_name: Ernfors
- first_name: Pascal
  full_name: Maire, Pascal
  last_name: Maire
- first_name: Maud
  full_name: Wurmser, Maud
  last_name: Wurmser
- first_name: Andrei S
  full_name: Chagin, Andrei S
  last_name: Chagin
- first_name: Kaj
  full_name: Fried, Kaj
  last_name: Fried
- first_name: Igor
  full_name: Adameyko, Igor
  last_name: Adameyko
citation:
  ama: Kaucka M, Petersen J, Tesarova M, et al. Signals from the brain and olfactory
    epithelium control shaping of the mammalian nasal capsule cartilage. <i>eLife</i>.
    2018;7. doi:<a href="https://doi.org/10.7554/eLife.34465">10.7554/eLife.34465</a>
  apa: Kaucka, M., Petersen, J., Tesarova, M., Szarowska, B., Kastriti, M., Xie, M.,
    … Adameyko, I. (2018). Signals from the brain and olfactory epithelium control
    shaping of the mammalian nasal capsule cartilage. <i>ELife</i>. eLife Sciences
    Publications. <a href="https://doi.org/10.7554/eLife.34465">https://doi.org/10.7554/eLife.34465</a>
  chicago: Kaucka, Marketa, Julian Petersen, Marketa Tesarova, Bara Szarowska, Maria
    Kastriti, Meng Xie, Anna Kicheva, et al. “Signals from the Brain and Olfactory
    Epithelium Control Shaping of the Mammalian Nasal Capsule Cartilage.” <i>ELife</i>.
    eLife Sciences Publications, 2018. <a href="https://doi.org/10.7554/eLife.34465">https://doi.org/10.7554/eLife.34465</a>.
  ieee: M. Kaucka <i>et al.</i>, “Signals from the brain and olfactory epithelium
    control shaping of the mammalian nasal capsule cartilage,” <i>eLife</i>, vol.
    7. eLife Sciences Publications, 2018.
  ista: Kaucka M, Petersen J, Tesarova M, Szarowska B, Kastriti M, Xie M, Kicheva
    A, Annusver K, Kasper M, Symmons O, Pan L, Spitz F, Kaiser J, Hovorakova M, Zikmund
    T, Sunadome K, Matise MP, Wang H, Marklund U, Abdo H, Ernfors P, Maire P, Wurmser
    M, Chagin AS, Fried K, Adameyko I. 2018. Signals from the brain and olfactory
    epithelium control shaping of the mammalian nasal capsule cartilage. eLife. 7,
    e34465.
  mla: Kaucka, Marketa, et al. “Signals from the Brain and Olfactory Epithelium Control
    Shaping of the Mammalian Nasal Capsule Cartilage.” <i>ELife</i>, vol. 7, e34465,
    eLife Sciences Publications, 2018, doi:<a href="https://doi.org/10.7554/eLife.34465">10.7554/eLife.34465</a>.
  short: M. Kaucka, J. Petersen, M. Tesarova, B. Szarowska, M. Kastriti, M. Xie, A.
    Kicheva, K. Annusver, M. Kasper, O. Symmons, L. Pan, F. Spitz, J. Kaiser, M. Hovorakova,
    T. Zikmund, K. Sunadome, M.P. Matise, H. Wang, U. Marklund, H. Abdo, P. Ernfors,
    P. Maire, M. Wurmser, A.S. Chagin, K. Fried, I. Adameyko, ELife 7 (2018).
date_created: 2018-12-11T11:44:57Z
date_published: 2018-06-13T00:00:00Z
date_updated: 2025-04-14T07:27:30Z
day: '13'
ddc:
- '571'
department:
- _id: AnKi
doi: 10.7554/eLife.34465
ec_funded: 1
external_id:
  isi:
  - '000436227500001'
file:
- access_level: open_access
  checksum: da2378cdcf6b5461dcde194e4d608343
  content_type: application/pdf
  creator: dernst
  date_created: 2018-12-17T16:41:58Z
  date_updated: 2020-07-14T12:45:07Z
  file_id: '5727'
  file_name: 2018_eLife_Kaucka.pdf
  file_size: 9816484
  relation: main_file
file_date_updated: 2020-07-14T12:45:07Z
has_accepted_license: '1'
intvolume: '         7'
isi: 1
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
project:
- _id: B6FC0238-B512-11E9-945C-1524E6697425
  call_identifier: H2020
  grant_number: '680037'
  name: Coordination of Patterning And Growth In the Spinal Cord
publication: eLife
publication_status: published
publisher: eLife Sciences Publications
publist_id: '7759'
quality_controlled: '1'
related_material:
  record:
  - id: '9838'
    relation: research_data
    status: public
scopus_import: '1'
status: public
title: Signals from the brain and olfactory epithelium control shaping of the mammalian
  nasal capsule cartilage
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 7
year: '2018'
...
---
_id: '163'
abstract:
- lang: eng
  text: For ultrafast fixation of biological samples to avoid artifacts, high-pressure
    freezing (HPF) followed by freeze substitution (FS) is preferred over chemical
    fixation at room temperature. After HPF, samples are maintained at low temperature
    during dehydration and fixation, while avoiding damaging recrystallization. This
    is a notoriously slow process. McDonald and Webb demonstrated, in 2011, that sample
    agitation during FS dramatically reduces the necessary time. Then, in 2015, we
    (H.G. and S.R.) introduced an agitation module into the cryochamber of an automated
    FS unit and demonstrated that the preparation of algae could be shortened from
    days to a couple of hours. We argued that variability in the processing, reproducibility,
    and safety issues are better addressed using automated FS units. For dissemination,
    we started low-cost manufacturing of agitation modules for two of the most widely
    used FS units, the Automatic Freeze Substitution Systems, AFS(1) and AFS2, from
    Leica Microsystems, using three dimensional (3D)-printing of the major components.
    To test them, several labs independently used the modules on a wide variety of
    specimens that had previously been processed by manual agitation, or without agitation.
    We demonstrate that automated processing with sample agitation saves time, increases
    flexibility with respect to sample requirements and protocols, and produces data
    of at least as good quality as other approaches.
article_processing_charge: No
article_type: original
author:
- first_name: Siegfried
  full_name: Reipert, Siegfried
  last_name: Reipert
- first_name: Helmuth
  full_name: Goldammer, Helmuth
  last_name: Goldammer
- first_name: Christine
  full_name: Richardson, Christine
  last_name: Richardson
- first_name: Martin
  full_name: Goldberg, Martin
  last_name: Goldberg
- first_name: Timothy
  full_name: Hawkins, Timothy
  last_name: Hawkins
- first_name: Elena
  full_name: Hollergschwandtner, Elena
  id: 3C054040-F248-11E8-B48F-1D18A9856A87
  last_name: Hollergschwandtner
- first_name: Walter
  full_name: Kaufmann, Walter
  id: 3F99E422-F248-11E8-B48F-1D18A9856A87
  last_name: Kaufmann
  orcid: 0000-0001-9735-5315
- first_name: Sebastian
  full_name: Antreich, Sebastian
  last_name: Antreich
- first_name: York
  full_name: Stierhof, York
  last_name: Stierhof
citation:
  ama: 'Reipert S, Goldammer H, Richardson C, et al. Agitation modules: Flexible means
    to accelerate automated freeze substitution. <i>Journal of Histochemistry and
    Cytochemistry</i>. 2018;66(12):903-921. doi:<a href="https://doi.org/10.1369/0022155418786698">10.1369/0022155418786698</a>'
  apa: 'Reipert, S., Goldammer, H., Richardson, C., Goldberg, M., Hawkins, T., Saeckl,
    E., … Stierhof, Y. (2018). Agitation modules: Flexible means to accelerate automated
    freeze substitution. <i>Journal of Histochemistry and Cytochemistry</i>. SAGE
    Publications. <a href="https://doi.org/10.1369/0022155418786698">https://doi.org/10.1369/0022155418786698</a>'
  chicago: 'Reipert, Siegfried, Helmuth Goldammer, Christine Richardson, Martin Goldberg,
    Timothy Hawkins, Elena Saeckl, Walter Kaufmann, Sebastian Antreich, and York Stierhof.
    “Agitation Modules: Flexible Means to Accelerate Automated Freeze Substitution.”
    <i>Journal of Histochemistry and Cytochemistry</i>. SAGE Publications, 2018. <a
    href="https://doi.org/10.1369/0022155418786698">https://doi.org/10.1369/0022155418786698</a>.'
  ieee: 'S. Reipert <i>et al.</i>, “Agitation modules: Flexible means to accelerate
    automated freeze substitution,” <i>Journal of Histochemistry and Cytochemistry</i>,
    vol. 66, no. 12. SAGE Publications, pp. 903–921, 2018.'
  ista: 'Reipert S, Goldammer H, Richardson C, Goldberg M, Hawkins T, Saeckl E, Kaufmann
    W, Antreich S, Stierhof Y. 2018. Agitation modules: Flexible means to accelerate
    automated freeze substitution. Journal of Histochemistry and Cytochemistry. 66(12),
    903–921.'
  mla: 'Reipert, Siegfried, et al. “Agitation Modules: Flexible Means to Accelerate
    Automated Freeze Substitution.” <i>Journal of Histochemistry and Cytochemistry</i>,
    vol. 66, no. 12, SAGE Publications, 2018, pp. 903–21, doi:<a href="https://doi.org/10.1369/0022155418786698">10.1369/0022155418786698</a>.'
  short: S. Reipert, H. Goldammer, C. Richardson, M. Goldberg, T. Hawkins, E. Saeckl,
    W. Kaufmann, S. Antreich, Y. Stierhof, Journal of Histochemistry and Cytochemistry
    66 (2018) 903–921.
date_created: 2018-12-11T11:44:57Z
date_published: 2018-12-01T00:00:00Z
date_updated: 2026-06-18T17:50:00Z
day: '01'
ddc:
- '570'
department:
- _id: RySh
- _id: EM-Fac
doi: 10.1369/0022155418786698
external_id:
  isi:
  - '000452277700005'
  pmid:
  - '29969056'
intvolume: '        66'
isi: 1
issue: '12'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1369/0022155418786698
month: '12'
oa: 1
oa_version: Published Version
page: 903-921
pmid: 1
publication: Journal of Histochemistry and Cytochemistry
publication_identifier:
  issn:
  - 0022-1554
publication_status: published
publisher: SAGE Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Agitation modules: Flexible means to accelerate automated freeze substitution'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 66
year: '2018'
...
---
_id: '17'
abstract:
- lang: eng
  text: Creeping flow of polymeric fluid without inertia exhibits elastic instabilities
    and elastic turbulence accompanied by drag enhancement due to elastic stress produced
    by flow-stretched polymers. However, in inertia-dominated flow at high Re and
    low fluid elasticity El, a reduction in turbulent frictional drag is caused by
    an intricate competition between inertial and elastic stresses. Here we explore
    the effect of inertia on the stability of viscoelastic flow in a broad range of
    control parameters El and (Re,Wi). We present the stability diagram of observed
    flow regimes in Wi-Re coordinates and find that the instabilities' onsets show
    an unexpectedly nonmonotonic dependence on El. Further, three distinct regions
    in the diagram are identified based on El. Strikingly, for high-elasticity fluids
    we discover a complete relaminarization of flow at Reynolds number in the range
    of 1 to 10, different from a well-known turbulent drag reduction. These counterintuitive
    effects may be explained by a finite polymer extensibility and a suppression of
    vorticity at high Wi. Our results call for further theoretical and numerical development
    to uncover the role of inertial effect on elastic turbulence in a viscoelastic
    flow.
article_number: '103302 '
article_processing_charge: No
author:
- first_name: Atul
  full_name: Varshney, Atul
  id: 2A2006B2-F248-11E8-B48F-1D18A9856A87
  last_name: Varshney
  orcid: 0000-0002-3072-5999
- first_name: Victor
  full_name: Steinberg, Victor
  last_name: Steinberg
citation:
  ama: Varshney A, Steinberg V. Drag enhancement and drag reduction in viscoelastic
    flow. <i>Physical Review Fluids</i>. 2018;3(10). doi:<a href="https://doi.org/10.1103/PhysRevFluids.3.103302">10.1103/PhysRevFluids.3.103302</a>
  apa: Varshney, A., &#38; Steinberg, V. (2018). Drag enhancement and drag reduction
    in viscoelastic flow. <i>Physical Review Fluids</i>. American Physical Society.
    <a href="https://doi.org/10.1103/PhysRevFluids.3.103302">https://doi.org/10.1103/PhysRevFluids.3.103302</a>
  chicago: Varshney, Atul, and Victor Steinberg. “Drag Enhancement and Drag Reduction
    in Viscoelastic Flow.” <i>Physical Review Fluids</i>. American Physical Society,
    2018. <a href="https://doi.org/10.1103/PhysRevFluids.3.103302">https://doi.org/10.1103/PhysRevFluids.3.103302</a>.
  ieee: A. Varshney and V. Steinberg, “Drag enhancement and drag reduction in viscoelastic
    flow,” <i>Physical Review Fluids</i>, vol. 3, no. 10. American Physical Society,
    2018.
  ista: Varshney A, Steinberg V. 2018. Drag enhancement and drag reduction in viscoelastic
    flow. Physical Review Fluids. 3(10), 103302.
  mla: Varshney, Atul, and Victor Steinberg. “Drag Enhancement and Drag Reduction
    in Viscoelastic Flow.” <i>Physical Review Fluids</i>, vol. 3, no. 10, 103302,
    American Physical Society, 2018, doi:<a href="https://doi.org/10.1103/PhysRevFluids.3.103302">10.1103/PhysRevFluids.3.103302</a>.
  short: A. Varshney, V. Steinberg, Physical Review Fluids 3 (2018).
date_created: 2018-12-11T11:44:11Z
date_published: 2018-10-15T00:00:00Z
date_updated: 2025-04-14T07:43:59Z
day: '15'
ddc:
- '532'
department:
- _id: BjHo
doi: 10.1103/PhysRevFluids.3.103302
ec_funded: 1
external_id:
  isi:
  - '000447311500001'
file:
- access_level: open_access
  checksum: e1445be33e8165114e96246275600750
  content_type: application/pdf
  creator: system
  date_created: 2018-12-12T10:10:14Z
  date_updated: 2020-07-14T12:45:12Z
  file_id: '4800'
  file_name: IST-2018-1061-v1+1_PhysRevFluids.3.103302.pdf
  file_size: 1409040
  relation: main_file
file_date_updated: 2020-07-14T12:45:12Z
has_accepted_license: '1'
intvolume: '         3'
isi: 1
issue: '10'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '754411'
  name: ISTplus - Postdoctoral Fellowships
publication: Physical Review Fluids
publication_status: published
publisher: American Physical Society
publist_id: '8038'
pubrep_id: '1061'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Drag enhancement and drag reduction in viscoelastic flow
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 3
year: '2018'
...
---
_id: '185'
abstract:
- lang: eng
  text: We resolve in the affirmative conjectures of A. Skopenkov and Repovš (1998),
    and M. Skopenkov (2003) generalizing the classical Hanani-Tutte theorem to the
    setting of approximating maps of graphs on 2-dimensional surfaces by embeddings.
    Our proof of this result is constructive and almost immediately implies an efficient
    algorithm for testing whether a given piecewise linear map of a graph in a surface
    is approximable by an embedding. More precisely, an instance of this problem consists
    of (i) a graph G whose vertices are partitioned into clusters and whose inter-cluster
    edges are partitioned into bundles, and (ii) a region R of a 2-dimensional compact
    surface M given as the union of a set of pairwise disjoint discs corresponding
    to the clusters and a set of pairwise disjoint &quot;pipes&quot; corresponding
    to the bundles, connecting certain pairs of these discs. We are to decide whether
    G can be embedded inside M so that the vertices in every cluster are drawn in
    the corresponding disc, the edges in every bundle pass only through its corresponding
    pipe, and every edge crosses the boundary of each disc at most once.
alternative_title:
- Leibniz International Proceedings in Information, LIPIcs
article_number: '39'
author:
- first_name: Radoslav
  full_name: Fulek, Radoslav
  id: 39F3FFE4-F248-11E8-B48F-1D18A9856A87
  last_name: Fulek
  orcid: 0000-0001-8485-1774
- first_name: Jan
  full_name: Kynčl, Jan
  last_name: Kynčl
citation:
  ama: 'Fulek R, Kynčl J. Hanani-Tutte for approximating maps of graphs. In: Vol 99.
    Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2018. doi:<a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.39">10.4230/LIPIcs.SoCG.2018.39</a>'
  apa: 'Fulek, R., &#38; Kynčl, J. (2018). Hanani-Tutte for approximating maps of
    graphs (Vol. 99). Presented at the SoCG: Symposium on Computational Geometry,
    Budapest, Hungary: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.39">https://doi.org/10.4230/LIPIcs.SoCG.2018.39</a>'
  chicago: Fulek, Radoslav, and Jan Kynčl. “Hanani-Tutte for Approximating Maps of
    Graphs,” Vol. 99. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018. <a
    href="https://doi.org/10.4230/LIPIcs.SoCG.2018.39">https://doi.org/10.4230/LIPIcs.SoCG.2018.39</a>.
  ieee: 'R. Fulek and J. Kynčl, “Hanani-Tutte for approximating maps of graphs,” presented
    at the SoCG: Symposium on Computational Geometry, Budapest, Hungary, 2018, vol.
    99.'
  ista: 'Fulek R, Kynčl J. 2018. Hanani-Tutte for approximating maps of graphs. SoCG:
    Symposium on Computational Geometry, Leibniz International Proceedings in Information,
    LIPIcs, vol. 99, 39.'
  mla: Fulek, Radoslav, and Jan Kynčl. <i>Hanani-Tutte for Approximating Maps of Graphs</i>.
    Vol. 99, 39, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018, doi:<a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.39">10.4230/LIPIcs.SoCG.2018.39</a>.
  short: R. Fulek, J. Kynčl, in:, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
    2018.
conference:
  end_date: 2018-06-14
  location: Budapest, Hungary
  name: 'SoCG: Symposium on Computational Geometry'
  start_date: 2018-06-11
date_created: 2018-12-11T11:45:04Z
date_published: 2018-01-01T00:00:00Z
date_updated: 2021-01-12T06:53:36Z
day: '01'
ddc:
- '510'
department:
- _id: UlWa
doi: 10.4230/LIPIcs.SoCG.2018.39
file:
- access_level: open_access
  checksum: f1b94f1a75b37c414a1f61d59fb2cd4c
  content_type: application/pdf
  creator: dernst
  date_created: 2018-12-17T12:33:52Z
  date_updated: 2020-07-14T12:45:19Z
  file_id: '5701'
  file_name: 2018_LIPIcs_Fulek.pdf
  file_size: 718857
  relation: main_file
file_date_updated: 2020-07-14T12:45:19Z
has_accepted_license: '1'
intvolume: '        99'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 261FA626-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: M02281
  name: Eliminating intersections in drawings of graphs
publication_identifier:
  isbn:
  - 978-3-95977-066-8
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '7735'
quality_controlled: '1'
scopus_import: 1
status: public
title: Hanani-Tutte for approximating maps of graphs
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 99
year: '2018'
...
---
_id: '186'
abstract:
- lang: eng
  text: 'A drawing of a graph on a surface is independently even if every pair of
    nonadjacent edges in the drawing crosses an even number of times. The ℤ2-genus
    of a graph G is the minimum g such that G has an independently even drawing on
    the orientable surface of genus g. An unpublished result by Robertson and Seymour
    implies that for every t, every graph of sufficiently large genus contains as
    a minor a projective t × t grid or one of the following so-called t-Kuratowski
    graphs: K3, t, or t copies of K5 or K3,3 sharing at most 2 common vertices. We
    show that the ℤ2-genus of graphs in these families is unbounded in t; in fact,
    equal to their genus. Together, this implies that the genus of a graph is bounded
    from above by a function of its ℤ2-genus, solving a problem posed by Schaefer
    and Štefankovič, and giving an approximate version of the Hanani-Tutte theorem
    on orientable surfaces.'
alternative_title:
- LIPIcs
article_processing_charge: No
arxiv: 1
author:
- first_name: Radoslav
  full_name: Fulek, Radoslav
  id: 39F3FFE4-F248-11E8-B48F-1D18A9856A87
  last_name: Fulek
  orcid: 0000-0001-8485-1774
- first_name: Jan
  full_name: Kynčl, Jan
  last_name: Kynčl
citation:
  ama: 'Fulek R, Kynčl J. The ℤ2-Genus of Kuratowski minors. In: Vol 99. Schloss Dagstuhl
    - Leibniz-Zentrum für Informatik; 2018:40.1-40.14. doi:<a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.40">10.4230/LIPIcs.SoCG.2018.40</a>'
  apa: 'Fulek, R., &#38; Kynčl, J. (2018). The ℤ2-Genus of Kuratowski minors (Vol.
    99, p. 40.1-40.14). Presented at the SoCG: Symposium on Computational Geometry,
    Budapest, Hungary: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.40">https://doi.org/10.4230/LIPIcs.SoCG.2018.40</a>'
  chicago: Fulek, Radoslav, and Jan Kynčl. “The ℤ2-Genus of Kuratowski Minors,” 99:40.1-40.14.
    Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018. <a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.40">https://doi.org/10.4230/LIPIcs.SoCG.2018.40</a>.
  ieee: 'R. Fulek and J. Kynčl, “The ℤ2-Genus of Kuratowski minors,” presented at
    the SoCG: Symposium on Computational Geometry, Budapest, Hungary, 2018, vol. 99,
    p. 40.1-40.14.'
  ista: 'Fulek R, Kynčl J. 2018. The ℤ2-Genus of Kuratowski minors. SoCG: Symposium
    on Computational Geometry, LIPIcs, vol. 99, 40.1-40.14.'
  mla: Fulek, Radoslav, and Jan Kynčl. <i>The ℤ2-Genus of Kuratowski Minors</i>. Vol.
    99, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018, p. 40.1-40.14, doi:<a
    href="https://doi.org/10.4230/LIPIcs.SoCG.2018.40">10.4230/LIPIcs.SoCG.2018.40</a>.
  short: R. Fulek, J. Kynčl, in:, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
    2018, p. 40.1-40.14.
conference:
  end_date: 2018-06-14
  location: Budapest, Hungary
  name: 'SoCG: Symposium on Computational Geometry'
  start_date: 2018-06-11
date_created: 2018-12-11T11:45:05Z
date_published: 2018-06-11T00:00:00Z
date_updated: 2025-04-14T13:52:37Z
day: '11'
department:
- _id: UlWa
doi: 10.4230/LIPIcs.SoCG.2018.40
external_id:
  arxiv:
  - '1803.05085'
intvolume: '        99'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://arxiv.org/abs/1803.05085
month: '06'
oa: 1
oa_version: Submitted Version
page: 40.1 - 40.14
project:
- _id: 261FA626-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: M02281
  name: Eliminating intersections in drawings of graphs
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '7734'
quality_controlled: '1'
related_material:
  record:
  - id: '11593'
    relation: later_version
    status: public
scopus_import: '1'
status: public
title: The ℤ2-Genus of Kuratowski minors
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 99
year: '2018'
...
---
_id: '187'
abstract:
- lang: eng
  text: 'Given a locally finite X ⊆ ℝd and a radius r ≥ 0, the k-fold cover of X and
    r consists of all points in ℝd that have k or more points of X within distance
    r. We consider two filtrations - one in scale obtained by fixing k and increasing
    r, and the other in depth obtained by fixing r and decreasing k - and we compute
    the persistence diagrams of both. While standard methods suffice for the filtration
    in scale, we need novel geometric and topological concepts for the filtration
    in depth. In particular, we introduce a rhomboid tiling in ℝd+1 whose horizontal
    integer slices are the order-k Delaunay mosaics of X, and construct a zigzag module
    from Delaunay mosaics that is isomorphic to the persistence module of the multi-covers. '
acknowledgement: This work is partially supported by the DFG Collaborative Research
  Center TRR 109, ‘Discretization in Geometry and Dynamics’, through grant no. I02979-N35
  of the Austrian Science Fund (FWF).
alternative_title:
- LIPIcs
article_number: '34'
author:
- first_name: Herbert
  full_name: Edelsbrunner, Herbert
  id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
  last_name: Edelsbrunner
  orcid: 0000-0002-9823-6833
- first_name: Georg F
  full_name: Osang, Georg F
  id: 464B40D6-F248-11E8-B48F-1D18A9856A87
  last_name: Osang
  orcid: 0000-0002-8882-5116
citation:
  ama: 'Edelsbrunner H, Osang GF. The multi-cover persistence of Euclidean balls.
    In: Vol 99. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2018. doi:<a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.34">10.4230/LIPIcs.SoCG.2018.34</a>'
  apa: 'Edelsbrunner, H., &#38; Osang, G. F. (2018). The multi-cover persistence of
    Euclidean balls (Vol. 99). Presented at the SoCG: Symposium on Computational Geometry,
    Budapest, Hungary: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.34">https://doi.org/10.4230/LIPIcs.SoCG.2018.34</a>'
  chicago: Edelsbrunner, Herbert, and Georg F Osang. “The Multi-Cover Persistence
    of Euclidean Balls,” Vol. 99. Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
    2018. <a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.34">https://doi.org/10.4230/LIPIcs.SoCG.2018.34</a>.
  ieee: 'H. Edelsbrunner and G. F. Osang, “The multi-cover persistence of Euclidean
    balls,” presented at the SoCG: Symposium on Computational Geometry, Budapest,
    Hungary, 2018, vol. 99.'
  ista: 'Edelsbrunner H, Osang GF. 2018. The multi-cover persistence of Euclidean
    balls. SoCG: Symposium on Computational Geometry, LIPIcs, vol. 99, 34.'
  mla: Edelsbrunner, Herbert, and Georg F. Osang. <i>The Multi-Cover Persistence of
    Euclidean Balls</i>. Vol. 99, 34, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
    2018, doi:<a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.34">10.4230/LIPIcs.SoCG.2018.34</a>.
  short: H. Edelsbrunner, G.F. Osang, in:, Schloss Dagstuhl - Leibniz-Zentrum für
    Informatik, 2018.
conference:
  end_date: 2018-06-14
  location: Budapest, Hungary
  name: 'SoCG: Symposium on Computational Geometry'
  start_date: 2018-06-11
date_created: 2018-12-11T11:45:05Z
date_published: 2018-06-11T00:00:00Z
date_updated: 2026-04-08T07:01:29Z
day: '11'
ddc:
- '516'
department:
- _id: HeEd
doi: 10.4230/LIPIcs.SoCG.2018.34
file:
- access_level: open_access
  checksum: d8c0533ad0018eb4ed1077475eb8fc18
  content_type: application/pdf
  creator: dernst
  date_created: 2018-12-18T09:27:22Z
  date_updated: 2020-07-14T12:45:19Z
  file_id: '5738'
  file_name: 2018_LIPIcs_Edelsbrunner_Osang.pdf
  file_size: 528018
  relation: main_file
file_date_updated: 2020-07-14T12:45:19Z
has_accepted_license: '1'
intvolume: '        99'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
project:
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: I02979-N35
  name: Persistence and stability of geometric complexes
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '7732'
quality_controlled: '1'
related_material:
  record:
  - id: '9317'
    relation: later_version
    status: public
  - id: '9056'
    relation: dissertation_contains
    status: public
scopus_import: 1
status: public
title: The multi-cover persistence of Euclidean balls
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 99
year: '2018'
...
---
_id: '188'
abstract:
- lang: eng
  text: Smallest enclosing spheres of finite point sets are central to methods in
    topological data analysis. Focusing on Bregman divergences to measure dissimilarity,
    we prove bounds on the location of the center of a smallest enclosing sphere.
    These bounds depend on the range of radii for which Bregman balls are convex.
acknowledgement: This research is partially supported by the Office of Naval Research,
  through grant no. N62909-18-1-2038, and the DFG Collaborative Research Center TRR
  109, ‘Discretization in Geometry and Dynamics’, through grant no. I02979-N35 of
  the Austrian Science Fund
alternative_title:
- Leibniz International Proceedings in Information, LIPIcs
author:
- first_name: Herbert
  full_name: Edelsbrunner, Herbert
  id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
  last_name: Edelsbrunner
  orcid: 0000-0002-9823-6833
- first_name: Ziga
  full_name: Virk, Ziga
  last_name: Virk
- first_name: Hubert
  full_name: Wagner, Hubert
  id: 379CA8B8-F248-11E8-B48F-1D18A9856A87
  last_name: Wagner
citation:
  ama: 'Edelsbrunner H, Virk Z, Wagner H. Smallest enclosing spheres and Chernoff
    points in Bregman geometry. In: Vol 99. Schloss Dagstuhl - Leibniz-Zentrum für
    Informatik; 2018:35:1-35:13. doi:<a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.35">10.4230/LIPIcs.SoCG.2018.35</a>'
  apa: 'Edelsbrunner, H., Virk, Z., &#38; Wagner, H. (2018). Smallest enclosing spheres
    and Chernoff points in Bregman geometry (Vol. 99, p. 35:1-35:13). Presented at
    the SoCG: Symposium on Computational Geometry, Budapest, Hungary: Schloss Dagstuhl
    - Leibniz-Zentrum für Informatik. <a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.35">https://doi.org/10.4230/LIPIcs.SoCG.2018.35</a>'
  chicago: Edelsbrunner, Herbert, Ziga Virk, and Hubert Wagner. “Smallest Enclosing
    Spheres and Chernoff Points in Bregman Geometry,” 99:35:1-35:13. Schloss Dagstuhl
    - Leibniz-Zentrum für Informatik, 2018. <a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.35">https://doi.org/10.4230/LIPIcs.SoCG.2018.35</a>.
  ieee: 'H. Edelsbrunner, Z. Virk, and H. Wagner, “Smallest enclosing spheres and
    Chernoff points in Bregman geometry,” presented at the SoCG: Symposium on Computational
    Geometry, Budapest, Hungary, 2018, vol. 99, p. 35:1-35:13.'
  ista: 'Edelsbrunner H, Virk Z, Wagner H. 2018. Smallest enclosing spheres and Chernoff
    points in Bregman geometry. SoCG: Symposium on Computational Geometry, Leibniz
    International Proceedings in Information, LIPIcs, vol. 99, 35:1-35:13.'
  mla: Edelsbrunner, Herbert, et al. <i>Smallest Enclosing Spheres and Chernoff Points
    in Bregman Geometry</i>. Vol. 99, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
    2018, p. 35:1-35:13, doi:<a href="https://doi.org/10.4230/LIPIcs.SoCG.2018.35">10.4230/LIPIcs.SoCG.2018.35</a>.
  short: H. Edelsbrunner, Z. Virk, H. Wagner, in:, Schloss Dagstuhl - Leibniz-Zentrum
    für Informatik, 2018, p. 35:1-35:13.
conference:
  end_date: 2018-06-14
  location: Budapest, Hungary
  name: 'SoCG: Symposium on Computational Geometry'
  start_date: 2018-06-11
date_created: 2018-12-11T11:45:05Z
date_published: 2018-06-11T00:00:00Z
date_updated: 2021-01-12T06:53:48Z
day: '11'
ddc:
- '000'
department:
- _id: HeEd
doi: 10.4230/LIPIcs.SoCG.2018.35
file:
- access_level: open_access
  checksum: 7509403803b3ac1aee94bbc2ad293d21
  content_type: application/pdf
  creator: dernst
  date_created: 2018-12-17T16:31:31Z
  date_updated: 2020-07-14T12:45:20Z
  file_id: '5724'
  file_name: 2018_LIPIcs_Edelsbrunner.pdf
  file_size: 489080
  relation: main_file
file_date_updated: 2020-07-14T12:45:20Z
has_accepted_license: '1'
intvolume: '        99'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 35:1 - 35:13
project:
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: I02979-N35
  name: Persistence and stability of geometric complexes
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '7733'
quality_controlled: '1'
scopus_import: 1
status: public
title: Smallest enclosing spheres and Chernoff points in Bregman geometry
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 99
year: '2018'
...
---
_id: '19'
abstract:
- lang: eng
  text: Bacteria regulate genes to survive antibiotic stress, but regulation can be
    far from perfect. When regulation is not optimal, mutations that change gene expression
    can contribute to antibiotic resistance. It is not systematically understood to
    what extent natural gene regulation is or is not optimal for distinct antibiotics,
    and how changes in expression of specific genes quantitatively affect antibiotic
    resistance. Here we discover a simple quantitative relation between fitness, gene
    expression, and antibiotic potency, which rationalizes our observation that a
    multitude of genes and even innate antibiotic defense mechanisms have expression
    that is critically nonoptimal under antibiotic treatment. First, we developed
    a pooled-strain drug-diffusion assay and screened Escherichia coli overexpression
    and knockout libraries, finding that resistance to a range of 31 antibiotics could
    result from changing expression of a large and functionally diverse set of genes,
    in a primarily but not exclusively drug-specific manner. Second, by synthetically
    controlling the expression of single-drug and multidrug resistance genes, we observed
    that their fitness-expression functions changed dramatically under antibiotic
    treatment in accordance with a log-sensitivity relation. Thus, because many genes
    are nonoptimally expressed under antibiotic treatment, many regulatory mutations
    can contribute to resistance by altering expression and by activating latent defenses.
article_processing_charge: No
article_type: original
author:
- first_name: Adam
  full_name: Palmer, Adam
  last_name: Palmer
- first_name: Remy P
  full_name: Chait, Remy P
  id: 3464AE84-F248-11E8-B48F-1D18A9856A87
  last_name: Chait
  orcid: 0000-0003-0876-3187
- first_name: Roy
  full_name: Kishony, Roy
  last_name: Kishony
citation:
  ama: Palmer A, Chait RP, Kishony R. Nonoptimal gene expression creates latent potential
    for antibiotic resistance. <i>Molecular Biology and Evolution</i>. 2018;35(11):2669-2684.
    doi:<a href="https://doi.org/10.1093/molbev/msy163">10.1093/molbev/msy163</a>
  apa: Palmer, A., Chait, R. P., &#38; Kishony, R. (2018). Nonoptimal gene expression
    creates latent potential for antibiotic resistance. <i>Molecular Biology and Evolution</i>.
    Oxford University Press. <a href="https://doi.org/10.1093/molbev/msy163">https://doi.org/10.1093/molbev/msy163</a>
  chicago: Palmer, Adam, Remy P Chait, and Roy Kishony. “Nonoptimal Gene Expression
    Creates Latent Potential for Antibiotic Resistance.” <i>Molecular Biology and
    Evolution</i>. Oxford University Press, 2018. <a href="https://doi.org/10.1093/molbev/msy163">https://doi.org/10.1093/molbev/msy163</a>.
  ieee: A. Palmer, R. P. Chait, and R. Kishony, “Nonoptimal gene expression creates
    latent potential for antibiotic resistance,” <i>Molecular Biology and Evolution</i>,
    vol. 35, no. 11. Oxford University Press, pp. 2669–2684, 2018.
  ista: Palmer A, Chait RP, Kishony R. 2018. Nonoptimal gene expression creates latent
    potential for antibiotic resistance. Molecular Biology and Evolution. 35(11),
    2669–2684.
  mla: Palmer, Adam, et al. “Nonoptimal Gene Expression Creates Latent Potential for
    Antibiotic Resistance.” <i>Molecular Biology and Evolution</i>, vol. 35, no. 11,
    Oxford University Press, 2018, pp. 2669–84, doi:<a href="https://doi.org/10.1093/molbev/msy163">10.1093/molbev/msy163</a>.
  short: A. Palmer, R.P. Chait, R. Kishony, Molecular Biology and Evolution 35 (2018)
    2669–2684.
date_created: 2018-12-11T11:44:11Z
date_published: 2018-08-28T00:00:00Z
date_updated: 2023-10-17T11:51:06Z
day: '28'
department:
- _id: CaGu
- _id: GaTk
doi: 10.1093/molbev/msy163
external_id:
  isi:
  - '000452567200006'
  pmid:
  - '30169679'
intvolume: '        35'
isi: 1
issue: '11'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://www.ncbi.nlm.nih.gov/pubmed/30169679
month: '08'
oa: 1
oa_version: Submitted Version
page: 2669 - 2684
pmid: 1
publication: Molecular Biology and Evolution
publication_identifier:
  issn:
  - 0737-4038
publication_status: published
publisher: Oxford University Press
publist_id: '8036'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Nonoptimal gene expression creates latent potential for antibiotic resistance
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2018'
...
---
_id: '190'
abstract:
- lang: eng
  text: The German cockroach, Blattella germanica, is a worldwide pest that infests
    buildings, including homes, restaurants, and hospitals, often living in unsanitary
    conditions. As a disease vector and producer of allergens, this species has major
    health and economic impacts on humans. Factors contributing to the success of
    the German cockroach include its resistance to a broad range of insecticides,
    immunity to many pathogens, and its ability, as an extreme generalist omnivore,
    to survive on most food sources. The recently published genome shows that B. germanica
    has an exceptionally high number of protein coding genes. In this study, we investigate
    the functions of the 93 significantly expanded gene families with the aim to better
    understand the success of B. germanica as a major pest despite such inhospitable
    conditions. We find major expansions in gene families with functions related to
    the detoxification of insecticides and allelochemicals, defense against pathogens,
    digestion, sensory perception, and gene regulation. These expansions might have
    allowed B. germanica to develop multiple resistance mechanisms to insecticides
    and pathogens, and enabled a broad, flexible diet, thus explaining its success
    in unsanitary conditions and under recurrent chemical control. The findings and
    resources presented here provide insights for better understanding molecular mechanisms
    that will facilitate more effective cockroach control.
article_processing_charge: No
article_type: original
author:
- first_name: Mark
  full_name: Harrison, Mark
  last_name: Harrison
- first_name: Nicolas
  full_name: Arning, Nicolas
  last_name: Arning
- first_name: Lucas
  full_name: Kremer, Lucas
  last_name: Kremer
- first_name: Guillem
  full_name: Ylla, Guillem
  last_name: Ylla
- first_name: Xavier
  full_name: Belles, Xavier
  last_name: Belles
- first_name: Erich
  full_name: Bornberg Bauer, Erich
  last_name: Bornberg Bauer
- first_name: Ann K
  full_name: Huylmans, Ann K
  id: 4C0A3874-F248-11E8-B48F-1D18A9856A87
  last_name: Huylmans
  orcid: 0000-0001-8871-4961
- first_name: Evelien
  full_name: Jongepier, Evelien
  last_name: Jongepier
- first_name: Maria
  full_name: Puilachs, Maria
  last_name: Puilachs
- first_name: Stephen
  full_name: Richards, Stephen
  last_name: Richards
- first_name: Coby
  full_name: Schal, Coby
  last_name: Schal
citation:
  ama: 'Harrison M, Arning N, Kremer L, et al. Expansions of key protein families
    in the German cockroach highlight the molecular basis of its remarkable success
    as a global indoor pest. <i>Journal of Experimental Zoology Part B: Molecular
    and Developmental Evolution</i>. 2018;330:254-264. doi:<a href="https://doi.org/10.1002/jez.b.22824">10.1002/jez.b.22824</a>'
  apa: 'Harrison, M., Arning, N., Kremer, L., Ylla, G., Belles, X., Bornberg Bauer,
    E., … Schal, C. (2018). Expansions of key protein families in the German cockroach
    highlight the molecular basis of its remarkable success as a global indoor pest.
    <i>Journal of Experimental Zoology Part B: Molecular and Developmental Evolution</i>.
    Wiley. <a href="https://doi.org/10.1002/jez.b.22824">https://doi.org/10.1002/jez.b.22824</a>'
  chicago: 'Harrison, Mark, Nicolas Arning, Lucas Kremer, Guillem Ylla, Xavier Belles,
    Erich Bornberg Bauer, Ann K Huylmans, et al. “Expansions of Key Protein Families
    in the German Cockroach Highlight the Molecular Basis of Its Remarkable Success
    as a Global Indoor Pest.” <i>Journal of Experimental Zoology Part B: Molecular
    and Developmental Evolution</i>. Wiley, 2018. <a href="https://doi.org/10.1002/jez.b.22824">https://doi.org/10.1002/jez.b.22824</a>.'
  ieee: 'M. Harrison <i>et al.</i>, “Expansions of key protein families in the German
    cockroach highlight the molecular basis of its remarkable success as a global
    indoor pest,” <i>Journal of Experimental Zoology Part B: Molecular and Developmental
    Evolution</i>, vol. 330. Wiley, pp. 254–264, 2018.'
  ista: 'Harrison M, Arning N, Kremer L, Ylla G, Belles X, Bornberg Bauer E, Huylmans
    AK, Jongepier E, Puilachs M, Richards S, Schal C. 2018. Expansions of key protein
    families in the German cockroach highlight the molecular basis of its remarkable
    success as a global indoor pest. Journal of Experimental Zoology Part B: Molecular
    and Developmental Evolution. 330, 254–264.'
  mla: 'Harrison, Mark, et al. “Expansions of Key Protein Families in the German Cockroach
    Highlight the Molecular Basis of Its Remarkable Success as a Global Indoor Pest.”
    <i>Journal of Experimental Zoology Part B: Molecular and Developmental Evolution</i>,
    vol. 330, Wiley, 2018, pp. 254–64, doi:<a href="https://doi.org/10.1002/jez.b.22824">10.1002/jez.b.22824</a>.'
  short: 'M. Harrison, N. Arning, L. Kremer, G. Ylla, X. Belles, E. Bornberg Bauer,
    A.K. Huylmans, E. Jongepier, M. Puilachs, S. Richards, C. Schal, Journal of Experimental
    Zoology Part B: Molecular and Developmental Evolution 330 (2018) 254–264.'
date_created: 2018-12-11T11:45:06Z
date_published: 2018-07-11T00:00:00Z
date_updated: 2023-09-11T13:59:54Z
day: '11'
department:
- _id: BeVi
doi: 10.1002/jez.b.22824
external_id:
  isi:
  - '000443231000002'
  pmid:
  - '29998472'
intvolume: '       330'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://onlinelibrary.wiley.com/doi/am-pdf/10.1002/jez.b.22824
month: '07'
oa: 1
oa_version: Submitted Version
page: 254-264
pmid: 1
publication: 'Journal of Experimental Zoology Part B: Molecular and Developmental
  Evolution'
publication_status: published
publisher: Wiley
publist_id: '7730'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Expansions of key protein families in the German cockroach highlight the molecular
  basis of its remarkable success as a global indoor pest
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 330
year: '2018'
...
---
_id: '192'
abstract:
- lang: eng
  text: The phytohormone auxin is the information carrier in a plethora of developmental
    and physiological processes in plants(1). It has been firmly established that
    canonical, nuclear auxin signalling acts through regulation of gene transcription(2).
    Here, we combined microfluidics, live imaging, genetic engineering and computational
    modelling to reanalyse the classical case of root growth inhibition(3) by auxin.
    We show that Arabidopsis roots react to addition and removal of auxin by extremely
    rapid adaptation of growth rate. This process requires intracellular auxin perception
    but not transcriptional reprogramming. The formation of the canonical TIR1/AFB-Aux/IAA
    co-receptor complex is required for the growth regulation, hinting to a novel,
    non-transcriptional branch of this signalling pathway. Our results challenge the
    current understanding of root growth regulation by auxin and suggest another,
    presumably non-transcriptional, signalling output of the canonical auxin pathway.
article_processing_charge: No
article_type: original
author:
- first_name: Matyas
  full_name: Fendrych, Matyas
  id: 43905548-F248-11E8-B48F-1D18A9856A87
  last_name: Fendrych
  orcid: 0000-0002-9767-8699
- first_name: Maria
  full_name: Akhmanova, Maria
  id: 3425EC26-F248-11E8-B48F-1D18A9856A87
  last_name: Akhmanova
  orcid: 0000-0003-1522-3162
- first_name: Jack
  full_name: Merrin, Jack
  id: 4515C308-F248-11E8-B48F-1D18A9856A87
  last_name: Merrin
  orcid: 0000-0001-5145-4609
- first_name: Matous
  full_name: Glanc, Matous
  last_name: Glanc
- first_name: Shinya
  full_name: Hagihara, Shinya
  last_name: Hagihara
- first_name: Koji
  full_name: Takahashi, Koji
  last_name: Takahashi
- first_name: Naoyuki
  full_name: Uchida, Naoyuki
  last_name: Uchida
- first_name: Keiko U
  full_name: Torii, Keiko U
  last_name: Torii
- first_name: Jirí
  full_name: Friml, Jirí
  id: 4159519E-F248-11E8-B48F-1D18A9856A87
  last_name: Friml
  orcid: 0000-0002-8302-7596
citation:
  ama: Fendrych M, Akhmanova M, Merrin J, et al. Rapid and reversible root growth
    inhibition by TIR1 auxin signalling. <i>Nature Plants</i>. 2018;4(7):453-459.
    doi:<a href="https://doi.org/10.1038/s41477-018-0190-1">10.1038/s41477-018-0190-1</a>
  apa: Fendrych, M., Akhmanova, M., Merrin, J., Glanc, M., Hagihara, S., Takahashi,
    K., … Friml, J. (2018). Rapid and reversible root growth inhibition by TIR1 auxin
    signalling. <i>Nature Plants</i>. Springer Nature. <a href="https://doi.org/10.1038/s41477-018-0190-1">https://doi.org/10.1038/s41477-018-0190-1</a>
  chicago: Fendrych, Matyas, Maria Akhmanova, Jack Merrin, Matous Glanc, Shinya Hagihara,
    Koji Takahashi, Naoyuki Uchida, Keiko U Torii, and Jiří Friml. “Rapid and Reversible
    Root Growth Inhibition by TIR1 Auxin Signalling.” <i>Nature Plants</i>. Springer
    Nature, 2018. <a href="https://doi.org/10.1038/s41477-018-0190-1">https://doi.org/10.1038/s41477-018-0190-1</a>.
  ieee: M. Fendrych <i>et al.</i>, “Rapid and reversible root growth inhibition by
    TIR1 auxin signalling,” <i>Nature Plants</i>, vol. 4, no. 7. Springer Nature,
    pp. 453–459, 2018.
  ista: Fendrych M, Akhmanova M, Merrin J, Glanc M, Hagihara S, Takahashi K, Uchida
    N, Torii KU, Friml J. 2018. Rapid and reversible root growth inhibition by TIR1
    auxin signalling. Nature Plants. 4(7), 453–459.
  mla: Fendrych, Matyas, et al. “Rapid and Reversible Root Growth Inhibition by TIR1
    Auxin Signalling.” <i>Nature Plants</i>, vol. 4, no. 7, Springer Nature, 2018,
    pp. 453–59, doi:<a href="https://doi.org/10.1038/s41477-018-0190-1">10.1038/s41477-018-0190-1</a>.
  short: M. Fendrych, M. Akhmanova, J. Merrin, M. Glanc, S. Hagihara, K. Takahashi,
    N. Uchida, K.U. Torii, J. Friml, Nature Plants 4 (2018) 453–459.
date_created: 2018-12-11T11:45:07Z
date_published: 2018-06-25T00:00:00Z
date_updated: 2023-09-15T12:11:03Z
day: '25'
department:
- _id: JiFr
- _id: DaSi
- _id: NanoFab
doi: 10.1038/s41477-018-0190-1
external_id:
  isi:
  - '000443221200017'
  pmid:
  - '29942048'
intvolume: '         4'
isi: 1
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://www.ncbi.nlm.nih.gov/pubmed/29942048
month: '06'
oa: 1
oa_version: Submitted Version
page: 453 - 459
pmid: 1
publication: Nature Plants
publication_status: published
publisher: Springer Nature
publist_id: '7728'
quality_controlled: '1'
related_material:
  link:
  - description: News on IST Homepage
    relation: press_release
    url: https://ist.ac.at/en/news/new-mechanism-for-the-plant-hormone-auxin-discovered/
scopus_import: '1'
status: public
title: Rapid and reversible root growth inhibition by TIR1 auxin signalling
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 4
year: '2018'
...
---
_id: '193'
abstract:
- lang: eng
  text: 'We show attacks on five data-independent memory-hard functions (iMHF) that
    were submitted to the password hashing competition (PHC). Informally, an MHF is
    a function which cannot be evaluated on dedicated hardware, like ASICs, at significantly
    lower hardware and/or energy cost than evaluating a single instance on a standard
    single-core architecture. Data-independent means the memory access pattern of
    the function is independent of the input; this makes iMHFs harder to construct
    than data-dependent ones, but the latter can be attacked by various side-channel
    attacks. Following [Alwen-Blocki''16], we capture the evaluation of an iMHF as
    a directed acyclic graph (DAG). The cumulative parallel pebbling complexity of
    this DAG is a measure for the hardware cost of evaluating the iMHF on an ASIC.
    Ideally, one would like the complexity of a DAG underlying an iMHF to be as close
    to quadratic in the number of nodes of the graph as possible. Instead, we show
    that (the DAGs underlying) the following iMHFs are far from this bound: Rig.v2,
    TwoCats and Gambit each having an exponent no more than 1.75. Moreover, we show
    that the complexity of the iMHF modes of the PHC finalists Pomelo and Lyra2 have
    exponents at most 1.83 and 1.67 respectively. To show this we investigate a combinatorial
    property of each underlying DAG (called its depth-robustness. By establishing
    upper bounds on this property we are then able to apply the general technique
    of [Alwen-Block''16] for analyzing the hardware costs of an iMHF.'
acknowledgement: Leonid Reyzin was supported in part by IST Austria and by US NSF
  grants 1012910, 1012798, and 1422965; this research was performed while he was visiting
  IST Austria.
article_processing_charge: No
author:
- first_name: Joel F
  full_name: Alwen, Joel F
  id: 2A8DFA8C-F248-11E8-B48F-1D18A9856A87
  last_name: Alwen
- first_name: Peter
  full_name: Gazi, Peter
  last_name: Gazi
- first_name: Chethan
  full_name: Kamath Hosdurg, Chethan
  id: 4BD3F30E-F248-11E8-B48F-1D18A9856A87
  last_name: Kamath Hosdurg
- first_name: Karen
  full_name: Klein, Karen
  id: 3E83A2F8-F248-11E8-B48F-1D18A9856A87
  last_name: Klein
- first_name: Georg F
  full_name: Osang, Georg F
  id: 464B40D6-F248-11E8-B48F-1D18A9856A87
  last_name: Osang
  orcid: 0000-0002-8882-5116
- first_name: Krzysztof Z
  full_name: Pietrzak, Krzysztof Z
  id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
  last_name: Pietrzak
  orcid: 0000-0002-9139-1654
- first_name: Lenoid
  full_name: Reyzin, Lenoid
  last_name: Reyzin
- first_name: Michal
  full_name: Rolinek, Michal
  id: 3CB3BC06-F248-11E8-B48F-1D18A9856A87
  last_name: Rolinek
- first_name: Michal
  full_name: Rybar, Michal
  id: 2B3E3DE8-F248-11E8-B48F-1D18A9856A87
  last_name: Rybar
citation:
  ama: 'Alwen JF, Gazi P, Kamath Hosdurg C, et al. On the memory hardness of data
    independent password hashing functions. In: <i>Proceedings of the 2018 on Asia
    Conference on Computer and Communication Security</i>. ACM; 2018:51-65. doi:<a
    href="https://doi.org/10.1145/3196494.3196534">10.1145/3196494.3196534</a>'
  apa: 'Alwen, J. F., Gazi, P., Kamath Hosdurg, C., Klein, K., Osang, G. F., Pietrzak,
    K. Z., … Rybar, M. (2018). On the memory hardness of data independent password
    hashing functions. In <i>Proceedings of the 2018 on Asia Conference on Computer
    and Communication Security</i> (pp. 51–65). Incheon, Republic of Korea: ACM. <a
    href="https://doi.org/10.1145/3196494.3196534">https://doi.org/10.1145/3196494.3196534</a>'
  chicago: Alwen, Joel F, Peter Gazi, Chethan Kamath Hosdurg, Karen Klein, Georg F
    Osang, Krzysztof Z Pietrzak, Lenoid Reyzin, Michal Rolinek, and Michal Rybar.
    “On the Memory Hardness of Data Independent Password Hashing Functions.” In <i>Proceedings
    of the 2018 on Asia Conference on Computer and Communication Security</i>, 51–65.
    ACM, 2018. <a href="https://doi.org/10.1145/3196494.3196534">https://doi.org/10.1145/3196494.3196534</a>.
  ieee: J. F. Alwen <i>et al.</i>, “On the memory hardness of data independent password
    hashing functions,” in <i>Proceedings of the 2018 on Asia Conference on Computer
    and Communication Security</i>, Incheon, Republic of Korea, 2018, pp. 51–65.
  ista: 'Alwen JF, Gazi P, Kamath Hosdurg C, Klein K, Osang GF, Pietrzak KZ, Reyzin
    L, Rolinek M, Rybar M. 2018. On the memory hardness of data independent password
    hashing functions. Proceedings of the 2018 on Asia Conference on Computer and
    Communication Security. ASIACCS: Asia Conference on Computer and Communications
    Security , 51–65.'
  mla: Alwen, Joel F., et al. “On the Memory Hardness of Data Independent Password
    Hashing Functions.” <i>Proceedings of the 2018 on Asia Conference on Computer
    and Communication Security</i>, ACM, 2018, pp. 51–65, doi:<a href="https://doi.org/10.1145/3196494.3196534">10.1145/3196494.3196534</a>.
  short: J.F. Alwen, P. Gazi, C. Kamath Hosdurg, K. Klein, G.F. Osang, K.Z. Pietrzak,
    L. Reyzin, M. Rolinek, M. Rybar, in:, Proceedings of the 2018 on Asia Conference
    on Computer and Communication Security, ACM, 2018, pp. 51–65.
conference:
  end_date: 2018-06-08
  location: Incheon, Republic of Korea
  name: 'ASIACCS: Asia Conference on Computer and Communications Security '
  start_date: 2018-06-04
date_created: 2018-12-11T11:45:07Z
date_published: 2018-06-01T00:00:00Z
date_updated: 2024-11-04T13:52:29Z
day: '01'
department:
- _id: KrPi
- _id: HeEd
- _id: VlKo
doi: 10.1145/3196494.3196534
ec_funded: 1
external_id:
  isi:
  - '000516620100005'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://eprint.iacr.org/2016/783
month: '06'
oa: 1
oa_version: Submitted Version
page: 51 - 65
project:
- _id: 25FBA906-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '616160'
  name: 'Discrete Optimization in Computer Vision: Theory and Practice'
- _id: 258AA5B2-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '682815'
  name: Teaching Old Crypto New Tricks
publication: Proceedings of the 2018 on Asia Conference on Computer and Communication
  Security
publication_status: published
publisher: ACM
publist_id: '7723'
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the memory hardness of data independent password hashing functions
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2018'
...
---
_id: '194'
abstract:
- lang: eng
  text: Ants are emerging model systems to study cellular signaling because distinct
    castes possess different physiologic phenotypes within the same colony. Here we
    studied the functionality of inotocin signaling, an insect ortholog of mammalian
    oxytocin (OT), which was recently discovered in ants. In Lasius ants, we determined
    that specialization within the colony, seasonal factors, and physiologic conditions
    down-regulated the expression of the OT-like signaling system. Given this natural
    variation, we interrogated its function using RNAi knockdowns. Next-generation
    RNA sequencing of OT-like precursor knock-down ants highlighted its role in the
    regulation of genes involved in metabolism. Knock-down ants exhibited higher walking
    activity and increased self-grooming in the brood chamber. We propose that OT-like
    signaling in ants is important for regulating metabolic processes and locomotion.
article_processing_charge: No
article_type: original
author:
- first_name: Zita
  full_name: Liutkeviciute, Zita
  last_name: Liutkeviciute
- first_name: Esther
  full_name: Gil Mansilla, Esther
  last_name: Gil Mansilla
- first_name: Thomas
  full_name: Eder, Thomas
  last_name: Eder
- first_name: Barbara E
  full_name: Casillas Perez, Barbara E
  id: 351ED2AA-F248-11E8-B48F-1D18A9856A87
  last_name: Casillas Perez
- first_name: Maria
  full_name: Giulia Di Giglio, Maria
  last_name: Giulia Di Giglio
- first_name: Edin
  full_name: Muratspahić, Edin
  last_name: Muratspahić
- first_name: Florian
  full_name: Grebien, Florian
  last_name: Grebien
- first_name: Thomas
  full_name: Rattei, Thomas
  last_name: Rattei
- first_name: Markus
  full_name: Muttenthaler, Markus
  last_name: Muttenthaler
- first_name: Sylvia
  full_name: Cremer, Sylvia
  id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
  last_name: Cremer
  orcid: 0000-0002-2193-3868
- first_name: Christian
  full_name: Gruber, Christian
  last_name: Gruber
citation:
  ama: Liutkeviciute Z, Gil Mansilla E, Eder T, et al. Oxytocin-like signaling in
    ants influences metabolic gene expression and locomotor activity. <i>The FASEB
    Journal</i>. 2018;32(12):6808-6821. doi:<a href="https://doi.org/10.1096/fj.201800443">10.1096/fj.201800443</a>
  apa: Liutkeviciute, Z., Gil Mansilla, E., Eder, T., Casillas Perez, B. E., Giulia
    Di Giglio, M., Muratspahić, E., … Gruber, C. (2018). Oxytocin-like signaling in
    ants influences metabolic gene expression and locomotor activity. <i>The FASEB
    Journal</i>. FASEB. <a href="https://doi.org/10.1096/fj.201800443">https://doi.org/10.1096/fj.201800443</a>
  chicago: Liutkeviciute, Zita, Esther Gil Mansilla, Thomas Eder, Barbara E Casillas
    Perez, Maria Giulia Di Giglio, Edin Muratspahić, Florian Grebien, et al. “Oxytocin-like
    Signaling in Ants Influences Metabolic Gene Expression and Locomotor Activity.”
    <i>The FASEB Journal</i>. FASEB, 2018. <a href="https://doi.org/10.1096/fj.201800443">https://doi.org/10.1096/fj.201800443</a>.
  ieee: Z. Liutkeviciute <i>et al.</i>, “Oxytocin-like signaling in ants influences
    metabolic gene expression and locomotor activity,” <i>The FASEB Journal</i>, vol.
    32, no. 12. FASEB, pp. 6808–6821, 2018.
  ista: Liutkeviciute Z, Gil Mansilla E, Eder T, Casillas Perez BE, Giulia Di Giglio
    M, Muratspahić E, Grebien F, Rattei T, Muttenthaler M, Cremer S, Gruber C. 2018.
    Oxytocin-like signaling in ants influences metabolic gene expression and locomotor
    activity. The FASEB Journal. 32(12), 6808–6821.
  mla: Liutkeviciute, Zita, et al. “Oxytocin-like Signaling in Ants Influences Metabolic
    Gene Expression and Locomotor Activity.” <i>The FASEB Journal</i>, vol. 32, no.
    12, FASEB, 2018, pp. 6808–21, doi:<a href="https://doi.org/10.1096/fj.201800443">10.1096/fj.201800443</a>.
  short: Z. Liutkeviciute, E. Gil Mansilla, T. Eder, B.E. Casillas Perez, M. Giulia
    Di Giglio, E. Muratspahić, F. Grebien, T. Rattei, M. Muttenthaler, S. Cremer,
    C. Gruber, The FASEB Journal 32 (2018) 6808–6821.
date_created: 2018-12-11T11:45:08Z
date_published: 2018-11-29T00:00:00Z
date_updated: 2026-06-18T18:15:11Z
day: '29'
ddc:
- '570'
department:
- _id: SyCr
doi: 10.1096/fj.201800443
external_id:
  isi:
  - '000449359700035'
  pmid:
  - '29939785'
intvolume: '        32'
isi: 1
issue: '12'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: ' https://doi.org/10.1096/fj.201800443'
month: '11'
oa: 1
oa_version: Published Version
page: 6808-6821
pmid: 1
project:
- _id: 25E3D34E-B435-11E9-9278-68D0E5697425
  name: Individual function and social role of oxytocin-like neuropeptides in ants
publication: The FASEB Journal
publication_identifier:
  issn:
  - 0892-6638
publication_status: published
publisher: FASEB
publist_id: '7721'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Oxytocin-like signaling in ants influences metabolic gene expression and locomotor
  activity
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 32
year: '2018'
...
---
OA_place: repository
OA_type: green
_id: '19494'
abstract:
- lang: eng
  text: Starting from any given rational-sided, right triangle, for example, the (3,4,5)-triangle
    with area 6, we use Euclidean geometry to show that there are infinitely many
    other rational-sided, right triangles of the same area. We show further that the
    set of all such triangles of a given area is finitely generated under our geometric
    construction. Such areas are known as “congruent numbers” and have a rich history
    in which all the results in this article have been proved and far more. Yet, as
    far as we can tell, this seems to be the first exploration using this kind of
    geometric technique.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Yik Tung
  full_name: Chan, Yik Tung
  id: c4c0afc8-9262-11ed-9231-d8b0bc743af1
  last_name: Chan
  orcid: 0000-0001-8467-4106
citation:
  ama: Chan S. Rational right triangles of a given area. <i>The American Mathematical
    Monthly</i>. 2018;125(8):689-703. doi:<a href="https://doi.org/10.1080/00029890.2018.1495491">10.1080/00029890.2018.1495491</a>
  apa: Chan, S. (2018). Rational right triangles of a given area. <i>The American
    Mathematical Monthly</i>. Taylor &#38; Francis. <a href="https://doi.org/10.1080/00029890.2018.1495491">https://doi.org/10.1080/00029890.2018.1495491</a>
  chicago: Chan, Stephanie. “Rational Right Triangles of a given Area.” <i>The American
    Mathematical Monthly</i>. Taylor &#38; Francis, 2018. <a href="https://doi.org/10.1080/00029890.2018.1495491">https://doi.org/10.1080/00029890.2018.1495491</a>.
  ieee: S. Chan, “Rational right triangles of a given area,” <i>The American Mathematical
    Monthly</i>, vol. 125, no. 8. Taylor &#38; Francis, pp. 689–703, 2018.
  ista: Chan S. 2018. Rational right triangles of a given area. The American Mathematical
    Monthly. 125(8), 689–703.
  mla: Chan, Stephanie. “Rational Right Triangles of a given Area.” <i>The American
    Mathematical Monthly</i>, vol. 125, no. 8, Taylor &#38; Francis, 2018, pp. 689–703,
    doi:<a href="https://doi.org/10.1080/00029890.2018.1495491">10.1080/00029890.2018.1495491</a>.
  short: S. Chan, The American Mathematical Monthly 125 (2018) 689–703.
date_created: 2025-04-05T10:51:16Z
date_published: 2018-09-28T00:00:00Z
date_updated: 2025-07-10T11:51:49Z
day: '28'
doi: 10.1080/00029890.2018.1495491
extern: '1'
external_id:
  arxiv:
  - '1706.05919'
intvolume: '       125'
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.1706.05919
month: '09'
oa: 1
oa_version: Preprint
page: 689-703
publication: The American Mathematical Monthly
publication_identifier:
  eissn:
  - 1930-0972
  issn:
  - 0002-9890
publication_status: published
publisher: Taylor & Francis
quality_controlled: '1'
scopus_import: '1'
status: public
title: Rational right triangles of a given area
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 125
year: '2018'
...
---
_id: '195'
abstract:
- lang: eng
  text: We demonstrate that identical impurities immersed in a two-dimensional many-particle
    bath can be viewed as flux-tube-charged-particle composites described by fractional
    statistics. In particular, we find that the bath manifests itself as an external
    magnetic flux tube with respect to the impurities, and hence the time-reversal
    symmetry is broken for the effective Hamiltonian describing the impurities. The
    emerging flux tube acts as a statistical gauge field after a certain critical
    coupling. This critical coupling corresponds to the intersection point between
    the quasiparticle state and the phonon wing, where the angular momentum is transferred
    from the impurity to the bath. This amounts to a novel configuration with emerging
    anyons. The proposed setup paves the way to realizing anyons using electrons interacting
    with superfluid helium or lattice phonons, as well as using atomic impurities
    in ultracold gases.
article_number: '045402'
article_processing_charge: No
arxiv: 1
author:
- first_name: Enderalp
  full_name: Yakaboylu, Enderalp
  id: 38CB71F6-F248-11E8-B48F-1D18A9856A87
  last_name: Yakaboylu
  orcid: 0000-0001-5973-0874
- first_name: Mikhail
  full_name: Lemeshko, Mikhail
  id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
  last_name: Lemeshko
  orcid: 0000-0002-6990-7802
citation:
  ama: Yakaboylu E, Lemeshko M. Anyonic statistics of quantum impurities in two dimensions.
    <i>Physical Review B - Condensed Matter and Materials Physics</i>. 2018;98(4).
    doi:<a href="https://doi.org/10.1103/PhysRevB.98.045402">10.1103/PhysRevB.98.045402</a>
  apa: Yakaboylu, E., &#38; Lemeshko, M. (2018). Anyonic statistics of quantum impurities
    in two dimensions. <i>Physical Review B - Condensed Matter and Materials Physics</i>.
    American Physical Society. <a href="https://doi.org/10.1103/PhysRevB.98.045402">https://doi.org/10.1103/PhysRevB.98.045402</a>
  chicago: Yakaboylu, Enderalp, and Mikhail Lemeshko. “Anyonic Statistics of Quantum
    Impurities in Two Dimensions.” <i>Physical Review B - Condensed Matter and Materials
    Physics</i>. American Physical Society, 2018. <a href="https://doi.org/10.1103/PhysRevB.98.045402">https://doi.org/10.1103/PhysRevB.98.045402</a>.
  ieee: E. Yakaboylu and M. Lemeshko, “Anyonic statistics of quantum impurities in
    two dimensions,” <i>Physical Review B - Condensed Matter and Materials Physics</i>,
    vol. 98, no. 4. American Physical Society, 2018.
  ista: Yakaboylu E, Lemeshko M. 2018. Anyonic statistics of quantum impurities in
    two dimensions. Physical Review B - Condensed Matter and Materials Physics. 98(4),
    045402.
  mla: Yakaboylu, Enderalp, and Mikhail Lemeshko. “Anyonic Statistics of Quantum Impurities
    in Two Dimensions.” <i>Physical Review B - Condensed Matter and Materials Physics</i>,
    vol. 98, no. 4, 045402, American Physical Society, 2018, doi:<a href="https://doi.org/10.1103/PhysRevB.98.045402">10.1103/PhysRevB.98.045402</a>.
  short: E. Yakaboylu, M. Lemeshko, Physical Review B - Condensed Matter and Materials
    Physics 98 (2018).
corr_author: '1'
date_created: 2018-12-11T11:45:08Z
date_published: 2018-07-15T00:00:00Z
date_updated: 2025-04-15T06:50:28Z
day: '15'
department:
- _id: MiLe
doi: 10.1103/PhysRevB.98.045402
ec_funded: 1
external_id:
  arxiv:
  - '1712.00308'
  isi:
  - '000436939100007'
intvolume: '        98'
isi: 1
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://arxiv.org/abs/1712.00308
month: '07'
oa: 1
oa_version: Submitted Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '291734'
  name: International IST Postdoc Fellowship Programme
- _id: 26031614-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: P29902
  name: Quantum rotations in the presence of a many-body environment
publication: Physical Review B - Condensed Matter and Materials Physics
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Anyonic statistics of quantum impurities in two dimensions
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 98
year: '2018'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '19544'
abstract:
- lang: eng
  text: Medicinal bioinorganic chemistry is a thriving field of drug research for
    cancer treatment. Transition metal complexes coordinated to essential biological
    scaffolds represent a highly promising class of compounds for design of novel
    target-specific therapeutics. We report here the biological evaluation of a novel
    Isatin-Schiff base derivative and its Cu(II) complex in several tumor cell lines
    by assessing their effects on cellular metabolism, real-time cell proliferation
    and induction of apoptosis. Further, the impact of compounds on the p53 protein
    and expression of its target genes, including MDM2, p21/CDKN1A, and PUMA was evaluated.
    Results obtained in this study provide further evidence in support of our prior
    data suggesting the p53-mediated mechanism of action for Isatin-Schiff base derivatives
    and their complexes and also shed light on potential use of these compounds for
    stimulation of apoptosis in breast cancer cells via activation of the pro-apoptotic
    PUMA gene.
article_number: '103'
article_processing_charge: Yes
article_type: original
author:
- first_name: Emil
  full_name: Bulatov, Emil
  last_name: Bulatov
- first_name: Regina
  full_name: Sayarova, Regina
  last_name: Sayarova
- first_name: Rimma
  full_name: Mingaleeva, Rimma
  last_name: Mingaleeva
- first_name: Regina
  full_name: Miftakhova, Regina
  last_name: Miftakhova
- first_name: Marina
  full_name: Gomzikova, Marina
  last_name: Gomzikova
- first_name: Iurii
  full_name: Ignatev, Iurii
  id: 2ac71786-dc7d-11ea-9b2f-c5ad4b9faff6
  last_name: Ignatev
- first_name: Alexey
  full_name: Petukhov, Alexey
  last_name: Petukhov
- first_name: Pavel
  full_name: Davidovich, Pavel
  last_name: Davidovich
- first_name: Albert
  full_name: Rizvanov, Albert
  last_name: Rizvanov
- first_name: Nickolai A.
  full_name: Barlev, Nickolai A.
  last_name: Barlev
citation:
  ama: Bulatov E, Sayarova R, Mingaleeva R, et al. Isatin-Schiff base-copper (II)
    complex induces cell death in p53-positive tumors. <i>Cell Death Discovery</i>.
    2018;4. doi:<a href="https://doi.org/10.1038/s41420-018-0120-z">10.1038/s41420-018-0120-z</a>
  apa: Bulatov, E., Sayarova, R., Mingaleeva, R., Miftakhova, R., Gomzikova, M., Ignatev,
    I., … Barlev, N. A. (2018). Isatin-Schiff base-copper (II) complex induces cell
    death in p53-positive tumors. <i>Cell Death Discovery</i>. Springer Nature. <a
    href="https://doi.org/10.1038/s41420-018-0120-z">https://doi.org/10.1038/s41420-018-0120-z</a>
  chicago: Bulatov, Emil, Regina Sayarova, Rimma Mingaleeva, Regina Miftakhova, Marina
    Gomzikova, Iurii Ignatev, Alexey Petukhov, Pavel Davidovich, Albert Rizvanov,
    and Nickolai A. Barlev. “Isatin-Schiff Base-Copper (II) Complex Induces Cell Death
    in P53-Positive Tumors.” <i>Cell Death Discovery</i>. Springer Nature, 2018. <a
    href="https://doi.org/10.1038/s41420-018-0120-z">https://doi.org/10.1038/s41420-018-0120-z</a>.
  ieee: E. Bulatov <i>et al.</i>, “Isatin-Schiff base-copper (II) complex induces
    cell death in p53-positive tumors,” <i>Cell Death Discovery</i>, vol. 4. Springer
    Nature, 2018.
  ista: Bulatov E, Sayarova R, Mingaleeva R, Miftakhova R, Gomzikova M, Ignatev I,
    Petukhov A, Davidovich P, Rizvanov A, Barlev NA. 2018. Isatin-Schiff base-copper
    (II) complex induces cell death in p53-positive tumors. Cell Death Discovery.
    4, 103.
  mla: Bulatov, Emil, et al. “Isatin-Schiff Base-Copper (II) Complex Induces Cell
    Death in P53-Positive Tumors.” <i>Cell Death Discovery</i>, vol. 4, 103, Springer
    Nature, 2018, doi:<a href="https://doi.org/10.1038/s41420-018-0120-z">10.1038/s41420-018-0120-z</a>.
  short: E. Bulatov, R. Sayarova, R. Mingaleeva, R. Miftakhova, M. Gomzikova, I. Ignatev,
    A. Petukhov, P. Davidovich, A. Rizvanov, N.A. Barlev, Cell Death Discovery 4 (2018).
date_created: 2025-04-11T01:31:42Z
date_published: 2018-11-13T00:00:00Z
date_updated: 2025-07-10T11:51:52Z
day: '13'
ddc:
- '570'
department:
- _id: GradSch
- _id: LoSw
doi: 10.1038/s41420-018-0120-z
extern: '1'
external_id:
  pmid:
  - '30455989 '
has_accepted_license: '1'
intvolume: '         4'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1038/s41420-018-0120-z
month: '11'
oa: 1
oa_version: Published Version
pmid: 1
publication: Cell Death Discovery
publication_identifier:
  issn:
  - 2058-7716
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Isatin-Schiff base-copper (II) complex induces cell death in p53-positive tumors
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: 4
year: '2018'
...
---
OA_place: publisher
_id: '197'
abstract:
- lang: eng
  text: Modern computer vision systems heavily rely on statistical machine learning
    models, which typically require large amounts of labeled data to be learned reliably.
    Moreover, very recently computer vision research widely adopted techniques for
    representation learning, which further increase the demand for labeled data. However,
    for many important practical problems there is relatively small amount of labeled
    data available, so it is problematic to leverage full potential of the representation
    learning methods. One way to overcome this obstacle is to invest substantial resources
    into producing large labelled datasets. Unfortunately, this can be prohibitively
    expensive in practice. In this thesis we focus on the alternative way of tackling
    the aforementioned issue. We concentrate on methods, which make use of weakly-labeled
    or even unlabeled data. Specifically, the first half of the thesis is dedicated
    to the semantic image segmentation task. We develop a technique, which achieves
    competitive segmentation performance and only requires annotations in a form of
    global image-level labels instead of dense segmentation masks. Subsequently, we
    present a new methodology, which further improves segmentation performance by
    leveraging tiny additional feedback from a human annotator. By using our methods
    practitioners can greatly reduce the amount of data annotation effort, which is
    required to learn modern image segmentation models. In the second half of the
    thesis we focus on methods for learning from unlabeled visual data. We study a
    family of autoregressive models for modeling structure of natural images and discuss
    potential applications of these models. Moreover, we conduct in-depth study of
    one of these applications, where we develop the state-of-the-art model for the
    probabilistic image colorization task.
acknowledgement: I also gratefully acknowledge the support of NVIDIA Corporation with
  the donation of the GPUs used for this research.
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Alexander
  full_name: Kolesnikov, Alexander
  id: 2D157DB6-F248-11E8-B48F-1D18A9856A87
  last_name: Kolesnikov
citation:
  ama: Kolesnikov A. Weakly-Supervised Segmentation and Unsupervised Modeling of Natural
    Images. 2018. doi:<a href="https://doi.org/10.15479/AT:ISTA:th_1021">10.15479/AT:ISTA:th_1021</a>
  apa: Kolesnikov, A. (2018). <i>Weakly-Supervised Segmentation and Unsupervised Modeling
    of Natural Images</i>. Institute of Science and Technology Austria. <a href="https://doi.org/10.15479/AT:ISTA:th_1021">https://doi.org/10.15479/AT:ISTA:th_1021</a>
  chicago: Kolesnikov, Alexander. “Weakly-Supervised Segmentation and Unsupervised
    Modeling of Natural Images.” Institute of Science and Technology Austria, 2018.
    <a href="https://doi.org/10.15479/AT:ISTA:th_1021">https://doi.org/10.15479/AT:ISTA:th_1021</a>.
  ieee: A. Kolesnikov, “Weakly-Supervised Segmentation and Unsupervised Modeling of
    Natural Images,” Institute of Science and Technology Austria, 2018.
  ista: Kolesnikov A. 2018. Weakly-Supervised Segmentation and Unsupervised Modeling
    of Natural Images. Institute of Science and Technology Austria.
  mla: Kolesnikov, Alexander. <i>Weakly-Supervised Segmentation and Unsupervised Modeling
    of Natural Images</i>. Institute of Science and Technology Austria, 2018, doi:<a
    href="https://doi.org/10.15479/AT:ISTA:th_1021">10.15479/AT:ISTA:th_1021</a>.
  short: A. Kolesnikov, Weakly-Supervised Segmentation and Unsupervised Modeling of
    Natural Images, Institute of Science and Technology Austria, 2018.
corr_author: '1'
date_created: 2018-12-11T11:45:09Z
date_published: 2018-05-25T00:00:00Z
date_updated: 2026-04-08T14:05:16Z
day: '25'
ddc:
- '004'
degree_awarded: PhD
department:
- _id: ChLa
doi: 10.15479/AT:ISTA:th_1021
ec_funded: 1
file:
- access_level: open_access
  checksum: bc678e02468d8ebc39dc7267dfb0a1c4
  content_type: application/pdf
  creator: system
  date_created: 2018-12-12T10:14:57Z
  date_updated: 2020-07-14T12:45:22Z
  file_id: '5113'
  file_name: IST-2018-1021-v1+1_thesis-unsigned-pdfa.pdf
  file_size: 12918758
  relation: main_file
- access_level: closed
  checksum: bc66973b086da5a043f1162dcfb1fde4
  content_type: application/zip
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  date_created: 2019-04-05T09:34:49Z
  date_updated: 2020-07-14T12:45:22Z
  file_id: '6225'
  file_name: 2018_Thesis_Kolesnikov_source.zip
  file_size: 55973760
  relation: source_file
file_date_updated: 2020-07-14T12:45:22Z
has_accepted_license: '1'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: '113'
project:
- _id: 2532554C-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '308036'
  name: Lifelong Learning of Visual Scene Understanding
publication_identifier:
  issn:
  - 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
publist_id: '7718'
pubrep_id: '1021'
status: public
supervisor:
- first_name: Christoph
  full_name: Lampert, Christoph
  id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
  last_name: Lampert
  orcid: 0000-0001-8622-7887
title: Weakly-Supervised Segmentation and Unsupervised Modeling of Natural Images
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2018'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '19706'
abstract:
- lang: eng
  text: 'The importance of astrocytic l-lactate (LL) for normal functioning of neural
    circuits such as those regulating learning/memory, sleep/wake state, autonomic
    homeostasis, or emotional behaviour is being increasingly recognised. l-Lactate
    can act on neurones as a metabolic or redox substrate, but transmembrane receptor
    targets are also emerging. A comparative review of the hydroxy-carboxylic acid
    receptor (HCA1, formerly known as GPR81), Olfactory Receptor Family 51 Subfamily
    E Member 2 (OR51E2), and orphan receptor GPR4 highlights differences in their
    LL sensitivity, pharmacology, intracellular coupling, and localisation in the
    brain. In addition, a putative Gs-coupled receptor on noradrenergic neurones,
    LLRx, which we previously postulated, remains to be identified. Next-generation
    sequencing revealed several orphan receptors expressed in locus coeruleus neurones.
    Screening of a selection of these suggests additional LL-sensitive receptors:
    GPR180 which inhibits and GPR137 which activates intracellular cyclic AMP signalling
    in response to LL in a heterologous expression system. To further characterise
    binding of LL at LLRx, we carried out a structure–activity relationship study
    which demonstrates that carboxyl and 2-hydroxyl moieties of LL are essential for
    triggering d-lactate-sensitive noradrenaline release in locus coeruleus, and that
    the size of the LL binding pocket is limited towards the methyl group position.
    The evidence accumulating to date suggests that LL acts via multiple receptor
    targets to modulate distinct brain functions.'
acknowledgement: This work was supported by grants from BBSRC BB/L019396/1, and MRC
  MR/L020661/1. David Kleinfeld for his gift of CNiFER cells, Lesley Arberry for expert
  technical support, Andrew Herman for support with FACS sorting.
article_processing_charge: Yes
article_type: original
author:
- first_name: Valentina
  full_name: Mosienko, Valentina
  last_name: Mosienko
- first_name: Seyed
  full_name: Rasooli-Nejad, Seyed
  last_name: Rasooli-Nejad
- first_name: Kasumi
  full_name: Kishi, Kasumi
  id: 3065DFC4-F248-11E8-B48F-1D18A9856A87
  last_name: Kishi
- first_name: Matt
  full_name: De Both, Matt
  last_name: De Both
- first_name: David
  full_name: Jane, David
  last_name: Jane
- first_name: Matt J.
  full_name: Huentelman, Matt J.
  last_name: Huentelman
- first_name: Sergey
  full_name: Kasparov, Sergey
  last_name: Kasparov
- first_name: Anja G.
  full_name: Teschemacher, Anja G.
  last_name: Teschemacher
citation:
  ama: Mosienko V, Rasooli-Nejad S, Kishi K, et al. Putative receptors underpinning
    L-Lactate signalling in locus coeruleus. <i>Neuroglia</i>. 2018;1(2):365-380.
    doi:<a href="https://doi.org/10.3390/neuroglia1020025">10.3390/neuroglia1020025</a>
  apa: Mosienko, V., Rasooli-Nejad, S., Kishi, K., De Both, M., Jane, D., Huentelman,
    M. J., … Teschemacher, A. G. (2018). Putative receptors underpinning L-Lactate
    signalling in locus coeruleus. <i>Neuroglia</i>. MDPI. <a href="https://doi.org/10.3390/neuroglia1020025">https://doi.org/10.3390/neuroglia1020025</a>
  chicago: Mosienko, Valentina, Seyed Rasooli-Nejad, Kasumi Kishi, Matt De Both, David
    Jane, Matt J. Huentelman, Sergey Kasparov, and Anja G. Teschemacher. “Putative
    Receptors Underpinning L-Lactate Signalling in Locus Coeruleus.” <i>Neuroglia</i>.
    MDPI, 2018. <a href="https://doi.org/10.3390/neuroglia1020025">https://doi.org/10.3390/neuroglia1020025</a>.
  ieee: V. Mosienko <i>et al.</i>, “Putative receptors underpinning L-Lactate signalling
    in locus coeruleus,” <i>Neuroglia</i>, vol. 1, no. 2. MDPI, pp. 365–380, 2018.
  ista: Mosienko V, Rasooli-Nejad S, Kishi K, De Both M, Jane D, Huentelman MJ, Kasparov
    S, Teschemacher AG. 2018. Putative receptors underpinning L-Lactate signalling
    in locus coeruleus. Neuroglia. 1(2), 365–380.
  mla: Mosienko, Valentina, et al. “Putative Receptors Underpinning L-Lactate Signalling
    in Locus Coeruleus.” <i>Neuroglia</i>, vol. 1, no. 2, MDPI, 2018, pp. 365–80,
    doi:<a href="https://doi.org/10.3390/neuroglia1020025">10.3390/neuroglia1020025</a>.
  short: V. Mosienko, S. Rasooli-Nejad, K. Kishi, M. De Both, D. Jane, M.J. Huentelman,
    S. Kasparov, A.G. Teschemacher, Neuroglia 1 (2018) 365–380.
date_created: 2025-05-18T22:02:51Z
date_published: 2018-12-01T00:00:00Z
date_updated: 2025-05-19T08:28:40Z
day: '01'
ddc:
- '570'
department:
- _id: AnKi
doi: 10.3390/neuroglia1020025
file:
- access_level: open_access
  checksum: cadb56618f72edf4703b6a9855e84baa
  content_type: application/pdf
  creator: dernst
  date_created: 2025-05-19T08:20:19Z
  date_updated: 2025-05-19T08:20:19Z
  file_id: '19711'
  file_name: 2018_Neuroglia_Mosienko.pdf
  file_size: 1909402
  relation: main_file
  success: 1
file_date_updated: 2025-05-19T08:20:19Z
has_accepted_license: '1'
intvolume: '         1'
issue: '2'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 365-380
publication: Neuroglia
publication_identifier:
  eissn:
  - 2571-6980
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Putative receptors underpinning L-Lactate signalling in locus coeruleus
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: 1
year: '2018'
...
---
_id: '435'
abstract:
- lang: eng
  text: It is shown that two fundamentally different phenomena, the bound states in
    continuum and the spectral singularity (or time-reversed spectral singularity),
    can occur simultaneously. This can be achieved in a rectangular core dielectric
    waveguide with an embedded active (or absorbing) layer. In such a system a two-dimensional
    bound state in a continuum is created in the plane of a waveguide cross section,
    and it is emitted or absorbed along the waveguide core. The idea can be used for
    experimental implementation of a laser or a coherent-perfect-absorber for a photonic
    bound state that resides in a continuous spectrum.
acknowledgement: 'Seventh Framework Programme (FP7) People: Marie-Curie Actions (PEOPLE)
  (291734). B. M. acknowledges the financial support by the People Programme (Marie
  Curie Actions) of the European Union’s Seventh Framework Programme (FP7/ 2007-2013)
  under REA.'
article_processing_charge: No
arxiv: 1
author:
- first_name: Bikashkali
  full_name: Midya, Bikashkali
  id: 456187FC-F248-11E8-B48F-1D18A9856A87
  last_name: Midya
- first_name: Vladimir
  full_name: Konotop, Vladimir
  last_name: Konotop
citation:
  ama: Midya B, Konotop V. Coherent-perfect-absorber and laser for bound states in
    a continuum. <i>Optics Letters</i>. 2018;43(3):607-610. doi:<a href="https://doi.org/10.1364/OL.43.000607">10.1364/OL.43.000607</a>
  apa: Midya, B., &#38; Konotop, V. (2018). Coherent-perfect-absorber and laser for
    bound states in a continuum. <i>Optics Letters</i>. Optica Publishing Group. <a
    href="https://doi.org/10.1364/OL.43.000607">https://doi.org/10.1364/OL.43.000607</a>
  chicago: Midya, Bikashkali, and Vladimir Konotop. “Coherent-Perfect-Absorber and
    Laser for Bound States in a Continuum.” <i>Optics Letters</i>. Optica Publishing
    Group, 2018. <a href="https://doi.org/10.1364/OL.43.000607">https://doi.org/10.1364/OL.43.000607</a>.
  ieee: B. Midya and V. Konotop, “Coherent-perfect-absorber and laser for bound states
    in a continuum,” <i>Optics Letters</i>, vol. 43, no. 3. Optica Publishing Group,
    pp. 607–610, 2018.
  ista: Midya B, Konotop V. 2018. Coherent-perfect-absorber and laser for bound states
    in a continuum. Optics Letters. 43(3), 607–610.
  mla: Midya, Bikashkali, and Vladimir Konotop. “Coherent-Perfect-Absorber and Laser
    for Bound States in a Continuum.” <i>Optics Letters</i>, vol. 43, no. 3, Optica
    Publishing Group, 2018, pp. 607–10, doi:<a href="https://doi.org/10.1364/OL.43.000607">10.1364/OL.43.000607</a>.
  short: B. Midya, V. Konotop, Optics Letters 43 (2018) 607–610.
corr_author: '1'
date_created: 2018-12-11T11:46:27Z
date_published: 2018-02-01T00:00:00Z
date_updated: 2025-06-03T11:21:56Z
day: '01'
department:
- _id: MiLe
doi: 10.1364/OL.43.000607
ec_funded: 1
external_id:
  arxiv:
  - '1711.01986'
  isi:
  - '000423776600066'
intvolume: '        43'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://arxiv.org/abs/1711.01986
month: '02'
oa: 1
oa_version: Preprint
page: 607 - 610
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '291734'
  name: International IST Postdoc Fellowship Programme
publication: Optics Letters
publication_status: published
publisher: Optica Publishing Group
publist_id: '7388'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Coherent-perfect-absorber and laser for bound states in a continuum
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 43
year: '2018'
...
