---
_id: '1083'
abstract:
- lang: eng
  text: ' Cholecystokinin-expressing interneurons (CCK-INs) mediate behavior state-dependent
    inhibition in cortical circuits and themselves receive strong GABAergic input.
    However, it remains unclear to what extent GABABreceptors (GABABRs) contribute
    to their inhibitory control. Using immunoelectron microscopy, we found that CCK-INs
    in the rat hippocampus possessed high levels of dendritic GABABRs and KCTD12 auxiliary
    proteins, whereas postsynaptic effector Kir3 channels were present at lower levels.
    Consistently, whole-cell recordings revealed slow GABABR-mediated inhibitory postsynaptic
    currents (IPSCs) in most CCK-INs. In spite of the higher surface density of GABABRs
    in CCK-INs than in CA1 principal cells, the amplitudes of IPSCs were comparable,
    suggesting that the expression of Kir3 channels is the limiting factor for the
    GABABR currents in these INs. Morphological analysis showed that CCK-INs were
    diverse, comprising perisomatic-targeting basket cells (BCs), as well as dendrite-targeting
    (DT) interneurons, including a previously undescribed DT type. GABABR-mediated
    IPSCs in CCK-INs were large in BCs, but small in DT subtypes. In response to prolonged
    activation, GABABR-mediated currents displayed strong desensitization, which was
    absent in KCTD12-deficient mice. This study highlights that GABABRs differentially
    control CCK-IN subtypes, and the kinetics and desensitization of GABABR-mediated
    currents are modulated by KCTD12 proteins. '
acknowledgement: "This work was supported by the Deutsche Forschungsgemeinschaft (DFG
  SFB 780 A2, A.K.; SFB TR3 I.V. and EXC 257, I.V.; FOR 2143, A.K. and I.V.), Spemann
  Graduate School (D.A.), BIOSS-2 (A6, A.K.), the Swiss National Science Foundation
  (3100A0-117816, B.B.), The McNaught Bequest (S.A.B. and I.V.), and Tenovus Scotland
  (I.V.).\r\n\r\n\r\nWe thank Cheryl Hutton and Chinmaya Sadangi for their contributions
  to neuronal reconstruction as well as Natalie Wernet, Sigrun Nestel, Anikó Schneider,
  Ina Wolter, and Ulrich Noeller for their excellent technical support. VGAT-Venus
  transgenic rats were generated by Drs Y. Yanagawa, M. Hirabayashi, and Y. Kawaguchi
  in National Institute for Physiological Sciences, Okazaki, Japan, using pCS2-Venus
  provided by Dr A. Miyawaki. The monoclonal mouse CCK antibody was generously provided
  by Dr G.V. Ohning, CURE Center, UCLA, CA. "
author:
- first_name: Sam
  full_name: Booker, Sam
  last_name: Booker
- first_name: Daniel
  full_name: Althof, Daniel
  last_name: Althof
- first_name: Anna
  full_name: Gross, Anna
  last_name: Gross
- first_name: Desiree
  full_name: Loreth, Desiree
  last_name: Loreth
- first_name: Johanna
  full_name: Müller, Johanna
  last_name: Müller
- first_name: Andreas
  full_name: Unger, Andreas
  last_name: Unger
- first_name: Bernd
  full_name: Fakler, Bernd
  last_name: Fakler
- first_name: Andrea
  full_name: Varro, Andrea
  last_name: Varro
- first_name: Masahiko
  full_name: Watanabe, Masahiko
  last_name: Watanabe
- first_name: Martin
  full_name: Gassmann, Martin
  last_name: Gassmann
- first_name: Bernhard
  full_name: Bettler, Bernhard
  last_name: Bettler
- first_name: Ryuichi
  full_name: Shigemoto, Ryuichi
  id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
  last_name: Shigemoto
  orcid: 0000-0001-8761-9444
- first_name: Imre
  full_name: Vida, Imre
  last_name: Vida
- first_name: Ákos
  full_name: Kulik, Ákos
  last_name: Kulik
citation:
  ama: Booker S, Althof D, Gross A, et al. KCTD12 auxiliary proteins modulate kinetics
    of GABAB receptor-mediated inhibition in Cholecystokinin-containing interneurons.
    <i>Cerebral Cortex</i>. 2016;27(3):2318-2334. doi:<a href="https://doi.org/10.1093/cercor/bhw090">10.1093/cercor/bhw090</a>
  apa: Booker, S., Althof, D., Gross, A., Loreth, D., Müller, J., Unger, A., … Kulik,
    Á. (2016). KCTD12 auxiliary proteins modulate kinetics of GABAB receptor-mediated
    inhibition in Cholecystokinin-containing interneurons. <i>Cerebral Cortex</i>.
    Oxford University Press. <a href="https://doi.org/10.1093/cercor/bhw090">https://doi.org/10.1093/cercor/bhw090</a>
  chicago: Booker, Sam, Daniel Althof, Anna Gross, Desiree Loreth, Johanna Müller,
    Andreas Unger, Bernd Fakler, et al. “KCTD12 Auxiliary Proteins Modulate Kinetics
    of GABAB Receptor-Mediated Inhibition in Cholecystokinin-Containing Interneurons.”
    <i>Cerebral Cortex</i>. Oxford University Press, 2016. <a href="https://doi.org/10.1093/cercor/bhw090">https://doi.org/10.1093/cercor/bhw090</a>.
  ieee: S. Booker <i>et al.</i>, “KCTD12 auxiliary proteins modulate kinetics of GABAB
    receptor-mediated inhibition in Cholecystokinin-containing interneurons,” <i>Cerebral
    Cortex</i>, vol. 27, no. 3. Oxford University Press, pp. 2318–2334, 2016.
  ista: Booker S, Althof D, Gross A, Loreth D, Müller J, Unger A, Fakler B, Varro
    A, Watanabe M, Gassmann M, Bettler B, Shigemoto R, Vida I, Kulik Á. 2016. KCTD12
    auxiliary proteins modulate kinetics of GABAB receptor-mediated inhibition in
    Cholecystokinin-containing interneurons. Cerebral Cortex. 27(3), 2318–2334.
  mla: Booker, Sam, et al. “KCTD12 Auxiliary Proteins Modulate Kinetics of GABAB Receptor-Mediated
    Inhibition in Cholecystokinin-Containing Interneurons.” <i>Cerebral Cortex</i>,
    vol. 27, no. 3, Oxford University Press, 2016, pp. 2318–34, doi:<a href="https://doi.org/10.1093/cercor/bhw090">10.1093/cercor/bhw090</a>.
  short: S. Booker, D. Althof, A. Gross, D. Loreth, J. Müller, A. Unger, B. Fakler,
    A. Varro, M. Watanabe, M. Gassmann, B. Bettler, R. Shigemoto, I. Vida, Á. Kulik,
    Cerebral Cortex 27 (2016) 2318–2334.
date_created: 2018-12-11T11:50:03Z
date_published: 2016-04-12T00:00:00Z
date_updated: 2021-01-12T06:48:09Z
day: '12'
department:
- _id: RySh
doi: 10.1093/cercor/bhw090
intvolume: '        27'
issue: '3'
language:
- iso: eng
month: '04'
oa_version: None
page: 2318 - 2334
publication: Cerebral Cortex
publication_status: published
publisher: Oxford University Press
publist_id: '6297'
quality_controlled: '1'
status: public
title: KCTD12 auxiliary proteins modulate kinetics of GABAB receptor-mediated inhibition
  in Cholecystokinin-containing interneurons
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 27
year: '2016'
...
---
_id: '1088'
abstract:
- lang: eng
  text: Cell geometry is tightly coupled to gene expression patterns within the tissue
    microenvironment. This perspective synthesizes evidence that the 3D organization
    of chromosomes is a critical intermediate for geometric control of genomic programs.
    Using a combination of experiments and modeling we outline approaches to decipher
    the mechano-genomic code that governs cellular homeostasis and reprogramming.
author:
- first_name: Caroline
  full_name: Uhler, Caroline
  id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
  last_name: Uhler
  orcid: 0000-0002-7008-0216
- first_name: G V
  full_name: Shivashankar, G V
  last_name: Shivashankar
citation:
  ama: Uhler C, Shivashankar GV. Geometric control and modeling of genome reprogramming.
    <i>BioArchitecture</i>. 2016;6(4):76-84. doi:<a href="https://doi.org/10.1080/19490992.2016.1201620">10.1080/19490992.2016.1201620</a>
  apa: Uhler, C., &#38; Shivashankar, G. V. (2016). Geometric control and modeling
    of genome reprogramming. <i>BioArchitecture</i>. Taylor &#38; Francis. <a href="https://doi.org/10.1080/19490992.2016.1201620">https://doi.org/10.1080/19490992.2016.1201620</a>
  chicago: Uhler, Caroline, and G V Shivashankar. “Geometric Control and Modeling
    of Genome Reprogramming.” <i>BioArchitecture</i>. Taylor &#38; Francis, 2016.
    <a href="https://doi.org/10.1080/19490992.2016.1201620">https://doi.org/10.1080/19490992.2016.1201620</a>.
  ieee: C. Uhler and G. V. Shivashankar, “Geometric control and modeling of genome
    reprogramming,” <i>BioArchitecture</i>, vol. 6, no. 4. Taylor &#38; Francis, pp.
    76–84, 2016.
  ista: Uhler C, Shivashankar GV. 2016. Geometric control and modeling of genome reprogramming.
    BioArchitecture. 6(4), 76–84.
  mla: Uhler, Caroline, and G. V. Shivashankar. “Geometric Control and Modeling of
    Genome Reprogramming.” <i>BioArchitecture</i>, vol. 6, no. 4, Taylor &#38; Francis,
    2016, pp. 76–84, doi:<a href="https://doi.org/10.1080/19490992.2016.1201620">10.1080/19490992.2016.1201620</a>.
  short: C. Uhler, G.V. Shivashankar, BioArchitecture 6 (2016) 76–84.
date_created: 2018-12-11T11:50:05Z
date_published: 2016-07-27T00:00:00Z
date_updated: 2021-01-12T06:48:11Z
day: '27'
doi: 10.1080/19490992.2016.1201620
extern: '1'
intvolume: '         6'
issue: '4'
language:
- iso: eng
month: '07'
oa_version: None
page: 76 - 84
publication: BioArchitecture
publication_status: published
publisher: Taylor & Francis
publist_id: '6289'
quality_controlled: '1'
status: public
title: Geometric control and modeling of genome reprogramming
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2016'
...
---
_id: '1090'
abstract:
- lang: eng
  text: ' While weighted automata provide a natural framework to express quantitative
    properties, many basic properties like average response time cannot be expressed
    with weighted automata. Nested weighted automata extend weighted automata and
    consist of a master automaton and a set of slave automata that are invoked by
    the master automaton. Nested weighted automata are strictly more expressive than
    weighted automata (e.g., average response time can be expressed with nested weighted
    automata), but the basic decision questions have higher complexity (e.g., for
    deterministic automata, the emptiness question for nested weighted automata is
    PSPACE-hard, whereas the corresponding complexity for weighted automata is PTIME).
    We consider a natural subclass of nested weighted automata where at any point
    at most a bounded number k of slave automata can be active. We focus on automata
    whose master value function is the limit average. We show that these nested weighted
    automata with bounded width are strictly more expressive than weighted automata
    (e.g., average response time with no overlapping requests can be expressed with
    bound k=1, but not with non-nested weighted automata). We show that the complexity
    of the basic decision problems (i.e., emptiness and universality) for the subclass
    with k constant matches the complexity for weighted automata. Moreover, when k
    is part of the input given in unary we establish PSPACE-completeness.'
acknowledgement: "This research was supported in part by the Austrian Science Fund
  (FWF) under grants S11402-N23\r\n(RiSE/SHiNE) and Z211-N23 (Wittgenstein Award),
  ERC Start grant (279307: Graph Games), Vienna\r\nScience and Technology Fund (WWTF)
  through project ICT15-003 and by the National Science Centre\r\n(NCN), Poland under
  grant 2014/15/D/ST6/04543."
alternative_title:
- LIPIcs
article_number: '24'
author:
- first_name: Krishnendu
  full_name: Chatterjee, Krishnendu
  id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
  last_name: Chatterjee
  orcid: 0000-0002-4561-241X
- first_name: Thomas A
  full_name: Henzinger, Thomas A
  id: 40876CD8-F248-11E8-B48F-1D18A9856A87
  last_name: Henzinger
  orcid: 0000−0002−2985−7724
- first_name: Jan
  full_name: Otop, Jan
  id: 2FC5DA74-F248-11E8-B48F-1D18A9856A87
  last_name: Otop
citation:
  ama: 'Chatterjee K, Henzinger TA, Otop J. Nested weighted limit-average automata
    of bounded width. In: Vol 58. Schloss Dagstuhl - Leibniz-Zentrum für Informatik;
    2016. doi:<a href="https://doi.org/10.4230/LIPIcs.MFCS.2016.24">10.4230/LIPIcs.MFCS.2016.24</a>'
  apa: 'Chatterjee, K., Henzinger, T. A., &#38; Otop, J. (2016). Nested weighted limit-average
    automata of bounded width (Vol. 58). Presented at the MFCS: Mathematical Foundations
    of Computer Science (SG), Krakow; Poland: Schloss Dagstuhl - Leibniz-Zentrum für
    Informatik. <a href="https://doi.org/10.4230/LIPIcs.MFCS.2016.24">https://doi.org/10.4230/LIPIcs.MFCS.2016.24</a>'
  chicago: Chatterjee, Krishnendu, Thomas A Henzinger, and Jan Otop. “Nested Weighted
    Limit-Average Automata of Bounded Width,” Vol. 58. Schloss Dagstuhl - Leibniz-Zentrum
    für Informatik, 2016. <a href="https://doi.org/10.4230/LIPIcs.MFCS.2016.24">https://doi.org/10.4230/LIPIcs.MFCS.2016.24</a>.
  ieee: 'K. Chatterjee, T. A. Henzinger, and J. Otop, “Nested weighted limit-average
    automata of bounded width,” presented at the MFCS: Mathematical Foundations of
    Computer Science (SG), Krakow; Poland, 2016, vol. 58.'
  ista: 'Chatterjee K, Henzinger TA, Otop J. 2016. Nested weighted limit-average automata
    of bounded width. MFCS: Mathematical Foundations of Computer Science (SG), LIPIcs,
    vol. 58, 24.'
  mla: Chatterjee, Krishnendu, et al. <i>Nested Weighted Limit-Average Automata of
    Bounded Width</i>. Vol. 58, 24, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
    2016, doi:<a href="https://doi.org/10.4230/LIPIcs.MFCS.2016.24">10.4230/LIPIcs.MFCS.2016.24</a>.
  short: K. Chatterjee, T.A. Henzinger, J. Otop, in:, Schloss Dagstuhl - Leibniz-Zentrum
    für Informatik, 2016.
conference:
  end_date: 2016-08-26
  location: Krakow; Poland
  name: 'MFCS: Mathematical Foundations of Computer Science (SG)'
  start_date: 2016-08-22
date_created: 2018-12-11T11:50:05Z
date_published: 2016-08-01T00:00:00Z
date_updated: 2021-01-12T06:48:12Z
day: '01'
ddc:
- '004'
department:
- _id: KrCh
- _id: ToHe
doi: 10.4230/LIPIcs.MFCS.2016.24
ec_funded: 1
file:
- access_level: open_access
  content_type: application/pdf
  creator: system
  date_created: 2018-12-12T10:17:31Z
  date_updated: 2018-12-12T10:17:31Z
  file_id: '5286'
  file_name: IST-2017-795-v1+1_LIPIcs-MFCS-2016-24.pdf
  file_size: 564560
  relation: main_file
file_date_updated: 2018-12-12T10:17:31Z
has_accepted_license: '1'
intvolume: '        58'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: S 11407_N23
  name: Rigorous Systems Engineering
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: Z211
  name: The Wittgenstein Prize
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '279307'
  name: 'Quantitative Graph Games: Theory and Applications'
- _id: 25892FC0-B435-11E9-9278-68D0E5697425
  grant_number: ICT15-003
  name: Efficient Algorithms for Computer Aided Verification
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '6286'
pubrep_id: '795'
quality_controlled: '1'
scopus_import: 1
status: public
title: Nested weighted limit-average automata of bounded width
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: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 58
year: '2016'
...
---
_id: '1093'
abstract:
- lang: eng
  text: 'We introduce a general class of distances (metrics) between Markov chains,
    which are based on linear behaviour. This class encompasses distances given topologically
    (such as the total variation distance or trace distance) as well as by temporal
    logics or automata. We investigate which of the distances can be approximated
    by observing the systems, i.e. by black-box testing or simulation, and we provide
    both negative and positive results. '
acknowledgement: "This research was funded in part by the European Research Council
  (ERC) under grant agreement 267989\r\n(QUAREM), the Austrian Science Fund (FWF)
  under grants project S11402-N23 (RiSE and SHiNE)\r\nand Z211-N23 (Wittgenstein Award),
  by the Czech Science Foundation Grant No. P202/12/G061, and\r\nby the SNSF Advanced
  Postdoc. Mobility Fellowship – grant number P300P2_161067."
alternative_title:
- LIPIcs
article_number: '20'
author:
- first_name: Przemyslaw
  full_name: Daca, Przemyslaw
  id: 49351290-F248-11E8-B48F-1D18A9856A87
  last_name: Daca
- first_name: Thomas A
  full_name: Henzinger, Thomas A
  id: 40876CD8-F248-11E8-B48F-1D18A9856A87
  last_name: Henzinger
  orcid: 0000−0002−2985−7724
- first_name: Jan
  full_name: Kretinsky, Jan
  id: 44CEF464-F248-11E8-B48F-1D18A9856A87
  last_name: Kretinsky
  orcid: 0000-0002-8122-2881
- first_name: Tatjana
  full_name: Petrov, Tatjana
  id: 3D5811FC-F248-11E8-B48F-1D18A9856A87
  last_name: Petrov
  orcid: 0000-0002-9041-0905
citation:
  ama: 'Daca P, Henzinger TA, Kretinsky J, Petrov T. Linear distances between Markov
    chains. In: Vol 59. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2016. doi:<a
    href="https://doi.org/10.4230/LIPIcs.CONCUR.2016.20">10.4230/LIPIcs.CONCUR.2016.20</a>'
  apa: 'Daca, P., Henzinger, T. A., Kretinsky, J., &#38; Petrov, T. (2016). Linear
    distances between Markov chains (Vol. 59). Presented at the CONCUR: Concurrency
    Theory, Quebec City; Canada: Schloss Dagstuhl - Leibniz-Zentrum für Informatik.
    <a href="https://doi.org/10.4230/LIPIcs.CONCUR.2016.20">https://doi.org/10.4230/LIPIcs.CONCUR.2016.20</a>'
  chicago: Daca, Przemyslaw, Thomas A Henzinger, Jan Kretinsky, and Tatjana Petrov.
    “Linear Distances between Markov Chains,” Vol. 59. Schloss Dagstuhl - Leibniz-Zentrum
    für Informatik, 2016. <a href="https://doi.org/10.4230/LIPIcs.CONCUR.2016.20">https://doi.org/10.4230/LIPIcs.CONCUR.2016.20</a>.
  ieee: 'P. Daca, T. A. Henzinger, J. Kretinsky, and T. Petrov, “Linear distances
    between Markov chains,” presented at the CONCUR: Concurrency Theory, Quebec City;
    Canada, 2016, vol. 59.'
  ista: 'Daca P, Henzinger TA, Kretinsky J, Petrov T. 2016. Linear distances between
    Markov chains. CONCUR: Concurrency Theory, LIPIcs, vol. 59, 20.'
  mla: Daca, Przemyslaw, et al. <i>Linear Distances between Markov Chains</i>. Vol.
    59, 20, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2016, doi:<a href="https://doi.org/10.4230/LIPIcs.CONCUR.2016.20">10.4230/LIPIcs.CONCUR.2016.20</a>.
  short: P. Daca, T.A. Henzinger, J. Kretinsky, T. Petrov, in:, Schloss Dagstuhl -
    Leibniz-Zentrum für Informatik, 2016.
conference:
  end_date: 2016-08-26
  location: Quebec City; Canada
  name: 'CONCUR: Concurrency Theory'
  start_date: 2016-08-23
date_created: 2018-12-11T11:50:06Z
date_published: 2016-08-01T00:00:00Z
date_updated: 2023-09-07T11:58:33Z
day: '01'
ddc:
- '004'
department:
- _id: ToHe
- _id: KrCh
- _id: CaGu
doi: 10.4230/LIPIcs.CONCUR.2016.20
ec_funded: 1
file:
- access_level: open_access
  content_type: application/pdf
  creator: system
  date_created: 2018-12-12T10:11:39Z
  date_updated: 2018-12-12T10:11:39Z
  file_id: '4895'
  file_name: IST-2017-794-v1+1_LIPIcs-CONCUR-2016-20.pdf
  file_size: 501827
  relation: main_file
file_date_updated: 2018-12-12T10:11:39Z
has_accepted_license: '1'
intvolume: '        59'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '267989'
  name: Quantitative Reactive Modeling
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: S 11407_N23
  name: Rigorous Systems Engineering
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: Z211
  name: The Wittgenstein Prize
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '6283'
pubrep_id: '794'
quality_controlled: '1'
related_material:
  record:
  - id: '1155'
    relation: dissertation_contains
    status: public
scopus_import: 1
status: public
title: Linear distances between Markov chains
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: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 59
year: '2016'
...
---
_id: '1094'
abstract:
- lang: eng
  text: Immunogold labeling of freeze-fracture replicas has recently been used for
    high-resolution visualization of protein localization in electron microscopy.
    This method has higher labeling efficiency than conventional immunogold methods
    for membrane molecules allowing precise quantitative measurements. However, one
    of the limitations of freeze-fracture replica immunolabeling is difficulty in
    keeping structural orientation and identifying labeled profiles in complex tissues
    like brain. The difficulty is partly due to fragmentation of freeze-fracture replica
    preparations during labeling procedures and limited morphological clues on the
    replica surface. To overcome these issues, we introduce here a grid-glued replica
    method combined with SEM observation. This method allows histological staining
    before dissolving the tissue and easy handling of replicas during immunogold labeling,
    and keeps the whole replica surface intact without fragmentation. The procedure
    described here is also useful for matched double-replica analysis allowing further
    identification of labeled profiles in corresponding P-face and E-face.
acknowledged_ssus:
- _id: EM-Fac
acknowledgement: 'We thank Prof. Elek Molnár for providing us a pan-AMPAR anti-body
  used in Fig.2 and Dr. Ludek Lovicar for technical assistance in scanning electron
  microscope imaging. This work was supported by the European Union (HBP—Project Ref.
  604102). '
alternative_title:
- Methods in Molecular Biology
article_processing_charge: No
author:
- first_name: Harumi
  full_name: Harada, Harumi
  id: 2E55CDF2-F248-11E8-B48F-1D18A9856A87
  last_name: Harada
  orcid: 0000-0001-7429-7896
- first_name: Ryuichi
  full_name: Shigemoto, Ryuichi
  id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
  last_name: Shigemoto
  orcid: 0000-0001-8761-9444
citation:
  ama: 'Harada H, Shigemoto R. Immunogold protein localization on grid-glued freeze-fracture
    replicas. In: <i>High-Resolution Imaging of Cellular Proteins</i>. Vol 1474. Springer;
    2016:203-216. doi:<a href="https://doi.org/10.1007/978-1-4939-6352-2_12">10.1007/978-1-4939-6352-2_12</a>'
  apa: Harada, H., &#38; Shigemoto, R. (2016). Immunogold protein localization on
    grid-glued freeze-fracture replicas. In <i>High-Resolution Imaging of Cellular
    Proteins</i> (Vol. 1474, pp. 203–216). Springer. <a href="https://doi.org/10.1007/978-1-4939-6352-2_12">https://doi.org/10.1007/978-1-4939-6352-2_12</a>
  chicago: Harada, Harumi, and Ryuichi Shigemoto. “Immunogold Protein Localization
    on Grid-Glued Freeze-Fracture Replicas.” In <i>High-Resolution Imaging of Cellular
    Proteins</i>, 1474:203–16. Springer, 2016. <a href="https://doi.org/10.1007/978-1-4939-6352-2_12">https://doi.org/10.1007/978-1-4939-6352-2_12</a>.
  ieee: H. Harada and R. Shigemoto, “Immunogold protein localization on grid-glued
    freeze-fracture replicas,” in <i>High-Resolution Imaging of Cellular Proteins</i>,
    vol. 1474, Springer, 2016, pp. 203–216.
  ista: 'Harada H, Shigemoto R. 2016.Immunogold protein localization on grid-glued
    freeze-fracture replicas. In: High-Resolution Imaging of Cellular Proteins. Methods
    in Molecular Biology, vol. 1474, 203–216.'
  mla: Harada, Harumi, and Ryuichi Shigemoto. “Immunogold Protein Localization on
    Grid-Glued Freeze-Fracture Replicas.” <i>High-Resolution Imaging of Cellular Proteins</i>,
    vol. 1474, Springer, 2016, pp. 203–16, doi:<a href="https://doi.org/10.1007/978-1-4939-6352-2_12">10.1007/978-1-4939-6352-2_12</a>.
  short: H. Harada, R. Shigemoto, in:, High-Resolution Imaging of Cellular Proteins,
    Springer, 2016, pp. 203–216.
date_created: 2018-12-11T11:50:06Z
date_published: 2016-08-12T00:00:00Z
date_updated: 2023-09-05T14:09:01Z
day: '12'
department:
- _id: RySh
doi: 10.1007/978-1-4939-6352-2_12
ec_funded: 1
intvolume: '      1474'
language:
- iso: eng
month: '08'
oa_version: None
page: 203 - 216
project:
- _id: 25CD3DD2-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '604102'
  name: Localization of ion channels and receptors by two and three-dimensional immunoelectron
    microscopic approaches
publication: High-Resolution Imaging of Cellular Proteins
publication_identifier:
  eissn:
  - 1611-3349
  issn:
  - 0302-9743
publication_status: published
publisher: Springer
publist_id: '6281'
quality_controlled: '1'
status: public
title: Immunogold protein localization on grid-glued freeze-fracture replicas
type: book_chapter
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 1474
year: '2016'
...
---
_id: '1095'
abstract:
- lang: eng
  text: ' The semantics of concurrent data structures is usually given by a sequential
    specification and a consistency condition. Linearizability is the most popular
    consistency condition due to its simplicity and general applicability. Nevertheless,
    for applications that do not require all guarantees offered by linearizability,
    recent research has focused on improving performance and scalability of concurrent
    data structures by relaxing their semantics. In this paper, we present local linearizability,
    a relaxed consistency condition that is applicable to container-type concurrent
    data structures like pools, queues, and stacks. While linearizability requires
    that the effect of each operation is observed by all threads at the same time,
    local linearizability only requires that for each thread T, the effects of its
    local insertion operations and the effects of those removal operations that remove
    values inserted by T are observed by all threads at the same time. We investigate
    theoretical and practical properties of local linearizability and its relationship
    to many existing consistency conditions. We present a generic implementation method
    for locally linearizable data structures that uses existing linearizable data
    structures as building blocks. Our implementations show performance and scalability
    improvements over the original building blocks and outperform the fastest existing
    container-type implementations. '
acknowledgement: "This work has been supported by the National Research Network RiSE
  on Rigorous Systems Engineering\r\n(Austrian Science Fund (FWF): S11402-N23, S11403-N23,
  S11404-N23, S11411-N23), a Google\r\nPhD Fellowship, an Erwin Schrödinger Fellowship
  (Austrian Science Fund (FWF): J3696-N26), EPSRC\r\ngrants EP/H005633/1 and EP/K008528/1,
  the Vienna Science and Technology Fund (WWTF) trough\r\ngrant PROSEED, the European
  Research Council (ERC) under grant 267989 (QUAREM) and by the\r\nAustrian Science
  Fund (FWF) under grant Z211-N23 (Wittgenstein Award)."
alternative_title:
- LIPIcs
article_number: '6'
author:
- first_name: Andreas
  full_name: Haas, Andreas
  last_name: Haas
- first_name: Thomas A
  full_name: Henzinger, Thomas A
  id: 40876CD8-F248-11E8-B48F-1D18A9856A87
  last_name: Henzinger
  orcid: 0000−0002−2985−7724
- first_name: Andreas
  full_name: Holzer, Andreas
  last_name: Holzer
- first_name: Christoph
  full_name: Kirsch, Christoph
  last_name: Kirsch
- first_name: Michael
  full_name: Lippautz, Michael
  last_name: Lippautz
- first_name: Hannes
  full_name: Payer, Hannes
  last_name: Payer
- first_name: Ali
  full_name: Sezgin, Ali
  id: 4C7638DA-F248-11E8-B48F-1D18A9856A87
  last_name: Sezgin
- first_name: Ana
  full_name: Sokolova, Ana
  last_name: Sokolova
- first_name: Helmut
  full_name: Veith, Helmut
  last_name: Veith
citation:
  ama: 'Haas A, Henzinger TA, Holzer A, et al. Local linearizability for concurrent
    container-type data structures. In: <i>Leibniz International Proceedings in Informatics</i>.
    Vol 59. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2016. doi:<a href="https://doi.org/10.4230/LIPIcs.CONCUR.2016.6">10.4230/LIPIcs.CONCUR.2016.6</a>'
  apa: 'Haas, A., Henzinger, T. A., Holzer, A., Kirsch, C., Lippautz, M., Payer, H.,
    … Veith, H. (2016). Local linearizability for concurrent container-type data structures.
    In <i>Leibniz International Proceedings in Informatics</i> (Vol. 59). Quebec City;
    Canada: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href="https://doi.org/10.4230/LIPIcs.CONCUR.2016.6">https://doi.org/10.4230/LIPIcs.CONCUR.2016.6</a>'
  chicago: Haas, Andreas, Thomas A Henzinger, Andreas Holzer, Christoph Kirsch, Michael
    Lippautz, Hannes Payer, Ali Sezgin, Ana Sokolova, and Helmut Veith. “Local Linearizability
    for Concurrent Container-Type Data Structures.” In <i>Leibniz International Proceedings
    in Informatics</i>, Vol. 59. Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
    2016. <a href="https://doi.org/10.4230/LIPIcs.CONCUR.2016.6">https://doi.org/10.4230/LIPIcs.CONCUR.2016.6</a>.
  ieee: A. Haas <i>et al.</i>, “Local linearizability for concurrent container-type
    data structures,” in <i>Leibniz International Proceedings in Informatics</i>,
    Quebec City; Canada, 2016, vol. 59.
  ista: 'Haas A, Henzinger TA, Holzer A, Kirsch C, Lippautz M, Payer H, Sezgin A,
    Sokolova A, Veith H. 2016. Local linearizability for concurrent container-type
    data structures. Leibniz International Proceedings in Informatics. CONCUR: Concurrency
    Theory, LIPIcs, vol. 59, 6.'
  mla: Haas, Andreas, et al. “Local Linearizability for Concurrent Container-Type
    Data Structures.” <i>Leibniz International Proceedings in Informatics</i>, vol.
    59, 6, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2016, doi:<a href="https://doi.org/10.4230/LIPIcs.CONCUR.2016.6">10.4230/LIPIcs.CONCUR.2016.6</a>.
  short: A. Haas, T.A. Henzinger, A. Holzer, C. Kirsch, M. Lippautz, H. Payer, A.
    Sezgin, A. Sokolova, H. Veith, in:, Leibniz International Proceedings in Informatics,
    Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2016.
conference:
  end_date: 2016-08-26
  location: Quebec City; Canada
  name: 'CONCUR: Concurrency Theory'
  start_date: 2016-08-23
date_created: 2018-12-11T11:50:07Z
date_published: 2016-08-01T00:00:00Z
date_updated: 2021-01-12T06:48:14Z
day: '01'
ddc:
- '004'
department:
- _id: ToHe
doi: 10.4230/LIPIcs.CONCUR.2016.6
ec_funded: 1
file:
- access_level: open_access
  content_type: application/pdf
  creator: system
  date_created: 2018-12-12T10:10:10Z
  date_updated: 2018-12-12T10:10:10Z
  file_id: '4795'
  file_name: IST-2017-793-v1+1_LIPIcs-CONCUR-2016-6.pdf
  file_size: 589747
  relation: main_file
file_date_updated: 2018-12-12T10:10:10Z
has_accepted_license: '1'
intvolume: '        59'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: S 11407_N23
  name: Rigorous Systems Engineering
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '267989'
  name: Quantitative Reactive Modeling
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: Z211
  name: The Wittgenstein Prize
publication: Leibniz International Proceedings in Informatics
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '6280'
pubrep_id: '793'
quality_controlled: '1'
scopus_import: 1
status: public
title: Local linearizability for concurrent container-type data structures
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: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 59
year: '2016'
...
---
_id: '1096'
author:
- first_name: Cornelia
  full_name: Schwayer, Cornelia
  id: 3436488C-F248-11E8-B48F-1D18A9856A87
  last_name: Schwayer
  orcid: 0000-0001-5130-2226
- first_name: Mateusz K
  full_name: Sikora, Mateusz K
  id: 2F74BCDE-F248-11E8-B48F-1D18A9856A87
  last_name: Sikora
- first_name: Jana
  full_name: Slovakova, Jana
  id: 30F3F2F0-F248-11E8-B48F-1D18A9856A87
  last_name: Slovakova
- first_name: Roland
  full_name: Kardos, Roland
  id: 4039350E-F248-11E8-B48F-1D18A9856A87
  last_name: Kardos
- first_name: Carl-Philipp J
  full_name: Heisenberg, Carl-Philipp J
  id: 39427864-F248-11E8-B48F-1D18A9856A87
  last_name: Heisenberg
  orcid: 0000-0002-0912-4566
citation:
  ama: Schwayer C, Sikora MK, Slovakova J, Kardos R, Heisenberg C-PJ. Actin rings
    of power. <i>Developmental Cell</i>. 2016;37(6):493-506. doi:<a href="https://doi.org/10.1016/j.devcel.2016.05.024">10.1016/j.devcel.2016.05.024</a>
  apa: Schwayer, C., Sikora, M. K., Slovakova, J., Kardos, R., &#38; Heisenberg, C.-P.
    J. (2016). Actin rings of power. <i>Developmental Cell</i>. Cell Press. <a href="https://doi.org/10.1016/j.devcel.2016.05.024">https://doi.org/10.1016/j.devcel.2016.05.024</a>
  chicago: Schwayer, Cornelia, Mateusz K Sikora, Jana Slovakova, Roland Kardos, and
    Carl-Philipp J Heisenberg. “Actin Rings of Power.” <i>Developmental Cell</i>.
    Cell Press, 2016. <a href="https://doi.org/10.1016/j.devcel.2016.05.024">https://doi.org/10.1016/j.devcel.2016.05.024</a>.
  ieee: C. Schwayer, M. K. Sikora, J. Slovakova, R. Kardos, and C.-P. J. Heisenberg,
    “Actin rings of power,” <i>Developmental Cell</i>, vol. 37, no. 6. Cell Press,
    pp. 493–506, 2016.
  ista: Schwayer C, Sikora MK, Slovakova J, Kardos R, Heisenberg C-PJ. 2016. Actin
    rings of power. Developmental Cell. 37(6), 493–506.
  mla: Schwayer, Cornelia, et al. “Actin Rings of Power.” <i>Developmental Cell</i>,
    vol. 37, no. 6, Cell Press, 2016, pp. 493–506, doi:<a href="https://doi.org/10.1016/j.devcel.2016.05.024">10.1016/j.devcel.2016.05.024</a>.
  short: C. Schwayer, M.K. Sikora, J. Slovakova, R. Kardos, C.-P.J. Heisenberg, Developmental
    Cell 37 (2016) 493–506.
date_created: 2018-12-11T11:50:07Z
date_published: 2016-06-20T00:00:00Z
date_updated: 2023-09-07T12:56:41Z
day: '20'
department:
- _id: CaHe
doi: 10.1016/j.devcel.2016.05.024
intvolume: '        37'
issue: '6'
language:
- iso: eng
month: '06'
oa_version: None
page: 493 - 506
publication: Developmental Cell
publication_status: published
publisher: Cell Press
publist_id: '6279'
quality_controlled: '1'
related_material:
  record:
  - id: '7186'
    relation: part_of_dissertation
    status: public
scopus_import: 1
status: public
title: Actin rings of power
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 37
year: '2016'
...
---
_id: '1097'
abstract:
- lang: eng
  text: We present an interactive system for computational design, optimization, and
    fabrication of multicopters. Our computational approach allows non-experts to
    design, explore, and evaluate a wide range of different multicopters. We provide
    users with an intuitive interface for assembling a multicopter from a collection
    of components (e.g., propellers, motors, and carbon fiber rods). Our algorithm
    interactively optimizes shape and controller parameters of the current design
    to ensure its proper operation. In addition, we allow incorporating a variety
    of other metrics (such as payload, battery usage, size, and cost) into the design
    process and exploring tradeoffs between them. We show the efficacy of our method
    and system by designing, optimizing, fabricating, and operating multicopters with
    complex geometries and propeller configurations. We also demonstrate the ability
    of our optimization algorithm to improve the multicopter performance under different
    metrics.
acknowledgement: "We thank Nobuyuki Umetani for his insightful suggestions in our
  discussions. We thank Alan Schultz and his colleagues at NRL for building the hexacopter
  and for the valuable discussions. We thank Randall Davis, Boris Katz, and Howard
  Shrobe at MIT for their advice. We are grateful to Nick Bandiera for preprocessing
  mechanical parts and providing 3D printing technical support; Charles Blouin from
  RCBenchmark for dynamometer hardware support; Brian Saavedra for the composition
  UI; Yingzhe Yuan for data acquisition and video recording in the experiments; Michael
  Foshey and David Kim for their comments on the draft of the paper. \r\n\r\n\r\nThis
  work was partially supported by Air Force Research Laboratory’s sponsorship of Julia:
  A Fresh Approach to Technical Computing and Data Processing (Sponsor Award ID FA8750-15-2-
  0272, MIT Award ID 024831-00003), and NSF Expedition project (Sponsor Award ID CCF-1138967,
  MIT Award ID 020610-00002). The views expressed herein are not endorsed by the sponsors.
  This project has also received funding from the European Union’s Horizon 2020 research
  and innovation program under grant agreement No 645599. "
alternative_title:
- ACM Transactions on Graphics
article_number: '227'
author:
- first_name: Tao
  full_name: Du, Tao
  last_name: Du
- first_name: Adriana
  full_name: Schulz, Adriana
  last_name: Schulz
- first_name: Bo
  full_name: Zhu, Bo
  last_name: Zhu
- first_name: Bernd
  full_name: Bickel, Bernd
  id: 49876194-F248-11E8-B48F-1D18A9856A87
  last_name: Bickel
  orcid: 0000-0001-6511-9385
- first_name: Wojciech
  full_name: Matusik, Wojciech
  last_name: Matusik
citation:
  ama: 'Du T, Schulz A, Zhu B, Bickel B, Matusik W. Computational multicopter design.
    In: Vol 35. ACM; 2016. doi:<a href="https://doi.org/10.1145/2980179.2982427">10.1145/2980179.2982427</a>'
  apa: 'Du, T., Schulz, A., Zhu, B., Bickel, B., &#38; Matusik, W. (2016). Computational
    multicopter design (Vol. 35). Presented at the SIGGRAPH Asia: Conference and Exhibition
    on Computer Graphics and Interactive Techniques in Asia, Macao, China: ACM. <a
    href="https://doi.org/10.1145/2980179.2982427">https://doi.org/10.1145/2980179.2982427</a>'
  chicago: Du, Tao, Adriana Schulz, Bo Zhu, Bernd Bickel, and Wojciech Matusik. “Computational
    Multicopter Design,” Vol. 35. ACM, 2016. <a href="https://doi.org/10.1145/2980179.2982427">https://doi.org/10.1145/2980179.2982427</a>.
  ieee: 'T. Du, A. Schulz, B. Zhu, B. Bickel, and W. Matusik, “Computational multicopter
    design,” presented at the SIGGRAPH Asia: Conference and Exhibition on Computer
    Graphics and Interactive Techniques in Asia, Macao, China, 2016, vol. 35, no.
    6.'
  ista: 'Du T, Schulz A, Zhu B, Bickel B, Matusik W. 2016. Computational multicopter
    design. SIGGRAPH Asia: Conference and Exhibition on Computer Graphics and Interactive
    Techniques in Asia, ACM Transactions on Graphics, vol. 35, 227.'
  mla: Du, Tao, et al. <i>Computational Multicopter Design</i>. Vol. 35, no. 6, 227,
    ACM, 2016, doi:<a href="https://doi.org/10.1145/2980179.2982427">10.1145/2980179.2982427</a>.
  short: T. Du, A. Schulz, B. Zhu, B. Bickel, W. Matusik, in:, ACM, 2016.
conference:
  end_date: 2016-12-08
  location: Macao, China
  name: 'SIGGRAPH Asia: Conference and Exhibition on Computer Graphics and Interactive
    Techniques in Asia'
  start_date: 2016-12-05
date_created: 2018-12-11T11:50:07Z
date_published: 2016-11-01T00:00:00Z
date_updated: 2021-01-12T06:48:15Z
day: '01'
ddc:
- '006'
department:
- _id: BeBi
doi: 10.1145/2980179.2982427
ec_funded: 1
file:
- access_level: open_access
  content_type: application/pdf
  creator: system
  date_created: 2018-12-12T10:17:42Z
  date_updated: 2018-12-12T10:17:42Z
  file_id: '5298'
  file_name: IST-2017-759-v1+1_copter.pdf
  file_size: 33114420
  relation: main_file
file_date_updated: 2018-12-12T10:17:42Z
has_accepted_license: '1'
intvolume: '        35'
issue: '6'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Submitted Version
project:
- _id: 25082902-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '645599'
  name: Soft-bodied intelligence for Manipulation
publication_status: published
publisher: ACM
publist_id: '6278'
pubrep_id: '759'
quality_controlled: '1'
scopus_import: 1
status: public
title: Computational multicopter design
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2016'
...
---
_id: '1098'
abstract:
- lang: eng
  text: Better understanding of the potential benefits of information transfer and
    representation learning is an important step towards the goal of building intelligent
    systems that are able to persist in the world and learn over time. In this work,
    we consider a setting where the learner encounters a stream of tasks but is able
    to retain only limited information from each encountered task, such as a learned
    predictor. In contrast to most previous works analyzing this scenario, we do not
    make any distributional assumptions on the task generating process. Instead, we
    formulate a complexity measure that captures the diversity of the observed tasks.
    We provide a lifelong learning algorithm with error guarantees for every observed
    task (rather than on average). We show sample complexity reductions in comparison
    to solving every task in isolation in terms of our task complexity measure. Further,
    our algorithmic framework can naturally be viewed as learning a representation
    from encountered tasks with a neural network.
acknowledgement: "This work was in parts funded by the European Research Council under
  the European Union’s Seventh Framework Programme (FP7/2007-2013)/ERC grant agreement
  no 308036.\r\n\r\n"
alternative_title:
- Advances in Neural Information Processing Systems
author:
- first_name: Anastasia
  full_name: Pentina, Anastasia
  id: 42E87FC6-F248-11E8-B48F-1D18A9856A87
  last_name: Pentina
- first_name: Ruth
  full_name: Urner, Ruth
  last_name: Urner
citation:
  ama: 'Pentina A, Urner R. Lifelong learning with weighted majority votes. In: Vol
    29. Neural Information Processing Systems; 2016:3619-3627.'
  apa: 'Pentina, A., &#38; Urner, R. (2016). Lifelong learning with weighted majority
    votes (Vol. 29, pp. 3619–3627). Presented at the NIPS: Neural Information Processing
    Systems, Barcelona, Spain: Neural Information Processing Systems.'
  chicago: Pentina, Anastasia, and Ruth Urner. “Lifelong Learning with Weighted Majority
    Votes,” 29:3619–27. Neural Information Processing Systems, 2016.
  ieee: 'A. Pentina and R. Urner, “Lifelong learning with weighted majority votes,”
    presented at the NIPS: Neural Information Processing Systems, Barcelona, Spain,
    2016, vol. 29, pp. 3619–3627.'
  ista: 'Pentina A, Urner R. 2016. Lifelong learning with weighted majority votes.
    NIPS: Neural Information Processing Systems, Advances in Neural Information Processing
    Systems, vol. 29, 3619–3627.'
  mla: Pentina, Anastasia, and Ruth Urner. <i>Lifelong Learning with Weighted Majority
    Votes</i>. Vol. 29, Neural Information Processing Systems, 2016, pp. 3619–27.
  short: A. Pentina, R. Urner, in:, Neural Information Processing Systems, 2016, pp.
    3619–3627.
conference:
  end_date: 2016-12-10
  location: Barcelona, Spain
  name: 'NIPS: Neural Information Processing Systems'
  start_date: 2016-12-05
date_created: 2018-12-11T11:50:08Z
date_published: 2016-12-01T00:00:00Z
date_updated: 2021-01-12T06:48:15Z
day: '01'
ddc:
- '006'
department:
- _id: ChLa
ec_funded: 1
file:
- access_level: open_access
  content_type: application/pdf
  creator: system
  date_created: 2018-12-12T10:12:42Z
  date_updated: 2018-12-12T10:12:42Z
  file_id: '4961'
  file_name: IST-2017-775-v1+1_main.pdf
  file_size: 237111
  relation: main_file
- access_level: open_access
  content_type: application/pdf
  creator: system
  date_created: 2018-12-12T10:12:43Z
  date_updated: 2018-12-12T10:12:43Z
  file_id: '4962'
  file_name: IST-2017-775-v1+2_supplementary.pdf
  file_size: 185818
  relation: main_file
file_date_updated: 2018-12-12T10:12:43Z
has_accepted_license: '1'
intvolume: '        29'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 3619-3627
project:
- _id: 2532554C-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '308036'
  name: Lifelong Learning of Visual Scene Understanding
publication_status: published
publisher: Neural Information Processing Systems
publist_id: '6277'
pubrep_id: '775'
quality_controlled: '1'
scopus_import: 1
status: public
title: Lifelong learning with weighted majority votes
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 29
year: '2016'
...
---
_id: '1099'
abstract:
- lang: eng
  text: We present FlexMolds, a novel computational approach to automatically design
    flexible, reusable molds that, once 3D printed, allow us to physically fabricate,
    by means of liquid casting, multiple copies of complex shapes with rich surface
    details and complex topology. The approach to design such flexible molds is based
    on a greedy bottom-up search of possible cuts over an object, evaluating for each
    possible cut the feasibility of the resulting mold. We use a dynamic simulation
    approach to evaluate candidate molds, providing a heuristic to generate forces
    that are able to open, detach, and remove a complex mold from the object it surrounds.
    We have tested the approach with a number of objects with nontrivial shapes and
    topologies.
acknowledgement: "The armadillo, bunny and dragon models are courtesy of the Stanford
  \ 3D  Scanning  Repository.   The  bimba,  fertility  and  elephant models are courtesy
  of the AIM@SHAPE Shape Repository.  \r\nThis project has received funding from the
  European Union’s Horizon 2020  research  and  innovation  programme  under  grant
  \ agreement\r\nNo. 645599."
alternative_title:
- ACM Transactions on Graphics
article_number: '223'
author:
- first_name: Luigi
  full_name: Malomo, Luigi
  last_name: Malomo
- first_name: Nico
  full_name: Pietroni, Nico
  last_name: Pietroni
- first_name: Bernd
  full_name: Bickel, Bernd
  id: 49876194-F248-11E8-B48F-1D18A9856A87
  last_name: Bickel
  orcid: 0000-0001-6511-9385
- first_name: Paolo
  full_name: Cignoni, Paolo
  last_name: Cignoni
citation:
  ama: 'Malomo L, Pietroni N, Bickel B, Cignoni P. FlexMolds: Automatic design of
    flexible shells for molding. In: Vol 35. ACM; 2016. doi:<a href="https://doi.org/10.1145/2980179.2982397">10.1145/2980179.2982397</a>'
  apa: 'Malomo, L., Pietroni, N., Bickel, B., &#38; Cignoni, P. (2016). FlexMolds:
    Automatic design of flexible shells for molding (Vol. 35). Presented at the SIGGRAPH
    Asia: Conference and Exhibition on Computer Graphics and Interactive Techniques
    in Asia, Macao, China: ACM. <a href="https://doi.org/10.1145/2980179.2982397">https://doi.org/10.1145/2980179.2982397</a>'
  chicago: 'Malomo, Luigi, Nico Pietroni, Bernd Bickel, and Paolo Cignoni. “FlexMolds:
    Automatic Design of Flexible Shells for Molding,” Vol. 35. ACM, 2016. <a href="https://doi.org/10.1145/2980179.2982397">https://doi.org/10.1145/2980179.2982397</a>.'
  ieee: 'L. Malomo, N. Pietroni, B. Bickel, and P. Cignoni, “FlexMolds: Automatic
    design of flexible shells for molding,” presented at the SIGGRAPH Asia: Conference
    and Exhibition on Computer Graphics and Interactive Techniques in Asia, Macao,
    China, 2016, vol. 35, no. 6.'
  ista: 'Malomo L, Pietroni N, Bickel B, Cignoni P. 2016. FlexMolds: Automatic design
    of flexible shells for molding. SIGGRAPH Asia: Conference and Exhibition on Computer
    Graphics and Interactive Techniques in Asia, ACM Transactions on Graphics, vol.
    35, 223.'
  mla: 'Malomo, Luigi, et al. <i>FlexMolds: Automatic Design of Flexible Shells for
    Molding</i>. Vol. 35, no. 6, 223, ACM, 2016, doi:<a href="https://doi.org/10.1145/2980179.2982397">10.1145/2980179.2982397</a>.'
  short: L. Malomo, N. Pietroni, B. Bickel, P. Cignoni, in:, ACM, 2016.
conference:
  end_date: 2016-12-08
  location: Macao, China
  name: 'SIGGRAPH Asia: Conference and Exhibition on Computer Graphics and Interactive
    Techniques in Asia'
  start_date: 2016-12-05
date_created: 2018-12-11T11:50:08Z
date_published: 2016-11-01T00:00:00Z
date_updated: 2021-01-12T06:48:16Z
day: '01'
ddc:
- '000'
- '005'
department:
- _id: BeBi
doi: 10.1145/2980179.2982397
ec_funded: 1
file:
- access_level: open_access
  content_type: application/pdf
  creator: system
  date_created: 2018-12-12T10:12:01Z
  date_updated: 2018-12-12T10:12:01Z
  file_id: '4918'
  file_name: IST-2017-760-v1+1_flexmolds.pdf
  file_size: 11122029
  relation: main_file
file_date_updated: 2018-12-12T10:12:01Z
has_accepted_license: '1'
intvolume: '        35'
issue: '6'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Submitted Version
project:
- _id: 25082902-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '645599'
  name: Soft-bodied intelligence for Manipulation
publication_status: published
publisher: ACM
publist_id: '6276'
pubrep_id: '760'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'FlexMolds: Automatic design of flexible shells for molding'
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2016'
...
---
_id: '1100'
abstract:
- lang: eng
  text: During metazoan development, the temporal pattern of morphogen signaling is
    critical for organizing cell fates in space and time. Yet, tools for temporally
    controlling morphogen signaling within the embryo are still scarce. Here, we developed
    a photoactivatable Nodal receptor to determine how the temporal pattern of Nodal
    signaling affects cell fate specification during zebrafish gastrulation. By using
    this receptor to manipulate the duration of Nodal signaling in vivo by light,
    we show that extended Nodal signaling within the organizer promotes prechordal
    plate specification and suppresses endoderm differentiation. Endoderm differentiation
    is suppressed by extended Nodal signaling inducing expression of the transcriptional
    repressor goosecoid (gsc) in prechordal plate progenitors, which in turn restrains
    Nodal signaling from upregulating the endoderm differentiation gene sox17 within
    these cells. Thus, optogenetic manipulation of Nodal signaling identifies a critical
    role of Nodal signaling duration for organizer cell fate specification during
    gastrulation.
acknowledged_ssus:
- _id: SSU
acknowledgement: 'We are grateful to members of the C.-P.H. and H.J. labs for discussions,
  R. Hauschild and the different Scientific Service Units at IST Austria for technical
  help, M. Dravecka for performing initial experiments, A. Schier for reading an earlier
  version of the manuscript, K.W. Rogers for technical help, and C. Hill, A. Bruce,
  and L. Solnica-Krezel for sending plasmids. This work was supported by grants from
  the Austrian Science Foundation (FWF): (T560-B17) and (I 812-B12) to V.R. and C.-P.H.,
  and from the European Union (EU FP7): (6275) to H.J. A.I.-P. is supported by a Ramon
  Areces fellowship.'
author:
- first_name: Keisuke
  full_name: Sako, Keisuke
  id: 3BED66BE-F248-11E8-B48F-1D18A9856A87
  last_name: Sako
  orcid: 0000-0002-6453-8075
- first_name: Saurabh
  full_name: Pradhan, Saurabh
  last_name: Pradhan
- first_name: Vanessa
  full_name: Barone, Vanessa
  id: 419EECCC-F248-11E8-B48F-1D18A9856A87
  last_name: Barone
  orcid: 0000-0003-2676-3367
- first_name: Álvaro
  full_name: Inglés Prieto, Álvaro
  id: 2A9DB292-F248-11E8-B48F-1D18A9856A87
  last_name: Inglés Prieto
  orcid: 0000-0002-5409-8571
- first_name: Patrick
  full_name: Mueller, Patrick
  last_name: Mueller
- first_name: Verena
  full_name: Ruprecht, Verena
  id: 4D71A03A-F248-11E8-B48F-1D18A9856A87
  last_name: Ruprecht
  orcid: 0000-0003-4088-8633
- first_name: Daniel
  full_name: Capek, Daniel
  id: 31C42484-F248-11E8-B48F-1D18A9856A87
  last_name: Capek
  orcid: 0000-0001-5199-9940
- first_name: Sanjeev
  full_name: Galande, Sanjeev
  last_name: Galande
- first_name: Harald L
  full_name: Janovjak, Harald L
  id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
  last_name: Janovjak
  orcid: 0000-0002-8023-9315
- first_name: Carl-Philipp J
  full_name: Heisenberg, Carl-Philipp J
  id: 39427864-F248-11E8-B48F-1D18A9856A87
  last_name: Heisenberg
  orcid: 0000-0002-0912-4566
citation:
  ama: Sako K, Pradhan S, Barone V, et al. Optogenetic control of nodal signaling
    reveals a temporal pattern of nodal signaling regulating cell fate specification
    during gastrulation. <i>Cell Reports</i>. 2016;16(3):866-877. doi:<a href="https://doi.org/10.1016/j.celrep.2016.06.036">10.1016/j.celrep.2016.06.036</a>
  apa: Sako, K., Pradhan, S., Barone, V., Inglés Prieto, Á., Mueller, P., Ruprecht,
    V., … Heisenberg, C.-P. J. (2016). Optogenetic control of nodal signaling reveals
    a temporal pattern of nodal signaling regulating cell fate specification during
    gastrulation. <i>Cell Reports</i>. Cell Press. <a href="https://doi.org/10.1016/j.celrep.2016.06.036">https://doi.org/10.1016/j.celrep.2016.06.036</a>
  chicago: Sako, Keisuke, Saurabh Pradhan, Vanessa Barone, Álvaro Inglés Prieto, Patrick
    Mueller, Verena Ruprecht, Daniel Capek, Sanjeev Galande, Harald L Janovjak, and
    Carl-Philipp J Heisenberg. “Optogenetic Control of Nodal Signaling Reveals a Temporal
    Pattern of Nodal Signaling Regulating Cell Fate Specification during Gastrulation.”
    <i>Cell Reports</i>. Cell Press, 2016. <a href="https://doi.org/10.1016/j.celrep.2016.06.036">https://doi.org/10.1016/j.celrep.2016.06.036</a>.
  ieee: K. Sako <i>et al.</i>, “Optogenetic control of nodal signaling reveals a temporal
    pattern of nodal signaling regulating cell fate specification during gastrulation,”
    <i>Cell Reports</i>, vol. 16, no. 3. Cell Press, pp. 866–877, 2016.
  ista: Sako K, Pradhan S, Barone V, Inglés Prieto Á, Mueller P, Ruprecht V, Capek
    D, Galande S, Janovjak HL, Heisenberg C-PJ. 2016. Optogenetic control of nodal
    signaling reveals a temporal pattern of nodal signaling regulating cell fate specification
    during gastrulation. Cell Reports. 16(3), 866–877.
  mla: Sako, Keisuke, et al. “Optogenetic Control of Nodal Signaling Reveals a Temporal
    Pattern of Nodal Signaling Regulating Cell Fate Specification during Gastrulation.”
    <i>Cell Reports</i>, vol. 16, no. 3, Cell Press, 2016, pp. 866–77, doi:<a href="https://doi.org/10.1016/j.celrep.2016.06.036">10.1016/j.celrep.2016.06.036</a>.
  short: K. Sako, S. Pradhan, V. Barone, Á. Inglés Prieto, P. Mueller, V. Ruprecht,
    D. Capek, S. Galande, H.L. Janovjak, C.-P.J. Heisenberg, Cell Reports 16 (2016)
    866–877.
date_created: 2018-12-11T11:50:08Z
date_published: 2016-07-19T00:00:00Z
date_updated: 2024-03-25T23:30:13Z
day: '19'
ddc:
- '570'
- '576'
department:
- _id: CaHe
- _id: HaJa
doi: 10.1016/j.celrep.2016.06.036
ec_funded: 1
file:
- access_level: open_access
  content_type: application/pdf
  creator: system
  date_created: 2018-12-12T10:11:04Z
  date_updated: 2018-12-12T10:11:04Z
  file_id: '4857'
  file_name: IST-2017-754-v1+1_1-s2.0-S2211124716307768-main.pdf
  file_size: 3921947
  relation: main_file
file_date_updated: 2018-12-12T10:11:04Z
has_accepted_license: '1'
intvolume: '        16'
issue: '3'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 866 - 877
project:
- _id: 2529486C-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: T 560-B17
  name: Cell- and Tissue Mechanics in Zebrafish Germ Layer Formation
- _id: 2527D5CC-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: I 812-B12
  name: Cell Cortex and Germ Layer Formation in Zebrafish Gastrulation
- _id: 25548C20-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '303564'
  name: Microbial Ion Channels for Synthetic Neurobiology
publication: Cell Reports
publication_status: published
publisher: Cell Press
publist_id: '6275'
pubrep_id: '754'
quality_controlled: '1'
related_material:
  record:
  - id: '961'
    relation: dissertation_contains
    status: public
  - id: '50'
    relation: dissertation_contains
    status: public
scopus_import: 1
status: public
title: Optogenetic control of nodal signaling reveals a temporal pattern of nodal
  signaling regulating cell fate specification during gastrulation
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: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 16
year: '2016'
...
---
_id: '1101'
abstract:
- lang: eng
  text: Optical sensors based on the phenomenon of Förster resonance energy transfer
    (FRET) are powerful tools that have advanced the study of small molecules in biological
    systems. However, sensor construction is not trivial and often requires multiple
    rounds of engineering or an ability to screen large numbers of variants. A method
    that would allow the accurate rational design of FRET sensors would expedite the
    production of biologically useful sensors. Here, we present Rangefinder, a computational
    algorithm that allows rapid in silico screening of dye attachment sites in a ligand-binding
    protein for the conjugation of a dye molecule to act as a Förster acceptor for
    a fused fluorescent protein. We present three ratiometric fluorescent sensors
    designed with Rangefinder, including a maltose sensor with a dynamic range of
    &gt;300% and the first sensors for the most abundant sialic acid in human cells,
    N-acetylneuraminic acid. Provided a ligand-binding protein exists, it is our expectation
    that this model will facilitate the design of an optical sensor for any small
    molecule of interest.
acknowledgement: "J.A.M., J.H.W., and W.H.Z. were supported by Australian\r\nPostgraduate
  Awards (APA), AS Sargeson Supplementary\r\nscholarships, and RSC supplementary scholarships.
  C.J.J.\r\nacknowledges support from a Human Frontiers in Science\r\nYoung Investigator
  Award and a Discovery Project and Future\r\nFellowship from the Australian Research
  Council. M.L.O. is\r\nsupported by an Australian Research Council Discovery Project\r\n(DP130102153)
  and the Merit Allocation Scheme of the\r\nNational Computational Infrastructure."
article_processing_charge: No
author:
- first_name: Joshua
  full_name: Mitchell, Joshua
  last_name: Mitchell
- first_name: Jason
  full_name: Whitfield, Jason
  last_name: Whitfield
- first_name: William
  full_name: Zhang, William
  last_name: Zhang
- first_name: Christian
  full_name: Henneberger, Christian
  last_name: Henneberger
- first_name: Harald L
  full_name: Janovjak, Harald L
  id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
  last_name: Janovjak
  orcid: 0000-0002-8023-9315
- first_name: Megan
  full_name: O'Mara, Megan
  last_name: O'Mara
- first_name: Colin
  full_name: Jackson, Colin
  last_name: Jackson
citation:
  ama: 'Mitchell J, Whitfield J, Zhang W, et al. Rangefinder: A semisynthetic FRET
    sensor design algorithm. <i>ACS SENSORS</i>. 2016;1(11):1286-1290. doi:<a href="https://doi.org/10.1021/acssensors.6b00576">10.1021/acssensors.6b00576</a>'
  apa: 'Mitchell, J., Whitfield, J., Zhang, W., Henneberger, C., Janovjak, H. L.,
    O’Mara, M., &#38; Jackson, C. (2016). Rangefinder: A semisynthetic FRET sensor
    design algorithm. <i>ACS SENSORS</i>. American Chemical Society. <a href="https://doi.org/10.1021/acssensors.6b00576">https://doi.org/10.1021/acssensors.6b00576</a>'
  chicago: 'Mitchell, Joshua, Jason Whitfield, William Zhang, Christian Henneberger,
    Harald L Janovjak, Megan O’Mara, and Colin Jackson. “Rangefinder: A Semisynthetic
    FRET Sensor Design Algorithm.” <i>ACS SENSORS</i>. American Chemical Society,
    2016. <a href="https://doi.org/10.1021/acssensors.6b00576">https://doi.org/10.1021/acssensors.6b00576</a>.'
  ieee: 'J. Mitchell <i>et al.</i>, “Rangefinder: A semisynthetic FRET sensor design
    algorithm,” <i>ACS SENSORS</i>, vol. 1, no. 11. American Chemical Society, pp.
    1286–1290, 2016.'
  ista: 'Mitchell J, Whitfield J, Zhang W, Henneberger C, Janovjak HL, O’Mara M, Jackson
    C. 2016. Rangefinder: A semisynthetic FRET sensor design algorithm. ACS SENSORS.
    1(11), 1286–1290.'
  mla: 'Mitchell, Joshua, et al. “Rangefinder: A Semisynthetic FRET Sensor Design
    Algorithm.” <i>ACS SENSORS</i>, vol. 1, no. 11, American Chemical Society, 2016,
    pp. 1286–90, doi:<a href="https://doi.org/10.1021/acssensors.6b00576">10.1021/acssensors.6b00576</a>.'
  short: J. Mitchell, J. Whitfield, W. Zhang, C. Henneberger, H.L. Janovjak, M. O’Mara,
    C. Jackson, ACS SENSORS 1 (2016) 1286–1290.
date_created: 2018-12-11T11:50:09Z
date_published: 2016-11-10T00:00:00Z
date_updated: 2023-03-30T11:32:33Z
day: '10'
department:
- _id: HaJa
doi: 10.1021/acssensors.6b00576
intvolume: '         1'
issue: '11'
language:
- iso: eng
month: '11'
oa_version: None
page: 1286 - 1290
publication: ACS SENSORS
publication_status: published
publisher: American Chemical Society
publist_id: '6274'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Rangefinder: A semisynthetic FRET sensor design algorithm'
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 1
year: '2016'
...
---
_id: '1102'
abstract:
- lang: eng
  text: Weakly-supervised object localization methods tend to fail for object classes
    that consistently co-occur with the same background elements, e.g. trains on tracks.
    We propose a method to overcome these failures by adding a very small amount of
    model-specific additional annotation. The main idea is to cluster a deep network\'s
    mid-level representations and assign object or distractor labels to each cluster.
    Experiments show substantially improved localization results on the challenging
    ILSVC2014 dataset for bounding box detection and the PASCAL VOC2012 dataset for
    semantic segmentation.
acknowledgement: "This work was funded in parts by the European Research Council\r\nunder
  the European Union’s Seventh Framework Programme (FP7/2007-2013)/ERC grant\r\nagreement
  no 308036. We gratefully acknowledge the support of NVIDIA Corporation with\r\nthe
  donation of the GPUs used for this research."
author:
- first_name: Alexander
  full_name: Kolesnikov, Alexander
  id: 2D157DB6-F248-11E8-B48F-1D18A9856A87
  last_name: Kolesnikov
- first_name: Christoph
  full_name: Lampert, Christoph
  id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
  last_name: Lampert
  orcid: 0000-0001-8622-7887
citation:
  ama: 'Kolesnikov A, Lampert C. Improving weakly-supervised object localization by
    micro-annotation. In: <i>Proceedings of the British Machine Vision Conference
    2016</i>. Vol 2016-September. BMVA Press; 2016:92.1-92.12. doi:<a href="https://doi.org/10.5244/C.30.92">10.5244/C.30.92</a>'
  apa: 'Kolesnikov, A., &#38; Lampert, C. (2016). Improving weakly-supervised object
    localization by micro-annotation. In <i>Proceedings of the British Machine Vision
    Conference 2016</i> (Vol. 2016–September, p. 92.1-92.12). York, United Kingdom:
    BMVA Press. <a href="https://doi.org/10.5244/C.30.92">https://doi.org/10.5244/C.30.92</a>'
  chicago: Kolesnikov, Alexander, and Christoph Lampert. “Improving Weakly-Supervised
    Object Localization by Micro-Annotation.” In <i>Proceedings of the British Machine
    Vision Conference 2016</i>, 2016–September:92.1-92.12. BMVA Press, 2016. <a href="https://doi.org/10.5244/C.30.92">https://doi.org/10.5244/C.30.92</a>.
  ieee: A. Kolesnikov and C. Lampert, “Improving weakly-supervised object localization
    by micro-annotation,” in <i>Proceedings of the British Machine Vision Conference
    2016</i>, York, United Kingdom, 2016, vol. 2016–September, p. 92.1-92.12.
  ista: 'Kolesnikov A, Lampert C. 2016. Improving weakly-supervised object localization
    by micro-annotation. Proceedings of the British Machine Vision Conference 2016.
    BMVC: British Machine Vision Conference vol. 2016–September, 92.1-92.12.'
  mla: Kolesnikov, Alexander, and Christoph Lampert. “Improving Weakly-Supervised
    Object Localization by Micro-Annotation.” <i>Proceedings of the British Machine
    Vision Conference 2016</i>, vol. 2016–September, BMVA Press, 2016, p. 92.1-92.12,
    doi:<a href="https://doi.org/10.5244/C.30.92">10.5244/C.30.92</a>.
  short: A. Kolesnikov, C. Lampert, in:, Proceedings of the British Machine Vision
    Conference 2016, BMVA Press, 2016, p. 92.1-92.12.
conference:
  end_date: 2016-09-22
  location: York, United Kingdom
  name: 'BMVC: British Machine Vision Conference'
  start_date: 2016-09-19
date_created: 2018-12-11T11:50:09Z
date_published: 2016-09-01T00:00:00Z
date_updated: 2021-01-12T06:48:18Z
day: '01'
department:
- _id: ChLa
doi: 10.5244/C.30.92
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: http://www.bmva.org/bmvc/2016/papers/paper092/paper092.pdf
month: '09'
oa: 1
oa_version: Published Version
page: 92.1-92.12
project:
- _id: 2532554C-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '308036'
  name: Lifelong Learning of Visual Scene Understanding
publication: Proceedings of the British Machine Vision Conference 2016
publication_status: published
publisher: BMVA Press
publist_id: '6273'
quality_controlled: '1'
scopus_import: 1
status: public
title: Improving weakly-supervised object localization by micro-annotation
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 2016-September
year: '2016'
...
---
_id: '1103'
abstract:
- lang: eng
  text: We propose two parallel state-space-exploration algorithms for hybrid automaton
    (HA), with the goal of enhancing performance on multi-core shared-memory systems.
    The first uses the parallel, breadth-first-search algorithm (PBFS) of the SPIN
    model checker, when traversing the discrete modes of the HA, and enhances it with
    a parallel exploration of the continuous states within each mode. We show that
    this simple-minded extension of PBFS does not provide the desired load balancing
    in many HA benchmarks. The second algorithm is a task-parallel BFS algorithm (TP-BFS),
    which uses a cheap precomputation of the cost associated with the post operations
    (both continuous and discrete) in order to improve load balancing. We illustrate
    the TP-BFS and the cost precomputation of the post operators on a support-function-based
    algorithm for state-space exploration. The performance comparison of the two algorithms
    shows that, in general, TP-BFS provides a better utilization/load-balancing of
    the CPU. Both algorithms are implemented in the model checker XSpeed. Our experiments
    show a maximum speed-up of more than 2000 χ on a navigation benchmark, with respect
    to SpaceEx LGG scenario. In order to make the comparison fair, we employed an
    equal number of post operations in both tools. To the best of our knowledge, this
    paper represents the first attempt to provide parallel, reachability-analysis
    algorithms for HA.
acknowledgement: This work was supported in part by DST-SERB, GoI under Project No.
  YSS/2014/000623 and by the European Research Council (ERC) under grant 267989 (QUAREM)
  and by the Austrian Science Fund (FWF) under grants S11402-N23, S11405-N23 and S11412-N23
  (RiSE/SHiNE) and Z211-N23 (Wittgenstein Award).
article_number: '7797741'
author:
- first_name: Amit
  full_name: Gurung, Amit
  last_name: Gurung
- first_name: Arup
  full_name: Deka, Arup
  last_name: Deka
- first_name: Ezio
  full_name: Bartocci, Ezio
  last_name: Bartocci
- first_name: Sergiy
  full_name: Bogomolov, Sergiy
  id: 369D9A44-F248-11E8-B48F-1D18A9856A87
  last_name: Bogomolov
  orcid: 0000-0002-0686-0365
- first_name: Radu
  full_name: Grosu, Radu
  last_name: Grosu
- first_name: Rajarshi
  full_name: Ray, Rajarshi
  last_name: Ray
citation:
  ama: 'Gurung A, Deka A, Bartocci E, Bogomolov S, Grosu R, Ray R. Parallel reachability
    analysis for hybrid systems. In: IEEE; 2016. doi:<a href="https://doi.org/10.1109/MEMCOD.2016.7797741">10.1109/MEMCOD.2016.7797741</a>'
  apa: 'Gurung, A., Deka, A., Bartocci, E., Bogomolov, S., Grosu, R., &#38; Ray, R.
    (2016). Parallel reachability analysis for hybrid systems. Presented at the MEMOCODE:
    International Conference on Formal Methods and Models for System Design, Kanpur,
    India : IEEE. <a href="https://doi.org/10.1109/MEMCOD.2016.7797741">https://doi.org/10.1109/MEMCOD.2016.7797741</a>'
  chicago: Gurung, Amit, Arup Deka, Ezio Bartocci, Sergiy Bogomolov, Radu Grosu, and
    Rajarshi Ray. “Parallel Reachability Analysis for Hybrid Systems.” IEEE, 2016.
    <a href="https://doi.org/10.1109/MEMCOD.2016.7797741">https://doi.org/10.1109/MEMCOD.2016.7797741</a>.
  ieee: 'A. Gurung, A. Deka, E. Bartocci, S. Bogomolov, R. Grosu, and R. Ray, “Parallel
    reachability analysis for hybrid systems,” presented at the MEMOCODE: International
    Conference on Formal Methods and Models for System Design, Kanpur, India , 2016.'
  ista: 'Gurung A, Deka A, Bartocci E, Bogomolov S, Grosu R, Ray R. 2016. Parallel
    reachability analysis for hybrid systems. MEMOCODE: International Conference on
    Formal Methods and Models for System Design, 7797741.'
  mla: Gurung, Amit, et al. <i>Parallel Reachability Analysis for Hybrid Systems</i>.
    7797741, IEEE, 2016, doi:<a href="https://doi.org/10.1109/MEMCOD.2016.7797741">10.1109/MEMCOD.2016.7797741</a>.
  short: A. Gurung, A. Deka, E. Bartocci, S. Bogomolov, R. Grosu, R. Ray, in:, IEEE,
    2016.
conference:
  end_date: 2016-11-20
  location: 'Kanpur, India '
  name: 'MEMOCODE: International Conference on Formal Methods and Models for System
    Design'
  start_date: 2016-11-18
date_created: 2018-12-11T11:50:09Z
date_published: 2016-12-27T00:00:00Z
date_updated: 2021-01-12T06:48:18Z
day: '27'
department:
- _id: ToHe
doi: 10.1109/MEMCOD.2016.7797741
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://arxiv.org/abs/1606.05473
month: '12'
oa: 1
oa_version: Preprint
project:
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '267989'
  name: Quantitative Reactive Modeling
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: Z211
  name: The Wittgenstein Prize
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: S 11407_N23
  name: Rigorous Systems Engineering
publication_status: published
publisher: IEEE
publist_id: '6272'
quality_controlled: '1'
scopus_import: 1
status: public
title: Parallel reachability analysis for hybrid systems
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '1105'
abstract:
- lang: eng
  text: Jointly characterizing neural responses in terms of several external variables
    promises novel insights into circuit function, but remains computationally prohibitive
    in practice. Here we use gaussian process (GP) priors and exploit recent advances
    in fast GP inference and learning based on Kronecker methods, to efficiently estimate
    multidimensional nonlinear tuning functions. Our estimator require considerably
    less data than traditional methods and further provides principled uncertainty
    estimates. We apply these tools to hippocampal recordings during open field exploration
    and use them to characterize the joint dependence of CA1 responses on the position
    of the animal and several other variables, including the animal\'s speed, direction
    of motion, and network oscillations.Our results provide an unprecedentedly detailed
    quantification of the tuning of hippocampal neurons. The model\'s generality suggests
    that our approach can be used to estimate neural response properties in other
    brain regions.
acknowledgement: "We  thank  Jozsef  Csicsvari  for  kindly  sharing  the  CA1  data.\r\nThis
  work was supported by the People Programme (Marie Curie Actions) of the European
  Union’s Seventh Framework Programme(FP7/2007-2013) under REA grant agreement no.
  291734."
alternative_title:
- Advances in Neural Information Processing Systems
author:
- first_name: Cristina
  full_name: Savin, Cristina
  id: 3933349E-F248-11E8-B48F-1D18A9856A87
  last_name: Savin
- first_name: Gasper
  full_name: Tkacik, Gasper
  id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
  last_name: Tkacik
  orcid: 0000-0002-6699-1455
citation:
  ama: 'Savin C, Tkačik G. Estimating nonlinear neural response functions using GP
    priors and Kronecker methods. In: Vol 29. Neural Information Processing Systems;
    2016:3610-3618.'
  apa: 'Savin, C., &#38; Tkačik, G. (2016). Estimating nonlinear neural response functions
    using GP priors and Kronecker methods (Vol. 29, pp. 3610–3618). Presented at the
    NIPS: Neural Information Processing Systems, Barcelona; Spain: Neural Information
    Processing Systems.'
  chicago: Savin, Cristina, and Gašper Tkačik. “Estimating Nonlinear Neural Response
    Functions Using GP Priors and Kronecker Methods,” 29:3610–18. Neural Information
    Processing Systems, 2016.
  ieee: 'C. Savin and G. Tkačik, “Estimating nonlinear neural response functions using
    GP priors and Kronecker methods,” presented at the NIPS: Neural Information Processing
    Systems, Barcelona; Spain, 2016, vol. 29, pp. 3610–3618.'
  ista: 'Savin C, Tkačik G. 2016. Estimating nonlinear neural response functions using
    GP priors and Kronecker methods. NIPS: Neural Information Processing Systems,
    Advances in Neural Information Processing Systems, vol. 29, 3610–3618.'
  mla: Savin, Cristina, and Gašper Tkačik. <i>Estimating Nonlinear Neural Response
    Functions Using GP Priors and Kronecker Methods</i>. Vol. 29, Neural Information
    Processing Systems, 2016, pp. 3610–18.
  short: C. Savin, G. Tkačik, in:, Neural Information Processing Systems, 2016, pp.
    3610–3618.
conference:
  end_date: 2016-12-10
  location: Barcelona; Spain
  name: 'NIPS: Neural Information Processing Systems'
  start_date: 2016-12-05
date_created: 2018-12-11T11:50:10Z
date_published: 2016-12-01T00:00:00Z
date_updated: 2021-01-12T06:48:19Z
day: '01'
department:
- _id: GaTk
ec_funded: 1
intvolume: '        29'
language:
- iso: eng
main_file_link:
- url: http://papers.nips.cc/paper/6153-estimating-nonlinear-neural-response-functions-using-gp-priors-and-kronecker-methods
month: '12'
oa_version: None
page: 3610-3618
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '291734'
  name: International IST Postdoc Fellowship Programme
publication_status: published
publisher: Neural Information Processing Systems
publist_id: '6265'
quality_controlled: '1'
scopus_import: 1
status: public
title: Estimating nonlinear neural response functions using GP priors and Kronecker
  methods
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 29
year: '2016'
...
---
_id: '11069'
abstract:
- lang: eng
  text: Repeated rounds of nuclear envelope (NE) rupture and repair have been observed
    in laminopathy and cancer cells and result in intermittent loss of nucleus compartmentalization.
    Currently, the causes of NE rupture are unclear. Here, we show that NE rupture
    in cancer cells relies on the assembly of contractile actin bundles that interact
    with the nucleus via the linker of nucleoskeleton and cytoskeleton (LINC) complex.
    We found that the loss of actin bundles or the LINC complex did not rescue nuclear
    lamina defects, a previously identified determinant of nuclear membrane stability,
    but did decrease the number and size of chromatin hernias. Finally, NE rupture
    inhibition could be rescued in cells treated with actin-depolymerizing drugs by
    mechanically constraining nucleus height. These data suggest a model of NE rupture
    where weak membrane areas, caused by defects in lamina organization, rupture because
    of an increase in intranuclear pressure from actin-based nucleus confinement.
article_processing_charge: No
article_type: original
author:
- first_name: Emily M.
  full_name: Hatch, Emily M.
  last_name: Hatch
- first_name: Martin W
  full_name: HETZER, Martin W
  id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed
  last_name: HETZER
  orcid: 0000-0002-2111-992X
citation:
  ama: Hatch EM, Hetzer M. Nuclear envelope rupture is induced by actin-based nucleus
    confinement. <i>Journal of Cell Biology</i>. 2016;215(1):27-36. doi:<a href="https://doi.org/10.1083/jcb.201603053">10.1083/jcb.201603053</a>
  apa: Hatch, E. M., &#38; Hetzer, M. (2016). Nuclear envelope rupture is induced
    by actin-based nucleus confinement. <i>Journal of Cell Biology</i>. Rockefeller
    University Press. <a href="https://doi.org/10.1083/jcb.201603053">https://doi.org/10.1083/jcb.201603053</a>
  chicago: Hatch, Emily M., and Martin Hetzer. “Nuclear Envelope Rupture Is Induced
    by Actin-Based Nucleus Confinement.” <i>Journal of Cell Biology</i>. Rockefeller
    University Press, 2016. <a href="https://doi.org/10.1083/jcb.201603053">https://doi.org/10.1083/jcb.201603053</a>.
  ieee: E. M. Hatch and M. Hetzer, “Nuclear envelope rupture is induced by actin-based
    nucleus confinement,” <i>Journal of Cell Biology</i>, vol. 215, no. 1. Rockefeller
    University Press, pp. 27–36, 2016.
  ista: Hatch EM, Hetzer M. 2016. Nuclear envelope rupture is induced by actin-based
    nucleus confinement. Journal of Cell Biology. 215(1), 27–36.
  mla: Hatch, Emily M., and Martin Hetzer. “Nuclear Envelope Rupture Is Induced by
    Actin-Based Nucleus Confinement.” <i>Journal of Cell Biology</i>, vol. 215, no.
    1, Rockefeller University Press, 2016, pp. 27–36, doi:<a href="https://doi.org/10.1083/jcb.201603053">10.1083/jcb.201603053</a>.
  short: E.M. Hatch, M. Hetzer, Journal of Cell Biology 215 (2016) 27–36.
date_created: 2022-04-07T07:47:42Z
date_published: 2016-10-03T00:00:00Z
date_updated: 2022-07-18T08:33:47Z
day: '03'
doi: 10.1083/jcb.201603053
extern: '1'
external_id:
  pmid:
  - '27697922'
intvolume: '       215'
issue: '1'
keyword:
- Cell Biology
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1083/jcb.201603053
month: '10'
oa: 1
oa_version: Published Version
page: 27-36
pmid: 1
publication: Journal of Cell Biology
publication_identifier:
  issn:
  - 0021-9525
  - 1540-8140
publication_status: published
publisher: Rockefeller University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Nuclear envelope rupture is induced by actin-based nucleus confinement
type: journal_article
user_id: 72615eeb-f1f3-11ec-aa25-d4573ddc34fd
volume: 215
year: '2016'
...
---
_id: '11070'
abstract:
- lang: eng
  text: The organization of the genome in the three-dimensional space of the nucleus
    is coupled with cell type-specific gene expression. However, how nuclear architecture
    influences transcription that governs cell identity remains unknown. Here, we
    show that nuclear pore complex (NPC) components Nup93 and Nup153 bind superenhancers
    (SE), regulatory structures that drive the expression of key genes that specify
    cell identity. We found that nucleoporin-associated SEs localize preferentially
    to the nuclear periphery, and absence of Nup153 and Nup93 results in dramatic
    transcriptional changes of SE-associated genes. Our results reveal a crucial role
    of NPC components in the regulation of cell type-specifying genes and highlight
    nuclear architecture as a regulatory layer of genome functions in cell fate.
article_processing_charge: No
article_type: original
author:
- first_name: Arkaitz
  full_name: Ibarra, Arkaitz
  last_name: Ibarra
- first_name: Chris
  full_name: Benner, Chris
  last_name: Benner
- first_name: Swati
  full_name: Tyagi, Swati
  last_name: Tyagi
- first_name: Jonah
  full_name: Cool, Jonah
  last_name: Cool
- first_name: Martin W
  full_name: HETZER, Martin W
  id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed
  last_name: HETZER
  orcid: 0000-0002-2111-992X
citation:
  ama: Ibarra A, Benner C, Tyagi S, Cool J, Hetzer M. Nucleoporin-mediated regulation
    of cell identity genes. <i>Genes &#38; Development</i>. 2016;30(20):2253-2258.
    doi:<a href="https://doi.org/10.1101/gad.287417.116">10.1101/gad.287417.116</a>
  apa: Ibarra, A., Benner, C., Tyagi, S., Cool, J., &#38; Hetzer, M. (2016). Nucleoporin-mediated
    regulation of cell identity genes. <i>Genes &#38; Development</i>. Cold Spring
    Harbor Laboratory. <a href="https://doi.org/10.1101/gad.287417.116">https://doi.org/10.1101/gad.287417.116</a>
  chicago: Ibarra, Arkaitz, Chris Benner, Swati Tyagi, Jonah Cool, and Martin Hetzer.
    “Nucleoporin-Mediated Regulation of Cell Identity Genes.” <i>Genes &#38; Development</i>.
    Cold Spring Harbor Laboratory, 2016. <a href="https://doi.org/10.1101/gad.287417.116">https://doi.org/10.1101/gad.287417.116</a>.
  ieee: A. Ibarra, C. Benner, S. Tyagi, J. Cool, and M. Hetzer, “Nucleoporin-mediated
    regulation of cell identity genes,” <i>Genes &#38; Development</i>, vol. 30, no.
    20. Cold Spring Harbor Laboratory, pp. 2253–2258, 2016.
  ista: Ibarra A, Benner C, Tyagi S, Cool J, Hetzer M. 2016. Nucleoporin-mediated
    regulation of cell identity genes. Genes &#38; Development. 30(20), 2253–2258.
  mla: Ibarra, Arkaitz, et al. “Nucleoporin-Mediated Regulation of Cell Identity Genes.”
    <i>Genes &#38; Development</i>, vol. 30, no. 20, Cold Spring Harbor Laboratory,
    2016, pp. 2253–58, doi:<a href="https://doi.org/10.1101/gad.287417.116">10.1101/gad.287417.116</a>.
  short: A. Ibarra, C. Benner, S. Tyagi, J. Cool, M. Hetzer, Genes &#38; Development
    30 (2016) 2253–2258.
date_created: 2022-04-07T07:48:08Z
date_published: 2016-11-02T00:00:00Z
date_updated: 2022-07-18T08:33:49Z
day: '02'
doi: 10.1101/gad.287417.116
extern: '1'
external_id:
  pmid:
  - '27807035'
intvolume: '        30'
issue: '20'
keyword:
- Developmental Biology
- Genetics
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1101/gad.287417.116
month: '11'
oa: 1
oa_version: Published Version
page: 2253-2258
pmid: 1
publication: Genes & Development
publication_identifier:
  eissn:
  - 1549-5477
  issn:
  - 0890-9369
publication_status: published
publisher: Cold Spring Harbor Laboratory
quality_controlled: '1'
scopus_import: '1'
status: public
title: Nucleoporin-mediated regulation of cell identity genes
type: journal_article
user_id: 72615eeb-f1f3-11ec-aa25-d4573ddc34fd
volume: 30
year: '2016'
...
---
_id: '11071'
abstract:
- lang: eng
  text: Nuclear pore complexes (NPCs) emerged as nuclear transport channels in eukaryotic
    cells ∼1.5 billion years ago. While the primary role of NPCs is to regulate nucleo–cytoplasmic
    transport, recent research suggests that certain NPC proteins have additionally
    acquired the role of affecting gene expression at the nuclear periphery and in
    the nucleoplasm in metazoans. Here we identify a widely expressed variant of the
    transmembrane nucleoporin (Nup) Pom121 (named sPom121, for “soluble Pom121”) that
    arose by genomic rearrangement before the divergence of hominoids. sPom121 lacks
    the nuclear membrane-anchoring domain and thus does not localize to the NPC. Instead,
    sPom121 colocalizes and interacts with nucleoplasmic Nup98, a previously identified
    transcriptional regulator, at gene promoters to control transcription of its target
    genes in human cells. Interestingly, sPom121 transcripts appear independently
    in several mammalian species, suggesting convergent innovation of Nup-mediated
    transcription regulation during mammalian evolution. Our findings implicate alternate
    transcription initiation as a mechanism to increase the functional diversity of
    NPC components.
article_processing_charge: No
article_type: original
author:
- first_name: Tobias M.
  full_name: Franks, Tobias M.
  last_name: Franks
- first_name: Chris
  full_name: Benner, Chris
  last_name: Benner
- first_name: Iñigo
  full_name: Narvaiza, Iñigo
  last_name: Narvaiza
- first_name: Maria C.N.
  full_name: Marchetto, Maria C.N.
  last_name: Marchetto
- first_name: Janet M.
  full_name: Young, Janet M.
  last_name: Young
- first_name: Harmit S.
  full_name: Malik, Harmit S.
  last_name: Malik
- first_name: Fred H.
  full_name: Gage, Fred H.
  last_name: Gage
- first_name: Martin W
  full_name: HETZER, Martin W
  id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed
  last_name: HETZER
  orcid: 0000-0002-2111-992X
citation:
  ama: Franks TM, Benner C, Narvaiza I, et al. Evolution of a transcriptional regulator
    from a transmembrane nucleoporin. <i>Genes &#38; Development</i>. 2016;30(10):1155-1171.
    doi:<a href="https://doi.org/10.1101/gad.280941.116">10.1101/gad.280941.116</a>
  apa: Franks, T. M., Benner, C., Narvaiza, I., Marchetto, M. C. N., Young, J. M.,
    Malik, H. S., … Hetzer, M. (2016). Evolution of a transcriptional regulator from
    a transmembrane nucleoporin. <i>Genes &#38; Development</i>. Cold Spring Harbor
    Laboratory. <a href="https://doi.org/10.1101/gad.280941.116">https://doi.org/10.1101/gad.280941.116</a>
  chicago: Franks, Tobias M., Chris Benner, Iñigo Narvaiza, Maria C.N. Marchetto,
    Janet M. Young, Harmit S. Malik, Fred H. Gage, and Martin Hetzer. “Evolution of
    a Transcriptional Regulator from a Transmembrane Nucleoporin.” <i>Genes &#38;
    Development</i>. Cold Spring Harbor Laboratory, 2016. <a href="https://doi.org/10.1101/gad.280941.116">https://doi.org/10.1101/gad.280941.116</a>.
  ieee: T. M. Franks <i>et al.</i>, “Evolution of a transcriptional regulator from
    a transmembrane nucleoporin,” <i>Genes &#38; Development</i>, vol. 30, no. 10.
    Cold Spring Harbor Laboratory, pp. 1155–1171, 2016.
  ista: Franks TM, Benner C, Narvaiza I, Marchetto MCN, Young JM, Malik HS, Gage FH,
    Hetzer M. 2016. Evolution of a transcriptional regulator from a transmembrane
    nucleoporin. Genes &#38; Development. 30(10), 1155–1171.
  mla: Franks, Tobias M., et al. “Evolution of a Transcriptional Regulator from a
    Transmembrane Nucleoporin.” <i>Genes &#38; Development</i>, vol. 30, no. 10, Cold
    Spring Harbor Laboratory, 2016, pp. 1155–71, doi:<a href="https://doi.org/10.1101/gad.280941.116">10.1101/gad.280941.116</a>.
  short: T.M. Franks, C. Benner, I. Narvaiza, M.C.N. Marchetto, J.M. Young, H.S. Malik,
    F.H. Gage, M. Hetzer, Genes &#38; Development 30 (2016) 1155–1171.
date_created: 2022-04-07T07:48:20Z
date_published: 2016-05-19T00:00:00Z
date_updated: 2022-07-18T08:33:50Z
day: '19'
doi: 10.1101/gad.280941.116
extern: '1'
external_id:
  pmid:
  - '27198230'
intvolume: '        30'
issue: '10'
keyword:
- Developmental Biology
- Genetics
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1101/gad.280941.116
month: '05'
oa: 1
oa_version: Published Version
page: 1155-1171
pmid: 1
publication: Genes & Development
publication_identifier:
  eissn:
  - 1549-5477
  issn:
  - 0890-9369
publication_status: published
publisher: Cold Spring Harbor Laboratory
quality_controlled: '1'
scopus_import: '1'
status: public
title: Evolution of a transcriptional regulator from a transmembrane nucleoporin
type: journal_article
user_id: 72615eeb-f1f3-11ec-aa25-d4573ddc34fd
volume: 30
year: '2016'
...
---
_id: '11072'
abstract:
- lang: eng
  text: "Spatiotemporal activation of RhoA and actomyosin contraction underpins cellular
    adhesion and division. Loss of cell–cell adhesion and chromosomal instability
    are cardinal events that drive tumour progression. Here, we show that p120-catenin
    (p120) not only controls cell–cell adhesion, but also acts as a critical regulator
    of cytokinesis. We find that p120 regulates actomyosin contractility through concomitant
    binding to RhoA and the centralspindlin component MKLP1, independent of cadherin
    association. In anaphase, p120 is enriched at the cleavage furrow where it binds
    MKLP1 to spatially control RhoA GTPase cycling. Binding of p120 to MKLP1 during
    cytokinesis depends on the N-terminal coiled-coil domain of p120 isoform 1A. Importantly,
    clinical data show that loss of p120 expression is a common event in breast cancer
    that strongly correlates with multinucleation and adverse patient survival. In
    summary, our study identifies p120 loss as a driver event of chromosomal instability
    in cancer.\r\n"
article_number: '13874'
article_processing_charge: No
article_type: original
author:
- first_name: Robert A.H.
  full_name: van de Ven, Robert A.H.
  last_name: van de Ven
- first_name: Jolien S.
  full_name: de Groot, Jolien S.
  last_name: de Groot
- first_name: Danielle
  full_name: Park, Danielle
  last_name: Park
- first_name: Robert
  full_name: van Domselaar, Robert
  last_name: van Domselaar
- first_name: Danielle
  full_name: de Jong, Danielle
  last_name: de Jong
- first_name: Karoly
  full_name: Szuhai, Karoly
  last_name: Szuhai
- first_name: Elsken
  full_name: van der Wall, Elsken
  last_name: van der Wall
- first_name: Oscar M.
  full_name: Rueda, Oscar M.
  last_name: Rueda
- first_name: H. Raza
  full_name: Ali, H. Raza
  last_name: Ali
- first_name: Carlos
  full_name: Caldas, Carlos
  last_name: Caldas
- first_name: Paul J.
  full_name: van Diest, Paul J.
  last_name: van Diest
- first_name: Martin W
  full_name: HETZER, Martin W
  id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed
  last_name: HETZER
  orcid: 0000-0002-2111-992X
- first_name: Erik
  full_name: Sahai, Erik
  last_name: Sahai
- first_name: Patrick W.B.
  full_name: Derksen, Patrick W.B.
  last_name: Derksen
citation:
  ama: van de Ven RAH, de Groot JS, Park D, et al. p120-catenin prevents multinucleation
    through control of MKLP1-dependent RhoA activity during cytokinesis. <i>Nature
    Communications</i>. 2016;7. doi:<a href="https://doi.org/10.1038/ncomms13874">10.1038/ncomms13874</a>
  apa: van de Ven, R. A. H., de Groot, J. S., Park, D., van Domselaar, R., de Jong,
    D., Szuhai, K., … Derksen, P. W. B. (2016). p120-catenin prevents multinucleation
    through control of MKLP1-dependent RhoA activity during cytokinesis. <i>Nature
    Communications</i>. Springer Nature. <a href="https://doi.org/10.1038/ncomms13874">https://doi.org/10.1038/ncomms13874</a>
  chicago: Ven, Robert A.H. van de, Jolien S. de Groot, Danielle Park, Robert van
    Domselaar, Danielle de Jong, Karoly Szuhai, Elsken van der Wall, et al. “P120-Catenin
    Prevents Multinucleation through Control of MKLP1-Dependent RhoA Activity during
    Cytokinesis.” <i>Nature Communications</i>. Springer Nature, 2016. <a href="https://doi.org/10.1038/ncomms13874">https://doi.org/10.1038/ncomms13874</a>.
  ieee: R. A. H. van de Ven <i>et al.</i>, “p120-catenin prevents multinucleation
    through control of MKLP1-dependent RhoA activity during cytokinesis,” <i>Nature
    Communications</i>, vol. 7. Springer Nature, 2016.
  ista: van de Ven RAH, de Groot JS, Park D, van Domselaar R, de Jong D, Szuhai K,
    van der Wall E, Rueda OM, Ali HR, Caldas C, van Diest PJ, Hetzer M, Sahai E, Derksen
    PWB. 2016. p120-catenin prevents multinucleation through control of MKLP1-dependent
    RhoA activity during cytokinesis. Nature Communications. 7, 13874.
  mla: van de Ven, Robert A. H., et al. “P120-Catenin Prevents Multinucleation through
    Control of MKLP1-Dependent RhoA Activity during Cytokinesis.” <i>Nature Communications</i>,
    vol. 7, 13874, Springer Nature, 2016, doi:<a href="https://doi.org/10.1038/ncomms13874">10.1038/ncomms13874</a>.
  short: R.A.H. van de Ven, J.S. de Groot, D. Park, R. van Domselaar, D. de Jong,
    K. Szuhai, E. van der Wall, O.M. Rueda, H.R. Ali, C. Caldas, P.J. van Diest, M.
    Hetzer, E. Sahai, P.W.B. Derksen, Nature Communications 7 (2016).
date_created: 2022-04-07T07:48:34Z
date_published: 2016-12-22T00:00:00Z
date_updated: 2022-07-18T08:34:32Z
day: '22'
doi: 10.1038/ncomms13874
extern: '1'
external_id:
  pmid:
  - '28004812'
intvolume: '         7'
keyword:
- General Physics and Astronomy
- General Biochemistry
- Genetics and Molecular Biology
- General Chemistry
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1038/ncomms13874
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
publication: Nature Communications
publication_identifier:
  issn:
  - 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
  link:
  - relation: erratum
    url: https://doi.org/10.1038/ncomms16030
scopus_import: '1'
status: public
title: p120-catenin prevents multinucleation through control of MKLP1-dependent RhoA
  activity during cytokinesis
type: journal_article
user_id: 72615eeb-f1f3-11ec-aa25-d4573ddc34fd
volume: 7
year: '2016'
...
---
_id: '1115'
abstract:
- lang: eng
  text: We present a coherent microwave to telecom signal converter based on the electro-optical
    effect using a crystalline WGM-resonator coupled to a 3D microwave cavity, achieving
    high photon conversion efficiency of 0.1% with MHz bandwidth.
article_number: '7788479'
article_processing_charge: No
author:
- first_name: Alfredo
  full_name: Rueda, Alfredo
  last_name: Rueda
- first_name: Florian
  full_name: Sedlmeir, Florian
  last_name: Sedlmeir
- first_name: Michele
  full_name: Collodo, Michele
  last_name: Collodo
- first_name: Ulrich
  full_name: Vogl, Ulrich
  last_name: Vogl
- first_name: Birgit
  full_name: Stiller, Birgit
  last_name: Stiller
- first_name: Georg
  full_name: Schunk, Georg
  last_name: Schunk
- first_name: Dimitry
  full_name: Strekalov, Dimitry
  last_name: Strekalov
- first_name: Christoph
  full_name: Marquardt, Christoph
  last_name: Marquardt
- first_name: Johannes M
  full_name: Fink, Johannes M
  id: 4B591CBA-F248-11E8-B48F-1D18A9856A87
  last_name: Fink
  orcid: 0000-0001-8112-028X
- first_name: Oskar
  full_name: Painter, Oskar
  last_name: Painter
- first_name: Gerd
  full_name: Leuchs, Gerd
  last_name: Leuchs
- first_name: Harald
  full_name: Schwefel, Harald
  last_name: Schwefel
citation:
  ama: 'Rueda A, Sedlmeir F, Collodo M, et al. Efficient single sideband microwave
    to optical conversion using a LiNbO₃ WGM-resonator. In: IEEE; 2016. doi:<a href="https://doi.org/10.1364/CLEO_SI.2016.SF2G.3">10.1364/CLEO_SI.2016.SF2G.3</a>'
  apa: 'Rueda, A., Sedlmeir, F., Collodo, M., Vogl, U., Stiller, B., Schunk, G., …
    Schwefel, H. (2016). Efficient single sideband microwave to optical conversion
    using a LiNbO₃ WGM-resonator. Presented at the CLEO: Conference on Lasers and
    Electro Optics, San Jose, CA, USA: IEEE. <a href="https://doi.org/10.1364/CLEO_SI.2016.SF2G.3">https://doi.org/10.1364/CLEO_SI.2016.SF2G.3</a>'
  chicago: Rueda, Alfredo, Florian Sedlmeir, Michele Collodo, Ulrich Vogl, Birgit
    Stiller, Georg Schunk, Dimitry Strekalov, et al. “Efficient Single Sideband Microwave
    to Optical Conversion Using a LiNbO₃ WGM-Resonator.” IEEE, 2016. <a href="https://doi.org/10.1364/CLEO_SI.2016.SF2G.3">https://doi.org/10.1364/CLEO_SI.2016.SF2G.3</a>.
  ieee: 'A. Rueda <i>et al.</i>, “Efficient single sideband microwave to optical conversion
    using a LiNbO₃ WGM-resonator,” presented at the CLEO: Conference on Lasers and
    Electro Optics, San Jose, CA, USA, 2016.'
  ista: 'Rueda A, Sedlmeir F, Collodo M, Vogl U, Stiller B, Schunk G, Strekalov D,
    Marquardt C, Fink JM, Painter O, Leuchs G, Schwefel H. 2016. Efficient single
    sideband microwave to optical conversion using a LiNbO₃ WGM-resonator. CLEO: Conference
    on Lasers and Electro Optics, 7788479.'
  mla: Rueda, Alfredo, et al. <i>Efficient Single Sideband Microwave to Optical Conversion
    Using a LiNbO₃ WGM-Resonator</i>. 7788479, IEEE, 2016, doi:<a href="https://doi.org/10.1364/CLEO_SI.2016.SF2G.3">10.1364/CLEO_SI.2016.SF2G.3</a>.
  short: A. Rueda, F. Sedlmeir, M. Collodo, U. Vogl, B. Stiller, G. Schunk, D. Strekalov,
    C. Marquardt, J.M. Fink, O. Painter, G. Leuchs, H. Schwefel, in:, IEEE, 2016.
conference:
  end_date: 2016-06-10
  location: San Jose, CA, USA
  name: 'CLEO: Conference on Lasers and Electro Optics'
  start_date: 2016-06-05
date_created: 2018-12-11T11:50:14Z
date_published: 2016-12-16T00:00:00Z
date_updated: 2022-09-06T07:23:25Z
day: '16'
department:
- _id: JoFi
doi: 10.1364/CLEO_SI.2016.SF2G.3
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://arxiv.org/abs/1601.07261
month: '12'
oa: 1
oa_version: Preprint
publication_status: published
publisher: IEEE
publist_id: '6251'
quality_controlled: '1'
related_material:
  link:
  - relation: other
    url: http://ieeexplore.ieee.org/document/7788479/
scopus_import: '1'
status: public
title: Efficient single sideband microwave to optical conversion using a LiNbO₃ WGM-resonator
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
