---
_id: '687'
abstract:
- lang: eng
text: Pursuing the similarity between the Kontsevich-Soibelman construction of the
cohomological Hall algebra (CoHA) of BPS states and Lusztig's construction of
canonical bases for quantum enveloping algebras, and the similarity between the
integrality conjecture for motivic Donaldson-Thomas invariants and the PBW theorem
for quantum enveloping algebras, we build a coproduct on the CoHA associated to
a quiver with potential. We also prove a cohomological dimensional reduction theorem,
further linking a special class of CoHAs with Yangians, and explaining how to
connect the study of character varieties with the study of CoHAs.
author:
- first_name: Ben
full_name: Davison, Ben
id: 4634AB1E-F248-11E8-B48F-1D18A9856A87
last_name: Davison
orcid: 0000-0002-8944-4390
citation:
ama: Davison B. The critical CoHA of a quiver with potential. Quarterly Journal
of Mathematics. 2017;68(2):635-703. doi:10.1093/qmath/haw053
apa: Davison, B. (2017). The critical CoHA of a quiver with potential. Quarterly
Journal of Mathematics. Oxford University Press. https://doi.org/10.1093/qmath/haw053
chicago: Davison, Ben. “The Critical CoHA of a Quiver with Potential.” Quarterly
Journal of Mathematics. Oxford University Press, 2017. https://doi.org/10.1093/qmath/haw053.
ieee: B. Davison, “The critical CoHA of a quiver with potential,” Quarterly Journal
of Mathematics, vol. 68, no. 2. Oxford University Press, pp. 635–703, 2017.
ista: Davison B. 2017. The critical CoHA of a quiver with potential. Quarterly Journal
of Mathematics. 68(2), 635–703.
mla: Davison, Ben. “The Critical CoHA of a Quiver with Potential.” Quarterly
Journal of Mathematics, vol. 68, no. 2, Oxford University Press, 2017, pp.
635–703, doi:10.1093/qmath/haw053.
short: B. Davison, Quarterly Journal of Mathematics 68 (2017) 635–703.
date_created: 2018-12-11T11:47:55Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2021-01-12T08:09:24Z
day: '01'
department:
- _id: TaHa
doi: 10.1093/qmath/haw053
ec_funded: 1
intvolume: ' 68'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1311.7172
month: '06'
oa: 1
oa_version: Submitted Version
page: 635 - 703
project:
- _id: 25E549F4-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '320593'
name: Arithmetic and physics of Higgs moduli spaces
publication: Quarterly Journal of Mathematics
publication_identifier:
issn:
- '00335606'
publication_status: published
publisher: Oxford University Press
publist_id: '7022'
quality_controlled: '1'
scopus_import: 1
status: public
title: The critical CoHA of a quiver with potential
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 68
year: '2017'
...
---
_id: '686'
abstract:
- lang: eng
text: Tissues are thought to behave like fluids with a given surface tension. Differences
in tissue surface tension (TST) have been proposed to trigger cell sorting and
tissue envelopment. D'Arcy Thompson in his seminal book ‘On Growth and Form’ has
introduced this concept of differential TST as a key physical mechanism dictating
tissue formation and organization within the developing organism. Over the past
century, many studies have picked up the concept of differential TST and analyzed
the role and cell biological basis of TST in development, underlining the importance
and influence of this concept in developmental biology.
author:
- 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: 'Heisenberg C-PJ. D’Arcy Thompson’s ‘on growth and form’: From soap bubbles
to tissue self organization. Mechanisms of Development. 2017;145:32-37.
doi:10.1016/j.mod.2017.03.006'
apa: 'Heisenberg, C.-P. J. (2017). D’Arcy Thompson’s ‘on growth and form’: From
soap bubbles to tissue self organization. Mechanisms of Development. Elsevier.
https://doi.org/10.1016/j.mod.2017.03.006'
chicago: 'Heisenberg, Carl-Philipp J. “D’Arcy Thompson’s ‘on Growth and Form’: From
Soap Bubbles to Tissue Self Organization.” Mechanisms of Development. Elsevier,
2017. https://doi.org/10.1016/j.mod.2017.03.006.'
ieee: 'C.-P. J. Heisenberg, “D’Arcy Thompson’s ‘on growth and form’: From soap bubbles
to tissue self organization,” Mechanisms of Development, vol. 145. Elsevier,
pp. 32–37, 2017.'
ista: 'Heisenberg C-PJ. 2017. D’Arcy Thompson’s ‘on growth and form’: From soap
bubbles to tissue self organization. Mechanisms of Development. 145, 32–37.'
mla: 'Heisenberg, Carl-Philipp J. “D’Arcy Thompson’s ‘on Growth and Form’: From
Soap Bubbles to Tissue Self Organization.” Mechanisms of Development, vol.
145, Elsevier, 2017, pp. 32–37, doi:10.1016/j.mod.2017.03.006.'
short: C.-P.J. Heisenberg, Mechanisms of Development 145 (2017) 32–37.
date_created: 2018-12-11T11:47:55Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2021-01-12T08:09:23Z
day: '01'
department:
- _id: CaHe
doi: 10.1016/j.mod.2017.03.006
intvolume: ' 145'
language:
- iso: eng
month: '06'
oa_version: None
page: 32 - 37
publication: Mechanisms of Development
publication_identifier:
issn:
- '09254773'
publication_status: published
publisher: Elsevier
publist_id: '7024'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'D''Arcy Thompson''s ‘on growth and form’: From soap bubbles to tissue self
organization'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 145
year: '2017'
...
---
_id: '689'
abstract:
- lang: eng
text: Rett syndrome modeling in monkey mirrors the human disorder.
article_number: eaan8196
author:
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
citation:
ama: Novarino G. Rett syndrome modeling goes simian. Science Translational Medicine.
2017;9(393). doi:10.1126/scitranslmed.aan8196
apa: Novarino, G. (2017). Rett syndrome modeling goes simian. Science Translational
Medicine. American Association for the Advancement of Science. https://doi.org/10.1126/scitranslmed.aan8196
chicago: Novarino, Gaia. “Rett Syndrome Modeling Goes Simian.” Science Translational
Medicine. American Association for the Advancement of Science, 2017. https://doi.org/10.1126/scitranslmed.aan8196.
ieee: G. Novarino, “Rett syndrome modeling goes simian,” Science Translational
Medicine, vol. 9, no. 393. American Association for the Advancement of Science,
2017.
ista: Novarino G. 2017. Rett syndrome modeling goes simian. Science Translational
Medicine. 9(393), eaan8196.
mla: Novarino, Gaia. “Rett Syndrome Modeling Goes Simian.” Science Translational
Medicine, vol. 9, no. 393, eaan8196, American Association for the Advancement
of Science, 2017, doi:10.1126/scitranslmed.aan8196.
short: G. Novarino, Science Translational Medicine 9 (2017).
date_created: 2018-12-11T11:47:56Z
date_published: 2017-06-07T00:00:00Z
date_updated: 2021-01-12T08:09:29Z
day: '07'
department:
- _id: GaNo
doi: 10.1126/scitranslmed.aan8196
intvolume: ' 9'
issue: '393'
language:
- iso: eng
month: '06'
oa_version: None
publication: Science Translational Medicine
publication_identifier:
issn:
- '19466234'
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '7019'
quality_controlled: '1'
scopus_import: 1
status: public
title: Rett syndrome modeling goes simian
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2017'
...
---
_id: '693'
abstract:
- lang: eng
text: 'Many central synapses contain a single presynaptic active zone and a single
postsynaptic density. Vesicular release statistics at such “simple synapses” indicate
that they contain a small complement of docking sites where vesicles repetitively
dock and fuse. In this work, we investigate functional and morphological aspects
of docking sites at simple synapses made between cerebellar parallel fibers and
molecular layer interneurons. Using immunogold labeling of SDS-treated freeze-fracture
replicas, we find that Cav2.1 channels form several clusters per active zone with
about nine channels per cluster. The mean value and range of intersynaptic variation
are similar for Cav2.1 cluster numbers and for functional estimates of docking-site
numbers obtained from the maximum numbers of released vesicles per action potential.
Both numbers grow in relation with synaptic size and decrease by a similar extent
with age between 2 wk and 4 wk postnatal. Thus, the mean docking-site numbers
were 3.15 at 2 wk (range: 1–10) and 2.03 at 4 wk (range: 1–4), whereas the mean
numbers of Cav2.1 clusters were 2.84 at 2 wk (range: 1–8) and 2.37 at 4 wk (range:
1–5). These changes were accompanied by decreases of miniature current amplitude
(from 93 pA to 56 pA), active-zone surface area (from 0.0427 μm2 to 0.0234 μm2),
and initial success rate (from 0.609 to 0.353), indicating a tightening of synaptic
transmission with development. Altogether, these results suggest a close correspondence
between the number of functionally defined vesicular docking sites and that of
clusters of voltage-gated calcium channels. '
article_processing_charge: Yes (in subscription journal)
author:
- first_name: Takafumi
full_name: Miki, Takafumi
last_name: Miki
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Gerardo
full_name: Malagon, Gerardo
last_name: Malagon
- first_name: Laura
full_name: Gomez, Laura
last_name: Gomez
- first_name: Katsuhiko
full_name: Tabuchi, Katsuhiko
last_name: Tabuchi
- first_name: Masahiko
full_name: Watanabe, Masahiko
last_name: Watanabe
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Alain
full_name: Marty, Alain
last_name: Marty
citation:
ama: Miki T, Kaufmann W, Malagon G, et al. Numbers of presynaptic Ca2+ channel clusters
match those of functionally defined vesicular docking sites in single central
synapses. PNAS. 2017;114(26):E5246-E5255. doi:10.1073/pnas.1704470114
apa: Miki, T., Kaufmann, W., Malagon, G., Gomez, L., Tabuchi, K., Watanabe, M.,
… Marty, A. (2017). Numbers of presynaptic Ca2+ channel clusters match those of
functionally defined vesicular docking sites in single central synapses. PNAS.
National Academy of Sciences. https://doi.org/10.1073/pnas.1704470114
chicago: Miki, Takafumi, Walter Kaufmann, Gerardo Malagon, Laura Gomez, Katsuhiko
Tabuchi, Masahiko Watanabe, Ryuichi Shigemoto, and Alain Marty. “Numbers of Presynaptic
Ca2+ Channel Clusters Match Those of Functionally Defined Vesicular Docking Sites
in Single Central Synapses.” PNAS. National Academy of Sciences, 2017.
https://doi.org/10.1073/pnas.1704470114.
ieee: T. Miki et al., “Numbers of presynaptic Ca2+ channel clusters match
those of functionally defined vesicular docking sites in single central synapses,”
PNAS, vol. 114, no. 26. National Academy of Sciences, pp. E5246–E5255,
2017.
ista: Miki T, Kaufmann W, Malagon G, Gomez L, Tabuchi K, Watanabe M, Shigemoto R,
Marty A. 2017. Numbers of presynaptic Ca2+ channel clusters match those of functionally
defined vesicular docking sites in single central synapses. PNAS. 114(26), E5246–E5255.
mla: Miki, Takafumi, et al. “Numbers of Presynaptic Ca2+ Channel Clusters Match
Those of Functionally Defined Vesicular Docking Sites in Single Central Synapses.”
PNAS, vol. 114, no. 26, National Academy of Sciences, 2017, pp. E5246–55,
doi:10.1073/pnas.1704470114.
short: T. Miki, W. Kaufmann, G. Malagon, L. Gomez, K. Tabuchi, M. Watanabe, R. Shigemoto,
A. Marty, PNAS 114 (2017) E5246–E5255.
date_created: 2018-12-11T11:47:57Z
date_published: 2017-06-27T00:00:00Z
date_updated: 2023-02-23T12:54:57Z
day: '27'
ddc:
- '570'
department:
- _id: EM-Fac
- _id: RySh
doi: 10.1073/pnas.1704470114
external_id:
pmid:
- '28607047'
file:
- access_level: open_access
checksum: 2ab75d554f3df4a34d20fa8040589b7e
content_type: application/pdf
creator: kschuh
date_created: 2020-01-03T13:27:29Z
date_updated: 2020-07-14T12:47:44Z
file_id: '7223'
file_name: 2017_PNAS_Miki.pdf
file_size: 2721544
relation: main_file
file_date_updated: 2020-07-14T12:47:44Z
has_accepted_license: '1'
intvolume: ' 114'
issue: '26'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: E5246 - E5255
pmid: 1
publication: PNAS
publication_identifier:
issn:
- '00278424'
publication_status: published
publisher: National Academy of Sciences
publist_id: '7013'
quality_controlled: '1'
scopus_import: 1
status: public
title: Numbers of presynaptic Ca2+ channel clusters match those of functionally defined
vesicular docking sites in single central synapses
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 114
year: '2017'
...
---
_id: '694'
abstract:
- lang: eng
text: A change regarding the extent of adhesion - hereafter referred to as adhesion
plasticity - between adhesive and less-adhesive states of mammalian cells is important
for their behavior. To investigate adhesion plasticity, we have selected a stable
isogenic subpopulation of human MDA-MB-468 breast carcinoma cells growing in suspension.
These suspension cells are unable to re-adhere to various matrices or to contract
three-dimensional collagen lattices. By using transcriptome analysis, we identified
the focal adhesion protein tensin3 (Tns3) as a determinant of adhesion plasticity.
Tns3 is strongly reduced at mRNA and protein levels in suspension cells. Furthermore,
by transiently challenging breast cancer cells to grow under non-adherent conditions
markedly reduces Tns3 protein expression, which is regained upon re-adhesion.
Stable knockdown of Tns3 in parental MDA-MB-468 cells results in defective adhesion,
spreading and migration. Tns3-knockdown cells display impaired structure and dynamics
of focal adhesion complexes as determined by immunostaining. Restoration of Tns3
protein expression in suspension cells partially rescues adhesion and focal contact
composition. Our work identifies Tns3 as a crucial focal adhesion component regulated
by, and functionally contributing to, the switch between adhesive and non-adhesive
states in MDA-MB-468 cancer cells.
article_type: original
author:
- first_name: Astrid
full_name: Veß, Astrid
last_name: Veß
- first_name: Ulrich
full_name: Blache, Ulrich
last_name: Blache
- first_name: Laura
full_name: Leitner, Laura
last_name: Leitner
- first_name: Angela
full_name: Kurz, Angela
last_name: Kurz
- first_name: Anja
full_name: Ehrenpfordt, Anja
last_name: Ehrenpfordt
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Guido
full_name: Posern, Guido
last_name: Posern
citation:
ama: Veß A, Blache U, Leitner L, et al. A dual phenotype of MDA MB 468 cancer cells
reveals mutual regulation of tensin3 and adhesion plasticity. Journal of Cell
Science. 2017;130(13):2172-2184. doi:10.1242/jcs.200899
apa: Veß, A., Blache, U., Leitner, L., Kurz, A., Ehrenpfordt, A., Sixt, M. K., &
Posern, G. (2017). A dual phenotype of MDA MB 468 cancer cells reveals mutual
regulation of tensin3 and adhesion plasticity. Journal of Cell Science.
Company of Biologists. https://doi.org/10.1242/jcs.200899
chicago: Veß, Astrid, Ulrich Blache, Laura Leitner, Angela Kurz, Anja Ehrenpfordt,
Michael K Sixt, and Guido Posern. “A Dual Phenotype of MDA MB 468 Cancer Cells
Reveals Mutual Regulation of Tensin3 and Adhesion Plasticity.” Journal of Cell
Science. Company of Biologists, 2017. https://doi.org/10.1242/jcs.200899.
ieee: A. Veß et al., “A dual phenotype of MDA MB 468 cancer cells reveals
mutual regulation of tensin3 and adhesion plasticity,” Journal of Cell Science,
vol. 130, no. 13. Company of Biologists, pp. 2172–2184, 2017.
ista: Veß A, Blache U, Leitner L, Kurz A, Ehrenpfordt A, Sixt MK, Posern G. 2017.
A dual phenotype of MDA MB 468 cancer cells reveals mutual regulation of tensin3
and adhesion plasticity. Journal of Cell Science. 130(13), 2172–2184.
mla: Veß, Astrid, et al. “A Dual Phenotype of MDA MB 468 Cancer Cells Reveals Mutual
Regulation of Tensin3 and Adhesion Plasticity.” Journal of Cell Science,
vol. 130, no. 13, Company of Biologists, 2017, pp. 2172–84, doi:10.1242/jcs.200899.
short: A. Veß, U. Blache, L. Leitner, A. Kurz, A. Ehrenpfordt, M.K. Sixt, G. Posern,
Journal of Cell Science 130 (2017) 2172–2184.
date_created: 2018-12-11T11:47:58Z
date_published: 2017-07-01T00:00:00Z
date_updated: 2021-01-12T08:09:41Z
day: '01'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.1242/jcs.200899
external_id:
pmid:
- '28515231'
file:
- access_level: open_access
checksum: 42c81a0a4fc3128883b391c3af3f74bc
content_type: application/pdf
creator: dernst
date_created: 2019-10-24T09:43:56Z
date_updated: 2020-07-14T12:47:45Z
file_id: '6966'
file_name: 2017_CellScience_Vess.pdf
file_size: 10847596
relation: main_file
file_date_updated: 2020-07-14T12:47:45Z
has_accepted_license: '1'
intvolume: ' 130'
issue: '13'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 2172 - 2184
pmid: 1
publication: Journal of Cell Science
publication_identifier:
issn:
- '00219533'
publication_status: published
publisher: Company of Biologists
publist_id: '7008'
quality_controlled: '1'
scopus_import: 1
status: public
title: A dual phenotype of MDA MB 468 cancer cells reveals mutual regulation of tensin3
and adhesion plasticity
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 130
year: '2017'
...
---
_id: '697'
abstract:
- lang: eng
text: 'De, Trevisan and Tulsiani [CRYPTO 2010] show that every distribution over
n-bit strings which has constant statistical distance to uniform (e.g., the output
of a pseudorandom generator mapping n-1 to n bit strings), can be distinguished
from the uniform distribution with advantage epsilon by a circuit of size O( 2^n
epsilon^2). We generalize this result, showing that a distribution which has less
than k bits of min-entropy, can be distinguished from any distribution with k
bits of delta-smooth min-entropy with advantage epsilon by a circuit of size O(2^k
epsilon^2/delta^2). As a special case, this implies that any distribution with
support at most 2^k (e.g., the output of a pseudoentropy generator mapping k to
n bit strings) can be distinguished from any given distribution with min-entropy
k+1 with advantage epsilon by a circuit of size O(2^k epsilon^2). Our result thus
shows that pseudoentropy distributions face basically the same non-uniform attacks
as pseudorandom distributions. '
alternative_title:
- LIPIcs
article_number: '39'
author:
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
- first_name: Maciej
full_name: Skórski, Maciej
id: EC09FA6A-02D0-11E9-8223-86B7C91467DD
last_name: Skórski
citation:
ama: 'Pietrzak KZ, Skórski M. Non uniform attacks against pseudoentropy. In: Vol
80. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2017. doi:10.4230/LIPIcs.ICALP.2017.39'
apa: 'Pietrzak, K. Z., & Skórski, M. (2017). Non uniform attacks against pseudoentropy
(Vol. 80). Presented at the ICALP: International Colloquium on Automata, Languages,
and Programming, Warsaw, Poland: Schloss Dagstuhl - Leibniz-Zentrum für Informatik.
https://doi.org/10.4230/LIPIcs.ICALP.2017.39'
chicago: Pietrzak, Krzysztof Z, and Maciej Skórski. “Non Uniform Attacks against
Pseudoentropy,” Vol. 80. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2017.
https://doi.org/10.4230/LIPIcs.ICALP.2017.39.
ieee: 'K. Z. Pietrzak and M. Skórski, “Non uniform attacks against pseudoentropy,”
presented at the ICALP: International Colloquium on Automata, Languages, and Programming,
Warsaw, Poland, 2017, vol. 80.'
ista: 'Pietrzak KZ, Skórski M. 2017. Non uniform attacks against pseudoentropy.
ICALP: International Colloquium on Automata, Languages, and Programming, LIPIcs,
vol. 80, 39.'
mla: Pietrzak, Krzysztof Z., and Maciej Skórski. Non Uniform Attacks against
Pseudoentropy. Vol. 80, 39, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2017, doi:10.4230/LIPIcs.ICALP.2017.39.
short: K.Z. Pietrzak, M. Skórski, in:, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2017.
conference:
end_date: 2017-07-14
location: Warsaw, Poland
name: 'ICALP: International Colloquium on Automata, Languages, and Programming'
start_date: 2017-07-10
date_created: 2018-12-11T11:47:59Z
date_published: 2017-07-01T00:00:00Z
date_updated: 2021-01-12T08:11:15Z
day: '01'
ddc:
- '005'
department:
- _id: KrPi
doi: 10.4230/LIPIcs.ICALP.2017.39
ec_funded: 1
file:
- access_level: open_access
checksum: e95618a001692f1af2d68f5fde43bc1f
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:40Z
date_updated: 2020-07-14T12:47:46Z
file_id: '4701'
file_name: IST-2017-893-v1+1_LIPIcs-ICALP-2017-39.pdf
file_size: 601004
relation: main_file
file_date_updated: 2020-07-14T12:47:46Z
has_accepted_license: '1'
intvolume: ' 80'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 258AA5B2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '682815'
name: Teaching Old Crypto New Tricks
publication_identifier:
issn:
- '18688969'
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '7003'
pubrep_id: '893'
quality_controlled: '1'
scopus_import: 1
status: public
title: Non uniform attacks against pseudoentropy
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: 80
year: '2017'
...
---
_id: '698'
abstract:
- lang: eng
text: 'Extracellular matrix signals from the microenvironment regulate gene expression
patterns and cell behavior. Using a combination of experiments and geometric models,
we demonstrate correlations between cell geometry, three-dimensional (3D) organization
of chromosome territories, and gene expression. Fluorescence in situ hybridization
experiments showed that micropatterned fibroblasts cultured on anisotropic versus
isotropic substrates resulted in repositioning of specific chromosomes, which
contained genes that were differentially regulated by cell geometries. Experiments
combined with ellipsoid packing models revealed that the mechanosensitivity of
chromosomes was correlated with their orientation in the nucleus. Transcription
inhibition experiments suggested that the intermingling degree was more sensitive
to global changes in transcription than to chromosome radial positioning and its
orientations. These results suggested that cell geometry modulated 3D chromosome
arrangement, and their neighborhoods correlated with gene expression patterns
in a predictable manner. This is central to understanding geometric control of
genetic programs involved in cellular homeostasis and the associated diseases. '
author:
- first_name: Yejun
full_name: Wang, Yejun
last_name: Wang
- first_name: Mallika
full_name: Nagarajan, Mallika
last_name: Nagarajan
- first_name: Caroline
full_name: Uhler, Caroline
id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
last_name: Uhler
orcid: 0000-0002-7008-0216
- first_name: Gv
full_name: Shivashankar, Gv
last_name: Shivashankar
citation:
ama: Wang Y, Nagarajan M, Uhler C, Shivashankar G. Orientation and repositioning
of chromosomes correlate with cell geometry dependent gene expression. Molecular
Biology of the Cell. 2017;28(14):1997-2009. doi:10.1091/mbc.E16-12-0825
apa: Wang, Y., Nagarajan, M., Uhler, C., & Shivashankar, G. (2017). Orientation
and repositioning of chromosomes correlate with cell geometry dependent gene expression.
Molecular Biology of the Cell. American Society for Cell Biology. https://doi.org/10.1091/mbc.E16-12-0825
chicago: Wang, Yejun, Mallika Nagarajan, Caroline Uhler, and Gv Shivashankar. “Orientation
and Repositioning of Chromosomes Correlate with Cell Geometry Dependent Gene Expression.”
Molecular Biology of the Cell. American Society for Cell Biology, 2017.
https://doi.org/10.1091/mbc.E16-12-0825.
ieee: Y. Wang, M. Nagarajan, C. Uhler, and G. Shivashankar, “Orientation and repositioning
of chromosomes correlate with cell geometry dependent gene expression,” Molecular
Biology of the Cell, vol. 28, no. 14. American Society for Cell Biology, pp.
1997–2009, 2017.
ista: Wang Y, Nagarajan M, Uhler C, Shivashankar G. 2017. Orientation and repositioning
of chromosomes correlate with cell geometry dependent gene expression. Molecular
Biology of the Cell. 28(14), 1997–2009.
mla: Wang, Yejun, et al. “Orientation and Repositioning of Chromosomes Correlate
with Cell Geometry Dependent Gene Expression.” Molecular Biology of the Cell,
vol. 28, no. 14, American Society for Cell Biology, 2017, pp. 1997–2009, doi:10.1091/mbc.E16-12-0825.
short: Y. Wang, M. Nagarajan, C. Uhler, G. Shivashankar, Molecular Biology of the
Cell 28 (2017) 1997–2009.
date_created: 2018-12-11T11:47:59Z
date_published: 2017-07-07T00:00:00Z
date_updated: 2021-01-12T08:11:17Z
day: '07'
ddc:
- '519'
department:
- _id: CaUh
doi: 10.1091/mbc.E16-12-0825
file:
- access_level: open_access
checksum: de01dac9e30970cfa6ae902480a4e04d
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:53Z
date_updated: 2020-07-14T12:47:46Z
file_id: '4844'
file_name: IST-2017-892-v1+1_Mol._Biol._Cell-2017-Wang-1997-2009.pdf
file_size: 1086097
relation: main_file
file_date_updated: 2020-07-14T12:47:46Z
has_accepted_license: '1'
intvolume: ' 28'
issue: '14'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 1997 - 2009
project:
- _id: 2530CA10-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Y 903-N35
name: 'Gaussian Graphical Models: Theory and Applications'
publication: Molecular Biology of the Cell
publication_identifier:
issn:
- '10591524'
publication_status: published
publisher: American Society for Cell Biology
publist_id: '7001'
pubrep_id: '892'
quality_controlled: '1'
scopus_import: 1
status: public
title: Orientation and repositioning of chromosomes correlate with cell geometry dependent
gene expression
tmp:
image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 28
year: '2017'
...
---
_id: '699'
abstract:
- lang: eng
text: 'In antagonistic symbioses, such as host–parasite interactions, one population’s
success is the other’s loss. In mutualistic symbioses, such as division of labor,
both parties can gain, but they might have different preferences over the possible
mutualistic arrangements. The rates of evolution of the two populations in a symbiosis
are important determinants of which population will be more successful: Faster
evolution is thought to be favored in antagonistic symbioses (the “Red Queen effect”),
but disfavored in certain mutualistic symbioses (the “Red King effect”). However,
it remains unclear which biological parameters drive these effects. Here, we analyze
the effects of the various determinants of evolutionary rate: generation time,
mutation rate, population size, and the intensity of natural selection. Our main
results hold for the case where mutation is infrequent. Slower evolution causes
a long-term advantage in an important class of mutualistic interactions. Surprisingly,
less intense selection is the strongest driver of this Red King effect, whereas
relative mutation rates and generation times have little effect. In antagonistic
interactions, faster evolution by any means is beneficial. Our results provide
insight into the demographic evolution of symbionts. '
author:
- first_name: Carl
full_name: Veller, Carl
last_name: Veller
- first_name: Laura
full_name: Hayward, Laura
last_name: Hayward
- first_name: Martin
full_name: Nowak, Martin
last_name: Nowak
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
citation:
ama: Veller C, Hayward L, Nowak M, Hilbe C. The red queen and king in finite populations.
PNAS. 2017;114(27):E5396-E5405. doi:10.1073/pnas.1702020114
apa: Veller, C., Hayward, L., Nowak, M., & Hilbe, C. (2017). The red queen and
king in finite populations. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1702020114
chicago: Veller, Carl, Laura Hayward, Martin Nowak, and Christian Hilbe. “The Red
Queen and King in Finite Populations.” PNAS. National Academy of Sciences,
2017. https://doi.org/10.1073/pnas.1702020114.
ieee: C. Veller, L. Hayward, M. Nowak, and C. Hilbe, “The red queen and king in
finite populations,” PNAS, vol. 114, no. 27. National Academy of Sciences,
pp. E5396–E5405, 2017.
ista: Veller C, Hayward L, Nowak M, Hilbe C. 2017. The red queen and king in finite
populations. PNAS. 114(27), E5396–E5405.
mla: Veller, Carl, et al. “The Red Queen and King in Finite Populations.” PNAS,
vol. 114, no. 27, National Academy of Sciences, 2017, pp. E5396–405, doi:10.1073/pnas.1702020114.
short: C. Veller, L. Hayward, M. Nowak, C. Hilbe, PNAS 114 (2017) E5396–E5405.
date_created: 2018-12-11T11:48:00Z
date_published: 2017-07-03T00:00:00Z
date_updated: 2021-01-12T08:11:21Z
day: '03'
department:
- _id: KrCh
doi: 10.1073/pnas.1702020114
external_id:
pmid:
- '28630336'
intvolume: ' 114'
issue: '27'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5502615/
month: '07'
oa: 1
oa_version: Submitted Version
page: E5396 - E5405
pmid: 1
publication: PNAS
publication_identifier:
issn:
- '00278424'
publication_status: published
publisher: National Academy of Sciences
publist_id: '7002'
quality_controlled: '1'
scopus_import: 1
status: public
title: The red queen and king in finite populations
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 114
year: '2017'
...
---
_id: '700'
abstract:
- lang: eng
text: Microtubules provide the mechanical force required for chromosome separation
during mitosis. However, little is known about the dynamic (high-frequency) mechanical
properties of microtubules. Here, we theoretically propose to control the vibrations
of a doubly clamped microtubule by tip electrodes and to detect its motion via
the optomechanical coupling between the vibrational modes of the microtubule and
an optical cavity. In the presence of a red-detuned strong pump laser, this coupling
leads to optomechanical-induced transparency of an optical probe field, which
can be detected with state-of-the art technology. The center frequency and line
width of the transparency peak give the resonance frequency and damping rate of
the microtubule, respectively, while the height of the peak reveals information
about the microtubule-cavity field coupling. Our method opens the new possibilities
to gain information about the physical properties of microtubules, which will
enhance our capability to design physical cancer treatment protocols as alternatives
to chemotherapeutic drugs.
article_number: '012404'
author:
- first_name: Shabir
full_name: Barzanjeh, Shabir
id: 2D25E1F6-F248-11E8-B48F-1D18A9856A87
last_name: Barzanjeh
orcid: 0000-0003-0415-1423
- first_name: Vahid
full_name: Salari, Vahid
last_name: Salari
- first_name: Jack
full_name: Tuszynski, Jack
last_name: Tuszynski
- first_name: Michal
full_name: Cifra, Michal
last_name: Cifra
- first_name: Christoph
full_name: Simon, Christoph
last_name: Simon
citation:
ama: Barzanjeh S, Salari V, Tuszynski J, Cifra M, Simon C. Optomechanical proposal
for monitoring microtubule mechanical vibrations. Physical Review E Statistical
Nonlinear and Soft Matter Physics . 2017;96(1). doi:10.1103/PhysRevE.96.012404
apa: Barzanjeh, S., Salari, V., Tuszynski, J., Cifra, M., & Simon, C. (2017).
Optomechanical proposal for monitoring microtubule mechanical vibrations.
Physical Review E Statistical Nonlinear and Soft Matter Physics . American
Institute of Physics. https://doi.org/10.1103/PhysRevE.96.012404
chicago: Barzanjeh, Shabir, Vahid Salari, Jack Tuszynski, Michal Cifra, and Christoph
Simon. “Optomechanical Proposal for Monitoring Microtubule Mechanical Vibrations.”
Physical Review E Statistical Nonlinear and Soft Matter Physics . American
Institute of Physics, 2017. https://doi.org/10.1103/PhysRevE.96.012404.
ieee: S. Barzanjeh, V. Salari, J. Tuszynski, M. Cifra, and C. Simon, “Optomechanical
proposal for monitoring microtubule mechanical vibrations,” Physical Review
E Statistical Nonlinear and Soft Matter Physics , vol. 96, no. 1. American
Institute of Physics, 2017.
ista: Barzanjeh S, Salari V, Tuszynski J, Cifra M, Simon C. 2017. Optomechanical
proposal for monitoring microtubule mechanical vibrations. Physical Review E
Statistical Nonlinear and Soft Matter Physics . 96(1), 012404.
mla: Barzanjeh, Shabir, et al. “Optomechanical Proposal for Monitoring Microtubule
Mechanical Vibrations.” Physical Review E Statistical Nonlinear and Soft Matter
Physics , vol. 96, no. 1, 012404, American Institute of Physics, 2017, doi:10.1103/PhysRevE.96.012404.
short: S. Barzanjeh, V. Salari, J. Tuszynski, M. Cifra, C. Simon, Physical Review
E Statistical Nonlinear and Soft Matter Physics 96 (2017).
date_created: 2018-12-11T11:48:00Z
date_published: 2017-07-12T00:00:00Z
date_updated: 2023-02-23T12:56:35Z
day: '12'
department:
- _id: JoFi
doi: 10.1103/PhysRevE.96.012404
ec_funded: 1
intvolume: ' 96'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/pdf/1612.07061.pdf
month: '07'
oa: 1
oa_version: Submitted Version
project:
- _id: 258047B6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '707438'
name: 'Microwave-to-Optical Quantum Link: Quantum Teleportation and Quantum Illumination
with cavity Optomechanics'
publication: ' Physical Review E Statistical Nonlinear and Soft Matter Physics '
publication_identifier:
issn:
- '24700045'
publication_status: published
publisher: American Institute of Physics
publist_id: '6997'
quality_controlled: '1'
scopus_import: 1
status: public
title: Optomechanical proposal for monitoring microtubule mechanical vibrations
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 96
year: '2017'
...
---
_id: '701'
abstract:
- lang: eng
text: A d-dimensional simplex S is called a k-reptile (or a k-reptile simplex) if
it can be tiled by k simplices with disjoint interiors that are all mutually congruent
and similar to S. For d = 2, triangular k-reptiles exist for all k of the form
a^2, 3a^2 or a^2+b^2 and they have been completely characterized by Snover, Waiveris,
and Williams. On the other hand, the only k-reptile simplices that are known for
d ≥ 3, have k = m^d, where m is a positive integer. We substantially simplify
the proof by Matoušek and the second author that for d = 3, k-reptile tetrahedra
can exist only for k = m^3. We then prove a weaker analogue of this result for
d = 4 by showing that four-dimensional k-reptile simplices can exist only for
k = m^2.
author:
- first_name: Jan
full_name: Kynčl, Jan
last_name: Kynčl
- first_name: Zuzana
full_name: Patakova, Zuzana
id: 48B57058-F248-11E8-B48F-1D18A9856A87
last_name: Patakova
orcid: 0000-0002-3975-1683
citation:
ama: Kynčl J, Patakova Z. On the nonexistence of k reptile simplices in ℝ^3 and
ℝ^4. The Electronic Journal of Combinatorics. 2017;24(3):1-44.
apa: Kynčl, J., & Patakova, Z. (2017). On the nonexistence of k reptile simplices
in ℝ^3 and ℝ^4. The Electronic Journal of Combinatorics. International
Press.
chicago: Kynčl, Jan, and Zuzana Patakova. “On the Nonexistence of k Reptile Simplices
in ℝ^3 and ℝ^4.” The Electronic Journal of Combinatorics. International
Press, 2017.
ieee: J. Kynčl and Z. Patakova, “On the nonexistence of k reptile simplices in ℝ^3
and ℝ^4,” The Electronic Journal of Combinatorics, vol. 24, no. 3. International
Press, pp. 1–44, 2017.
ista: Kynčl J, Patakova Z. 2017. On the nonexistence of k reptile simplices in ℝ^3
and ℝ^4. The Electronic Journal of Combinatorics. 24(3), 1–44.
mla: Kynčl, Jan, and Zuzana Patakova. “On the Nonexistence of k Reptile Simplices
in ℝ^3 and ℝ^4.” The Electronic Journal of Combinatorics, vol. 24, no.
3, International Press, 2017, pp. 1–44.
short: J. Kynčl, Z. Patakova, The Electronic Journal of Combinatorics 24 (2017)
1–44.
date_created: 2018-12-11T11:48:00Z
date_published: 2017-07-14T00:00:00Z
date_updated: 2021-01-12T08:11:28Z
day: '14'
ddc:
- '500'
department:
- _id: UlWa
file:
- access_level: open_access
checksum: a431e573e31df13bc0f66de3061006ec
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:25Z
date_updated: 2020-07-14T12:47:47Z
file_id: '5077'
file_name: IST-2018-984-v1+1_Patakova_on_the_nonexistence_of_k-reptile_simplices_in_R_3_and_R_4_2017.pdf
file_size: 544042
relation: main_file
file_date_updated: 2020-07-14T12:47:47Z
has_accepted_license: '1'
intvolume: ' 24'
issue: '3'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Submitted Version
page: 1-44
publication: The Electronic Journal of Combinatorics
publication_identifier:
issn:
- '10778926'
publication_status: published
publisher: International Press
publist_id: '6996'
pubrep_id: '984'
quality_controlled: '1'
status: public
title: On the nonexistence of k reptile simplices in ℝ^3 and ℝ^4
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2017'
...
---
_id: '702'
abstract:
- lang: eng
text: "Leading autism-associated mutation in mouse partially mimics human disorder.\r\n\r\n"
author:
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
citation:
ama: Novarino G. The riddle of CHD8 haploinsufficiency in autism spectrum disorder.
Science Translational Medicine. 2017;9(399):eaao0972. doi:10.1126/scitranslmed.aao0972
apa: Novarino, G. (2017). The riddle of CHD8 haploinsufficiency in autism spectrum
disorder. Science Translational Medicine. American Association for the
Advancement of Science. https://doi.org/10.1126/scitranslmed.aao0972
chicago: Novarino, Gaia. “The Riddle of CHD8 Haploinsufficiency in Autism Spectrum
Disorder.” Science Translational Medicine. American Association for the
Advancement of Science, 2017. https://doi.org/10.1126/scitranslmed.aao0972.
ieee: G. Novarino, “The riddle of CHD8 haploinsufficiency in autism spectrum disorder,”
Science Translational Medicine, vol. 9, no. 399. American Association for
the Advancement of Science, p. eaao0972, 2017.
ista: Novarino G. 2017. The riddle of CHD8 haploinsufficiency in autism spectrum
disorder. Science Translational Medicine. 9(399), eaao0972.
mla: Novarino, Gaia. “The Riddle of CHD8 Haploinsufficiency in Autism Spectrum Disorder.”
Science Translational Medicine, vol. 9, no. 399, American Association for
the Advancement of Science, 2017, p. eaao0972, doi:10.1126/scitranslmed.aao0972.
short: G. Novarino, Science Translational Medicine 9 (2017) eaao0972.
date_created: 2018-12-11T11:48:01Z
date_published: 2017-07-19T00:00:00Z
date_updated: 2021-01-12T08:11:31Z
day: '19'
department:
- _id: GaNo
doi: 10.1126/scitranslmed.aao0972
intvolume: ' 9'
issue: '399'
language:
- iso: eng
month: '07'
oa_version: None
page: eaao0972
publication: Science Translational Medicine
publication_identifier:
issn:
- '19466234'
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '6993'
quality_controlled: '1'
scopus_import: 1
status: public
title: The riddle of CHD8 haploinsufficiency in autism spectrum disorder
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2017'
...
---
_id: '706'
abstract:
- lang: eng
text: A hippocampal mossy fiber synapse has a complex structure and is implicated
in learning and memory. In this synapse, the mossy fiber boutons attach to the
dendritic shaft by puncta adherentia junctions and wrap around a multiply-branched
spine, forming synaptic junctions. We have recently shown using transmission electron
microscopy, immunoelectron microscopy and serial block face-scanning electron
microscopy that atypical puncta adherentia junctions are formed in the afadin-deficient
mossy fiber synapse and that the complexity of postsynaptic spines and mossy fiber
boutons, the number of spine heads, the area of postsynaptic densities and the
density of synaptic vesicles docked to active zones are decreased in the afadin-deficient
synapse. We investigated here the roles of afadin in the functional differentiations
of the mossy fiber synapse using the afadin-deficient mice. The electrophysiological
studies showed that both the release probability of glutamate and the postsynaptic
responsiveness to glutamate were markedly reduced, but not completely lost, in
the afadin-deficient mossy fiber synapse, whereas neither long-term potentiation
nor long-term depression was affected. These results indicate that afadin plays
roles in the functional differentiations of the presynapse and the postsynapse
of the hippocampal mossy fiber synapse.
author:
- first_name: Xiaoqi
full_name: Geng, Xiaoqi
id: 3395256A-F248-11E8-B48F-1D18A9856A87
last_name: Geng
- first_name: Tomohiko
full_name: Maruo, Tomohiko
last_name: Maruo
- first_name: Kenji
full_name: Mandai, Kenji
last_name: Mandai
- first_name: Irwan
full_name: Supriyanto, Irwan
last_name: Supriyanto
- first_name: Muneaki
full_name: Miyata, Muneaki
last_name: Miyata
- first_name: Shotaro
full_name: Sakakibara, Shotaro
last_name: Sakakibara
- first_name: Akira
full_name: Mizoguchi, Akira
last_name: Mizoguchi
- first_name: Yoshimi
full_name: Takai, Yoshimi
last_name: Takai
- first_name: Masahiro
full_name: Mori, Masahiro
last_name: Mori
citation:
ama: Geng X, Maruo T, Mandai K, et al. Roles of afadin in functional differentiations
of hippocampal mossy fiber synapse. Genes to Cells. 2017;22(8):715-722.
doi:10.1111/gtc.12508
apa: Geng, X., Maruo, T., Mandai, K., Supriyanto, I., Miyata, M., Sakakibara, S.,
… Mori, M. (2017). Roles of afadin in functional differentiations of hippocampal
mossy fiber synapse. Genes to Cells. Wiley-Blackwell. https://doi.org/10.1111/gtc.12508
chicago: Geng, Xiaoqi, Tomohiko Maruo, Kenji Mandai, Irwan Supriyanto, Muneaki Miyata,
Shotaro Sakakibara, Akira Mizoguchi, Yoshimi Takai, and Masahiro Mori. “Roles
of Afadin in Functional Differentiations of Hippocampal Mossy Fiber Synapse.”
Genes to Cells. Wiley-Blackwell, 2017. https://doi.org/10.1111/gtc.12508.
ieee: X. Geng et al., “Roles of afadin in functional differentiations of
hippocampal mossy fiber synapse,” Genes to Cells, vol. 22, no. 8. Wiley-Blackwell,
pp. 715–722, 2017.
ista: Geng X, Maruo T, Mandai K, Supriyanto I, Miyata M, Sakakibara S, Mizoguchi
A, Takai Y, Mori M. 2017. Roles of afadin in functional differentiations of hippocampal
mossy fiber synapse. Genes to Cells. 22(8), 715–722.
mla: Geng, Xiaoqi, et al. “Roles of Afadin in Functional Differentiations of Hippocampal
Mossy Fiber Synapse.” Genes to Cells, vol. 22, no. 8, Wiley-Blackwell,
2017, pp. 715–22, doi:10.1111/gtc.12508.
short: X. Geng, T. Maruo, K. Mandai, I. Supriyanto, M. Miyata, S. Sakakibara, A.
Mizoguchi, Y. Takai, M. Mori, Genes to Cells 22 (2017) 715–722.
date_created: 2018-12-11T11:48:02Z
date_published: 2017-08-01T00:00:00Z
date_updated: 2021-01-12T08:11:37Z
day: '01'
department:
- _id: PeJo
doi: 10.1111/gtc.12508
intvolume: ' 22'
issue: '8'
language:
- iso: eng
month: '08'
oa_version: None
page: 715 - 722
publication: Genes to Cells
publication_identifier:
issn:
- '13569597'
publication_status: published
publisher: Wiley-Blackwell
publist_id: '6987'
quality_controlled: '1'
scopus_import: 1
status: public
title: Roles of afadin in functional differentiations of hippocampal mossy fiber synapse
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 22
year: '2017'
...
---
_id: '707'
abstract:
- lang: eng
text: We answer a question of M. Gromov on the waist of the unit ball.
author:
- first_name: Arseniy
full_name: Akopyan, Arseniy
id: 430D2C90-F248-11E8-B48F-1D18A9856A87
last_name: Akopyan
orcid: 0000-0002-2548-617X
- first_name: Roman
full_name: Karasev, Roman
last_name: Karasev
citation:
ama: Akopyan A, Karasev R. A tight estimate for the waist of the ball . Bulletin
of the London Mathematical Society. 2017;49(4):690-693. doi:10.1112/blms.12062
apa: Akopyan, A., & Karasev, R. (2017). A tight estimate for the waist of the
ball . Bulletin of the London Mathematical Society. Wiley-Blackwell. https://doi.org/10.1112/blms.12062
chicago: Akopyan, Arseniy, and Roman Karasev. “A Tight Estimate for the Waist of
the Ball .” Bulletin of the London Mathematical Society. Wiley-Blackwell,
2017. https://doi.org/10.1112/blms.12062.
ieee: A. Akopyan and R. Karasev, “A tight estimate for the waist of the ball ,”
Bulletin of the London Mathematical Society, vol. 49, no. 4. Wiley-Blackwell,
pp. 690–693, 2017.
ista: Akopyan A, Karasev R. 2017. A tight estimate for the waist of the ball . Bulletin
of the London Mathematical Society. 49(4), 690–693.
mla: Akopyan, Arseniy, and Roman Karasev. “A Tight Estimate for the Waist of the
Ball .” Bulletin of the London Mathematical Society, vol. 49, no. 4, Wiley-Blackwell,
2017, pp. 690–93, doi:10.1112/blms.12062.
short: A. Akopyan, R. Karasev, Bulletin of the London Mathematical Society 49 (2017)
690–693.
date_created: 2018-12-11T11:48:02Z
date_published: 2017-08-01T00:00:00Z
date_updated: 2021-01-12T08:11:41Z
day: '01'
department:
- _id: HeEd
doi: 10.1112/blms.12062
ec_funded: 1
intvolume: ' 49'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1608.06279
month: '08'
oa: 1
oa_version: Preprint
page: 690 - 693
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Bulletin of the London Mathematical Society
publication_identifier:
issn:
- '00246093'
publication_status: published
publisher: Wiley-Blackwell
publist_id: '6982'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'A tight estimate for the waist of the ball '
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 49
year: '2017'
...
---
_id: '708'
abstract:
- lang: eng
text: 'In the developing and adult brain, oligodendrocyte precursor cells (OPCs)
are influenced by neuronal activity: they are involved in synaptic signaling with
neurons, and their proliferation and differentiation into myelinating glia can
be altered by transient changes in neuronal firing. An important question that
has been unanswered is whether OPCs can discriminate different patterns of neuronal
activity and respond to them in a distinct way. Here, we demonstrate in brain
slices that the pattern of neuronal activity determines the functional changes
triggered at synapses between axons and OPCs. Furthermore, we show that stimulation
of the corpus callosum at different frequencies in vivo affects proliferation
and differentiation of OPCs in a dissimilar way. Our findings suggest that neurons
do not influence OPCs in “all-or-none” fashion but use their firing pattern to
tune the response and behavior of these nonneuronal cells.'
article_number: e2001993
author:
- first_name: Balint
full_name: Nagy, Balint
id: 30F830CE-02D1-11E9-9BAA-DAF4881429F2
last_name: Nagy
orcid: 0000-0002-4002-4686
- first_name: Anahit
full_name: Hovhannisyan, Anahit
last_name: Hovhannisyan
- first_name: Ruxandra
full_name: Barzan, Ruxandra
last_name: Barzan
- first_name: Ting
full_name: Chen, Ting
last_name: Chen
- first_name: Maria
full_name: Kukley, Maria
last_name: Kukley
citation:
ama: Nagy B, Hovhannisyan A, Barzan R, Chen T, Kukley M. Different patterns of neuronal
activity trigger distinct responses of oligodendrocyte precursor cells in the
corpus callosum. PLoS Biology. 2017;15(8). doi:10.1371/journal.pbio.2001993
apa: Nagy, B., Hovhannisyan, A., Barzan, R., Chen, T., & Kukley, M. (2017).
Different patterns of neuronal activity trigger distinct responses of oligodendrocyte
precursor cells in the corpus callosum. PLoS Biology. Public Library of
Science. https://doi.org/10.1371/journal.pbio.2001993
chicago: Nagy, Balint, Anahit Hovhannisyan, Ruxandra Barzan, Ting Chen, and Maria
Kukley. “Different Patterns of Neuronal Activity Trigger Distinct Responses of
Oligodendrocyte Precursor Cells in the Corpus Callosum.” PLoS Biology.
Public Library of Science, 2017. https://doi.org/10.1371/journal.pbio.2001993.
ieee: B. Nagy, A. Hovhannisyan, R. Barzan, T. Chen, and M. Kukley, “Different patterns
of neuronal activity trigger distinct responses of oligodendrocyte precursor cells
in the corpus callosum,” PLoS Biology, vol. 15, no. 8. Public Library of
Science, 2017.
ista: Nagy B, Hovhannisyan A, Barzan R, Chen T, Kukley M. 2017. Different patterns
of neuronal activity trigger distinct responses of oligodendrocyte precursor cells
in the corpus callosum. PLoS Biology. 15(8), e2001993.
mla: Nagy, Balint, et al. “Different Patterns of Neuronal Activity Trigger Distinct
Responses of Oligodendrocyte Precursor Cells in the Corpus Callosum.” PLoS
Biology, vol. 15, no. 8, e2001993, Public Library of Science, 2017, doi:10.1371/journal.pbio.2001993.
short: B. Nagy, A. Hovhannisyan, R. Barzan, T. Chen, M. Kukley, PLoS Biology 15
(2017).
date_created: 2018-12-11T11:48:03Z
date_published: 2017-08-22T00:00:00Z
date_updated: 2021-01-12T08:11:45Z
day: '22'
ddc:
- '576'
- '610'
department:
- _id: SaSi
doi: 10.1371/journal.pbio.2001993
file:
- access_level: open_access
checksum: 0c974f430682dc832ea7b27ab5a93124
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:35Z
date_updated: 2020-07-14T12:47:49Z
file_id: '5156'
file_name: IST-2017-889-v1+1_journal.pbio.2001993.pdf
file_size: 18155365
relation: main_file
file_date_updated: 2020-07-14T12:47:49Z
has_accepted_license: '1'
intvolume: ' 15'
issue: '8'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
publication: PLoS Biology
publication_identifier:
issn:
- '15449173'
publication_status: published
publisher: Public Library of Science
publist_id: '6983'
pubrep_id: '889'
quality_controlled: '1'
scopus_import: 1
status: public
title: Different patterns of neuronal activity trigger distinct responses of oligodendrocyte
precursor cells in the corpus callosum
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15
year: '2017'
...
---
_id: '709'
abstract:
- lang: eng
text: Adipose tissues play key roles in energy homeostasis. Brown adipocytes and
beige adipocytes in white adipose tissue (WAT) share the similar characters of
thermogenesis, both of them could be potential targets for obesity management.
Several thermo-sensitive transient receptor potential channels (thermoTRPs) are
shown to be involved in adipocyte biology. However, the expression pattern of
thermoTRPs in adipose tissues from obese mice is still unknown. The mRNA expression
of thermoTRPs in subcutaneous WAT (sWAT) and interscapular brown adipose tissue
(iBAT) from lean and obese mice were measured using reverse transcriptase-quantitative
PCRs (RT-qPCR). The results demonstrated that all 10 thermoTRPs are expressed
in both iBAT and sWAT, and without significant difference in the mRNA expression
level of thermoTRPs between these two tissues. Moreover, Trpv1 and Trpv3 mRNA
expression levels in both iBAT and sWAT were significantly decreased in high fat
diet (HFD)-induced obese mice and db/db (leptin receptor deficient) mice. Trpm2
mRNA expression level was significantly decreased only in sWAT from HFD-induced
obese mice and db/db mice. On the other hand, Trpv2 and Trpv4 mRNA expression
levels in iBAT and sWAT were significantly increased in HFD-induced obese mice
and db/db mice. Taken together, we conclude that all 10 thermoTRPs are expressed
in iBAT and sWAT. And several thermoTRPs differentially expressed in adipose tissues
from HFD-induced obese mice and db/db mice, suggesting a potential involvement
in anti-obesity regulations.
author:
- first_name: Wuping
full_name: Sun, Wuping
last_name: Sun
- first_name: Chen
full_name: Li, Chen
last_name: Li
- first_name: Yonghong
full_name: Zhang, Yonghong
last_name: Zhang
- first_name: Changyu
full_name: Jiang, Changyu
last_name: Jiang
- first_name: Ming-Zhu
full_name: Zhai, Ming-Zhu
id: 34009CFA-F248-11E8-B48F-1D18A9856A87
last_name: Zhai
- first_name: Qian
full_name: Zhou, Qian
last_name: Zhou
- first_name: Lizu
full_name: Xiao, Lizu
last_name: Xiao
- first_name: Qiwen
full_name: Deng, Qiwen
last_name: Deng
citation:
ama: Sun W, Li C, Zhang Y, et al. Gene expression changes of thermo sensitive transient
receptor potential channels in obese mice. Cell Biology International.
2017;41(8):908-913. doi:10.1002/cbin.10783
apa: Sun, W., Li, C., Zhang, Y., Jiang, C., Zhai, M.-Z., Zhou, Q., … Deng, Q. (2017).
Gene expression changes of thermo sensitive transient receptor potential channels
in obese mice. Cell Biology International. Wiley-Blackwell. https://doi.org/10.1002/cbin.10783
chicago: Sun, Wuping, Chen Li, Yonghong Zhang, Changyu Jiang, Ming-Zhu Zhai, Qian
Zhou, Lizu Xiao, and Qiwen Deng. “Gene Expression Changes of Thermo Sensitive
Transient Receptor Potential Channels in Obese Mice.” Cell Biology International.
Wiley-Blackwell, 2017. https://doi.org/10.1002/cbin.10783.
ieee: W. Sun et al., “Gene expression changes of thermo sensitive transient
receptor potential channels in obese mice,” Cell Biology International,
vol. 41, no. 8. Wiley-Blackwell, pp. 908–913, 2017.
ista: Sun W, Li C, Zhang Y, Jiang C, Zhai M-Z, Zhou Q, Xiao L, Deng Q. 2017. Gene
expression changes of thermo sensitive transient receptor potential channels in
obese mice. Cell Biology International. 41(8), 908–913.
mla: Sun, Wuping, et al. “Gene Expression Changes of Thermo Sensitive Transient
Receptor Potential Channels in Obese Mice.” Cell Biology International,
vol. 41, no. 8, Wiley-Blackwell, 2017, pp. 908–13, doi:10.1002/cbin.10783.
short: W. Sun, C. Li, Y. Zhang, C. Jiang, M.-Z. Zhai, Q. Zhou, L. Xiao, Q. Deng,
Cell Biology International 41 (2017) 908–913.
date_created: 2018-12-11T11:48:04Z
date_published: 2017-08-01T00:00:00Z
date_updated: 2021-01-12T08:11:47Z
day: '01'
department:
- _id: RySh
doi: 10.1002/cbin.10783
intvolume: ' 41'
issue: '8'
language:
- iso: eng
month: '08'
oa_version: None
page: 908 - 913
publication: Cell Biology International
publication_identifier:
issn:
- '10656995'
publication_status: published
publisher: Wiley-Blackwell
publist_id: '6981'
quality_controlled: '1'
scopus_import: 1
status: public
title: Gene expression changes of thermo sensitive transient receptor potential channels
in obese mice
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 41
year: '2017'
...
---
_id: '710'
abstract:
- lang: eng
text: 'We revisit the problem of estimating entropy of discrete distributions from
independent samples, studied recently by Acharya, Orlitsky, Suresh and Tyagi (SODA
2015), improving their upper and lower bounds on the necessary sample size n.
For estimating Renyi entropy of order alpha, up to constant accuracy and error
probability, we show the following * Upper bounds n = O(1) 2^{(1-1/alpha)H_alpha}
for integer alpha>1, as the worst case over distributions with Renyi entropy
equal to H_alpha. * Lower bounds n = Omega(1) K^{1-1/alpha} for any real alpha>1,
with the constant being an inverse polynomial of the accuracy, as the worst case
over all distributions on K elements. Our upper bounds essentially replace the
alphabet size by a factor exponential in the entropy, which offers improvements
especially in low or medium entropy regimes (interesting for example in anomaly
detection). As for the lower bounds, our proof explicitly shows how the complexity
depends on both alphabet and accuracy, partially solving the open problem posted
in previous works. The argument for upper bounds derives a clean identity for
the variance of falling-power sum of a multinomial distribution. Our approach
for lower bounds utilizes convex optimization to find a distribution with possibly
worse estimation performance, and may be of independent interest as a tool to
work with Le Cam’s two point method. '
alternative_title:
- LIPIcs
article_number: '20'
author:
- first_name: Maciej
full_name: Obremski, Maciej
last_name: Obremski
- first_name: Maciej
full_name: Skórski, Maciej
id: EC09FA6A-02D0-11E9-8223-86B7C91467DD
last_name: Skórski
citation:
ama: 'Obremski M, Skórski M. Renyi entropy estimation revisited. In: Vol 81. Schloss
Dagstuhl - Leibniz-Zentrum für Informatik; 2017. doi:10.4230/LIPIcs.APPROX-RANDOM.2017.20'
apa: 'Obremski, M., & Skórski, M. (2017). Renyi entropy estimation revisited
(Vol. 81). Presented at the 20th International Workshop on Approximation Algorithms
for Combinatorial Optimization Problems, APPROX, Berkeley, USA: Schloss Dagstuhl
- Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.APPROX-RANDOM.2017.20'
chicago: Obremski, Maciej, and Maciej Skórski. “Renyi Entropy Estimation Revisited,”
Vol. 81. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2017. https://doi.org/10.4230/LIPIcs.APPROX-RANDOM.2017.20.
ieee: M. Obremski and M. Skórski, “Renyi entropy estimation revisited,” presented
at the 20th International Workshop on Approximation Algorithms for Combinatorial
Optimization Problems, APPROX, Berkeley, USA, 2017, vol. 81.
ista: Obremski M, Skórski M. 2017. Renyi entropy estimation revisited. 20th International
Workshop on Approximation Algorithms for Combinatorial Optimization Problems,
APPROX, LIPIcs, vol. 81, 20.
mla: Obremski, Maciej, and Maciej Skórski. Renyi Entropy Estimation Revisited.
Vol. 81, 20, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2017, doi:10.4230/LIPIcs.APPROX-RANDOM.2017.20.
short: M. Obremski, M. Skórski, in:, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2017.
conference:
end_date: 2017-08-18
location: Berkeley, USA
name: 20th International Workshop on Approximation Algorithms for Combinatorial
Optimization Problems, APPROX
start_date: 2017-08-18
date_created: 2018-12-11T11:48:04Z
date_published: 2017-08-01T00:00:00Z
date_updated: 2021-01-12T08:11:50Z
day: '01'
ddc:
- '005'
- '600'
department:
- _id: KrPi
doi: 10.4230/LIPIcs.APPROX-RANDOM.2017.20
ec_funded: 1
file:
- access_level: open_access
checksum: 89225c7dcec2c93838458c9102858985
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:10Z
date_updated: 2020-07-14T12:47:49Z
file_id: '4991'
file_name: IST-2017-888-v1+1_LIPIcs-APPROX-RANDOM-2017-20.pdf
file_size: 604813
relation: main_file
file_date_updated: 2020-07-14T12:47:49Z
has_accepted_license: '1'
intvolume: ' 81'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 258AA5B2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '682815'
name: Teaching Old Crypto New Tricks
publication_identifier:
issn:
- '18688969'
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '6979'
pubrep_id: '888'
quality_controlled: '1'
scopus_import: 1
status: public
title: Renyi entropy estimation revisited
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: 81
year: '2017'
...
---
_id: '713'
abstract:
- lang: eng
text: To determine the dynamics of allelic-specific expression during mouse development,
we analyzed RNA-seq data from 23 F1 tissues from different developmental stages,
including 19 female tissues allowing X chromosome inactivation (XCI) escapers
to also be detected. We demonstrate that allelic expression arising from genetic
or epigenetic differences is highly tissue-specific. We find that tissue-specific
strain-biased gene expression may be regulated by tissue-specific enhancers or
by post-transcriptional differences in stability between the alleles. We also
find that escape from X-inactivation is tissue-specific, with leg muscle showing
an unexpectedly high rate of XCI escapers. By surveying a range of tissues during
development, and performing extensive validation, we are able to provide a high
confidence list of mouse imprinted genes including 18 novel genes. This shows
that cluster size varies dynamically during development and can be substantially
larger than previously thought, with the Igf2r cluster extending over 10 Mb in
placenta.
article_number: e25125
author:
- first_name: Daniel
full_name: Andergassen, Daniel
last_name: Andergassen
- first_name: Christoph
full_name: Dotter, Christoph
id: 4C66542E-F248-11E8-B48F-1D18A9856A87
last_name: Dotter
- first_name: Dyniel
full_name: Wenzel, Dyniel
last_name: Wenzel
- first_name: Verena
full_name: Sigl, Verena
last_name: Sigl
- first_name: Philipp
full_name: Bammer, Philipp
last_name: Bammer
- first_name: Markus
full_name: Muckenhuber, Markus
last_name: Muckenhuber
- first_name: Daniela
full_name: Mayer, Daniela
last_name: Mayer
- first_name: Tomasz
full_name: Kulinski, Tomasz
last_name: Kulinski
- first_name: Hans
full_name: Theussl, Hans
last_name: Theussl
- first_name: Josef
full_name: Penninger, Josef
last_name: Penninger
- first_name: Christoph
full_name: Bock, Christoph
last_name: Bock
- first_name: Denise
full_name: Barlow, Denise
last_name: Barlow
- first_name: Florian
full_name: Pauler, Florian
id: 48EA0138-F248-11E8-B48F-1D18A9856A87
last_name: Pauler
- first_name: Quanah
full_name: Hudson, Quanah
last_name: Hudson
citation:
ama: Andergassen D, Dotter C, Wenzel D, et al. Mapping the mouse Allelome reveals
tissue specific regulation of allelic expression. eLife. 2017;6. doi:10.7554/eLife.25125
apa: Andergassen, D., Dotter, C., Wenzel, D., Sigl, V., Bammer, P., Muckenhuber,
M., … Hudson, Q. (2017). Mapping the mouse Allelome reveals tissue specific regulation
of allelic expression. ELife. eLife Sciences Publications. https://doi.org/10.7554/eLife.25125
chicago: Andergassen, Daniel, Christoph Dotter, Dyniel Wenzel, Verena Sigl, Philipp
Bammer, Markus Muckenhuber, Daniela Mayer, et al. “Mapping the Mouse Allelome
Reveals Tissue Specific Regulation of Allelic Expression.” ELife. eLife
Sciences Publications, 2017. https://doi.org/10.7554/eLife.25125.
ieee: D. Andergassen et al., “Mapping the mouse Allelome reveals tissue specific
regulation of allelic expression,” eLife, vol. 6. eLife Sciences Publications,
2017.
ista: Andergassen D, Dotter C, Wenzel D, Sigl V, Bammer P, Muckenhuber M, Mayer
D, Kulinski T, Theussl H, Penninger J, Bock C, Barlow D, Pauler F, Hudson Q. 2017.
Mapping the mouse Allelome reveals tissue specific regulation of allelic expression.
eLife. 6, e25125.
mla: Andergassen, Daniel, et al. “Mapping the Mouse Allelome Reveals Tissue Specific
Regulation of Allelic Expression.” ELife, vol. 6, e25125, eLife Sciences
Publications, 2017, doi:10.7554/eLife.25125.
short: D. Andergassen, C. Dotter, D. Wenzel, V. Sigl, P. Bammer, M. Muckenhuber,
D. Mayer, T. Kulinski, H. Theussl, J. Penninger, C. Bock, D. Barlow, F. Pauler,
Q. Hudson, ELife 6 (2017).
date_created: 2018-12-11T11:48:05Z
date_published: 2017-08-14T00:00:00Z
date_updated: 2021-01-12T08:11:57Z
day: '14'
ddc:
- '576'
department:
- _id: GaNo
- _id: SiHi
doi: 10.7554/eLife.25125
file:
- access_level: open_access
checksum: 1ace3462e64a971b9ead896091829549
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:36Z
date_updated: 2020-07-14T12:47:50Z
file_id: '5020'
file_name: IST-2017-885-v1+1_elife-25125-figures-v2.pdf
file_size: 6399510
relation: main_file
- access_level: open_access
checksum: 6241dc31eeb87b03facadec3a53a6827
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:36Z
date_updated: 2020-07-14T12:47:50Z
file_id: '5021'
file_name: IST-2017-885-v1+2_elife-25125-v2.pdf
file_size: 4264398
relation: main_file
file_date_updated: 2020-07-14T12:47:50Z
has_accepted_license: '1'
intvolume: ' 6'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 25E9AF9E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27201-B22
name: Revealing the mechanisms underlying drug interactions
publication: eLife
publication_identifier:
issn:
- 2050084X
publication_status: published
publisher: eLife Sciences Publications
publist_id: '6971'
pubrep_id: '885'
quality_controlled: '1'
scopus_import: 1
status: public
title: Mapping the mouse Allelome reveals tissue specific regulation of allelic expression
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2017'
...
---
_id: '711'
abstract:
- lang: eng
text: Nested weighted automata (NWA) present a robust and convenient automata-theoretic
formalism for quantitative specifications. Previous works have considered NWA
that processed input words only in the forward direction. It is natural to allow
the automata to process input words backwards as well, for example, to measure
the maximal or average time between a response and the preceding request. We therefore
introduce and study bidirectional NWA that can process input words in both directions.
First, we show that bidirectional NWA can express interesting quantitative properties
that are not expressible by forward-only NWA. Second, for the fundamental decision
problems of emptiness and universality, we establish decidability and complexity
results for the new framework which match the best-known results for the special
case of forward-only NWA. Thus, for NWA, the increased expressiveness of bidirectionality
is achieved at no additional computational complexity. This is in stark contrast
to the unweighted case, where bidirectional finite automata are no more expressive
but exponentially more succinct than their forward-only counterparts.
alternative_title:
- LIPIcs
article_number: '5'
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
last_name: Otop
citation:
ama: 'Chatterjee K, Henzinger TA, Otop J. Bidirectional nested weighted automata.
In: Vol 85. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2017. doi:10.4230/LIPIcs.CONCUR.2017.5'
apa: 'Chatterjee, K., Henzinger, T. A., & Otop, J. (2017). Bidirectional nested
weighted automata (Vol. 85). Presented at the 28th International Conference on
Concurrency Theory, CONCUR, Berlin, Germany: Schloss Dagstuhl - Leibniz-Zentrum
für Informatik. https://doi.org/10.4230/LIPIcs.CONCUR.2017.5'
chicago: Chatterjee, Krishnendu, Thomas A Henzinger, and Jan Otop. “Bidirectional
Nested Weighted Automata,” Vol. 85. Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2017. https://doi.org/10.4230/LIPIcs.CONCUR.2017.5.
ieee: K. Chatterjee, T. A. Henzinger, and J. Otop, “Bidirectional nested weighted
automata,” presented at the 28th International Conference on Concurrency Theory,
CONCUR, Berlin, Germany, 2017, vol. 85.
ista: Chatterjee K, Henzinger TA, Otop J. 2017. Bidirectional nested weighted automata.
28th International Conference on Concurrency Theory, CONCUR, LIPIcs, vol. 85,
5.
mla: Chatterjee, Krishnendu, et al. Bidirectional Nested Weighted Automata.
Vol. 85, 5, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2017, doi:10.4230/LIPIcs.CONCUR.2017.5.
short: K. Chatterjee, T.A. Henzinger, J. Otop, in:, Schloss Dagstuhl - Leibniz-Zentrum
für Informatik, 2017.
conference:
end_date: 2017-09-08
location: Berlin, Germany
name: 28th International Conference on Concurrency Theory, CONCUR
start_date: 2017-09-05
date_created: 2018-12-11T11:48:04Z
date_published: 2017-08-01T00:00:00Z
date_updated: 2021-01-12T08:11:53Z
day: '01'
ddc:
- '004'
- '005'
department:
- _id: KrCh
- _id: ToHe
doi: 10.4230/LIPIcs.CONCUR.2017.5
file:
- access_level: open_access
checksum: d2bda4783821a6358333fe27f11f4737
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:02Z
date_updated: 2020-07-14T12:47:49Z
file_id: '4661'
file_name: IST-2017-886-v1+1_LIPIcs-CONCUR-2017-5.pdf
file_size: 570294
relation: main_file
file_date_updated: 2020-07-14T12:47:49Z
has_accepted_license: '1'
intvolume: ' 85'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
publication_identifier:
issn:
- '18688969'
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '6976'
pubrep_id: '886'
quality_controlled: '1'
scopus_import: 1
status: public
title: Bidirectional nested weighted automata
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: 85
year: '2017'
...
---
_id: '712'
abstract:
- lang: eng
text: 'We establish a weak–strong uniqueness principle for solutions to entropy-dissipating
reaction–diffusion equations: As long as a strong solution to the reaction–diffusion
equation exists, any weak solution and even any renormalized solution must coincide
with this strong solution. Our assumptions on the reaction rates are just the
entropy condition and local Lipschitz continuity; in particular, we do not impose
any growth restrictions on the reaction rates. Therefore, our result applies to
any single reversible reaction with mass-action kinetics as well as to systems
of reversible reactions with mass-action kinetics satisfying the detailed balance
condition. Renormalized solutions are known to exist globally in time for reaction–diffusion
equations with entropy-dissipating reaction rates; in contrast, the global-in-time
existence of weak solutions is in general still an open problem–even for smooth
data–, thereby motivating the study of renormalized solutions. The key ingredient
of our result is a careful adjustment of the usual relative entropy functional,
whose evolution cannot be controlled properly for weak solutions or renormalized
solutions.'
author:
- first_name: Julian L
full_name: Fischer, Julian L
id: 2C12A0B0-F248-11E8-B48F-1D18A9856A87
last_name: Fischer
orcid: 0000-0002-0479-558X
citation:
ama: 'Fischer JL. Weak–strong uniqueness of solutions to entropy dissipating reaction–diffusion
equations. Nonlinear Analysis: Theory, Methods and Applications. 2017;159:181-207.
doi:10.1016/j.na.2017.03.001'
apa: 'Fischer, J. L. (2017). Weak–strong uniqueness of solutions to entropy dissipating
reaction–diffusion equations. Nonlinear Analysis: Theory, Methods and Applications.
Elsevier. https://doi.org/10.1016/j.na.2017.03.001'
chicago: 'Fischer, Julian L. “Weak–Strong Uniqueness of Solutions to Entropy Dissipating
Reaction–Diffusion Equations.” Nonlinear Analysis: Theory, Methods and Applications.
Elsevier, 2017. https://doi.org/10.1016/j.na.2017.03.001.'
ieee: 'J. L. Fischer, “Weak–strong uniqueness of solutions to entropy dissipating
reaction–diffusion equations,” Nonlinear Analysis: Theory, Methods and Applications,
vol. 159. Elsevier, pp. 181–207, 2017.'
ista: 'Fischer JL. 2017. Weak–strong uniqueness of solutions to entropy dissipating
reaction–diffusion equations. Nonlinear Analysis: Theory, Methods and Applications.
159, 181–207.'
mla: 'Fischer, Julian L. “Weak–Strong Uniqueness of Solutions to Entropy Dissipating
Reaction–Diffusion Equations.” Nonlinear Analysis: Theory, Methods and Applications,
vol. 159, Elsevier, 2017, pp. 181–207, doi:10.1016/j.na.2017.03.001.'
short: 'J.L. Fischer, Nonlinear Analysis: Theory, Methods and Applications 159 (2017)
181–207.'
date_created: 2018-12-11T11:48:05Z
date_published: 2017-08-01T00:00:00Z
date_updated: 2021-01-12T08:11:55Z
day: '01'
department:
- _id: JuFi
doi: 10.1016/j.na.2017.03.001
intvolume: ' 159'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1703.00730
month: '08'
oa: 1
oa_version: Submitted Version
page: 181 - 207
publication: 'Nonlinear Analysis: Theory, Methods and Applications'
publication_identifier:
issn:
- 0362546X
publication_status: published
publisher: Elsevier
publist_id: '6975'
quality_controlled: '1'
scopus_import: 1
status: public
title: Weak–strong uniqueness of solutions to entropy dissipating reaction–diffusion
equations
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 159
year: '2017'
...
---
_id: '714'
abstract:
- lang: eng
text: Background HIV-1 infection and drug abuse are frequently co-morbid and their
association greatly increases the severity of HIV-1-induced neuropathology. While
nucleus accumbens (NAcc) function is severely perturbed by drugs of abuse, little
is known about how HIV-1 infection affects NAcc. Methods We used calcium and voltage
imaging to investigate the effect of HIV-1 trans-activator of transcription (Tat)
on rat NAcc. Based on previous neuronal studies, we hypothesized that Tat modulates
intracellular Ca2+ homeostasis of NAcc neurons. Results We provide evidence that
Tat triggers a Ca2+ signaling cascade in NAcc medium spiny neurons (MSN) expressing
D1-like dopamine receptors leading to neuronal depolarization. Firstly, Tat induced
inositol 1,4,5-trisphsophate (IP3) receptor-mediated Ca2+ release from endoplasmic
reticulum, followed by Ca2+ and Na+ influx via transient receptor potential canonical
channels. The influx of cations depolarizes the membrane promoting additional
Ca2+ entry through voltage-gated P/Q-type Ca2+ channels and opening of tetrodotoxin-sensitive
Na+ channels. By activating this mechanism, Tat elicits a feed-forward depolarization
increasing the excitability of D1-phosphatidylinositol-linked NAcc MSN. We previously
found that cocaine targets NAcc neurons directly (independent of the inhibition
of dopamine transporter) only when IP3-generating mechanisms are concomitantly
initiated. When tested here, cocaine produced a dose-dependent potentiation of
the effect of Tat on cytosolic Ca2+. Conclusion We describe for the first time
a HIV-1 Tat-triggered Ca2+ signaling in MSN of NAcc involving TRPC and depolarization
and a potentiation of the effect of Tat by cocaine, which may be relevant for
the reward axis in cocaine-abusing HIV-1-positive patients.
acknowledgement: This work was supported by the National Institutes of Health grants
DA035926 (to MEA), and P30DA013429 (to EMU).
article_processing_charge: No
article_type: original
author:
- first_name: Gabriela
full_name: Brailoiu, Gabriela
last_name: Brailoiu
- first_name: Elena
full_name: Deliu, Elena
id: 37A40D7E-F248-11E8-B48F-1D18A9856A87
last_name: Deliu
orcid: 0000-0002-7370-5293
- first_name: Jeffrey
full_name: Barr, Jeffrey
last_name: Barr
- first_name: Linda
full_name: Console Bram, Linda
last_name: Console Bram
- first_name: Alexandra
full_name: Ciuciu, Alexandra
last_name: Ciuciu
- first_name: Mary
full_name: Abood, Mary
last_name: Abood
- first_name: Ellen
full_name: Unterwald, Ellen
last_name: Unterwald
- first_name: Eugen
full_name: Brǎiloiu, Eugen
last_name: Brǎiloiu
citation:
ama: Brailoiu G, Deliu E, Barr J, et al. HIV Tat excites D1 receptor-like expressing
neurons from rat nucleus accumbens. Drug and Alcohol Dependence. 2017;178:7-14.
doi:10.1016/j.drugalcdep.2017.04.015
apa: Brailoiu, G., Deliu, E., Barr, J., Console Bram, L., Ciuciu, A., Abood, M.,
… Brǎiloiu, E. (2017). HIV Tat excites D1 receptor-like expressing neurons from
rat nucleus accumbens. Drug and Alcohol Dependence. Elsevier. https://doi.org/10.1016/j.drugalcdep.2017.04.015
chicago: Brailoiu, Gabriela, Elena Deliu, Jeffrey Barr, Linda Console Bram, Alexandra
Ciuciu, Mary Abood, Ellen Unterwald, and Eugen Brǎiloiu. “HIV Tat Excites D1 Receptor-like
Expressing Neurons from Rat Nucleus Accumbens.” Drug and Alcohol Dependence.
Elsevier, 2017. https://doi.org/10.1016/j.drugalcdep.2017.04.015.
ieee: G. Brailoiu et al., “HIV Tat excites D1 receptor-like expressing neurons
from rat nucleus accumbens,” Drug and Alcohol Dependence, vol. 178. Elsevier,
pp. 7–14, 2017.
ista: Brailoiu G, Deliu E, Barr J, Console Bram L, Ciuciu A, Abood M, Unterwald
E, Brǎiloiu E. 2017. HIV Tat excites D1 receptor-like expressing neurons from
rat nucleus accumbens. Drug and Alcohol Dependence. 178, 7–14.
mla: Brailoiu, Gabriela, et al. “HIV Tat Excites D1 Receptor-like Expressing Neurons
from Rat Nucleus Accumbens.” Drug and Alcohol Dependence, vol. 178, Elsevier,
2017, pp. 7–14, doi:10.1016/j.drugalcdep.2017.04.015.
short: G. Brailoiu, E. Deliu, J. Barr, L. Console Bram, A. Ciuciu, M. Abood, E.
Unterwald, E. Brǎiloiu, Drug and Alcohol Dependence 178 (2017) 7–14.
date_created: 2018-12-11T11:48:05Z
date_published: 2017-09-01T00:00:00Z
date_updated: 2021-01-12T08:12:00Z
day: '01'
department:
- _id: GaNo
doi: 10.1016/j.drugalcdep.2017.04.015
external_id:
pmid:
- '28623807'
intvolume: ' 178'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5797705
month: '09'
oa: 1
oa_version: Submitted Version
page: 7 - 14
pmid: 1
publication: Drug and Alcohol Dependence
publication_identifier:
issn:
- '03768716'
publication_status: published
publisher: Elsevier
publist_id: '6967'
quality_controlled: '1'
scopus_import: 1
status: public
title: HIV Tat excites D1 receptor-like expressing neurons from rat nucleus accumbens
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 178
year: '2017'
...
---
_id: '715'
abstract:
- lang: eng
text: D-cycloserine ameliorates breathing abnormalities and survival rate in a mouse
model of Rett syndrome.
article_number: aao4218
author:
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
citation:
ama: Novarino G. More excitation for Rett syndrome. Science Translational Medicine.
2017;9(405). doi:10.1126/scitranslmed.aao4218
apa: Novarino, G. (2017). More excitation for Rett syndrome. Science Translational
Medicine. American Association for the Advancement of Science. https://doi.org/10.1126/scitranslmed.aao4218
chicago: Novarino, Gaia. “More Excitation for Rett Syndrome.” Science Translational
Medicine. American Association for the Advancement of Science, 2017. https://doi.org/10.1126/scitranslmed.aao4218.
ieee: G. Novarino, “More excitation for Rett syndrome,” Science Translational
Medicine, vol. 9, no. 405. American Association for the Advancement of Science,
2017.
ista: Novarino G. 2017. More excitation for Rett syndrome. Science Translational
Medicine. 9(405), aao4218.
mla: Novarino, Gaia. “More Excitation for Rett Syndrome.” Science Translational
Medicine, vol. 9, no. 405, aao4218, American Association for the Advancement
of Science, 2017, doi:10.1126/scitranslmed.aao4218.
short: G. Novarino, Science Translational Medicine 9 (2017).
date_created: 2018-12-11T11:48:06Z
date_published: 2017-08-30T00:00:00Z
date_updated: 2021-01-12T08:12:04Z
day: '30'
department:
- _id: GaNo
doi: 10.1126/scitranslmed.aao4218
intvolume: ' 9'
issue: '405'
language:
- iso: eng
month: '08'
oa_version: None
publication: Science Translational Medicine
publication_identifier:
issn:
- '19466234'
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '6968'
quality_controlled: '1'
scopus_import: 1
status: public
title: More excitation for Rett syndrome
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2017'
...
---
_id: '716'
abstract:
- lang: eng
text: 'Two-player games on graphs are central in many problems in formal verification
and program analysis, such as synthesis and verification of open systems. In this
work, we consider solving recursive game graphs (or pushdown game graphs) that
model the control flow of sequential programs with recursion.While pushdown games
have been studied before with qualitative objectives-such as reachability and
?-regular objectives- in this work, we study for the first time such games with
the most well-studied quantitative objective, the mean-payoff objective. In pushdown
games, two types of strategies are relevant: (1) global strategies, which depend
on the entire global history; and (2) modular strategies, which have only local
memory and thus do not depend on the context of invocation but rather only on
the history of the current invocation of the module. Our main results are as follows:
(1) One-player pushdown games with mean-payoff objectives under global strategies
are decidable in polynomial time. (2) Two-player pushdown games with mean-payoff
objectives under global strategies are undecidable. (3) One-player pushdown games
with mean-payoff objectives under modular strategies are NP-hard. (4) Two-player
pushdown games with mean-payoff objectives under modular strategies can be solved
in NP (i.e., both one-player and two-player pushdown games with mean-payoff objectives
under modular strategies are NP-complete). We also establish the optimal strategy
complexity by showing that global strategies for mean-payoff objectives require
infinite memory even in one-player pushdown games and memoryless modular strategies
are sufficient in two-player pushdown games. Finally, we also show that all the
problems have the same complexity if the stack boundedness condition is added,
where along with the mean-payoff objective the player must also ensure that the
stack height is bounded.'
article_type: original
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Yaron
full_name: Velner, Yaron
last_name: Velner
citation:
ama: Chatterjee K, Velner Y. The complexity of mean-payoff pushdown games. Journal
of the ACM. 2017;64(5):34. doi:10.1145/3121408
apa: Chatterjee, K., & Velner, Y. (2017). The complexity of mean-payoff pushdown
games. Journal of the ACM. ACM. https://doi.org/10.1145/3121408
chicago: Chatterjee, Krishnendu, and Yaron Velner. “The Complexity of Mean-Payoff
Pushdown Games.” Journal of the ACM. ACM, 2017. https://doi.org/10.1145/3121408.
ieee: K. Chatterjee and Y. Velner, “The complexity of mean-payoff pushdown games,”
Journal of the ACM, vol. 64, no. 5. ACM, p. 34, 2017.
ista: Chatterjee K, Velner Y. 2017. The complexity of mean-payoff pushdown games.
Journal of the ACM. 64(5), 34.
mla: Chatterjee, Krishnendu, and Yaron Velner. “The Complexity of Mean-Payoff Pushdown
Games.” Journal of the ACM, vol. 64, no. 5, ACM, 2017, p. 34, doi:10.1145/3121408.
short: K. Chatterjee, Y. Velner, Journal of the ACM 64 (2017) 34.
date_created: 2018-12-11T11:48:06Z
date_published: 2017-09-01T00:00:00Z
date_updated: 2021-01-12T08:12:08Z
day: '01'
department:
- _id: KrCh
doi: 10.1145/3121408
ec_funded: 1
external_id:
arxiv:
- '1201.2829'
intvolume: ' 64'
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1201.2829
month: '09'
oa: 1
oa_version: Preprint
page: '34'
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
publication: Journal of the ACM
publication_identifier:
issn:
- '00045411'
publication_status: published
publisher: ACM
publist_id: '6964'
quality_controlled: '1'
scopus_import: 1
status: public
title: The complexity of mean-payoff pushdown games
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 64
year: '2017'
...
---
_id: '717'
abstract:
- lang: eng
text: 'We consider finite-state and recursive game graphs with multidimensional
mean-payoff objectives. In recursive games two types of strategies are relevant:
global strategies and modular strategies. Our contributions are: (1) We show that
finite-state multidimensional mean-payoff games can be solved in polynomial time
if the number of dimensions and the maximal absolute value of weights are fixed;
whereas for arbitrary dimensions the problem is coNP-complete. (2) We show that
one-player recursive games with multidimensional mean-payoff objectives can be
solved in polynomial time. Both above algorithms are based on hyperplane separation
technique. (3) For recursive games we show that under modular strategies the multidimensional
problem is undecidable. We show that if the number of modules, exits, and the
maximal absolute value of the weights are fixed, then one-dimensional recursive
mean-payoff games under modular strategies can be solved in polynomial time, whereas
for unbounded number of exits or modules the problem is NP-hard.'
acknowledgement: 'The research was supported by Austrian Science Fund (FWF) Grant
No. P 23499-N23, FWF NFN Grant No. S11407-N23 (RiSE), ERC Start grant (279307: Graph
Games), Microsoft faculty fellows award, the RICH Model Toolkit (ICT COST Action
IC0901), and was carried out in partial fulfillment of the requirements for the
Ph.D. degree of the second author.'
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Yaron
full_name: Velner, Yaron
last_name: Velner
citation:
ama: Chatterjee K, Velner Y. Hyperplane separation technique for multidimensional
mean-payoff games. Journal of Computer and System Sciences. 2017;88:236-259.
doi:10.1016/j.jcss.2017.04.005
apa: Chatterjee, K., & Velner, Y. (2017). Hyperplane separation technique for
multidimensional mean-payoff games. Journal of Computer and System Sciences.
Academic Press. https://doi.org/10.1016/j.jcss.2017.04.005
chicago: Chatterjee, Krishnendu, and Yaron Velner. “Hyperplane Separation Technique
for Multidimensional Mean-Payoff Games.” Journal of Computer and System Sciences.
Academic Press, 2017. https://doi.org/10.1016/j.jcss.2017.04.005.
ieee: K. Chatterjee and Y. Velner, “Hyperplane separation technique for multidimensional
mean-payoff games,” Journal of Computer and System Sciences, vol. 88. Academic
Press, pp. 236–259, 2017.
ista: Chatterjee K, Velner Y. 2017. Hyperplane separation technique for multidimensional
mean-payoff games. Journal of Computer and System Sciences. 88, 236–259.
mla: Chatterjee, Krishnendu, and Yaron Velner. “Hyperplane Separation Technique
for Multidimensional Mean-Payoff Games.” Journal of Computer and System Sciences,
vol. 88, Academic Press, 2017, pp. 236–59, doi:10.1016/j.jcss.2017.04.005.
short: K. Chatterjee, Y. Velner, Journal of Computer and System Sciences 88 (2017)
236–259.
date_created: 2018-12-11T11:48:07Z
date_published: 2017-09-01T00:00:00Z
date_updated: 2023-02-23T10:38:15Z
day: '01'
department:
- _id: KrCh
doi: 10.1016/j.jcss.2017.04.005
ec_funded: 1
intvolume: ' 88'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1210.3141
month: '09'
oa: 1
oa_version: Preprint
page: 236 - 259
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 2587B514-B435-11E9-9278-68D0E5697425
name: Microsoft Research Faculty Fellowship
publication: Journal of Computer and System Sciences
publication_status: published
publisher: Academic Press
publist_id: '6963'
quality_controlled: '1'
related_material:
record:
- id: '2329'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: Hyperplane separation technique for multidimensional mean-payoff games
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 88
year: '2017'
...
---
_id: '719'
abstract:
- lang: eng
text: 'The ubiquity of computation in modern machines and devices imposes a need
to assert the correctness of their behavior. Especially in the case of safety-critical
systems, their designers need to take measures that enforce their safe operation.
Formal methods has emerged as a research field that addresses this challenge:
by rigorously proving that all system executions adhere to their specifications,
the correctness of an implementation under concern can be assured. To achieve
this goal, a plethora of techniques are nowadays available, all of which are optimized
for different system types and application domains.'
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Rüdiger
full_name: Ehlers, Rüdiger
last_name: Ehlers
citation:
ama: 'Chatterjee K, Ehlers R. Special issue: Synthesis and SYNT 2014. Acta Informatica.
2017;54(6):543-544. doi:10.1007/s00236-017-0299-0'
apa: 'Chatterjee, K., & Ehlers, R. (2017). Special issue: Synthesis and SYNT
2014. Acta Informatica. Springer. https://doi.org/10.1007/s00236-017-0299-0'
chicago: 'Chatterjee, Krishnendu, and Rüdiger Ehlers. “Special Issue: Synthesis
and SYNT 2014.” Acta Informatica. Springer, 2017. https://doi.org/10.1007/s00236-017-0299-0.'
ieee: 'K. Chatterjee and R. Ehlers, “Special issue: Synthesis and SYNT 2014,” Acta
Informatica, vol. 54, no. 6. Springer, pp. 543–544, 2017.'
ista: 'Chatterjee K, Ehlers R. 2017. Special issue: Synthesis and SYNT 2014. Acta
Informatica. 54(6), 543–544.'
mla: 'Chatterjee, Krishnendu, and Rüdiger Ehlers. “Special Issue: Synthesis and
SYNT 2014.” Acta Informatica, vol. 54, no. 6, Springer, 2017, pp. 543–44,
doi:10.1007/s00236-017-0299-0.'
short: K. Chatterjee, R. Ehlers, Acta Informatica 54 (2017) 543–544.
date_created: 2018-12-11T11:48:07Z
date_published: 2017-09-01T00:00:00Z
date_updated: 2021-01-12T08:12:18Z
day: '01'
department:
- _id: KrCh
doi: 10.1007/s00236-017-0299-0
intvolume: ' 54'
issue: '6'
language:
- iso: eng
month: '09'
oa_version: None
page: 543 - 544
publication: Acta Informatica
publication_identifier:
issn:
- '00015903'
publication_status: published
publisher: Springer
publist_id: '6961'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Special issue: Synthesis and SYNT 2014'
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 54
year: '2017'
...
---
_id: '720'
abstract:
- lang: eng
text: 'Advances in multi-unit recordings pave the way for statistical modeling of
activity patterns in large neural populations. Recent studies have shown that
the summed activity of all neurons strongly shapes the population response. A
separate recent finding has been that neural populations also exhibit criticality,
an anomalously large dynamic range for the probabilities of different population
activity patterns. Motivated by these two observations, we introduce a class of
probabilistic models which takes into account the prior knowledge that the neural
population could be globally coupled and close to critical. These models consist
of an energy function which parametrizes interactions between small groups of
neurons, and an arbitrary positive, strictly increasing, and twice differentiable
function which maps the energy of a population pattern to its probability. We
show that: 1) augmenting a pairwise Ising model with a nonlinearity yields an
accurate description of the activity of retinal ganglion cells which outperforms
previous models based on the summed activity of neurons; 2) prior knowledge that
the population is critical translates to prior expectations about the shape of
the nonlinearity; 3) the nonlinearity admits an interpretation in terms of a continuous
latent variable globally coupling the system whose distribution we can infer from
data. Our method is independent of the underlying system’s state space; hence,
it can be applied to other systems such as natural scenes or amino acid sequences
of proteins which are also known to exhibit criticality.'
article_number: e1005763
article_processing_charge: Yes
author:
- first_name: Jan
full_name: Humplik, Jan
id: 2E9627A8-F248-11E8-B48F-1D18A9856A87
last_name: Humplik
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
citation:
ama: Humplik J, Tkačik G. Probabilistic models for neural populations that naturally
capture global coupling and criticality. PLoS Computational Biology. 2017;13(9).
doi:10.1371/journal.pcbi.1005763
apa: Humplik, J., & Tkačik, G. (2017). Probabilistic models for neural populations
that naturally capture global coupling and criticality. PLoS Computational
Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1005763
chicago: Humplik, Jan, and Gašper Tkačik. “Probabilistic Models for Neural Populations
That Naturally Capture Global Coupling and Criticality.” PLoS Computational
Biology. Public Library of Science, 2017. https://doi.org/10.1371/journal.pcbi.1005763.
ieee: J. Humplik and G. Tkačik, “Probabilistic models for neural populations that
naturally capture global coupling and criticality,” PLoS Computational Biology,
vol. 13, no. 9. Public Library of Science, 2017.
ista: Humplik J, Tkačik G. 2017. Probabilistic models for neural populations that
naturally capture global coupling and criticality. PLoS Computational Biology.
13(9), e1005763.
mla: Humplik, Jan, and Gašper Tkačik. “Probabilistic Models for Neural Populations
That Naturally Capture Global Coupling and Criticality.” PLoS Computational
Biology, vol. 13, no. 9, e1005763, Public Library of Science, 2017, doi:10.1371/journal.pcbi.1005763.
short: J. Humplik, G. Tkačik, PLoS Computational Biology 13 (2017).
date_created: 2018-12-11T11:48:08Z
date_published: 2017-09-19T00:00:00Z
date_updated: 2021-01-12T08:12:21Z
day: '19'
ddc:
- '530'
- '571'
department:
- _id: GaTk
doi: 10.1371/journal.pcbi.1005763
file:
- access_level: open_access
checksum: 81107096c19771c36ddbe6f0282a3acb
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:18:30Z
date_updated: 2020-07-14T12:47:53Z
file_id: '5352'
file_name: IST-2017-884-v1+1_journal.pcbi.1005763.pdf
file_size: 14167050
relation: main_file
file_date_updated: 2020-07-14T12:47:53Z
has_accepted_license: '1'
intvolume: ' 13'
issue: '9'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: 255008E4-B435-11E9-9278-68D0E5697425
grant_number: RGP0065/2012
name: Information processing and computation in fish groups
- _id: 254D1A94-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 25651-N26
name: Sensitivity to higher-order statistics in natural scenes
publication: PLoS Computational Biology
publication_identifier:
issn:
- 1553734X
publication_status: published
publisher: Public Library of Science
publist_id: '6960'
pubrep_id: '884'
quality_controlled: '1'
scopus_import: 1
status: public
title: Probabilistic models for neural populations that naturally capture global coupling
and criticality
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: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2017'
...
---
_id: '721'
abstract:
- lang: eng
text: 'Let S be a positivity-preserving symmetric linear operator acting on bounded
functions. The nonlinear equation -1/m=z+Sm with a parameter z in the complex
upper half-plane ℍ has a unique solution m with values in ℍ. We show that the
z-dependence of this solution can be represented as the Stieltjes transforms of
a family of probability measures v on ℝ. Under suitable conditions on S, we show
that v has a real analytic density apart from finitely many algebraic singularities
of degree at most 3. Our motivation comes from large random matrices. The solution
m determines the density of eigenvalues of two prominent matrix ensembles: (i)
matrices with centered independent entries whose variances are given by S and
(ii) matrices with correlated entries with a translation-invariant correlation
structure. Our analysis shows that the limiting eigenvalue density has only square
root singularities or cubic root cusps; no other singularities occur.'
author:
- first_name: Oskari H
full_name: Ajanki, Oskari H
id: 36F2FB7E-F248-11E8-B48F-1D18A9856A87
last_name: Ajanki
- first_name: Torben H
full_name: Krüger, Torben H
id: 3020C786-F248-11E8-B48F-1D18A9856A87
last_name: Krüger
orcid: 0000-0002-4821-3297
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
citation:
ama: Ajanki OH, Krüger TH, Erdös L. Singularities of solutions to quadratic vector
equations on the complex upper half plane. Communications on Pure and Applied
Mathematics. 2017;70(9):1672-1705. doi:10.1002/cpa.21639
apa: Ajanki, O. H., Krüger, T. H., & Erdös, L. (2017). Singularities of solutions
to quadratic vector equations on the complex upper half plane. Communications
on Pure and Applied Mathematics. Wiley-Blackwell. https://doi.org/10.1002/cpa.21639
chicago: Ajanki, Oskari H, Torben H Krüger, and László Erdös. “Singularities of
Solutions to Quadratic Vector Equations on the Complex Upper Half Plane.” Communications
on Pure and Applied Mathematics. Wiley-Blackwell, 2017. https://doi.org/10.1002/cpa.21639.
ieee: O. H. Ajanki, T. H. Krüger, and L. Erdös, “Singularities of solutions to quadratic
vector equations on the complex upper half plane,” Communications on Pure and
Applied Mathematics, vol. 70, no. 9. Wiley-Blackwell, pp. 1672–1705, 2017.
ista: Ajanki OH, Krüger TH, Erdös L. 2017. Singularities of solutions to quadratic
vector equations on the complex upper half plane. Communications on Pure and Applied
Mathematics. 70(9), 1672–1705.
mla: Ajanki, Oskari H., et al. “Singularities of Solutions to Quadratic Vector Equations
on the Complex Upper Half Plane.” Communications on Pure and Applied Mathematics,
vol. 70, no. 9, Wiley-Blackwell, 2017, pp. 1672–705, doi:10.1002/cpa.21639.
short: O.H. Ajanki, T.H. Krüger, L. Erdös, Communications on Pure and Applied Mathematics
70 (2017) 1672–1705.
date_created: 2018-12-11T11:48:08Z
date_published: 2017-09-01T00:00:00Z
date_updated: 2021-01-12T08:12:24Z
day: '01'
department:
- _id: LaEr
doi: 10.1002/cpa.21639
ec_funded: 1
intvolume: ' 70'
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1512.03703
month: '09'
oa: 1
oa_version: Submitted Version
page: 1672 - 1705
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication: Communications on Pure and Applied Mathematics
publication_identifier:
issn:
- '00103640'
publication_status: published
publisher: Wiley-Blackwell
publist_id: '6959'
quality_controlled: '1'
scopus_import: 1
status: public
title: Singularities of solutions to quadratic vector equations on the complex upper
half plane
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 70
year: '2017'
...
---
_id: '722'
abstract:
- lang: eng
text: Plants are sessile organisms rooted in one place. The soil resources that
plants require are often distributed in a highly heterogeneous pattern. To aid
foraging, plants have evolved roots whose growth and development are highly responsive
to soil signals. As a result, 3D root architecture is shaped by myriad environmental
signals to ensure resource capture is optimised and unfavourable environments
are avoided. The first signals sensed by newly germinating seeds — gravity and
light — direct root growth into the soil to aid seedling establishment. Heterogeneous
soil resources, such as water, nitrogen and phosphate, also act as signals that
shape 3D root growth to optimise uptake. Root architecture is also modified through
biotic interactions that include soil fungi and neighbouring plants. This developmental
plasticity results in a ‘custom-made’ 3D root system that is best adapted to forage
for resources in each soil environment that a plant colonises.
author:
- first_name: Emily
full_name: Morris, Emily
last_name: Morris
- first_name: Marcus
full_name: Griffiths, Marcus
last_name: Griffiths
- first_name: Agata
full_name: Golebiowska, Agata
last_name: Golebiowska
- first_name: Stefan
full_name: Mairhofer, Stefan
last_name: Mairhofer
- first_name: Jasmine
full_name: Burr Hersey, Jasmine
last_name: Burr Hersey
- first_name: Tatsuaki
full_name: Goh, Tatsuaki
last_name: Goh
- first_name: Daniel
full_name: Von Wangenheim, Daniel
id: 49E91952-F248-11E8-B48F-1D18A9856A87
last_name: Von Wangenheim
orcid: 0000-0002-6862-1247
- first_name: Brian
full_name: Atkinson, Brian
last_name: Atkinson
- first_name: Craig
full_name: Sturrock, Craig
last_name: Sturrock
- first_name: Jonathan
full_name: Lynch, Jonathan
last_name: Lynch
- first_name: Kris
full_name: Vissenberg, Kris
last_name: Vissenberg
- first_name: Karl
full_name: Ritz, Karl
last_name: Ritz
- first_name: Darren
full_name: Wells, Darren
last_name: Wells
- first_name: Sacha
full_name: Mooney, Sacha
last_name: Mooney
- first_name: Malcolm
full_name: Bennett, Malcolm
last_name: Bennett
citation:
ama: Morris E, Griffiths M, Golebiowska A, et al. Shaping 3D root system architecture.
Current Biology. 2017;27(17):R919-R930. doi:10.1016/j.cub.2017.06.043
apa: Morris, E., Griffiths, M., Golebiowska, A., Mairhofer, S., Burr Hersey, J.,
Goh, T., … Bennett, M. (2017). Shaping 3D root system architecture. Current
Biology. Cell Press. https://doi.org/10.1016/j.cub.2017.06.043
chicago: Morris, Emily, Marcus Griffiths, Agata Golebiowska, Stefan Mairhofer, Jasmine
Burr Hersey, Tatsuaki Goh, Daniel von Wangenheim, et al. “Shaping 3D Root System
Architecture.” Current Biology. Cell Press, 2017. https://doi.org/10.1016/j.cub.2017.06.043.
ieee: E. Morris et al., “Shaping 3D root system architecture,” Current
Biology, vol. 27, no. 17. Cell Press, pp. R919–R930, 2017.
ista: Morris E, Griffiths M, Golebiowska A, Mairhofer S, Burr Hersey J, Goh T, von
Wangenheim D, Atkinson B, Sturrock C, Lynch J, Vissenberg K, Ritz K, Wells D,
Mooney S, Bennett M. 2017. Shaping 3D root system architecture. Current Biology.
27(17), R919–R930.
mla: Morris, Emily, et al. “Shaping 3D Root System Architecture.” Current Biology,
vol. 27, no. 17, Cell Press, 2017, pp. R919–30, doi:10.1016/j.cub.2017.06.043.
short: E. Morris, M. Griffiths, A. Golebiowska, S. Mairhofer, J. Burr Hersey, T.
Goh, D. von Wangenheim, B. Atkinson, C. Sturrock, J. Lynch, K. Vissenberg, K.
Ritz, D. Wells, S. Mooney, M. Bennett, Current Biology 27 (2017) R919–R930.
date_created: 2018-12-11T11:48:08Z
date_published: 2017-09-11T00:00:00Z
date_updated: 2021-01-12T08:12:29Z
day: '11'
ddc:
- '581'
department:
- _id: JiFr
doi: 10.1016/j.cub.2017.06.043
ec_funded: 1
external_id:
pmid:
- '28898665'
file:
- access_level: open_access
checksum: e45588b21097b408da6276a3e5eedb2e
content_type: application/pdf
creator: dernst
date_created: 2019-04-17T07:46:40Z
date_updated: 2020-07-14T12:47:54Z
file_id: '6332'
file_name: 2017_CurrentBiology_Morris.pdf
file_size: 1576593
relation: main_file
file_date_updated: 2020-07-14T12:47:54Z
has_accepted_license: '1'
intvolume: ' 27'
issue: '17'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Submitted Version
page: R919 - R930
pmid: 1
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Current Biology
publication_identifier:
issn:
- '09609822'
publication_status: published
publisher: Cell Press
publist_id: '6956'
pubrep_id: '982'
quality_controlled: '1'
scopus_import: 1
status: public
title: Shaping 3D root system architecture
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 27
year: '2017'
...
---
_id: '725'
abstract:
- lang: eng
text: Individual computations and social interactions underlying collective behavior
in groups of animals are of great ethological, behavioral, and theoretical interest.
While complex individual behaviors have successfully been parsed into small dictionaries
of stereotyped behavioral modes, studies of collective behavior largely ignored
these findings; instead, their focus was on inferring single, mode-independent
social interaction rules that reproduced macroscopic and often qualitative features
of group behavior. Here, we bring these two approaches together to predict individual
swimming patterns of adult zebrafish in a group. We show that fish alternate between
an “active” mode, in which they are sensitive to the swimming patterns of conspecifics,
and a “passive” mode, where they ignore them. Using a model that accounts for
these two modes explicitly, we predict behaviors of individual fish with high
accuracy, outperforming previous approaches that assumed a single continuous computation
by individuals and simple metric or topological weighing of neighbors’ behavior.
At the group level, switching between active and passive modes is uncorrelated
among fish, but correlated directional swimming behavior still emerges. Our quantitative
approach for studying complex, multi-modal individual behavior jointly with emergent
group behavior is readily extensible to additional behavioral modes and their
neural correlates as well as to other species.
author:
- first_name: Roy
full_name: Harpaz, Roy
last_name: Harpaz
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
- first_name: Elad
full_name: Schneidman, Elad
last_name: Schneidman
citation:
ama: Harpaz R, Tkačik G, Schneidman E. Discrete modes of social information processing
predict individual behavior of fish in a group. PNAS. 2017;114(38):10149-10154.
doi:10.1073/pnas.1703817114
apa: Harpaz, R., Tkačik, G., & Schneidman, E. (2017). Discrete modes of social
information processing predict individual behavior of fish in a group. PNAS.
National Academy of Sciences. https://doi.org/10.1073/pnas.1703817114
chicago: Harpaz, Roy, Gašper Tkačik, and Elad Schneidman. “Discrete Modes of Social
Information Processing Predict Individual Behavior of Fish in a Group.” PNAS.
National Academy of Sciences, 2017. https://doi.org/10.1073/pnas.1703817114.
ieee: R. Harpaz, G. Tkačik, and E. Schneidman, “Discrete modes of social information
processing predict individual behavior of fish in a group,” PNAS, vol.
114, no. 38. National Academy of Sciences, pp. 10149–10154, 2017.
ista: Harpaz R, Tkačik G, Schneidman E. 2017. Discrete modes of social information
processing predict individual behavior of fish in a group. PNAS. 114(38), 10149–10154.
mla: Harpaz, Roy, et al. “Discrete Modes of Social Information Processing Predict
Individual Behavior of Fish in a Group.” PNAS, vol. 114, no. 38, National
Academy of Sciences, 2017, pp. 10149–54, doi:10.1073/pnas.1703817114.
short: R. Harpaz, G. Tkačik, E. Schneidman, PNAS 114 (2017) 10149–10154.
date_created: 2018-12-11T11:48:10Z
date_published: 2017-09-19T00:00:00Z
date_updated: 2021-01-12T08:12:36Z
day: '19'
department:
- _id: GaTk
doi: 10.1073/pnas.1703817114
external_id:
pmid:
- '28874581'
intvolume: ' 114'
issue: '38'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5617265/
month: '09'
oa: 1
oa_version: Submitted Version
page: 10149 - 10154
pmid: 1
publication: PNAS
publication_identifier:
issn:
- '00278424'
publication_status: published
publisher: National Academy of Sciences
publist_id: '6953'
quality_controlled: '1'
scopus_import: 1
status: public
title: Discrete modes of social information processing predict individual behavior
of fish in a group
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 114
year: '2017'
...
---
_id: '724'
abstract:
- lang: eng
text: We investigate the stationary and dynamical behavior of an Anderson localized
chain coupled to a single central bound state. Although this coupling partially
dilutes the Anderson localized peaks towards nearly resonant sites, the most weight
of the original peaks remains unchanged. This leads to multifractal wave functions
with a frozen spectrum of fractal dimensions, which is characteristic for localized
phases in models with power-law hopping. Using a perturbative approach we identify
two different dynamical regimes. At weak couplings to the central site, the transport
of particles and information is logarithmic in time, a feature usually attributed
to many-body localization. We connect such transport to the persistence of the
Poisson statistics of level spacings in parts of the spectrum. In contrast, at
stronger couplings the level repulsion is established in the entire spectrum,
the problem can be mapped to the Fano resonance, and the transport is ballistic.
acknowledgement: "We would like to thank Dmitry Abanin, Christophe De\r\nBeule,
\ Joel Moore, Romain Vasseur, and Norman Yao for\r\nmany stimulating discussions.
\ Financial support has been\r\nprovided by the Deutsche Forschungsgemeinschaft
\ (DFG)\r\nvia Grant No. TR950/8-1, SFB 1170 “ToCoTronics” and the\r\nENB Graduate
\ School on Topological Insulators. M.S. was\r\nsupported by Gordon and Betty
Moore Foundation’s EPiQS\r\nInitiative through Grant No. GBMF4307. F.P. acknowledges\r\nsupport
from the DFG Research Unit FOR 1807 through Grant\r\nNo. PO 1370/2-1."
article_number: '104203'
author:
- first_name: Daniel
full_name: Hetterich, Daniel
last_name: Hetterich
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Fernando
full_name: Domínguez, Fernando
last_name: Domínguez
- first_name: Frank
full_name: Pollmann, Frank
last_name: Pollmann
- first_name: Björn
full_name: Trauzettel, Björn
last_name: Trauzettel
citation:
ama: Hetterich D, Serbyn M, Domínguez F, Pollmann F, Trauzettel B. Noninteracting
central site model localization and logarithmic entanglement growth. Physical
Review B. 2017;96(10). doi:10.1103/PhysRevB.96.104203
apa: Hetterich, D., Serbyn, M., Domínguez, F., Pollmann, F., & Trauzettel, B.
(2017). Noninteracting central site model localization and logarithmic entanglement
growth. Physical Review B. American Physical Society. https://doi.org/10.1103/PhysRevB.96.104203
chicago: Hetterich, Daniel, Maksym Serbyn, Fernando Domínguez, Frank Pollmann, and
Björn Trauzettel. “Noninteracting Central Site Model Localization and Logarithmic
Entanglement Growth.” Physical Review B. American Physical Society, 2017.
https://doi.org/10.1103/PhysRevB.96.104203.
ieee: D. Hetterich, M. Serbyn, F. Domínguez, F. Pollmann, and B. Trauzettel, “Noninteracting
central site model localization and logarithmic entanglement growth,” Physical
Review B, vol. 96, no. 10. American Physical Society, 2017.
ista: Hetterich D, Serbyn M, Domínguez F, Pollmann F, Trauzettel B. 2017. Noninteracting
central site model localization and logarithmic entanglement growth. Physical
Review B. 96(10), 104203.
mla: Hetterich, Daniel, et al. “Noninteracting Central Site Model Localization and
Logarithmic Entanglement Growth.” Physical Review B, vol. 96, no. 10, 104203,
American Physical Society, 2017, doi:10.1103/PhysRevB.96.104203.
short: D. Hetterich, M. Serbyn, F. Domínguez, F. Pollmann, B. Trauzettel, Physical
Review B 96 (2017).
date_created: 2018-12-11T11:48:09Z
date_published: 2017-09-13T00:00:00Z
date_updated: 2021-01-12T08:12:35Z
day: '13'
department:
- _id: MaSe
doi: 10.1103/PhysRevB.96.104203
intvolume: ' 96'
issue: '10'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1701.02744
month: '09'
oa: 1
oa_version: Submitted Version
publication: Physical Review B
publication_identifier:
issn:
- '24699950'
publication_status: published
publisher: American Physical Society
publist_id: '6955'
quality_controlled: '1'
scopus_import: 1
status: public
title: Noninteracting central site model localization and logarithmic entanglement
growth
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 96
year: '2017'
...
---
_id: '731'
abstract:
- lang: eng
text: Genetic variations in the oxytocin receptor gene affect patients with ASD
and ADHD differently.
article_number: eaap8168
author:
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
citation:
ama: Novarino G. The science of love in ASD and ADHD. Science Translational Medicine.
2017;9(411). doi:10.1126/scitranslmed.aap8168
apa: Novarino, G. (2017). The science of love in ASD and ADHD. Science Translational
Medicine. American Association for the Advancement of Science. https://doi.org/10.1126/scitranslmed.aap8168
chicago: Novarino, Gaia. “The Science of Love in ASD and ADHD.” Science Translational
Medicine. American Association for the Advancement of Science, 2017. https://doi.org/10.1126/scitranslmed.aap8168.
ieee: G. Novarino, “The science of love in ASD and ADHD,” Science Translational
Medicine, vol. 9, no. 411. American Association for the Advancement of Science,
2017.
ista: Novarino G. 2017. The science of love in ASD and ADHD. Science Translational
Medicine. 9(411), eaap8168.
mla: Novarino, Gaia. “The Science of Love in ASD and ADHD.” Science Translational
Medicine, vol. 9, no. 411, eaap8168, American Association for the Advancement
of Science, 2017, doi:10.1126/scitranslmed.aap8168.
short: G. Novarino, Science Translational Medicine 9 (2017).
date_created: 2018-12-11T11:48:12Z
date_published: 2017-10-11T00:00:00Z
date_updated: 2021-01-12T08:12:57Z
day: '11'
department:
- _id: GaNo
doi: 10.1126/scitranslmed.aap8168
intvolume: ' 9'
issue: '411'
language:
- iso: eng
month: '10'
oa_version: None
publication: Science Translational Medicine
publication_identifier:
issn:
- '19466234'
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '6938'
quality_controlled: '1'
scopus_import: 1
status: public
title: The science of love in ASD and ADHD
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2017'
...
---
_id: '7360'
abstract:
- lang: eng
text: Inflammation, which is a highly regulated host response against danger signals,
may be harmful if it is excessive and deregulated. Ideally, anti-inflammatory
therapy should autonomously commence as soon as possible after the onset of inflammation,
should be controllable by a physician, and should not systemically block beneficial
immune response in the long term. We describe a genetically encoded anti-inflammatory
mammalian cell device based on a modular engineered genetic circuit comprising
a sensor, an amplifier, a “thresholder” to restrict activation of a positive-feedback
loop, a combination of advanced clinically used biopharmaceutical proteins, and
orthogonal regulatory elements that linked modules into the functional device.
This genetic circuit was autonomously activated by inflammatory signals, including
endogenous cecal ligation and puncture (CLP)-induced inflammation in mice and
serum from a systemic juvenile idiopathic arthritis (sIJA) patient, and could
be reset externally by a chemical signal. The microencapsulated anti-inflammatory
device significantly reduced the pathology in dextran sodium sulfate (DSS)-induced
acute murine colitis, demonstrating a synthetic immunological approach for autonomous
anti-inflammatory therapy.
article_processing_charge: No
article_type: original
author:
- first_name: Anže
full_name: Smole, Anže
last_name: Smole
- first_name: Duško
full_name: Lainšček, Duško
last_name: Lainšček
- first_name: Urban
full_name: Bezeljak, Urban
id: 2A58201A-F248-11E8-B48F-1D18A9856A87
last_name: Bezeljak
orcid: 0000-0003-1365-5631
- first_name: Simon
full_name: Horvat, Simon
last_name: Horvat
- first_name: Roman
full_name: Jerala, Roman
last_name: Jerala
citation:
ama: Smole A, Lainšček D, Bezeljak U, Horvat S, Jerala R. A synthetic mammalian
therapeutic gene circuit for sensing and suppressing inflammation. Molecular
Therapy. 2017;25(1):102-119. doi:10.1016/j.ymthe.2016.10.005
apa: Smole, A., Lainšček, D., Bezeljak, U., Horvat, S., & Jerala, R. (2017).
A synthetic mammalian therapeutic gene circuit for sensing and suppressing inflammation.
Molecular Therapy. Elsevier. https://doi.org/10.1016/j.ymthe.2016.10.005
chicago: Smole, Anže, Duško Lainšček, Urban Bezeljak, Simon Horvat, and Roman Jerala.
“A Synthetic Mammalian Therapeutic Gene Circuit for Sensing and Suppressing Inflammation.”
Molecular Therapy. Elsevier, 2017. https://doi.org/10.1016/j.ymthe.2016.10.005.
ieee: A. Smole, D. Lainšček, U. Bezeljak, S. Horvat, and R. Jerala, “A synthetic
mammalian therapeutic gene circuit for sensing and suppressing inflammation,”
Molecular Therapy, vol. 25, no. 1. Elsevier, pp. 102–119, 2017.
ista: Smole A, Lainšček D, Bezeljak U, Horvat S, Jerala R. 2017. A synthetic mammalian
therapeutic gene circuit for sensing and suppressing inflammation. Molecular Therapy.
25(1), 102–119.
mla: Smole, Anže, et al. “A Synthetic Mammalian Therapeutic Gene Circuit for Sensing
and Suppressing Inflammation.” Molecular Therapy, vol. 25, no. 1, Elsevier,
2017, pp. 102–19, doi:10.1016/j.ymthe.2016.10.005.
short: A. Smole, D. Lainšček, U. Bezeljak, S. Horvat, R. Jerala, Molecular Therapy
25 (2017) 102–119.
date_created: 2020-01-25T15:55:39Z
date_published: 2017-01-01T00:00:00Z
date_updated: 2021-01-12T08:13:14Z
day: '01'
ddc:
- '570'
department:
- _id: MaLo
doi: 10.1016/j.ymthe.2016.10.005
external_id:
pmid:
- '28129106'
file:
- access_level: open_access
checksum: ea8b1b28606dd1edab7379ba4fa3641f
content_type: application/pdf
creator: dernst
date_created: 2020-03-03T10:55:13Z
date_updated: 2020-07-14T12:47:56Z
file_id: '7561'
file_name: 2017_MolecularTherapy_Smole.pdf
file_size: 3404806
relation: main_file
file_date_updated: 2020-07-14T12:47:56Z
has_accepted_license: '1'
intvolume: ' 25'
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 102-119
pmid: 1
publication: Molecular Therapy
publication_identifier:
issn:
- 1525-0016
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: A synthetic mammalian therapeutic gene circuit for sensing and suppressing
inflammation
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 25
year: '2017'
...
---
_id: '750'
abstract:
- lang: eng
text: Modern communication technologies allow first responders to contact thousands
of potential volunteers simultaneously for support during a crisis or disaster
event. However, such volunteer efforts must be well coordinated and monitored,
in order to offer an effective relief to the professionals. In this paper we extend
earlier work on optimally assigning volunteers to selected landmark locations.
In particular, we emphasize the aspect that obtaining good assignments requires
not only advanced computational tools, but also a realistic measure of distance
between volunteers and landmarks. Specifically, we propose the use of the Open
Street Map (OSM) driving distance instead of he previously used flight distance.
We find the OSM driving distance to be better aligned with the interests of volunteers
and first responders. Furthermore, we show that relying on the flying distance
leads to a substantial underestimation of the number of required volunteers, causing
negative side effects in case of an actual crisis situation.
author:
- first_name: Jasmin
full_name: Pielorz, Jasmin
id: 49BC895A-F248-11E8-B48F-1D18A9856A87
last_name: Pielorz
- first_name: Matthias
full_name: Prandtstetter, Matthias
last_name: Prandtstetter
- first_name: Markus
full_name: Straub, Markus
last_name: Straub
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: 'Pielorz J, Prandtstetter M, Straub M, Lampert C. Optimal geospatial volunteer
allocation needs realistic distances. In: 2017 IEEE International Conference
on Big Data. IEEE; 2017:3760-3763. doi:10.1109/BigData.2017.8258375'
apa: 'Pielorz, J., Prandtstetter, M., Straub, M., & Lampert, C. (2017). Optimal
geospatial volunteer allocation needs realistic distances. In 2017 IEEE International
Conference on Big Data (pp. 3760–3763). Boston, MA, United States: IEEE. https://doi.org/10.1109/BigData.2017.8258375'
chicago: Pielorz, Jasmin, Matthias Prandtstetter, Markus Straub, and Christoph Lampert.
“Optimal Geospatial Volunteer Allocation Needs Realistic Distances.” In 2017
IEEE International Conference on Big Data, 3760–63. IEEE, 2017. https://doi.org/10.1109/BigData.2017.8258375.
ieee: J. Pielorz, M. Prandtstetter, M. Straub, and C. Lampert, “Optimal geospatial
volunteer allocation needs realistic distances,” in 2017 IEEE International
Conference on Big Data, Boston, MA, United States, 2017, pp. 3760–3763.
ista: Pielorz J, Prandtstetter M, Straub M, Lampert C. 2017. Optimal geospatial
volunteer allocation needs realistic distances. 2017 IEEE International Conference
on Big Data. Big Data, 3760–3763.
mla: Pielorz, Jasmin, et al. “Optimal Geospatial Volunteer Allocation Needs Realistic
Distances.” 2017 IEEE International Conference on Big Data, IEEE, 2017,
pp. 3760–63, doi:10.1109/BigData.2017.8258375.
short: J. Pielorz, M. Prandtstetter, M. Straub, C. Lampert, in:, 2017 IEEE International
Conference on Big Data, IEEE, 2017, pp. 3760–3763.
conference:
end_date: 2017-12-14
location: Boston, MA, United States
name: Big Data
start_date: 2017-12-11
date_created: 2018-12-11T11:48:18Z
date_published: 2017-12-01T00:00:00Z
date_updated: 2021-01-12T08:13:55Z
day: '01'
department:
- _id: ChLa
doi: 10.1109/BigData.2017.8258375
language:
- iso: eng
month: '12'
oa_version: None
page: 3760 - 3763
publication: 2017 IEEE International Conference on Big Data
publication_identifier:
isbn:
- 978-153862714-3
publication_status: published
publisher: IEEE
publist_id: '6906'
quality_controlled: '1'
scopus_import: 1
status: public
title: Optimal geospatial volunteer allocation needs realistic distances
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '795'
abstract:
- lang: eng
text: 'We introduce a common generalization of the strong Hanani–Tutte theorem and
the weak Hanani–Tutte theorem: if a graph G has a drawing D in the plane where
every pair of independent edges crosses an even number of times, then G has a
planar drawing preserving the rotation of each vertex whose incident edges cross
each other evenly in D. The theorem is implicit in the proof of the strong Hanani–Tutte
theorem by Pelsmajer, Schaefer and Štefankovič. We give a new, somewhat simpler
proof.'
article_number: P3.18
article_processing_charge: No
article_type: original
author:
- first_name: Radoslav
full_name: Fulek, Radoslav
id: 39F3FFE4-F248-11E8-B48F-1D18A9856A87
last_name: Fulek
orcid: 0000-0001-8485-1774
- first_name: Jan
full_name: Kynčl, Jan
last_name: Kynčl
- first_name: Dömötör
full_name: Pálvölgyi, Dömötör
last_name: Pálvölgyi
citation:
ama: Fulek R, Kynčl J, Pálvölgyi D. Unified Hanani Tutte theorem. Electronic
Journal of Combinatorics. 2017;24(3). doi:10.37236/6663
apa: Fulek, R., Kynčl, J., & Pálvölgyi, D. (2017). Unified Hanani Tutte theorem.
Electronic Journal of Combinatorics. International Press. https://doi.org/10.37236/6663
chicago: Fulek, Radoslav, Jan Kynčl, and Dömötör Pálvölgyi. “Unified Hanani Tutte
Theorem.” Electronic Journal of Combinatorics. International Press, 2017.
https://doi.org/10.37236/6663.
ieee: R. Fulek, J. Kynčl, and D. Pálvölgyi, “Unified Hanani Tutte theorem,” Electronic
Journal of Combinatorics, vol. 24, no. 3. International Press, 2017.
ista: Fulek R, Kynčl J, Pálvölgyi D. 2017. Unified Hanani Tutte theorem. Electronic
Journal of Combinatorics. 24(3), P3.18.
mla: Fulek, Radoslav, et al. “Unified Hanani Tutte Theorem.” Electronic Journal
of Combinatorics, vol. 24, no. 3, P3.18, International Press, 2017, doi:10.37236/6663.
short: R. Fulek, J. Kynčl, D. Pálvölgyi, Electronic Journal of Combinatorics 24
(2017).
date_created: 2018-12-11T11:48:32Z
date_published: 2017-07-28T00:00:00Z
date_updated: 2022-03-18T12:58:53Z
day: '28'
ddc:
- '000'
department:
- _id: UlWa
doi: 10.37236/6663
ec_funded: 1
file:
- access_level: open_access
checksum: ef320cff0f062051e858f929be6a3581
content_type: application/pdf
creator: dernst
date_created: 2019-01-18T14:04:08Z
date_updated: 2020-07-14T12:48:06Z
file_id: '5853'
file_name: 2017_ElectrCombi_Fulek.pdf
file_size: 236944
relation: main_file
file_date_updated: 2020-07-14T12:48:06Z
has_accepted_license: '1'
intvolume: ' 24'
issue: '3'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Electronic Journal of Combinatorics
publication_identifier:
issn:
- '10778926'
publication_status: published
publisher: International Press
publist_id: '6859'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Unified Hanani Tutte theorem
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2017'
...
---
_id: '797'
abstract:
- lang: ger
text: Phasenübergänge helfen beim Verständnis von Vielteilchensystemen in der Festkörperphysik
und Fluiddynamik bis hin zur Teilchenphysik. Unserer internationalen Kollaboration
ist es gelungen, einen neuartigen Phasenübergang in einem Quantensystem zu beobachten
[1]. In einem Mikrowellenresonator konnte erstmals die spontane Zustandsänderung
von undurchsichtig zu transparent nachgewiesen werden.
article_processing_charge: No
article_type: original
author:
- first_name: Johannes M
full_name: Fink, Johannes M
id: 4B591CBA-F248-11E8-B48F-1D18A9856A87
last_name: Fink
orcid: 0000-0001-8112-028X
citation:
ama: Fink JM. Photonenblockade aufgelöst. Physik in unserer Zeit. 2017;48(3):111-113.
doi:10.1002/piuz.201770305
apa: Fink, J. M. (2017). Photonenblockade aufgelöst. Physik in Unserer Zeit.
Wiley. https://doi.org/10.1002/piuz.201770305
chicago: Fink, Johannes M. “Photonenblockade Aufgelöst.” Physik in Unserer Zeit.
Wiley, 2017. https://doi.org/10.1002/piuz.201770305.
ieee: J. M. Fink, “Photonenblockade aufgelöst,” Physik in unserer Zeit, vol.
48, no. 3. Wiley, pp. 111–113, 2017.
ista: Fink JM. 2017. Photonenblockade aufgelöst. Physik in unserer Zeit. 48(3),
111–113.
mla: Fink, Johannes M. “Photonenblockade Aufgelöst.” Physik in Unserer Zeit,
vol. 48, no. 3, Wiley, 2017, pp. 111–13, doi:10.1002/piuz.201770305.
short: J.M. Fink, Physik in Unserer Zeit 48 (2017) 111–113.
date_created: 2018-12-11T11:48:33Z
date_published: 2017-05-01T00:00:00Z
date_updated: 2022-03-24T09:16:20Z
day: '01'
department:
- _id: JoFi
doi: 10.1002/piuz.201770305
intvolume: ' 48'
issue: '3'
language:
- iso: eng
month: '05'
oa_version: None
page: 111 - 113
publication: Physik in unserer Zeit
publication_status: published
publisher: Wiley
publist_id: '6856'
quality_controlled: '1'
status: public
title: Photonenblockade aufgelöst
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 48
year: '2017'
...
---
_id: '807'
abstract:
- lang: eng
text: 'On January the 1st, 2016 a new agreement between 32 Austrian scientific libraries
and the publisher Springer took its effect: this deal covers accessing the licensed
content on the one hand, and publishing open access on the other hand. More than
1000 papers by Austrian authors were published open access at Springer in the
first year alone. The working group "Springer Compact Evaluierung" made
the data for these articles available via the platform OpenAPC and would like
to use this opportunity to give a short account of what this publishing agreement
actually entails and the working group intends to do.'
author:
- first_name: Magdalena
full_name: Andrae, Magdalena
last_name: Andrae
- first_name: Márton
full_name: Villányi, Márton
id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87
last_name: Villányi
orcid: 0000-0001-8126-0426
citation:
ama: Andrae M, Villányi M. Der Springer Compact-Deal – Ein erster Einblick in die
Evaluierung einer Offsetting-Vereinbarung. Mitteilungen der Vereinigung Österreichischer
Bibliothekarinnen und Bibliothekare. 2017;70(2):274-280. doi:10.31263/voebm.v70i2.1898
apa: Andrae, M., & Villányi, M. (2017). Der Springer Compact-Deal – Ein erster
Einblick in die Evaluierung einer Offsetting-Vereinbarung. Mitteilungen Der
Vereinigung Österreichischer Bibliothekarinnen Und Bibliothekare. VÖB. https://doi.org/10.31263/voebm.v70i2.1898
chicago: Andrae, Magdalena, and Márton Villányi. “Der Springer Compact-Deal – Ein
Erster Einblick in Die Evaluierung Einer Offsetting-Vereinbarung.” Mitteilungen
Der Vereinigung Österreichischer Bibliothekarinnen Und Bibliothekare. VÖB,
2017. https://doi.org/10.31263/voebm.v70i2.1898.
ieee: M. Andrae and M. Villányi, “Der Springer Compact-Deal – Ein erster Einblick
in die Evaluierung einer Offsetting-Vereinbarung,” Mitteilungen der Vereinigung
Österreichischer Bibliothekarinnen und Bibliothekare, vol. 70, no. 2. VÖB,
pp. 274–280, 2017.
ista: Andrae M, Villányi M. 2017. Der Springer Compact-Deal – Ein erster Einblick
in die Evaluierung einer Offsetting-Vereinbarung. Mitteilungen der Vereinigung
Österreichischer Bibliothekarinnen und Bibliothekare. 70(2), 274–280.
mla: Andrae, Magdalena, and Márton Villányi. “Der Springer Compact-Deal – Ein Erster
Einblick in Die Evaluierung Einer Offsetting-Vereinbarung.” Mitteilungen Der
Vereinigung Österreichischer Bibliothekarinnen Und Bibliothekare, vol. 70,
no. 2, VÖB, 2017, pp. 274–80, doi:10.31263/voebm.v70i2.1898.
short: M. Andrae, M. Villányi, Mitteilungen Der Vereinigung Österreichischer Bibliothekarinnen
Und Bibliothekare 70 (2017) 274–280.
date_created: 2018-12-11T11:48:36Z
date_published: 2017-08-01T00:00:00Z
date_updated: 2021-01-12T08:16:45Z
day: '01'
ddc:
- '020'
department:
- _id: E-Lib
doi: 10.31263/voebm.v70i2.1898
file:
- access_level: open_access
checksum: 558c18bcf5580d87dd371ec626d52075
content_type: application/pdf
creator: dernst
date_created: 2019-01-18T13:39:26Z
date_updated: 2020-07-14T12:48:09Z
file_id: '5851'
file_name: 2017_VOEB_Andrae.pdf
file_size: 125065
relation: main_file
file_date_updated: 2020-07-14T12:48:09Z
has_accepted_license: '1'
intvolume: ' 70'
issue: '2'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 274 - 280
popular_science: '1'
publication: Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare
publication_identifier:
issn:
- '10222588'
publication_status: published
publisher: VÖB
publist_id: '6843'
scopus_import: 1
status: public
title: Der Springer Compact-Deal – Ein erster Einblick in die Evaluierung einer Offsetting-Vereinbarung
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: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 70
year: '2017'
...
---
_id: '825'
abstract:
- lang: eng
text: What data is needed about data? Describing the process to answer this question
for the institutional data repository IST DataRep.
author:
- first_name: Barbara
full_name: Petritsch, Barbara
id: 406048EC-F248-11E8-B48F-1D18A9856A87
last_name: Petritsch
orcid: 0000-0003-2724-4614
citation:
ama: Petritsch B. Metadata for research data in practice. Mitteilungen der Vereinigung
Österreichischer Bibliothekarinnen & Bibliothekare. 2017;70(2):200-207.
doi:10.31263/voebm.v70i2.1678
apa: Petritsch, B. (2017). Metadata for research data in practice. Mitteilungen
Der Vereinigung Österreichischer Bibliothekarinnen & Bibliothekare. VÖB.
https://doi.org/10.31263/voebm.v70i2.1678
chicago: Petritsch, Barbara. “Metadata for Research Data in Practice.” Mitteilungen
Der Vereinigung Österreichischer Bibliothekarinnen & Bibliothekare. VÖB,
2017. https://doi.org/10.31263/voebm.v70i2.1678.
ieee: B. Petritsch, “Metadata for research data in practice,” Mitteilungen der
Vereinigung Österreichischer Bibliothekarinnen & Bibliothekare, vol. 70,
no. 2. VÖB, pp. 200–207, 2017.
ista: Petritsch B. 2017. Metadata for research data in practice. Mitteilungen der
Vereinigung Österreichischer Bibliothekarinnen & Bibliothekare. 70(2), 200–207.
mla: Petritsch, Barbara. “Metadata for Research Data in Practice.” Mitteilungen
Der Vereinigung Österreichischer Bibliothekarinnen & Bibliothekare, vol.
70, no. 2, VÖB, 2017, pp. 200–07, doi:10.31263/voebm.v70i2.1678.
short: B. Petritsch, Mitteilungen Der Vereinigung Österreichischer Bibliothekarinnen
& Bibliothekare 70 (2017) 200–207.
date_created: 2018-12-11T11:48:42Z
date_published: 2017-08-01T00:00:00Z
date_updated: 2021-01-12T08:17:44Z
day: '01'
ddc:
- '020'
department:
- _id: E-Lib
doi: 10.31263/voebm.v70i2.1678
file:
- access_level: open_access
checksum: 7c4544d07efa2c2add8612b489abb4e2
content_type: application/pdf
creator: dernst
date_created: 2019-01-18T13:32:17Z
date_updated: 2020-07-14T12:48:11Z
file_id: '5850'
file_name: 2017_VOEB_Petritsch.pdf
file_size: 7843975
relation: main_file
file_date_updated: 2020-07-14T12:48:11Z
has_accepted_license: '1'
intvolume: ' 70'
issue: '2'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 200 - 207
publication: Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen & Bibliothekare
publication_identifier:
issn:
- '10222588'
publication_status: published
publisher: VÖB
publist_id: '6823'
scopus_import: 1
status: public
title: Metadata for research data in practice
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 70
year: '2017'
...
---
_id: '957'
abstract:
- lang: eng
text: Small molecule biosensors based on Forster resonance energy transfer (FRET)
enable small molecule signaling to be monitored with high spatial and temporal
resolution in complex cellular environments. FRET sensors can be constructed by
fusing a pair of fluorescent proteins to a suitable recognition domain, such as
a member of the solute-binding protein (SBP) superfamily. However, naturally occurring
SBPs may be unsuitable for incorporation into FRET sensors due to their low thermostability,
which may preclude imaging under physiological conditions, or because the positions
of their N- and C-termini may be suboptimal for fusion of fluorescent proteins,
which may limit the dynamic range of the resulting sensors. Here, we show how
these problems can be overcome using ancestral protein reconstruction and circular
permutation. Ancestral protein reconstruction, used as a protein engineering strategy,
leverages phylogenetic information to improve the thermostability of proteins,
while circular permutation enables the termini of an SBP to be repositioned to
maximize the dynamic range of the resulting FRET sensor. We also provide a protocol
for cloning the engineered SBPs into FRET sensor constructs using Golden Gate
assembly and discuss considerations for in situ characterization of the FRET sensors.
alternative_title:
- Methods in Molecular Biology
author:
- first_name: Ben
full_name: Clifton, Ben
last_name: Clifton
- first_name: Jason
full_name: Whitfield, Jason
last_name: Whitfield
- first_name: Inmaculada
full_name: Sanchez Romero, Inmaculada
id: 3D9C5D30-F248-11E8-B48F-1D18A9856A87
last_name: Sanchez Romero
- first_name: Michel
full_name: Herde, Michel
last_name: Herde
- 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: Colin
full_name: Jackson, Colin
last_name: Jackson
citation:
ama: 'Clifton B, Whitfield J, Sanchez-Romero I, et al. Ancestral protein reconstruction
and circular permutation for improving the stability and dynamic range of FRET
sensors. In: Stein V, ed. Synthetic Protein Switches. Vol 1596. Synthetic
Protein Switches. Springer; 2017:71-87. doi:10.1007/978-1-4939-6940-1_5'
apa: Clifton, B., Whitfield, J., Sanchez-Romero, I., Herde, M., Henneberger, C.,
Janovjak, H. L., & Jackson, C. (2017). Ancestral protein reconstruction and
circular permutation for improving the stability and dynamic range of FRET sensors.
In V. Stein (Ed.), Synthetic Protein Switches (Vol. 1596, pp. 71–87). Springer.
https://doi.org/10.1007/978-1-4939-6940-1_5
chicago: Clifton, Ben, Jason Whitfield, Inmaculada Sanchez-Romero, Michel Herde,
Christian Henneberger, Harald L Janovjak, and Colin Jackson. “Ancestral Protein
Reconstruction and Circular Permutation for Improving the Stability and Dynamic
Range of FRET Sensors.” In Synthetic Protein Switches, edited by Viktor
Stein, 1596:71–87. Synthetic Protein Switches. Springer, 2017. https://doi.org/10.1007/978-1-4939-6940-1_5.
ieee: B. Clifton et al., “Ancestral protein reconstruction and circular permutation
for improving the stability and dynamic range of FRET sensors,” in Synthetic
Protein Switches, vol. 1596, V. Stein, Ed. Springer, 2017, pp. 71–87.
ista: 'Clifton B, Whitfield J, Sanchez-Romero I, Herde M, Henneberger C, Janovjak
HL, Jackson C. 2017.Ancestral protein reconstruction and circular permutation
for improving the stability and dynamic range of FRET sensors. In: Synthetic Protein
Switches. Methods in Molecular Biology, vol. 1596, 71–87.'
mla: Clifton, Ben, et al. “Ancestral Protein Reconstruction and Circular Permutation
for Improving the Stability and Dynamic Range of FRET Sensors.” Synthetic Protein
Switches, edited by Viktor Stein, vol. 1596, Springer, 2017, pp. 71–87, doi:10.1007/978-1-4939-6940-1_5.
short: B. Clifton, J. Whitfield, I. Sanchez-Romero, M. Herde, C. Henneberger, H.L.
Janovjak, C. Jackson, in:, V. Stein (Ed.), Synthetic Protein Switches, Springer,
2017, pp. 71–87.
date_created: 2018-12-11T11:49:24Z
date_published: 2017-03-15T00:00:00Z
date_updated: 2021-01-12T08:22:13Z
day: '15'
department:
- _id: HaJa
doi: 10.1007/978-1-4939-6940-1_5
editor:
- first_name: Viktor
full_name: Stein, Viktor
last_name: Stein
intvolume: ' 1596'
language:
- iso: eng
month: '03'
oa_version: None
page: 71 - 87
project:
- _id: 255BFFFA-B435-11E9-9278-68D0E5697425
grant_number: RGY0084/2012
name: In situ real-time imaging of neurotransmitter signaling using designer optical
sensors (HFSP Young Investigator)
publication: Synthetic Protein Switches
publication_identifier:
issn:
- '10643745'
publication_status: published
publisher: Springer
publist_id: '6451'
quality_controlled: '1'
scopus_import: 1
series_title: Synthetic Protein Switches
status: public
title: Ancestral protein reconstruction and circular permutation for improving the
stability and dynamic range of FRET sensors
type: book_chapter
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 1596
year: '2017'
...
---
_id: '963'
abstract:
- lang: eng
text: 'Network games are widely used as a model for selfish resource-allocation
problems. In the classical model, each player selects a path connecting her source
and target vertex. The cost of traversing an edge depends on the number of players
that traverse it. Thus, it abstracts the fact that different users may use a resource
at different times and for different durations, which plays an important role
in defining the costs of the users in reality. For example, when transmitting
packets in a communication network, routing traffic in a road network, or processing
a task in a production system, the traversal of the network involves an inherent
delay, and so sharing and congestion of resources crucially depends on time. We
study timed network games , which add a time component to network games. Each
vertex v in the network is associated with a cost function, mapping the load on
v to the price that a player pays for staying in v for one time unit with this
load. In addition, each edge has a guard, describing time intervals in which the
edge can be traversed, forcing the players to spend time on vertices. Unlike earlier
work that add a time component to network games, the time in our model is continuous
and cannot be discretized. In particular, players have uncountably many strategies,
and a game may have uncountably many pure Nash equilibria. We study properties
of timed network games with cost-sharing or congestion cost functions: their stability,
equilibrium inefficiency, and complexity. In particular, we show that the answer
to the question whether we can restrict attention to boundary strategies, namely
ones in which edges are traversed only at the boundaries of guards, is mixed. '
alternative_title:
- LIPIcs
article_number: '37'
author:
- first_name: Guy
full_name: Avni, Guy
id: 463C8BC2-F248-11E8-B48F-1D18A9856A87
last_name: Avni
orcid: 0000-0001-5588-8287
- first_name: Shibashis
full_name: Guha, Shibashis
last_name: Guha
- first_name: Orna
full_name: Kupferman, Orna
last_name: Kupferman
citation:
ama: 'Avni G, Guha S, Kupferman O. Timed network games with clocks. In: Vol 83.
Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2017. doi:10.4230/LIPIcs.MFCS.2017.37'
apa: 'Avni, G., Guha, S., & Kupferman, O. (2017). Timed network games with clocks
(Vol. 83). Presented at the MFCS: Mathematical Foundations of Computer Science
(SG), Aalborg, Denmark: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.MFCS.2017.37'
chicago: Avni, Guy, Shibashis Guha, and Orna Kupferman. “Timed Network Games with
Clocks,” Vol. 83. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2017. https://doi.org/10.4230/LIPIcs.MFCS.2017.37.
ieee: 'G. Avni, S. Guha, and O. Kupferman, “Timed network games with clocks,” presented
at the MFCS: Mathematical Foundations of Computer Science (SG), Aalborg, Denmark,
2017, vol. 83.'
ista: 'Avni G, Guha S, Kupferman O. 2017. Timed network games with clocks. MFCS:
Mathematical Foundations of Computer Science (SG), LIPIcs, vol. 83, 37.'
mla: Avni, Guy, et al. Timed Network Games with Clocks. Vol. 83, 37, Schloss
Dagstuhl - Leibniz-Zentrum für Informatik, 2017, doi:10.4230/LIPIcs.MFCS.2017.37.
short: G. Avni, S. Guha, O. Kupferman, in:, Schloss Dagstuhl - Leibniz-Zentrum für
Informatik, 2017.
conference:
end_date: 2017-08-25
location: Aalborg, Denmark
name: 'MFCS: Mathematical Foundations of Computer Science (SG)'
start_date: 2017-08-21
date_created: 2018-12-11T11:49:26Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2023-02-23T12:35:50Z
day: '01'
ddc:
- '004'
department:
- _id: ToHe
doi: 10.4230/LIPIcs.MFCS.2017.37
file:
- access_level: open_access
checksum: f55eaf7f3c36ea07801112acfedd17d5
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:10Z
date_updated: 2020-07-14T12:48:18Z
file_id: '5059'
file_name: IST-2017-829-v1+1_mfcs-cr.pdf
file_size: 369730
relation: main_file
file_date_updated: 2020-07-14T12:48:18Z
has_accepted_license: '1'
intvolume: ' 83'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
project:
- _id: 25F5A88A-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11402-N23
name: Moderne Concurrency Paradigms
publication_identifier:
issn:
- '18688969'
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '6438'
pubrep_id: '829'
quality_controlled: '1'
related_material:
record:
- id: '6005'
relation: later_version
status: public
scopus_import: 1
status: public
title: Timed network games with clocks
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 83
year: '2017'
...
---
_id: '9709'
abstract:
- lang: eng
text: Across the nervous system, certain population spiking patterns are observed
far more frequently than others. A hypothesis about this structure is that these
collective activity patterns function as population codewords–collective modes–carrying
information distinct from that of any single cell. We investigate this phenomenon
in recordings of ∼150 retinal ganglion cells, the retina’s output. We develop
a novel statistical model that decomposes the population response into modes;
it predicts the distribution of spiking activity in the ganglion cell population
with high accuracy. We found that the modes represent localized features of the
visual stimulus that are distinct from the features represented by single neurons.
Modes form clusters of activity states that are readily discriminated from one
another. When we repeated the same visual stimulus, we found that the same mode
was robustly elicited. These results suggest that retinal ganglion cells’ collective
signaling is endowed with a form of error-correcting code–a principle that may
hold in brain areas beyond retina.
article_processing_charge: No
author:
- first_name: Jason
full_name: Prentice, Jason
last_name: Prentice
- first_name: Olivier
full_name: Marre, Olivier
last_name: Marre
- first_name: Mark
full_name: Ioffe, Mark
last_name: Ioffe
- first_name: Adrianna
full_name: Loback, Adrianna
last_name: Loback
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
- first_name: Michael
full_name: Berry, Michael
last_name: Berry
citation:
ama: 'Prentice J, Marre O, Ioffe M, Loback A, Tkačik G, Berry M. Data from: Error-robust
modes of the retinal population code. 2017. doi:10.5061/dryad.1f1rc'
apa: 'Prentice, J., Marre, O., Ioffe, M., Loback, A., Tkačik, G., & Berry, M.
(2017). Data from: Error-robust modes of the retinal population code. Dryad. https://doi.org/10.5061/dryad.1f1rc'
chicago: 'Prentice, Jason, Olivier Marre, Mark Ioffe, Adrianna Loback, Gašper Tkačik,
and Michael Berry. “Data from: Error-Robust Modes of the Retinal Population Code.”
Dryad, 2017. https://doi.org/10.5061/dryad.1f1rc.'
ieee: 'J. Prentice, O. Marre, M. Ioffe, A. Loback, G. Tkačik, and M. Berry, “Data
from: Error-robust modes of the retinal population code.” Dryad, 2017.'
ista: 'Prentice J, Marre O, Ioffe M, Loback A, Tkačik G, Berry M. 2017. Data from:
Error-robust modes of the retinal population code, Dryad, 10.5061/dryad.1f1rc.'
mla: 'Prentice, Jason, et al. Data from: Error-Robust Modes of the Retinal Population
Code. Dryad, 2017, doi:10.5061/dryad.1f1rc.'
short: J. Prentice, O. Marre, M. Ioffe, A. Loback, G. Tkačik, M. Berry, (2017).
date_created: 2021-07-23T11:34:34Z
date_published: 2017-10-18T00:00:00Z
date_updated: 2023-02-21T16:34:41Z
day: '18'
department:
- _id: GaTk
doi: 10.5061/dryad.1f1rc
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.1f1rc
month: '10'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '1197'
relation: used_in_publication
status: public
status: public
title: 'Data from: Error-robust modes of the retinal population code'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '541'
abstract:
- lang: eng
text: 'While we have good understanding of bacterial metabolism at the population
level, we know little about the metabolic behavior of individual cells: do single
cells in clonal populations sometimes specialize on different metabolic pathways?
Such metabolic specialization could be driven by stochastic gene expression and
could provide individual cells with growth benefits of specialization. We measured
the degree of phenotypic specialization in two parallel metabolic pathways, the
assimilation of glucose and arabinose. We grew Escherichia coli in chemostats,
and used isotope-labeled sugars in combination with nanometer-scale secondary
ion mass spectrometry and mathematical modeling to quantify sugar assimilation
at the single-cell level. We found large variation in metabolic activities between
single cells, both in absolute assimilation and in the degree to which individual
cells specialize in the assimilation of different sugars. Analysis of transcriptional
reporters indicated that this variation was at least partially based on cell-to-cell
variation in gene expression. Metabolic differences between cells in clonal populations
could potentially reduce metabolic incompatibilities between different pathways,
and increase the rate at which parallel reactions can be performed.'
article_number: e1007122
author:
- first_name: Nela
full_name: Nikolic, Nela
id: 42D9CABC-F248-11E8-B48F-1D18A9856A87
last_name: Nikolic
orcid: 0000-0001-9068-6090
- first_name: Frank
full_name: Schreiber, Frank
last_name: Schreiber
- first_name: Alma
full_name: Dal Co, Alma
last_name: Dal Co
- first_name: Daniel
full_name: Kiviet, Daniel
last_name: Kiviet
- first_name: Tobias
full_name: Bergmiller, Tobias
id: 2C471CFA-F248-11E8-B48F-1D18A9856A87
last_name: Bergmiller
orcid: 0000-0001-5396-4346
- first_name: Sten
full_name: Littmann, Sten
last_name: Littmann
- first_name: Marcel
full_name: Kuypers, Marcel
last_name: Kuypers
- first_name: Martin
full_name: Ackermann, Martin
last_name: Ackermann
citation:
ama: Nikolic N, Schreiber F, Dal Co A, et al. Cell-to-cell variation and specialization
in sugar metabolism in clonal bacterial populations. PLoS Genetics. 2017;13(12).
doi:10.1371/journal.pgen.1007122
apa: Nikolic, N., Schreiber, F., Dal Co, A., Kiviet, D., Bergmiller, T., Littmann,
S., … Ackermann, M. (2017). Cell-to-cell variation and specialization in sugar
metabolism in clonal bacterial populations. PLoS Genetics. Public Library
of Science. https://doi.org/10.1371/journal.pgen.1007122
chicago: Nikolic, Nela, Frank Schreiber, Alma Dal Co, Daniel Kiviet, Tobias Bergmiller,
Sten Littmann, Marcel Kuypers, and Martin Ackermann. “Cell-to-Cell Variation and
Specialization in Sugar Metabolism in Clonal Bacterial Populations.” PLoS Genetics.
Public Library of Science, 2017. https://doi.org/10.1371/journal.pgen.1007122.
ieee: N. Nikolic et al., “Cell-to-cell variation and specialization in sugar
metabolism in clonal bacterial populations,” PLoS Genetics, vol. 13, no.
12. Public Library of Science, 2017.
ista: Nikolic N, Schreiber F, Dal Co A, Kiviet D, Bergmiller T, Littmann S, Kuypers
M, Ackermann M. 2017. Cell-to-cell variation and specialization in sugar metabolism
in clonal bacterial populations. PLoS Genetics. 13(12), e1007122.
mla: Nikolic, Nela, et al. “Cell-to-Cell Variation and Specialization in Sugar Metabolism
in Clonal Bacterial Populations.” PLoS Genetics, vol. 13, no. 12, e1007122,
Public Library of Science, 2017, doi:10.1371/journal.pgen.1007122.
short: N. Nikolic, F. Schreiber, A. Dal Co, D. Kiviet, T. Bergmiller, S. Littmann,
M. Kuypers, M. Ackermann, PLoS Genetics 13 (2017).
date_created: 2018-12-11T11:47:04Z
date_published: 2017-12-18T00:00:00Z
date_updated: 2023-02-23T14:10:34Z
day: '18'
ddc:
- '576'
- '579'
department:
- _id: CaGu
doi: 10.1371/journal.pgen.1007122
ec_funded: 1
file:
- access_level: open_access
checksum: 22426d9382f21554bad5fa5967afcfd0
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:35Z
date_updated: 2020-07-14T12:46:46Z
file_id: '5088'
file_name: IST-2018-959-v1+1_2017_Nikolic_Cell-to-cell.pdf
file_size: 1308475
relation: main_file
file_date_updated: 2020-07-14T12:46:46Z
has_accepted_license: '1'
intvolume: ' 13'
issue: '12'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: PLoS Genetics
publication_identifier:
issn:
- '15537390'
publication_status: published
publisher: Public Library of Science
publist_id: '7275'
pubrep_id: '959'
quality_controlled: '1'
related_material:
record:
- id: '9844'
relation: research_data
status: public
- id: '9845'
relation: research_data
status: public
- id: '9846'
relation: research_data
status: public
scopus_import: 1
status: public
title: Cell-to-cell variation and specialization in sugar metabolism in clonal bacterial
populations
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2017'
...
---
_id: '9847'
abstract:
- lang: eng
text: information on culture conditions, phage mutagenesis, verification and lysate
preparation; Raw data
article_processing_charge: No
author:
- first_name: Maros
full_name: Pleska, Maros
id: 4569785E-F248-11E8-B48F-1D18A9856A87
last_name: Pleska
orcid: 0000-0001-7460-7479
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
citation:
ama: Pleska M, Guet CC. Supplementary materials and methods; Full data set from
effects of mutations in phage restriction sites during escape from restriction–modification.
2017. doi:10.6084/m9.figshare.5633917.v1
apa: Pleska, M., & Guet, C. C. (2017). Supplementary materials and methods;
Full data set from effects of mutations in phage restriction sites during escape
from restriction–modification. The Royal Society. https://doi.org/10.6084/m9.figshare.5633917.v1
chicago: Pleska, Maros, and Calin C Guet. “Supplementary Materials and Methods;
Full Data Set from Effects of Mutations in Phage Restriction Sites during Escape
from Restriction–Modification.” The Royal Society, 2017. https://doi.org/10.6084/m9.figshare.5633917.v1.
ieee: M. Pleska and C. C. Guet, “Supplementary materials and methods; Full data
set from effects of mutations in phage restriction sites during escape from restriction–modification.”
The Royal Society, 2017.
ista: Pleska M, Guet CC. 2017. Supplementary materials and methods; Full data set
from effects of mutations in phage restriction sites during escape from restriction–modification,
The Royal Society, 10.6084/m9.figshare.5633917.v1.
mla: Pleska, Maros, and Calin C. Guet. Supplementary Materials and Methods; Full
Data Set from Effects of Mutations in Phage Restriction Sites during Escape from
Restriction–Modification. The Royal Society, 2017, doi:10.6084/m9.figshare.5633917.v1.
short: M. Pleska, C.C. Guet, (2017).
date_created: 2021-08-09T13:54:38Z
date_published: 2017-11-27T00:00:00Z
date_updated: 2023-02-23T12:29:44Z
day: '27'
department:
- _id: CaGu
doi: 10.6084/m9.figshare.5633917.v1
main_file_link:
- open_access: '1'
url: https://doi.org/10.6084/m9.figshare.5633917.v1
month: '11'
oa: 1
oa_version: Published Version
publisher: The Royal Society
related_material:
record:
- id: '561'
relation: used_in_publication
status: public
status: public
title: Supplementary materials and methods; Full data set from effects of mutations
in phage restriction sites during escape from restriction–modification
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '9845'
abstract:
- lang: eng
text: "Estimates of 13 C-arabinose and 2 H-glucose uptake from the fractions of
heavy isotopes measured\tin single cells"
article_processing_charge: No
author:
- first_name: Nela
full_name: Nikolic, Nela
id: 42D9CABC-F248-11E8-B48F-1D18A9856A87
last_name: Nikolic
orcid: 0000-0001-9068-6090
- first_name: Frank
full_name: Schreiber, Frank
last_name: Schreiber
- first_name: Alma
full_name: Dal Co, Alma
last_name: Dal Co
- first_name: Daniel
full_name: Kiviet, Daniel
last_name: Kiviet
- first_name: Tobias
full_name: Bergmiller, Tobias
id: 2C471CFA-F248-11E8-B48F-1D18A9856A87
last_name: Bergmiller
orcid: 0000-0001-5396-4346
- first_name: Sten
full_name: Littmann, Sten
last_name: Littmann
- first_name: Marcel
full_name: Kuypers, Marcel
last_name: Kuypers
- first_name: Martin
full_name: Ackermann, Martin
last_name: Ackermann
citation:
ama: Nikolic N, Schreiber F, Dal Co A, et al. Mathematical model. 2017. doi:10.1371/journal.pgen.1007122.s017
apa: Nikolic, N., Schreiber, F., Dal Co, A., Kiviet, D., Bergmiller, T., Littmann,
S., … Ackermann, M. (2017). Mathematical model. Public Library of Science. https://doi.org/10.1371/journal.pgen.1007122.s017
chicago: Nikolic, Nela, Frank Schreiber, Alma Dal Co, Daniel Kiviet, Tobias Bergmiller,
Sten Littmann, Marcel Kuypers, and Martin Ackermann. “Mathematical Model.” Public
Library of Science, 2017. https://doi.org/10.1371/journal.pgen.1007122.s017.
ieee: N. Nikolic et al., “Mathematical model.” Public Library of Science,
2017.
ista: Nikolic N, Schreiber F, Dal Co A, Kiviet D, Bergmiller T, Littmann S, Kuypers
M, Ackermann M. 2017. Mathematical model, Public Library of Science, 10.1371/journal.pgen.1007122.s017.
mla: Nikolic, Nela, et al. Mathematical Model. Public Library of Science,
2017, doi:10.1371/journal.pgen.1007122.s017.
short: N. Nikolic, F. Schreiber, A. Dal Co, D. Kiviet, T. Bergmiller, S. Littmann,
M. Kuypers, M. Ackermann, (2017).
date_created: 2021-08-09T13:31:51Z
date_published: 2017-12-18T00:00:00Z
date_updated: 2023-02-23T12:25:04Z
day: '18'
department:
- _id: CaGu
doi: 10.1371/journal.pgen.1007122.s017
month: '12'
oa_version: None
publisher: Public Library of Science
related_material:
record:
- id: '541'
relation: used_in_publication
status: public
status: public
title: Mathematical model
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '9849'
abstract:
- lang: eng
text: This text provides additional information about the model, a derivation of
the analytic results in Eq (4), and details about simulations of an additional
parameter set.
article_processing_charge: No
author:
- first_name: Marta
full_name: Lukacisinova, Marta
id: 4342E402-F248-11E8-B48F-1D18A9856A87
last_name: Lukacisinova
orcid: 0000-0002-2519-8004
- first_name: Sebastian
full_name: Novak, Sebastian
id: 461468AE-F248-11E8-B48F-1D18A9856A87
last_name: Novak
- first_name: Tiago
full_name: Paixao, Tiago
id: 2C5658E6-F248-11E8-B48F-1D18A9856A87
last_name: Paixao
orcid: 0000-0003-2361-3953
citation:
ama: Lukacisinova M, Novak S, Paixao T. Modelling and simulation details. 2017.
doi:10.1371/journal.pcbi.1005609.s001
apa: Lukacisinova, M., Novak, S., & Paixao, T. (2017). Modelling and simulation
details. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1005609.s001
chicago: Lukacisinova, Marta, Sebastian Novak, and Tiago Paixao. “Modelling and
Simulation Details.” Public Library of Science, 2017. https://doi.org/10.1371/journal.pcbi.1005609.s001.
ieee: M. Lukacisinova, S. Novak, and T. Paixao, “Modelling and simulation details.”
Public Library of Science, 2017.
ista: Lukacisinova M, Novak S, Paixao T. 2017. Modelling and simulation details,
Public Library of Science, 10.1371/journal.pcbi.1005609.s001.
mla: Lukacisinova, Marta, et al. Modelling and Simulation Details. Public
Library of Science, 2017, doi:10.1371/journal.pcbi.1005609.s001.
short: M. Lukacisinova, S. Novak, T. Paixao, (2017).
date_created: 2021-08-09T14:02:34Z
date_published: 2017-07-18T00:00:00Z
date_updated: 2023-02-23T12:55:39Z
day: '18'
department:
- _id: ToBo
- _id: NiBa
- _id: CaGu
doi: 10.1371/journal.pcbi.1005609.s001
month: '07'
oa_version: Published Version
publisher: Public Library of Science
related_material:
record:
- id: '696'
relation: used_in_publication
status: public
status: public
title: Modelling and simulation details
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '9850'
abstract:
- lang: eng
text: In this text, we discuss how a cost of resistance and the possibility of lethal
mutations impact our model.
article_processing_charge: No
author:
- first_name: Marta
full_name: Lukacisinova, Marta
id: 4342E402-F248-11E8-B48F-1D18A9856A87
last_name: Lukacisinova
orcid: 0000-0002-2519-8004
- first_name: Sebastian
full_name: Novak, Sebastian
id: 461468AE-F248-11E8-B48F-1D18A9856A87
last_name: Novak
- first_name: Tiago
full_name: Paixao, Tiago
id: 2C5658E6-F248-11E8-B48F-1D18A9856A87
last_name: Paixao
orcid: 0000-0003-2361-3953
citation:
ama: Lukacisinova M, Novak S, Paixao T. Extensions of the model. 2017. doi:10.1371/journal.pcbi.1005609.s002
apa: Lukacisinova, M., Novak, S., & Paixao, T. (2017). Extensions of the model.
Public Library of Science. https://doi.org/10.1371/journal.pcbi.1005609.s002
chicago: Lukacisinova, Marta, Sebastian Novak, and Tiago Paixao. “Extensions of
the Model.” Public Library of Science, 2017. https://doi.org/10.1371/journal.pcbi.1005609.s002.
ieee: M. Lukacisinova, S. Novak, and T. Paixao, “Extensions of the model.” Public
Library of Science, 2017.
ista: Lukacisinova M, Novak S, Paixao T. 2017. Extensions of the model, Public Library
of Science, 10.1371/journal.pcbi.1005609.s002.
mla: Lukacisinova, Marta, et al. Extensions of the Model. Public Library
of Science, 2017, doi:10.1371/journal.pcbi.1005609.s002.
short: M. Lukacisinova, S. Novak, T. Paixao, (2017).
date_created: 2021-08-09T14:05:24Z
date_published: 2017-07-18T00:00:00Z
date_updated: 2023-02-23T12:55:39Z
day: '18'
department:
- _id: ToBo
- _id: CaGu
- _id: NiBa
doi: 10.1371/journal.pcbi.1005609.s002
month: '07'
oa_version: Published Version
publisher: Public Library of Science
related_material:
record:
- id: '696'
relation: used_in_publication
status: public
status: public
title: Extensions of the model
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '9846'
article_processing_charge: No
author:
- first_name: Nela
full_name: Nikolic, Nela
id: 42D9CABC-F248-11E8-B48F-1D18A9856A87
last_name: Nikolic
orcid: 0000-0001-9068-6090
- first_name: Frank
full_name: Schreiber, Frank
last_name: Schreiber
- first_name: Alma
full_name: Dal Co, Alma
last_name: Dal Co
- first_name: Daniel
full_name: Kiviet, Daniel
last_name: Kiviet
- first_name: Tobias
full_name: Bergmiller, Tobias
id: 2C471CFA-F248-11E8-B48F-1D18A9856A87
last_name: Bergmiller
orcid: 0000-0001-5396-4346
- first_name: Sten
full_name: Littmann, Sten
last_name: Littmann
- first_name: Marcel
full_name: Kuypers, Marcel
last_name: Kuypers
- first_name: Martin
full_name: Ackermann, Martin
last_name: Ackermann
citation:
ama: Nikolic N, Schreiber F, Dal Co A, et al. Supplementary methods. 2017. doi:10.1371/journal.pgen.1007122.s016
apa: Nikolic, N., Schreiber, F., Dal Co, A., Kiviet, D., Bergmiller, T., Littmann,
S., … Ackermann, M. (2017). Supplementary methods. Public Library of Science.
https://doi.org/10.1371/journal.pgen.1007122.s016
chicago: Nikolic, Nela, Frank Schreiber, Alma Dal Co, Daniel Kiviet, Tobias Bergmiller,
Sten Littmann, Marcel Kuypers, and Martin Ackermann. “Supplementary Methods.”
Public Library of Science, 2017. https://doi.org/10.1371/journal.pgen.1007122.s016.
ieee: N. Nikolic et al., “Supplementary methods.” Public Library of Science,
2017.
ista: Nikolic N, Schreiber F, Dal Co A, Kiviet D, Bergmiller T, Littmann S, Kuypers
M, Ackermann M. 2017. Supplementary methods, Public Library of Science, 10.1371/journal.pgen.1007122.s016.
mla: Nikolic, Nela, et al. Supplementary Methods. Public Library of Science,
2017, doi:10.1371/journal.pgen.1007122.s016.
short: N. Nikolic, F. Schreiber, A. Dal Co, D. Kiviet, T. Bergmiller, S. Littmann,
M. Kuypers, M. Ackermann, (2017).
date_created: 2021-08-09T13:35:17Z
date_published: 2017-12-18T00:00:00Z
date_updated: 2023-02-23T12:25:04Z
day: '18'
department:
- _id: CaGu
doi: 10.1371/journal.pgen.1007122.s016
month: '12'
oa_version: Published Version
publisher: Public Library of Science
related_material:
record:
- id: '541'
relation: used_in_publication
status: public
status: public
title: Supplementary methods
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '680'
abstract:
- lang: eng
text: In order to respond reliably to specific features of their environment, sensory
neurons need to integrate multiple incoming noisy signals. Crucially, they also
need to compete for the interpretation of those signals with other neurons representing
similar features. The form that this competition should take depends critically
on the noise corrupting these signals. In this study we show that for the type
of noise commonly observed in sensory systems, whose variance scales with the
mean signal, sensory neurons should selectively divide their input signals by
their predictions, suppressing ambiguous cues while amplifying others. Any change
in the stimulus context alters which inputs are suppressed, leading to a deep
dynamic reshaping of neural receptive fields going far beyond simple surround
suppression. Paradoxically, these highly variable receptive fields go alongside
and are in fact required for an invariant representation of external sensory features.
In addition to offering a normative account of context-dependent changes in sensory
responses, perceptual inference in the presence of signal-dependent noise accounts
for ubiquitous features of sensory neurons such as divisive normalization, gain
control and contrast dependent temporal dynamics.
article_number: e1005582
author:
- first_name: Matthew J
full_name: Chalk, Matthew J
id: 2BAAC544-F248-11E8-B48F-1D18A9856A87
last_name: Chalk
orcid: 0000-0001-7782-4436
- first_name: Paul
full_name: Masset, Paul
last_name: Masset
- first_name: Boris
full_name: Gutkin, Boris
last_name: Gutkin
- first_name: Sophie
full_name: Denève, Sophie
last_name: Denève
citation:
ama: Chalk MJ, Masset P, Gutkin B, Denève S. Sensory noise predicts divisive reshaping
of receptive fields. PLoS Computational Biology. 2017;13(6). doi:10.1371/journal.pcbi.1005582
apa: Chalk, M. J., Masset, P., Gutkin, B., & Denève, S. (2017). Sensory noise
predicts divisive reshaping of receptive fields. PLoS Computational Biology.
Public Library of Science. https://doi.org/10.1371/journal.pcbi.1005582
chicago: Chalk, Matthew J, Paul Masset, Boris Gutkin, and Sophie Denève. “Sensory
Noise Predicts Divisive Reshaping of Receptive Fields.” PLoS Computational
Biology. Public Library of Science, 2017. https://doi.org/10.1371/journal.pcbi.1005582.
ieee: M. J. Chalk, P. Masset, B. Gutkin, and S. Denève, “Sensory noise predicts
divisive reshaping of receptive fields,” PLoS Computational Biology, vol.
13, no. 6. Public Library of Science, 2017.
ista: Chalk MJ, Masset P, Gutkin B, Denève S. 2017. Sensory noise predicts divisive
reshaping of receptive fields. PLoS Computational Biology. 13(6), e1005582.
mla: Chalk, Matthew J., et al. “Sensory Noise Predicts Divisive Reshaping of Receptive
Fields.” PLoS Computational Biology, vol. 13, no. 6, e1005582, Public Library
of Science, 2017, doi:10.1371/journal.pcbi.1005582.
short: M.J. Chalk, P. Masset, B. Gutkin, S. Denève, PLoS Computational Biology 13
(2017).
date_created: 2018-12-11T11:47:53Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2023-02-23T14:10:54Z
day: '01'
ddc:
- '571'
department:
- _id: GaTk
doi: 10.1371/journal.pcbi.1005582
file:
- access_level: open_access
checksum: 796a1026076af6f4405a47d985bc7b68
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:07:47Z
date_updated: 2020-07-14T12:47:40Z
file_id: '4645'
file_name: IST-2017-898-v1+1_journal.pcbi.1005582.pdf
file_size: 14555676
relation: main_file
file_date_updated: 2020-07-14T12:47:40Z
has_accepted_license: '1'
intvolume: ' 13'
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: PLoS Computational Biology
publication_identifier:
issn:
- 1553734X
publication_status: published
publisher: Public Library of Science
publist_id: '7035'
pubrep_id: '898'
quality_controlled: '1'
related_material:
record:
- id: '9855'
relation: research_data
status: public
scopus_import: 1
status: public
title: Sensory noise predicts divisive reshaping of receptive fields
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2017'
...
---
_id: '9851'
abstract:
- lang: eng
text: Based on the intuitive derivation of the dynamics of SIM allele frequency
pM in the main text, we present a heuristic prediction for the long-term SIM allele
frequencies with χ > 1 stresses and compare it to numerical simulations.
article_processing_charge: No
author:
- first_name: Marta
full_name: Lukacisinova, Marta
id: 4342E402-F248-11E8-B48F-1D18A9856A87
last_name: Lukacisinova
orcid: 0000-0002-2519-8004
- first_name: Sebastian
full_name: Novak, Sebastian
id: 461468AE-F248-11E8-B48F-1D18A9856A87
last_name: Novak
- first_name: Tiago
full_name: Paixao, Tiago
id: 2C5658E6-F248-11E8-B48F-1D18A9856A87
last_name: Paixao
orcid: 0000-0003-2361-3953
citation:
ama: Lukacisinova M, Novak S, Paixao T. Heuristic prediction for multiple stresses.
2017. doi:10.1371/journal.pcbi.1005609.s003
apa: Lukacisinova, M., Novak, S., & Paixao, T. (2017). Heuristic prediction
for multiple stresses. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1005609.s003
chicago: Lukacisinova, Marta, Sebastian Novak, and Tiago Paixao. “Heuristic Prediction
for Multiple Stresses.” Public Library of Science, 2017. https://doi.org/10.1371/journal.pcbi.1005609.s003.
ieee: M. Lukacisinova, S. Novak, and T. Paixao, “Heuristic prediction for multiple
stresses.” Public Library of Science, 2017.
ista: Lukacisinova M, Novak S, Paixao T. 2017. Heuristic prediction for multiple
stresses, Public Library of Science, 10.1371/journal.pcbi.1005609.s003.
mla: Lukacisinova, Marta, et al. Heuristic Prediction for Multiple Stresses.
Public Library of Science, 2017, doi:10.1371/journal.pcbi.1005609.s003.
short: M. Lukacisinova, S. Novak, T. Paixao, (2017).
date_created: 2021-08-09T14:08:14Z
date_published: 2017-07-18T00:00:00Z
date_updated: 2023-02-23T12:55:39Z
day: '18'
department:
- _id: ToBo
- _id: CaGu
- _id: NiBa
doi: 10.1371/journal.pcbi.1005609.s003
month: '07'
oa_version: Published Version
publisher: Public Library of Science
related_material:
record:
- id: '696'
relation: used_in_publication
status: public
status: public
title: Heuristic prediction for multiple stresses
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '9852'
abstract:
- lang: eng
text: We show how different combination strategies affect the fraction of individuals
that are multi-resistant.
article_processing_charge: No
author:
- first_name: Marta
full_name: Lukacisinova, Marta
id: 4342E402-F248-11E8-B48F-1D18A9856A87
last_name: Lukacisinova
orcid: 0000-0002-2519-8004
- first_name: Sebastian
full_name: Novak, Sebastian
id: 461468AE-F248-11E8-B48F-1D18A9856A87
last_name: Novak
- first_name: Tiago
full_name: Paixao, Tiago
id: 2C5658E6-F248-11E8-B48F-1D18A9856A87
last_name: Paixao
orcid: 0000-0003-2361-3953
citation:
ama: Lukacisinova M, Novak S, Paixao T. Resistance frequencies for different combination
strategies. 2017. doi:10.1371/journal.pcbi.1005609.s004
apa: Lukacisinova, M., Novak, S., & Paixao, T. (2017). Resistance frequencies
for different combination strategies. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1005609.s004
chicago: Lukacisinova, Marta, Sebastian Novak, and Tiago Paixao. “Resistance Frequencies
for Different Combination Strategies.” Public Library of Science, 2017. https://doi.org/10.1371/journal.pcbi.1005609.s004.
ieee: M. Lukacisinova, S. Novak, and T. Paixao, “Resistance frequencies for different
combination strategies.” Public Library of Science, 2017.
ista: Lukacisinova M, Novak S, Paixao T. 2017. Resistance frequencies for different
combination strategies, Public Library of Science, 10.1371/journal.pcbi.1005609.s004.
mla: Lukacisinova, Marta, et al. Resistance Frequencies for Different Combination
Strategies. Public Library of Science, 2017, doi:10.1371/journal.pcbi.1005609.s004.
short: M. Lukacisinova, S. Novak, T. Paixao, (2017).
date_created: 2021-08-09T14:11:40Z
date_published: 2017-07-18T00:00:00Z
date_updated: 2023-02-23T12:55:39Z
day: '18'
department:
- _id: ToBo
- _id: CaGu
- _id: NiBa
doi: 10.1371/journal.pcbi.1005609.s004
month: '07'
oa_version: Published Version
publisher: Public Library of Science
related_material:
record:
- id: '696'
relation: used_in_publication
status: public
status: public
title: Resistance frequencies for different combination strategies
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '9855'
abstract:
- lang: eng
text: Includes derivation of optimal estimation algorithm, generalisation to non-poisson
noise statistics, correlated input noise, and implementation of in a multi-layer
neural network.
article_processing_charge: No
author:
- first_name: Matthew J
full_name: Chalk, Matthew J
id: 2BAAC544-F248-11E8-B48F-1D18A9856A87
last_name: Chalk
orcid: 0000-0001-7782-4436
- first_name: Paul
full_name: Masset, Paul
last_name: Masset
- first_name: Boris
full_name: Gutkin, Boris
last_name: Gutkin
- first_name: Sophie
full_name: Denève, Sophie
last_name: Denève
citation:
ama: Chalk MJ, Masset P, Gutkin B, Denève S. Supplementary appendix. 2017. doi:10.1371/journal.pcbi.1005582.s001
apa: Chalk, M. J., Masset, P., Gutkin, B., & Denève, S. (2017). Supplementary
appendix. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1005582.s001
chicago: Chalk, Matthew J, Paul Masset, Boris Gutkin, and Sophie Denève. “Supplementary
Appendix.” Public Library of Science, 2017. https://doi.org/10.1371/journal.pcbi.1005582.s001.
ieee: M. J. Chalk, P. Masset, B. Gutkin, and S. Denève, “Supplementary appendix.”
Public Library of Science, 2017.
ista: Chalk MJ, Masset P, Gutkin B, Denève S. 2017. Supplementary appendix, Public
Library of Science, 10.1371/journal.pcbi.1005582.s001.
mla: Chalk, Matthew J., et al. Supplementary Appendix. Public Library of
Science, 2017, doi:10.1371/journal.pcbi.1005582.s001.
short: M.J. Chalk, P. Masset, B. Gutkin, S. Denève, (2017).
date_created: 2021-08-10T07:05:10Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2023-02-23T12:52:17Z
day: '01'
department:
- _id: GaTk
doi: 10.1371/journal.pcbi.1005582.s001
month: '06'
oa_version: Published Version
publisher: Public Library of Science
related_material:
record:
- id: '680'
relation: used_in_publication
status: public
status: public
title: Supplementary appendix
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '941'
abstract:
- lang: eng
text: 'Recently there has been a proliferation of automated program repair (APR)
techniques, targeting various programming languages. Such techniques can be generally
classified into two families: syntactic- and semantics-based. Semantics-based
APR, on which we focus, typically uses symbolic execution to infer semantic constraints
and then program synthesis to construct repairs conforming to them. While syntactic-based
APR techniques have been shown successful on bugs in real-world programs written
in both C and Java, semantics-based APR techniques mostly target C programs. This
leaves empirical comparisons of the APR families not fully explored, and developers
without a Java-based semantics APR technique. We present JFix, a semantics-based
APR framework that targets Java, and an associated Eclipse plugin. JFix is implemented
atop Symbolic PathFinder, a well-known symbolic execution engine for Java programs.
It extends one particular APR technique (Angelix), and is designed to be sufficiently
generic to support a variety of such techniques. We demonstrate that semantics-based
APR can indeed efficiently and effectively repair a variety of classes of bugs
in large real-world Java programs. This supports our claim that the framework
can both support developers seeking semantics-based repair of bugs in Java programs,
as well as enable larger scale empirical studies comparing syntactic- and semantics-based
APR targeting Java. The demonstration of our tool is available via the project
website at: https://xuanbachle.github.io/semanticsrepair/ '
author:
- first_name: Xuan
full_name: Le, Xuan
last_name: Le
- first_name: Duc Hiep
full_name: Chu, Duc Hiep
id: 3598E630-F248-11E8-B48F-1D18A9856A87
last_name: Chu
- first_name: David
full_name: Lo, David
last_name: Lo
- first_name: Claire
full_name: Le Goues, Claire
last_name: Le Goues
- first_name: Willem
full_name: Visser, Willem
last_name: Visser
citation:
ama: 'Le X, Chu DH, Lo D, Le Goues C, Visser W. JFIX: Semantics-based repair of
Java programs via symbolic PathFinder. In: Proceedings of the 26th ACM SIGSOFT
International Symposium on Software Testing and Analysis. ACM; 2017:376-379.
doi:10.1145/3092703.3098225'
apa: 'Le, X., Chu, D. H., Lo, D., Le Goues, C., & Visser, W. (2017). JFIX: Semantics-based
repair of Java programs via symbolic PathFinder. In Proceedings of the 26th
ACM SIGSOFT International Symposium on Software Testing and Analysis (pp.
376–379). Santa Barbara, CA, United States: ACM. https://doi.org/10.1145/3092703.3098225'
chicago: 'Le, Xuan, Duc Hiep Chu, David Lo, Claire Le Goues, and Willem Visser.
“JFIX: Semantics-Based Repair of Java Programs via Symbolic PathFinder.” In Proceedings
of the 26th ACM SIGSOFT International Symposium on Software Testing and Analysis,
376–79. ACM, 2017. https://doi.org/10.1145/3092703.3098225.'
ieee: 'X. Le, D. H. Chu, D. Lo, C. Le Goues, and W. Visser, “JFIX: Semantics-based
repair of Java programs via symbolic PathFinder,” in Proceedings of the 26th
ACM SIGSOFT International Symposium on Software Testing and Analysis, Santa
Barbara, CA, United States, 2017, pp. 376–379.'
ista: 'Le X, Chu DH, Lo D, Le Goues C, Visser W. 2017. JFIX: Semantics-based repair
of Java programs via symbolic PathFinder. Proceedings of the 26th ACM SIGSOFT
International Symposium on Software Testing and Analysis. ISSTA: International
Symposium on Software Testing and Analysis, 376–379.'
mla: 'Le, Xuan, et al. “JFIX: Semantics-Based Repair of Java Programs via Symbolic
PathFinder.” Proceedings of the 26th ACM SIGSOFT International Symposium on
Software Testing and Analysis, ACM, 2017, pp. 376–79, doi:10.1145/3092703.3098225.'
short: X. Le, D.H. Chu, D. Lo, C. Le Goues, W. Visser, in:, Proceedings of the 26th
ACM SIGSOFT International Symposium on Software Testing and Analysis, ACM, 2017,
pp. 376–379.
conference:
end_date: 2017-07-14
location: Santa Barbara, CA, United States
name: 'ISSTA: International Symposium on Software Testing and Analysis'
start_date: 2017-07-10
date_created: 2018-12-11T11:49:19Z
date_published: 2017-07-10T00:00:00Z
date_updated: 2021-01-12T08:22:05Z
day: '10'
department:
- _id: ToHe
doi: 10.1145/3092703.3098225
language:
- iso: eng
month: '07'
oa_version: None
page: '376 - 379 '
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
publication: Proceedings of the 26th ACM SIGSOFT International Symposium on Software
Testing and Analysis
publication_status: published
publisher: ACM
publist_id: '6478'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'JFIX: Semantics-based repair of Java programs via symbolic PathFinder'
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2017'
...