---
_id: '1421'
abstract:
- lang: eng
text: 'Hybridization methods enable the analysis of hybrid automata with complex,
nonlinear dynamics through a sound abstraction process. Complex dynamics are converted
to simpler ones with added noise, and then analysis is done using a reachability
method for the simpler dynamics. Several such recent approaches advocate that
only "dynamic" hybridization techniquesi.e., those where the dynamics
are abstracted on-The-fly during a reachability computation are effective. In
this paper, we demonstrate this is not the case, and create static hybridization
methods that are more scalable than earlier approaches. The main insight in our
approach is that quick, numeric simulations can be used to guide the process,
eliminating the need for an exponential number of hybridization domains. Transitions
between domains are generally timetriggered, avoiding accumulated error from geometric
intersections. We enhance our static technique by combining time-Triggered transitions
with occasional space-Triggered transitions, and demonstrate the benefits of the
combined approach in what we call mixed-Triggered hybridization. Finally, error
modes are inserted to confirm that the reachable states stay within the hybridized
regions. The developed techniques can scale to higher dimensions than previous
static approaches, while enabling the parallelization of the main performance
bottleneck for many dynamic hybridization approaches: The nonlinear optimization
required for sound dynamics abstraction. We implement our method as a model transformation
pass in the HYST tool, and perform reachability analysis and evaluation using
an unmodified version of SpaceEx on nonlinear models with up to six dimensions.'
author:
- first_name: Stanley
full_name: Bak, Stanley
last_name: Bak
- first_name: Sergiy
full_name: Bogomolov, Sergiy
id: 369D9A44-F248-11E8-B48F-1D18A9856A87
last_name: Bogomolov
orcid: 0000-0002-0686-0365
- 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: Taylor
full_name: Johnson, Taylor
last_name: Johnson
- first_name: Pradyot
full_name: Prakash, Pradyot
last_name: Prakash
citation:
ama: 'Bak S, Bogomolov S, Henzinger TA, Johnson T, Prakash P. Scalable static hybridization
methods for analysis of nonlinear systems. In: Springer; 2016:155-164. doi:10.1145/2883817.2883837'
apa: 'Bak, S., Bogomolov, S., Henzinger, T. A., Johnson, T., & Prakash, P. (2016).
Scalable static hybridization methods for analysis of nonlinear systems (pp. 155–164).
Presented at the HSCC 2016: International Conference on Hybrid Systems: Computation
and Control, Vienna, Austria: Springer. https://doi.org/10.1145/2883817.2883837'
chicago: Bak, Stanley, Sergiy Bogomolov, Thomas A Henzinger, Taylor Johnson, and
Pradyot Prakash. “Scalable Static Hybridization Methods for Analysis of Nonlinear
Systems,” 155–64. Springer, 2016. https://doi.org/10.1145/2883817.2883837.
ieee: 'S. Bak, S. Bogomolov, T. A. Henzinger, T. Johnson, and P. Prakash, “Scalable
static hybridization methods for analysis of nonlinear systems,” presented at
the HSCC 2016: International Conference on Hybrid Systems: Computation and Control,
Vienna, Austria, 2016, pp. 155–164.'
ista: 'Bak S, Bogomolov S, Henzinger TA, Johnson T, Prakash P. 2016. Scalable static
hybridization methods for analysis of nonlinear systems. HSCC 2016: International
Conference on Hybrid Systems: Computation and Control, 155–164.'
mla: Bak, Stanley, et al. Scalable Static Hybridization Methods for Analysis
of Nonlinear Systems. Springer, 2016, pp. 155–64, doi:10.1145/2883817.2883837.
short: S. Bak, S. Bogomolov, T.A. Henzinger, T. Johnson, P. Prakash, in:, Springer,
2016, pp. 155–164.
conference:
end_date: 2016-04-14
location: Vienna, Austria
name: 'HSCC 2016: International Conference on Hybrid Systems: Computation and Control'
start_date: 2016-04-12
date_created: 2018-12-11T11:51:55Z
date_published: 2016-04-11T00:00:00Z
date_updated: 2021-01-12T06:50:37Z
day: '11'
department:
- _id: ToHe
doi: 10.1145/2883817.2883837
ec_funded: 1
language:
- iso: eng
month: '04'
oa_version: None
page: 155 - 164
project:
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '267989'
name: Quantitative Reactive Modeling
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: The Wittgenstein Prize
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
publication_status: published
publisher: Springer
publist_id: '5786'
quality_controlled: '1'
scopus_import: 1
status: public
title: Scalable static hybridization methods for analysis of nonlinear systems
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '1422'
abstract:
- lang: eng
text: We study the time-dependent Bogoliubov–de-Gennes equations for generic translation-invariant
fermionic many-body systems. For initial states that are close to thermal equilibrium
states at temperatures near the critical temperature, we show that the magnitude
of the order parameter stays approximately constant in time and, in particular,
does not follow a time-dependent Ginzburg–Landau equation, which is often employed
as a phenomenological description and predicts a decay of the order parameter
in time. The full non-linear structure of the equations is necessary to understand
this behavior.
acknowledgement: 'Open access funding provided by Institute of Science and Technology
(IST Austria). '
article_processing_charge: Yes (via OA deal)
author:
- first_name: Rupert
full_name: Frank, Rupert
last_name: Frank
- first_name: Christian
full_name: Hainzl, Christian
last_name: Hainzl
- first_name: Benjamin
full_name: Schlein, Benjamin
last_name: Schlein
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Frank R, Hainzl C, Schlein B, Seiringer R. Incompatibility of time-dependent
Bogoliubov–de-Gennes and Ginzburg–Landau equations. Letters in Mathematical
Physics. 2016;106(7):913-923. doi:10.1007/s11005-016-0847-5
apa: Frank, R., Hainzl, C., Schlein, B., & Seiringer, R. (2016). Incompatibility
of time-dependent Bogoliubov–de-Gennes and Ginzburg–Landau equations. Letters
in Mathematical Physics. Springer. https://doi.org/10.1007/s11005-016-0847-5
chicago: Frank, Rupert, Christian Hainzl, Benjamin Schlein, and Robert Seiringer.
“Incompatibility of Time-Dependent Bogoliubov–de-Gennes and Ginzburg–Landau Equations.”
Letters in Mathematical Physics. Springer, 2016. https://doi.org/10.1007/s11005-016-0847-5.
ieee: R. Frank, C. Hainzl, B. Schlein, and R. Seiringer, “Incompatibility of time-dependent
Bogoliubov–de-Gennes and Ginzburg–Landau equations,” Letters in Mathematical
Physics, vol. 106, no. 7. Springer, pp. 913–923, 2016.
ista: Frank R, Hainzl C, Schlein B, Seiringer R. 2016. Incompatibility of time-dependent
Bogoliubov–de-Gennes and Ginzburg–Landau equations. Letters in Mathematical Physics.
106(7), 913–923.
mla: Frank, Rupert, et al. “Incompatibility of Time-Dependent Bogoliubov–de-Gennes
and Ginzburg–Landau Equations.” Letters in Mathematical Physics, vol. 106,
no. 7, Springer, 2016, pp. 913–23, doi:10.1007/s11005-016-0847-5.
short: R. Frank, C. Hainzl, B. Schlein, R. Seiringer, Letters in Mathematical Physics
106 (2016) 913–923.
date_created: 2018-12-11T11:51:56Z
date_published: 2016-07-01T00:00:00Z
date_updated: 2021-01-12T06:50:38Z
day: '01'
ddc:
- '510'
- '530'
department:
- _id: RoSe
doi: 10.1007/s11005-016-0847-5
file:
- access_level: open_access
checksum: fb404923d8ca9a1faeb949561f26cbea
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:57Z
date_updated: 2020-07-14T12:44:53Z
file_id: '5181'
file_name: IST-2016-591-v1+1_s11005-016-0847-5.pdf
file_size: 458968
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 106'
issue: '7'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '07'
oa: 1
oa_version: Published Version
page: 913 - 923
project:
- _id: 25C878CE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27533_N27
name: Structure of the Excitation Spectrum for Many-Body Quantum Systems
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Letters in Mathematical Physics
publication_status: published
publisher: Springer
publist_id: '5785'
pubrep_id: '591'
quality_controlled: '1'
scopus_import: 1
status: public
title: Incompatibility of time-dependent Bogoliubov–de-Gennes and Ginzburg–Landau
equations
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: 106
year: '2016'
...
---
_id: '1423'
abstract:
- lang: eng
text: 'Direct reciprocity is a mechanism for the evolution of cooperation based
on repeated interactions. When individuals meet repeatedly, they can use conditional
strategies to enforce cooperative outcomes that would not be feasible in one-shot
social dilemmas. Direct reciprocity requires that individuals keep track of their
past interactions and find the right response. However, there are natural bounds
on strategic complexity: Humans find it difficult to remember past interactions
accurately, especially over long timespans. Given these limitations, it is natural
to ask how complex strategies need to be for cooperation to evolve. Here, we study
stochastic evolutionary game dynamics in finite populations to systematically
compare the evolutionary performance of reactive strategies, which only respond
to the co-player''s previous move, and memory-one strategies, which take into
account the own and the co-player''s previous move. In both cases, we compare
deterministic strategy and stochastic strategy spaces. For reactive strategies
and small costs, we find that stochasticity benefits cooperation, because it allows
for generous-tit-for-tat. For memory one strategies and small costs, we find that
stochasticity does not increase the propensity for cooperation, because the deterministic
rule of win-stay, lose-shift works best. For memory one strategies and large costs,
however, stochasticity can augment cooperation.'
acknowledgement: C.H. acknowledges generous funding from the Schrödinger scholarship
of the Austrian Science Fund (FWF), J3475.
article_number: '25676'
author:
- first_name: Seung
full_name: Baek, Seung
last_name: Baek
- first_name: Hyeongchai
full_name: Jeong, Hyeongchai
last_name: Jeong
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
- first_name: Martin
full_name: Nowak, Martin
last_name: Nowak
citation:
ama: Baek S, Jeong H, Hilbe C, Nowak M. Comparing reactive and memory-one strategies
of direct reciprocity. Scientific Reports. 2016;6. doi:10.1038/srep25676
apa: Baek, S., Jeong, H., Hilbe, C., & Nowak, M. (2016). Comparing reactive
and memory-one strategies of direct reciprocity. Scientific Reports. Nature
Publishing Group. https://doi.org/10.1038/srep25676
chicago: Baek, Seung, Hyeongchai Jeong, Christian Hilbe, and Martin Nowak. “Comparing
Reactive and Memory-One Strategies of Direct Reciprocity.” Scientific Reports.
Nature Publishing Group, 2016. https://doi.org/10.1038/srep25676.
ieee: S. Baek, H. Jeong, C. Hilbe, and M. Nowak, “Comparing reactive and memory-one
strategies of direct reciprocity,” Scientific Reports, vol. 6. Nature Publishing
Group, 2016.
ista: Baek S, Jeong H, Hilbe C, Nowak M. 2016. Comparing reactive and memory-one
strategies of direct reciprocity. Scientific Reports. 6, 25676.
mla: Baek, Seung, et al. “Comparing Reactive and Memory-One Strategies of Direct
Reciprocity.” Scientific Reports, vol. 6, 25676, Nature Publishing Group,
2016, doi:10.1038/srep25676.
short: S. Baek, H. Jeong, C. Hilbe, M. Nowak, Scientific Reports 6 (2016).
date_created: 2018-12-11T11:51:56Z
date_published: 2016-05-10T00:00:00Z
date_updated: 2021-01-12T06:50:38Z
day: '10'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1038/srep25676
file:
- access_level: open_access
checksum: ee17c482370d2e1b3add393710d3c696
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:18:08Z
date_updated: 2020-07-14T12:44:53Z
file_id: '5327'
file_name: IST-2016-590-v1+1_srep25676.pdf
file_size: 1349915
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 6'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
publication: Scientific Reports
publication_status: published
publisher: Nature Publishing Group
publist_id: '5784'
pubrep_id: '590'
quality_controlled: '1'
scopus_import: 1
status: public
title: Comparing reactive and memory-one strategies of direct reciprocity
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: 6
year: '2016'
...
---
_id: '1426'
abstract:
- lang: eng
text: 'Brood parasites exploit their host in order to increase their own fitness.
Typically, this results in an arms race between parasite trickery and host defence.
Thus, it is puzzling to observe hosts that accept parasitism without any resistance.
The ‘mafia’ hypothesis suggests that these hosts accept parasitism to avoid retaliation.
Retaliation has been shown to evolve when the hosts condition their response to
mafia parasites, who use depredation as a targeted response to rejection. However,
it is unclear if acceptance would also emerge when ‘farming’ parasites are present
in the population. Farming parasites use depredation to synchronize the timing
with the host, destroying mature clutches to force the host to re-nest. Herein,
we develop an evolutionary model to analyse the interaction between depredatory
parasites and their hosts. We show that coevolutionary cycles between farmers
and mafia can still induce host acceptance of brood parasites. However, this equilibrium
is unstable and in the long-run the dynamics of this host–parasite interaction
exhibits strong oscillations: when farmers are the majority, accepters conditional
to mafia (the host will reject first and only accept after retaliation by the
parasite) have a higher fitness than unconditional accepters (the host always
accepts parasitism). This leads to an increase in mafia parasites’ fitness and
in turn induce an optimal environment for accepter hosts.'
acknowledgement: C.H. gratefully acknowledges funding by the Schrödinger scholarship
of the Austrian Science Fund (FWF) J3475.
article_number: '160036'
author:
- first_name: Maria
full_name: Chakra, Maria
last_name: Chakra
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
- first_name: Arne
full_name: Traulsen, Arne
last_name: Traulsen
citation:
ama: Chakra M, Hilbe C, Traulsen A. Coevolutionary interactions between farmers
and mafia induce host acceptance of avian brood parasites. Royal Society Open
Science. 2016;3(5). doi:10.1098/rsos.160036
apa: Chakra, M., Hilbe, C., & Traulsen, A. (2016). Coevolutionary interactions
between farmers and mafia induce host acceptance of avian brood parasites. Royal
Society Open Science. Royal Society, The. https://doi.org/10.1098/rsos.160036
chicago: Chakra, Maria, Christian Hilbe, and Arne Traulsen. “Coevolutionary Interactions
between Farmers and Mafia Induce Host Acceptance of Avian Brood Parasites.” Royal
Society Open Science. Royal Society, The, 2016. https://doi.org/10.1098/rsos.160036.
ieee: M. Chakra, C. Hilbe, and A. Traulsen, “Coevolutionary interactions between
farmers and mafia induce host acceptance of avian brood parasites,” Royal Society
Open Science, vol. 3, no. 5. Royal Society, The, 2016.
ista: Chakra M, Hilbe C, Traulsen A. 2016. Coevolutionary interactions between farmers
and mafia induce host acceptance of avian brood parasites. Royal Society Open
Science. 3(5), 160036.
mla: Chakra, Maria, et al. “Coevolutionary Interactions between Farmers and Mafia
Induce Host Acceptance of Avian Brood Parasites.” Royal Society Open Science,
vol. 3, no. 5, 160036, Royal Society, The, 2016, doi:10.1098/rsos.160036.
short: M. Chakra, C. Hilbe, A. Traulsen, Royal Society Open Science 3 (2016).
date_created: 2018-12-11T11:51:57Z
date_published: 2016-05-01T00:00:00Z
date_updated: 2021-01-12T06:50:39Z
day: '01'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1098/rsos.160036
file:
- access_level: open_access
checksum: bf84211b31fe87451e738ba301d729c3
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:49Z
date_updated: 2020-07-14T12:44:53Z
file_id: '5104'
file_name: IST-2016-589-v1+1_160036.full.pdf
file_size: 937002
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 3'
issue: '5'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
publication: Royal Society Open Science
publication_status: published
publisher: Royal Society, The
publist_id: '5776'
pubrep_id: '589'
quality_controlled: '1'
scopus_import: 1
status: public
title: Coevolutionary interactions between farmers and mafia induce host acceptance
of avian brood parasites
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: 3
year: '2016'
...
---
_id: '1427'
abstract:
- lang: eng
text: Changes in gene expression are an important mode of evolution; however, the
proximate mechanism of these changes is poorly understood. In particular, little
is known about the effects of mutations within cis binding sites for transcription
factors, or the nature of epistatic interactions between these mutations. Here,
we tested the effects of single and double mutants in two cis binding sites involved
in the transcriptional regulation of the Escherichia coli araBAD operon, a component
of arabinose metabolism, using a synthetic system. This system decouples transcriptional
control from any posttranslational effects on fitness, allowing a precise estimate
of the effect of single and double mutations, and hence epistasis, on gene expression.
We found that epistatic interactions between mutations in the araBAD cis-regulatory
element are common, and that the predominant form of epistasis is negative. The
magnitude of the interactions depended on whether the mutations are located in
the same or in different operator sites. Importantly, these epistatic interactions
were dependent on the presence of arabinose, a native inducer of the araBAD operon
in vivo, with some interactions changing in sign (e.g., from negative to positive)
in its presence. This study thus reveals that mutations in even relatively simple
cis-regulatory elements interact in complex ways such that selection on the level
of gene expression in one environment might perturb regulation in the other environment
in an unpredictable and uncorrelated manner.
author:
- first_name: Mato
full_name: Lagator, Mato
id: 345D25EC-F248-11E8-B48F-1D18A9856A87
last_name: Lagator
- first_name: Claudia
full_name: Igler, Claudia
id: 46613666-F248-11E8-B48F-1D18A9856A87
last_name: Igler
- first_name: Anaisa
full_name: Moreno, Anaisa
last_name: Moreno
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
- first_name: Jonathan P
full_name: Bollback, Jonathan P
id: 2C6FA9CC-F248-11E8-B48F-1D18A9856A87
last_name: Bollback
orcid: 0000-0002-4624-4612
citation:
ama: Lagator M, Igler C, Moreno A, Guet CC, Bollback JP. Epistatic interactions
in the arabinose cis-regulatory element. Molecular Biology and Evolution.
2016;33(3):761-769. doi:10.1093/molbev/msv269
apa: Lagator, M., Igler, C., Moreno, A., Guet, C. C., & Bollback, J. P. (2016).
Epistatic interactions in the arabinose cis-regulatory element. Molecular Biology
and Evolution. Oxford University Press. https://doi.org/10.1093/molbev/msv269
chicago: Lagator, Mato, Claudia Igler, Anaisa Moreno, Calin C Guet, and Jonathan
P Bollback. “Epistatic Interactions in the Arabinose Cis-Regulatory Element.”
Molecular Biology and Evolution. Oxford University Press, 2016. https://doi.org/10.1093/molbev/msv269.
ieee: M. Lagator, C. Igler, A. Moreno, C. C. Guet, and J. P. Bollback, “Epistatic
interactions in the arabinose cis-regulatory element,” Molecular Biology and
Evolution, vol. 33, no. 3. Oxford University Press, pp. 761–769, 2016.
ista: Lagator M, Igler C, Moreno A, Guet CC, Bollback JP. 2016. Epistatic interactions
in the arabinose cis-regulatory element. Molecular Biology and Evolution. 33(3),
761–769.
mla: Lagator, Mato, et al. “Epistatic Interactions in the Arabinose Cis-Regulatory
Element.” Molecular Biology and Evolution, vol. 33, no. 3, Oxford University
Press, 2016, pp. 761–69, doi:10.1093/molbev/msv269.
short: M. Lagator, C. Igler, A. Moreno, C.C. Guet, J.P. Bollback, Molecular Biology
and Evolution 33 (2016) 761–769.
date_created: 2018-12-11T11:51:57Z
date_published: 2016-03-01T00:00:00Z
date_updated: 2021-01-12T06:50:39Z
day: '01'
ddc:
- '570'
- '576'
department:
- _id: CaGu
- _id: JoBo
doi: 10.1093/molbev/msv269
ec_funded: 1
file:
- access_level: open_access
checksum: 1f456ce1d2aa2f67176a1709f9702ecf
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:09:27Z
date_updated: 2020-07-14T12:44:53Z
file_id: '4751'
file_name: IST-2016-588-v1+1_Mol_Biol_Evol-2016-Lagator-761-9.pdf
file_size: 648115
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 33'
issue: '3'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 761 - 769
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Molecular Biology and Evolution
publication_status: published
publisher: Oxford University Press
publist_id: '5772'
pubrep_id: '588'
quality_controlled: '1'
scopus_import: 1
status: public
title: Epistatic interactions in the arabinose cis-regulatory element
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: 33
year: '2016'
...
---
_id: '1428'
abstract:
- lang: eng
text: We report on a mathematically rigorous analysis of the superfluid properties
of a Bose- Einstein condensate in the many-body ground state of a one-dimensional
model of interacting bosons in a random potential.
article_number: '012016'
author:
- first_name: Martin
full_name: Könenberg, Martin
last_name: Könenberg
- first_name: Thomas
full_name: Moser, Thomas
id: 2B5FC9A4-F248-11E8-B48F-1D18A9856A87
last_name: Moser
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
- first_name: Jakob
full_name: Yngvason, Jakob
last_name: Yngvason
citation:
ama: 'Könenberg M, Moser T, Seiringer R, Yngvason J. Superfluidity and BEC in a
Model of Interacting Bosons in a Random Potential. In: Journal of Physics:
Conference Series. Vol 691. IOP Publishing Ltd.; 2016. doi:10.1088/1742-6596/691/1/012016'
apa: 'Könenberg, M., Moser, T., Seiringer, R., & Yngvason, J. (2016). Superfluidity
and BEC in a Model of Interacting Bosons in a Random Potential. In Journal
of Physics: Conference Series (Vol. 691). Shanghai, China: IOP Publishing
Ltd. https://doi.org/10.1088/1742-6596/691/1/012016'
chicago: 'Könenberg, Martin, Thomas Moser, Robert Seiringer, and Jakob Yngvason.
“Superfluidity and BEC in a Model of Interacting Bosons in a Random Potential.”
In Journal of Physics: Conference Series, Vol. 691. IOP Publishing Ltd.,
2016. https://doi.org/10.1088/1742-6596/691/1/012016.'
ieee: 'M. Könenberg, T. Moser, R. Seiringer, and J. Yngvason, “Superfluidity and
BEC in a Model of Interacting Bosons in a Random Potential,” in Journal of
Physics: Conference Series, Shanghai, China, 2016, vol. 691, no. 1.'
ista: 'Könenberg M, Moser T, Seiringer R, Yngvason J. 2016. Superfluidity and BEC
in a Model of Interacting Bosons in a Random Potential. Journal of Physics: Conference
Series. 24th International Laser Physics Workshop (LPHYS’15) vol. 691, 012016.'
mla: 'Könenberg, Martin, et al. “Superfluidity and BEC in a Model of Interacting
Bosons in a Random Potential.” Journal of Physics: Conference Series, vol.
691, no. 1, 012016, IOP Publishing Ltd., 2016, doi:10.1088/1742-6596/691/1/012016.'
short: 'M. Könenberg, T. Moser, R. Seiringer, J. Yngvason, in:, Journal of Physics:
Conference Series, IOP Publishing Ltd., 2016.'
conference:
end_date: 2015-08-25
location: Shanghai, China
name: 24th International Laser Physics Workshop (LPHYS'15)
start_date: 2015-08-21
date_created: 2018-12-11T11:51:58Z
date_published: 2016-03-07T00:00:00Z
date_updated: 2021-01-12T06:50:40Z
day: '07'
ddc:
- '510'
- '530'
department:
- _id: RoSe
doi: 10.1088/1742-6596/691/1/012016
file:
- access_level: open_access
checksum: 109db801749072c3f6c8f1a1848700fa
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:55Z
date_updated: 2020-07-14T12:44:53Z
file_id: '4847'
file_name: IST-2016-585-v1+1_JPCS_691_1_012016.pdf
file_size: 1434688
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 691'
issue: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
project:
- _id: 25C878CE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27533_N27
name: Structure of the Excitation Spectrum for Many-Body Quantum Systems
publication: 'Journal of Physics: Conference Series'
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '5770'
pubrep_id: '585'
quality_controlled: '1'
scopus_import: 1
status: public
title: Superfluidity and BEC in a Model of Interacting Bosons in a Random Potential
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: 691
year: '2016'
...
---
_id: '1429'
abstract:
- lang: eng
text: Solitons are localized waves formed by a balance of focusing and defocusing
effects. These nonlinear waves exist in diverse forms of matter yet exhibit similar
properties including stability, periodic recurrence and particle-like trajectories.
One important property is soliton fission, a process by which an energetic higher-order
soliton breaks apart due to dispersive or nonlinear perturbations. Here we demonstrate
through both experiment and theory that nonlinear photocarrier generation can
induce soliton fission. Using near-field measurements, we directly observe the
nonlinear spatial and temporal evolution of optical pulses in situ in a nanophotonic
semiconductor waveguide. We develop an analytic formalism describing the free-carrier
dispersion (FCD) perturbation and show the experiment exceeds the minimum threshold
by an order of magnitude. We confirm these observations with a numerical nonlinear
Schrödinger equation model. These results provide a fundamental explanation and
physical scaling of optical pulse evolution in free-carrier media and could enable
improved supercontinuum sources in gas based and integrated semiconductor waveguides.
acknowledgement: This research was supported by the Australian Research Council (ARC)
Center of Excellence CUDOS (CE110001018), ARC Laureate Fellowship (FL120100029),
ARC Discovery Early Career Researcher Award (DECRA DE120102069), the Netherlands
Foundation for Fundamental Research on Matter (FOM) and the Netherlands Organization
for Scientific Research (NWO). L.K. acknowledges funding from ERC Advanced Investigator
Grant (no. 240438-CONSTANS). A.D.R, S.C., and G.L. acknowledge financial support
from the ERC-Pharos programme lead by A. P. Mosk.
article_number: 11332 (2016)
author:
- first_name: Chad
full_name: Husko, Chad
last_name: Husko
- first_name: Matthias
full_name: Wulf, Matthias
id: 45598606-F248-11E8-B48F-1D18A9856A87
last_name: Wulf
orcid: 0000-0001-6613-1378
- first_name: Simon
full_name: Lefrançois, Simon
last_name: Lefrançois
- first_name: Sylvain
full_name: Combrié, Sylvain
last_name: Combrié
- first_name: Gaëlle
full_name: Lehoucq, Gaëlle
last_name: Lehoucq
- first_name: Alfredo
full_name: De Rossi, Alfredo
last_name: De Rossi
- first_name: Benjamin
full_name: Eggleton, Benjamin
last_name: Eggleton
- first_name: Laurens
full_name: Kuipers, Laurens
last_name: Kuipers
citation:
ama: Husko C, Wulf M, Lefrançois S, et al. Free-carrier-induced soliton fission
unveiled by in situ measurements in nanophotonic waveguides. Nature Communications.
2016;7. doi:10.1038/ncomms11332
apa: Husko, C., Wulf, M., Lefrançois, S., Combrié, S., Lehoucq, G., De Rossi, A.,
… Kuipers, L. (2016). Free-carrier-induced soliton fission unveiled by in situ
measurements in nanophotonic waveguides. Nature Communications. Nature
Publishing Group. https://doi.org/10.1038/ncomms11332
chicago: Husko, Chad, Matthias Wulf, Simon Lefrançois, Sylvain Combrié, Gaëlle Lehoucq,
Alfredo De Rossi, Benjamin Eggleton, and Laurens Kuipers. “Free-Carrier-Induced
Soliton Fission Unveiled by in Situ Measurements in Nanophotonic Waveguides.”
Nature Communications. Nature Publishing Group, 2016. https://doi.org/10.1038/ncomms11332.
ieee: C. Husko et al., “Free-carrier-induced soliton fission unveiled by
in situ measurements in nanophotonic waveguides,” Nature Communications,
vol. 7. Nature Publishing Group, 2016.
ista: Husko C, Wulf M, Lefrançois S, Combrié S, Lehoucq G, De Rossi A, Eggleton
B, Kuipers L. 2016. Free-carrier-induced soliton fission unveiled by in situ measurements
in nanophotonic waveguides. Nature Communications. 7, 11332 (2016).
mla: Husko, Chad, et al. “Free-Carrier-Induced Soliton Fission Unveiled by in Situ
Measurements in Nanophotonic Waveguides.” Nature Communications, vol. 7,
11332 (2016), Nature Publishing Group, 2016, doi:10.1038/ncomms11332.
short: C. Husko, M. Wulf, S. Lefrançois, S. Combrié, G. Lehoucq, A. De Rossi, B.
Eggleton, L. Kuipers, Nature Communications 7 (2016).
date_created: 2018-12-11T11:51:58Z
date_published: 2016-04-15T00:00:00Z
date_updated: 2021-01-12T06:50:40Z
day: '15'
ddc:
- '530'
department:
- _id: JoFi
doi: 10.1038/ncomms11332
file:
- access_level: open_access
checksum: 6484fa81a2e52e4fdd7935e1ae6091d4
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:53Z
date_updated: 2020-07-14T12:44:53Z
file_id: '5177'
file_name: IST-2016-583-v1+1_ncomms11332.pdf
file_size: 965176
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_status: published
publisher: Nature Publishing Group
publist_id: '5769'
pubrep_id: '583'
quality_controlled: '1'
scopus_import: 1
status: public
title: Free-carrier-induced soliton fission unveiled by in situ measurements in nanophotonic
waveguides
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: 7
year: '2016'
...
---
_id: '1431'
abstract:
- lang: eng
text: The rare socially parasitic butterfly Maculinea alcon occurs in two forms,
which are characteristic of hygric or xeric habitats and which exploit different
host plants and host ants. The status of these two forms has been the subject
of considerable controversy. Populations of the two forms are usually spatially
distinct, but at Răscruci in Romania both forms occur on the same site (syntopically).
We examined the genetic differentiation between the two forms using eight microsatellite
markers, and compared with a nearby hygric site, Şardu. Our results showed that
while the two forms are strongly differentiated at Răscruci, it is the xeric form
there that is most similar to the hygric form at Şardu, and Bayesian clustering
algorithms suggest that these two populations have exchanged genes relatively
recently. We found strong evidence for population substructuring, caused by high
within host ant nest relatedness, indicating very limited dispersal of most ovipositing
females, but not association with particular host ant species. Our results are
consistent with the results of larger scale phylogeographic studies that suggest
that the two forms represent local ecotypes specialising on different host plants,
each with a distinct flowering phenology, providing a temporal rather than spatial
barrier to gene flow.
article_number: '1865'
author:
- first_name: András
full_name: Tartally, András
last_name: Tartally
- first_name: Andreas
full_name: Kelager, Andreas
last_name: Kelager
- first_name: Matthias
full_name: Fürst, Matthias
id: 393B1196-F248-11E8-B48F-1D18A9856A87
last_name: Fürst
orcid: 0000-0002-3712-925X
- first_name: David
full_name: Nash, David
last_name: Nash
citation:
ama: Tartally A, Kelager A, Fürst M, Nash D. Host plant use drives genetic differentiation
in syntopic populations of Maculinea alcon. PeerJ. 2016;2016(3). doi:10.7717/peerj.1865
apa: Tartally, A., Kelager, A., Fürst, M., & Nash, D. (2016). Host plant use
drives genetic differentiation in syntopic populations of Maculinea alcon. PeerJ.
PeerJ. https://doi.org/10.7717/peerj.1865
chicago: Tartally, András, Andreas Kelager, Matthias Fürst, and David Nash. “Host
Plant Use Drives Genetic Differentiation in Syntopic Populations of Maculinea
Alcon.” PeerJ. PeerJ, 2016. https://doi.org/10.7717/peerj.1865.
ieee: A. Tartally, A. Kelager, M. Fürst, and D. Nash, “Host plant use drives genetic
differentiation in syntopic populations of Maculinea alcon,” PeerJ, vol.
2016, no. 3. PeerJ, 2016.
ista: Tartally A, Kelager A, Fürst M, Nash D. 2016. Host plant use drives genetic
differentiation in syntopic populations of Maculinea alcon. PeerJ. 2016(3), 1865.
mla: Tartally, András, et al. “Host Plant Use Drives Genetic Differentiation in
Syntopic Populations of Maculinea Alcon.” PeerJ, vol. 2016, no. 3, 1865,
PeerJ, 2016, doi:10.7717/peerj.1865.
short: A. Tartally, A. Kelager, M. Fürst, D. Nash, PeerJ 2016 (2016).
date_created: 2018-12-11T11:51:59Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:50:41Z
day: '01'
ddc:
- '570'
department:
- _id: SyCr
doi: 10.7717/peerj.1865
file:
- access_level: open_access
checksum: c27d898598a1e3d7f629607a309254e1
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:17:19Z
date_updated: 2020-07-14T12:44:53Z
file_id: '5272'
file_name: IST-2016-584-v1+1_peerj-1865.pdf
file_size: 1216360
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 2016'
issue: '3'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: PeerJ
publication_status: published
publisher: PeerJ
publist_id: '5767'
pubrep_id: '584'
quality_controlled: '1'
scopus_import: 1
status: public
title: Host plant use drives genetic differentiation in syntopic populations of Maculinea
alcon
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: 2016
year: '2016'
...
---
_id: '1432'
abstract:
- lang: eng
text: CA3–CA3 recurrent excitatory synapses are thought to play a key role in memory
storage and pattern completion. Whether the plasticity properties of these synapses
are consistent with their proposed network functions remains unclear. Here, we
examine the properties of spike timing-dependent plasticity (STDP) at CA3–CA3
synapses. Low-frequency pairing of excitatory postsynaptic potentials (EPSPs)
and action potentials (APs) induces long-term potentiation (LTP), independent
of temporal order. The STDP curve is symmetric and broad (half-width ~150 ms).
Consistent with these STDP induction properties, AP–EPSP sequences lead to supralinear
summation of spine [Ca2+] transients. Furthermore, afterdepolarizations (ADPs)
following APs efficiently propagate into dendrites of CA3 pyramidal neurons, and
EPSPs summate with dendritic ADPs. In autoassociative network models, storage
and recall are more robust with symmetric than with asymmetric STDP rules. Thus,
a specialized STDP induction rule allows reliable storage and recall of information
in the hippocampal CA3 network.
acknowledgement: 'We thank Jozsef Csicsvari and Nelson Spruston for critically reading
the manuscript. We also thank A. Schlögl for programming, F. Marr for technical
assistance and E. Kramberger for manuscript editing. '
article_number: '11552'
author:
- first_name: Rajiv Kumar
full_name: Mishra, Rajiv Kumar
id: 46CB58F2-F248-11E8-B48F-1D18A9856A87
last_name: Mishra
- first_name: Sooyun
full_name: Kim, Sooyun
id: 394AB1C8-F248-11E8-B48F-1D18A9856A87
last_name: Kim
- first_name: José
full_name: Guzmán, José
id: 30CC5506-F248-11E8-B48F-1D18A9856A87
last_name: Guzmán
orcid: 0000-0003-2209-5242
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
citation:
ama: Mishra RK, Kim S, Guzmán J, Jonas PM. Symmetric spike timing-dependent plasticity
at CA3–CA3 synapses optimizes storage and recall in autoassociative networks.
Nature Communications. 2016;7. doi:10.1038/ncomms11552
apa: Mishra, R. K., Kim, S., Guzmán, J., & Jonas, P. M. (2016). Symmetric spike
timing-dependent plasticity at CA3–CA3 synapses optimizes storage and recall in
autoassociative networks. Nature Communications. Nature Publishing Group.
https://doi.org/10.1038/ncomms11552
chicago: Mishra, Rajiv Kumar, Sooyun Kim, José Guzmán, and Peter M Jonas. “Symmetric
Spike Timing-Dependent Plasticity at CA3–CA3 Synapses Optimizes Storage and Recall
in Autoassociative Networks.” Nature Communications. Nature Publishing
Group, 2016. https://doi.org/10.1038/ncomms11552.
ieee: R. K. Mishra, S. Kim, J. Guzmán, and P. M. Jonas, “Symmetric spike timing-dependent
plasticity at CA3–CA3 synapses optimizes storage and recall in autoassociative
networks,” Nature Communications, vol. 7. Nature Publishing Group, 2016.
ista: Mishra RK, Kim S, Guzmán J, Jonas PM. 2016. Symmetric spike timing-dependent
plasticity at CA3–CA3 synapses optimizes storage and recall in autoassociative
networks. Nature Communications. 7, 11552.
mla: Mishra, Rajiv Kumar, et al. “Symmetric Spike Timing-Dependent Plasticity at
CA3–CA3 Synapses Optimizes Storage and Recall in Autoassociative Networks.” Nature
Communications, vol. 7, 11552, Nature Publishing Group, 2016, doi:10.1038/ncomms11552.
short: R.K. Mishra, S. Kim, J. Guzmán, P.M. Jonas, Nature Communications 7 (2016).
date_created: 2018-12-11T11:51:59Z
date_published: 2016-05-13T00:00:00Z
date_updated: 2023-09-07T11:55:25Z
day: '13'
ddc:
- '570'
department:
- _id: PeJo
doi: 10.1038/ncomms11552
ec_funded: 1
file:
- access_level: open_access
checksum: 7e84d0392348c874d473b62f1042de22
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:18:33Z
date_updated: 2020-07-14T12:44:53Z
file_id: '5355'
file_name: IST-2016-582-v1+1_ncomms11552.pdf
file_size: 4510512
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
project:
- _id: 25C26B1E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P24909-B24
name: Mechanisms of transmitter release at GABAergic synapses
- _id: 25C0F108-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '268548'
name: Nanophysiology of fast-spiking, parvalbumin-expressing GABAergic interneurons
publication: Nature Communications
publication_status: published
publisher: Nature Publishing Group
publist_id: '5766'
pubrep_id: '582'
quality_controlled: '1'
related_material:
record:
- id: '1396'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: Symmetric spike timing-dependent plasticity at CA3–CA3 synapses optimizes storage
and recall in autoassociative networks
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: 7
year: '2016'
...
---
_id: '1434'
abstract:
- lang: eng
text: We prove that the system of subordination equations, defining the free additive
convolution of two probability measures, is stable away from the edges of the
support and blow-up singularities by showing that the recent smoothness condition
of Kargin is always satisfied. As an application, we consider the local spectral
statistics of the random matrix ensemble A+UBU⁎A+UBU⁎, where U is a Haar distributed
random unitary or orthogonal matrix, and A and B are deterministic matrices.
In the bulk regime, we prove that the empirical spectral distribution of A+UBU⁎A+UBU⁎
concentrates around the free additive convolution of the spectral distributions
of A and B on scales down to N−2/3N−2/3.
author:
- first_name: Zhigang
full_name: Bao, Zhigang
id: 442E6A6C-F248-11E8-B48F-1D18A9856A87
last_name: Bao
orcid: 0000-0003-3036-1475
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Kevin
full_name: Schnelli, Kevin
id: 434AD0AE-F248-11E8-B48F-1D18A9856A87
last_name: Schnelli
orcid: 0000-0003-0954-3231
citation:
ama: Bao Z, Erdös L, Schnelli K. Local stability of the free additive convolution.
Journal of Functional Analysis. 2016;271(3):672-719. doi:10.1016/j.jfa.2016.04.006
apa: Bao, Z., Erdös, L., & Schnelli, K. (2016). Local stability of the free
additive convolution. Journal of Functional Analysis. Academic Press. https://doi.org/10.1016/j.jfa.2016.04.006
chicago: Bao, Zhigang, László Erdös, and Kevin Schnelli. “Local Stability of the
Free Additive Convolution.” Journal of Functional Analysis. Academic Press,
2016. https://doi.org/10.1016/j.jfa.2016.04.006.
ieee: Z. Bao, L. Erdös, and K. Schnelli, “Local stability of the free additive convolution,”
Journal of Functional Analysis, vol. 271, no. 3. Academic Press, pp. 672–719,
2016.
ista: Bao Z, Erdös L, Schnelli K. 2016. Local stability of the free additive convolution.
Journal of Functional Analysis. 271(3), 672–719.
mla: Bao, Zhigang, et al. “Local Stability of the Free Additive Convolution.” Journal
of Functional Analysis, vol. 271, no. 3, Academic Press, 2016, pp. 672–719,
doi:10.1016/j.jfa.2016.04.006.
short: Z. Bao, L. Erdös, K. Schnelli, Journal of Functional Analysis 271 (2016)
672–719.
date_created: 2018-12-11T11:52:00Z
date_published: 2016-08-01T00:00:00Z
date_updated: 2021-01-12T06:50:42Z
day: '01'
department:
- _id: LaEr
doi: 10.1016/j.jfa.2016.04.006
ec_funded: 1
intvolume: ' 271'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1508.05905
month: '08'
oa: 1
oa_version: Preprint
page: 672 - 719
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication: Journal of Functional Analysis
publication_status: published
publisher: Academic Press
publist_id: '5764'
quality_controlled: '1'
scopus_import: 1
status: public
title: Local stability of the free additive convolution
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 271
year: '2016'
...
---
_id: '1435'
abstract:
- lang: eng
text: ATP released from neurons and astrocytes during neuronal activity or under
pathophysiological circumstances is able to influence information flow in neuronal
circuits by activation of ionotropic P2X and metabotropic P2Y receptors and subsequent
modulation of cellular excitability, synaptic strength, and plasticity. In the
present paper we review cellular and network effects of P2Y receptors in the brain.
We show that P2Y receptors inhibit the release of neurotransmitters, modulate
voltage- and ligand-gated ion channels, and differentially influence the induction
of synaptic plasticity in the prefrontal cortex, hippocampus, and cerebellum.
The findings discussed here may explain how P2Y1 receptor activation during brain
injury, hypoxia, inflammation, schizophrenia, or Alzheimer's disease leads to
an impairment of cognitive processes. Hence, it is suggested that the blockade
of P2Y1 receptors may have therapeutic potential against cognitive disturbances
in these states.
article_number: '1207393'
author:
- first_name: José
full_name: Guzmán, José
id: 30CC5506-F248-11E8-B48F-1D18A9856A87
last_name: Guzmán
- first_name: Zoltan
full_name: Gerevich, Zoltan
last_name: Gerevich
citation:
ama: 'Guzmán J, Gerevich Z. P2Y receptors in synaptic transmission and plasticity:
Therapeutic potential in cognitive dysfunction. Neural Plasticity. 2016;2016.
doi:10.1155/2016/1207393'
apa: 'Guzmán, J., & Gerevich, Z. (2016). P2Y receptors in synaptic transmission
and plasticity: Therapeutic potential in cognitive dysfunction. Neural Plasticity.
Hindawi Publishing Corporation. https://doi.org/10.1155/2016/1207393'
chicago: 'Guzmán, José, and Zoltan Gerevich. “P2Y Receptors in Synaptic Transmission
and Plasticity: Therapeutic Potential in Cognitive Dysfunction.” Neural Plasticity.
Hindawi Publishing Corporation, 2016. https://doi.org/10.1155/2016/1207393.'
ieee: 'J. Guzmán and Z. Gerevich, “P2Y receptors in synaptic transmission and plasticity:
Therapeutic potential in cognitive dysfunction,” Neural Plasticity, vol.
2016. Hindawi Publishing Corporation, 2016.'
ista: 'Guzmán J, Gerevich Z. 2016. P2Y receptors in synaptic transmission and plasticity:
Therapeutic potential in cognitive dysfunction. Neural Plasticity. 2016, 1207393.'
mla: 'Guzmán, José, and Zoltan Gerevich. “P2Y Receptors in Synaptic Transmission
and Plasticity: Therapeutic Potential in Cognitive Dysfunction.” Neural Plasticity,
vol. 2016, 1207393, Hindawi Publishing Corporation, 2016, doi:10.1155/2016/1207393.'
short: J. Guzmán, Z. Gerevich, Neural Plasticity 2016 (2016).
date_created: 2018-12-11T11:52:00Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:50:43Z
day: '01'
ddc:
- '570'
department:
- _id: PeJo
doi: 10.1155/2016/1207393
file:
- access_level: open_access
checksum: 8dc5c2f3d44d4775a6e7e3edb0d7a0da
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:09:17Z
date_updated: 2020-07-14T12:44:54Z
file_id: '4740'
file_name: IST-2016-580-v1+1_1207393.pdf
file_size: 1395180
relation: main_file
file_date_updated: 2020-07-14T12:44:54Z
has_accepted_license: '1'
intvolume: ' 2016'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: Neural Plasticity
publication_status: published
publisher: Hindawi Publishing Corporation
publist_id: '5762'
pubrep_id: '580'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'P2Y receptors in synaptic transmission and plasticity: Therapeutic potential
in cognitive dysfunction'
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: 2016
year: '2016'
...
---
_id: '1436'
abstract:
- lang: eng
text: We study the time evolution of a system of N spinless fermions in R3 which
interact through a pair potential, e.g., the Coulomb potential. We compare the
dynamics given by the solution to Schrödinger's equation with the time-dependent
Hartree-Fock approximation, and we give an estimate for the accuracy of this approximation
in terms of the kinetic energy of the system. This leads, in turn, to bounds in
terms of the initial total energy of the system.
author:
- first_name: Volker
full_name: Bach, Volker
last_name: Bach
- first_name: Sébastien
full_name: Breteaux, Sébastien
last_name: Breteaux
- first_name: Sören P
full_name: Petrat, Sören P
id: 40AC02DC-F248-11E8-B48F-1D18A9856A87
last_name: Petrat
orcid: 0000-0002-9166-5889
- first_name: Peter
full_name: Pickl, Peter
last_name: Pickl
- first_name: Tim
full_name: Tzaneteas, Tim
last_name: Tzaneteas
citation:
ama: Bach V, Breteaux S, Petrat SP, Pickl P, Tzaneteas T. Kinetic energy estimates
for the accuracy of the time-dependent Hartree-Fock approximation with Coulomb
interaction. Journal de Mathématiques Pures et Appliquées. 2016;105(1):1-30.
doi:10.1016/j.matpur.2015.09.003
apa: Bach, V., Breteaux, S., Petrat, S. P., Pickl, P., & Tzaneteas, T. (2016).
Kinetic energy estimates for the accuracy of the time-dependent Hartree-Fock approximation
with Coulomb interaction. Journal de Mathématiques Pures et Appliquées.
Elsevier. https://doi.org/10.1016/j.matpur.2015.09.003
chicago: Bach, Volker, Sébastien Breteaux, Sören P Petrat, Peter Pickl, and Tim
Tzaneteas. “Kinetic Energy Estimates for the Accuracy of the Time-Dependent Hartree-Fock
Approximation with Coulomb Interaction.” Journal de Mathématiques Pures et
Appliquées. Elsevier, 2016. https://doi.org/10.1016/j.matpur.2015.09.003.
ieee: V. Bach, S. Breteaux, S. P. Petrat, P. Pickl, and T. Tzaneteas, “Kinetic energy
estimates for the accuracy of the time-dependent Hartree-Fock approximation with
Coulomb interaction,” Journal de Mathématiques Pures et Appliquées, vol.
105, no. 1. Elsevier, pp. 1–30, 2016.
ista: Bach V, Breteaux S, Petrat SP, Pickl P, Tzaneteas T. 2016. Kinetic energy
estimates for the accuracy of the time-dependent Hartree-Fock approximation with
Coulomb interaction. Journal de Mathématiques Pures et Appliquées. 105(1), 1–30.
mla: Bach, Volker, et al. “Kinetic Energy Estimates for the Accuracy of the Time-Dependent
Hartree-Fock Approximation with Coulomb Interaction.” Journal de Mathématiques
Pures et Appliquées, vol. 105, no. 1, Elsevier, 2016, pp. 1–30, doi:10.1016/j.matpur.2015.09.003.
short: V. Bach, S. Breteaux, S.P. Petrat, P. Pickl, T. Tzaneteas, Journal de Mathématiques
Pures et Appliquées 105 (2016) 1–30.
date_created: 2018-12-11T11:52:00Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:50:43Z
day: '01'
ddc:
- '510'
- '530'
department:
- _id: RoSe
doi: 10.1016/j.matpur.2015.09.003
ec_funded: 1
file:
- access_level: open_access
checksum: c5afe1f6935bc7f2b546adbde1d31a35
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:36Z
date_updated: 2020-07-14T12:44:54Z
file_id: '4825'
file_name: IST-2016-581-v1+1_1-s2.0-S0021782415001191-main.pdf
file_size: 658491
relation: main_file
file_date_updated: 2020-07-14T12:44:54Z
has_accepted_license: '1'
intvolume: ' 105'
issue: '1'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '01'
oa: 1
oa_version: Published Version
page: 1 - 30
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Journal de Mathématiques Pures et Appliquées
publication_status: published
publisher: Elsevier
publist_id: '5763'
pubrep_id: '581'
quality_controlled: '1'
scopus_import: 1
status: public
title: Kinetic energy estimates for the accuracy of the time-dependent Hartree-Fock
approximation with Coulomb interaction
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: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 105
year: '2016'
...
---
_id: '1437'
abstract:
- lang: eng
text: We study algorithmic questions for concurrent systems where the transitions
are labeled from a complete, closed semiring, and path properties are algebraic
with semiring operations. The algebraic path properties can model dataflow analysis
problems, the shortest path problem, and many other natural problems that arise
in program analysis. We consider that each component of the concurrent system
is a graph with constant treewidth, a property satisfied by the controlflow graphs
of most programs. We allow for multiple possible queries, which arise naturally
in demand driven dataflow analysis. The study of multiple queries allows us to
consider the tradeoff between the resource usage of the one-time preprocessing
and for each individual query. The traditional approach constructs the product
graph of all components and applies the best-known graph algorithm on the product.
In this approach, even the answer to a single query requires the transitive closure
(i.e., the results of all possible queries), which provides no room for tradeoff
between preprocessing and query time. Our main contributions are algorithms that
significantly improve the worst-case running time of the traditional approach,
and provide various tradeoffs depending on the number of queries. For example,
in a concurrent system of two components, the traditional approach requires hexic
time in the worst case for answering one query as well as computing the transitive
closure, whereas we show that with one-time preprocessing in almost cubic time,
each subsequent query can be answered in at most linear time, and even the transitive
closure can be computed in almost quartic time. Furthermore, we establish conditional
optimality results showing that the worst-case running time of our algorithms
cannot be improved without achieving major breakthroughs in graph algorithms (i.e.,
improving the worst-case bound for the shortest path problem in general graphs).
Preliminary experimental results show that our algorithms perform favorably on
several benchmarks.
alternative_title:
- POPL
arxiv: 1
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Amir
full_name: Goharshady, Amir
id: 391365CE-F248-11E8-B48F-1D18A9856A87
last_name: Goharshady
orcid: 0000-0003-1702-6584
- first_name: Rasmus
full_name: Ibsen-Jensen, Rasmus
id: 3B699956-F248-11E8-B48F-1D18A9856A87
last_name: Ibsen-Jensen
orcid: 0000-0003-4783-0389
- first_name: Andreas
full_name: Pavlogiannis, Andreas
id: 49704004-F248-11E8-B48F-1D18A9856A87
last_name: Pavlogiannis
orcid: 0000-0002-8943-0722
citation:
ama: 'Chatterjee K, Goharshady AK, Ibsen-Jensen R, Pavlogiannis A. Algorithms for
algebraic path properties in concurrent systems of constant treewidth components.
In: Vol 20-22. ACM; 2016:733-747. doi:10.1145/2837614.2837624'
apa: 'Chatterjee, K., Goharshady, A. K., Ibsen-Jensen, R., & Pavlogiannis, A.
(2016). Algorithms for algebraic path properties in concurrent systems of constant
treewidth components (Vol. 20–22, pp. 733–747). Presented at the POPL: Principles
of Programming Languages, St. Petersburg, FL, USA: ACM. https://doi.org/10.1145/2837614.2837624'
chicago: Chatterjee, Krishnendu, Amir Kafshdar Goharshady, Rasmus Ibsen-Jensen,
and Andreas Pavlogiannis. “Algorithms for Algebraic Path Properties in Concurrent
Systems of Constant Treewidth Components,” 20–22:733–47. ACM, 2016. https://doi.org/10.1145/2837614.2837624.
ieee: 'K. Chatterjee, A. K. Goharshady, R. Ibsen-Jensen, and A. Pavlogiannis, “Algorithms
for algebraic path properties in concurrent systems of constant treewidth components,”
presented at the POPL: Principles of Programming Languages, St. Petersburg, FL,
USA, 2016, vol. 20–22, pp. 733–747.'
ista: 'Chatterjee K, Goharshady AK, Ibsen-Jensen R, Pavlogiannis A. 2016. Algorithms
for algebraic path properties in concurrent systems of constant treewidth components.
POPL: Principles of Programming Languages, POPL, vol. 20–22, 733–747.'
mla: Chatterjee, Krishnendu, et al. Algorithms for Algebraic Path Properties
in Concurrent Systems of Constant Treewidth Components. Vol. 20–22, ACM, 2016,
pp. 733–47, doi:10.1145/2837614.2837624.
short: K. Chatterjee, A.K. Goharshady, R. Ibsen-Jensen, A. Pavlogiannis, in:, ACM,
2016, pp. 733–747.
conference:
end_date: 2016-01-22
location: St. Petersburg, FL, USA
name: 'POPL: Principles of Programming Languages'
start_date: 2016-01-20
date_created: 2018-12-11T11:52:01Z
date_published: 2016-01-11T00:00:00Z
date_updated: 2024-03-25T23:30:18Z
day: '11'
department:
- _id: KrCh
doi: 10.1145/2837614.2837624
ec_funded: 1
external_id:
arxiv:
- '1510.07565'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1510.07565
month: '01'
oa: 1
oa_version: Preprint
page: 733 - 747
project:
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
publication_status: published
publisher: ACM
publist_id: '5761'
quality_controlled: '1'
related_material:
record:
- id: '5441'
relation: earlier_version
status: public
- id: '5442'
relation: earlier_version
status: public
- id: '821'
relation: dissertation_contains
status: public
- id: '6009'
relation: later_version
status: public
- id: '8934'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: Algorithms for algebraic path properties in concurrent systems of constant
treewidth components
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 20-22
year: '2016'
...
---
_id: '1438'
abstract:
- lang: eng
text: 'In this paper, we consider termination of probabilistic programs with real-valued
variables. The questions concerned are: (a) qualitative ones that ask (i) whether
the program terminates with probability 1 (almost-sure termination) and (ii) whether
the expected termination time is finite (finite termination); (b) quantitative
ones that ask (i) to approximate the expected termination time (expectation problem)
and (ii) to compute a bound B such that the probability to terminate after B steps
decreases exponentially (concentration problem). To solve these questions, we
utilize the notion of ranking supermartingales which is a powerful approach for
proving termination of probabilistic programs. In detail, we focus on algorithmic
synthesis of linear ranking-supermartingales over affine probabilistic programs
(APP''s) with both angelic and demonic non-determinism. An important subclass
of APP''s is LRAPP which is defined as the class of all APP''s over which a linear
ranking-supermartingale exists. Our main contributions are as follows. Firstly,
we show that the membership problem of LRAPP (i) can be decided in polynomial
time for APP''s with at most demonic non-determinism, and (ii) is NP-hard and
in PSPACE for APP''s with angelic non-determinism; moreover, the NP-hardness result
holds already for APP''s without probability and demonic non-determinism. Secondly,
we show that the concentration problem over LRAPP can be solved in the same complexity
as for the membership problem of LRAPP. Finally, we show that the expectation
problem over LRAPP can be solved in 2EXPTIME and is PSPACE-hard even for APP''s
without probability and non-determinism (i.e., deterministic programs). Our experimental
results demonstrate the effectiveness of our approach to answer the qualitative
and quantitative questions over APP''s with at most demonic non-determinism.'
acknowledgement: 'Supported by the Natural Science Foundation of China (NSFC) under
Grant No. 61532019 '
alternative_title:
- POPL
arxiv: 1
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Hongfei
full_name: Fu, Hongfei
id: 3AAD03D6-F248-11E8-B48F-1D18A9856A87
last_name: Fu
- first_name: Petr
full_name: Novotny, Petr
id: 3CC3B868-F248-11E8-B48F-1D18A9856A87
last_name: Novotny
- first_name: Rouzbeh
full_name: Hasheminezhad, Rouzbeh
last_name: Hasheminezhad
citation:
ama: 'Chatterjee K, Fu H, Novotný P, Hasheminezhad R. Algorithmic analysis of qualitative
and quantitative termination problems for affine probabilistic programs. In: Vol
20-22. ACM; 2016:327-342. doi:10.1145/2837614.2837639'
apa: 'Chatterjee, K., Fu, H., Novotný, P., & Hasheminezhad, R. (2016). Algorithmic
analysis of qualitative and quantitative termination problems for affine probabilistic
programs (Vol. 20–22, pp. 327–342). Presented at the POPL: Principles of Programming
Languages, St. Petersburg, FL, USA: ACM. https://doi.org/10.1145/2837614.2837639'
chicago: Chatterjee, Krishnendu, Hongfei Fu, Petr Novotný, and Rouzbeh Hasheminezhad.
“Algorithmic Analysis of Qualitative and Quantitative Termination Problems for
Affine Probabilistic Programs,” 20–22:327–42. ACM, 2016. https://doi.org/10.1145/2837614.2837639.
ieee: 'K. Chatterjee, H. Fu, P. Novotný, and R. Hasheminezhad, “Algorithmic analysis
of qualitative and quantitative termination problems for affine probabilistic
programs,” presented at the POPL: Principles of Programming Languages, St. Petersburg,
FL, USA, 2016, vol. 20–22, pp. 327–342.'
ista: 'Chatterjee K, Fu H, Novotný P, Hasheminezhad R. 2016. Algorithmic analysis
of qualitative and quantitative termination problems for affine probabilistic
programs. POPL: Principles of Programming Languages, POPL, vol. 20–22, 327–342.'
mla: Chatterjee, Krishnendu, et al. Algorithmic Analysis of Qualitative and Quantitative
Termination Problems for Affine Probabilistic Programs. Vol. 20–22, ACM, 2016,
pp. 327–42, doi:10.1145/2837614.2837639.
short: K. Chatterjee, H. Fu, P. Novotný, R. Hasheminezhad, in:, ACM, 2016, pp. 327–342.
conference:
end_date: 2016-01-22
location: St. Petersburg, FL, USA
name: 'POPL: Principles of Programming Languages'
start_date: 2016-01-20
date_created: 2018-12-11T11:52:01Z
date_published: 2016-01-11T00:00:00Z
date_updated: 2023-09-19T14:38:41Z
day: '11'
department:
- _id: KrCh
doi: 10.1145/2837614.2837639
ec_funded: 1
external_id:
arxiv:
- '1510.08517'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1510.08517
month: '01'
oa: 1
oa_version: Preprint
page: 327 - 342
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication_status: published
publisher: ACM
publist_id: '5760'
quality_controlled: '1'
related_material:
record:
- id: '5993'
relation: later_version
status: public
scopus_import: 1
status: public
title: Algorithmic analysis of qualitative and quantitative termination problems for
affine probabilistic programs
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 20-22
year: '2016'
...
---
_id: '1439'
abstract:
- lang: eng
text: Fault-tolerant distributed algorithms play an important role in many critical/high-availability
applications. These algorithms are notoriously difficult to implement correctly,
due to asynchronous communication and the occurrence of faults, such as the network
dropping messages or computers crashing. We introduce PSYNC, a domain specific
language based on the Heard-Of model, which views asynchronous faulty systems
as synchronous ones with an adversarial environment that simulates asynchrony
and faults by dropping messages. We define a runtime system for PSYNC that efficiently
executes on asynchronous networks. We formalize the relation between the runtime
system and PSYNC in terms of observational refinement. The high-level lockstep
abstraction introduced by PSYNC simplifies the design and implementation of fault-tolerant
distributed algorithms and enables automated formal verification. We have implemented
an embedding of PSYNC in the SCALA programming language with a runtime system
for asynchronous networks. We show the applicability of PSYNC by implementing
several important fault-tolerant distributed algorithms and we compare the implementation
of consensus algorithms in PSYNC against implementations in other languages in
terms of code size, runtime efficiency, and verification.
acknowledgement: 'Damien Zufferey was supported by DARPA (Grants FA8650-11-C-7192
and FA8650-15-C-7564) and NSF (Grant CCF-1138967). '
alternative_title:
- ACM SIGPLAN Notices
author:
- first_name: Cezara
full_name: Dragoi, Cezara
id: 2B2B5ED0-F248-11E8-B48F-1D18A9856A87
last_name: Dragoi
- 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: Damien
full_name: Zufferey, Damien
id: 4397AC76-F248-11E8-B48F-1D18A9856A87
last_name: Zufferey
orcid: 0000-0002-3197-8736
citation:
ama: 'Dragoi C, Henzinger TA, Zufferey D. PSYNC: A partially synchronous language
for fault-tolerant distributed algorithms. In: Vol 20-22. ACM; 2016:400-415. doi:10.1145/2837614.2837650'
apa: 'Dragoi, C., Henzinger, T. A., & Zufferey, D. (2016). PSYNC: A partially
synchronous language for fault-tolerant distributed algorithms (Vol. 20–22, pp.
400–415). Presented at the POPL: Principles of Programming Languages, St. Petersburg,
FL, USA: ACM. https://doi.org/10.1145/2837614.2837650'
chicago: 'Dragoi, Cezara, Thomas A Henzinger, and Damien Zufferey. “PSYNC: A Partially
Synchronous Language for Fault-Tolerant Distributed Algorithms,” 20–22:400–415.
ACM, 2016. https://doi.org/10.1145/2837614.2837650.'
ieee: 'C. Dragoi, T. A. Henzinger, and D. Zufferey, “PSYNC: A partially synchronous
language for fault-tolerant distributed algorithms,” presented at the POPL: Principles
of Programming Languages, St. Petersburg, FL, USA, 2016, vol. 20–22, pp. 400–415.'
ista: 'Dragoi C, Henzinger TA, Zufferey D. 2016. PSYNC: A partially synchronous
language for fault-tolerant distributed algorithms. POPL: Principles of Programming
Languages, ACM SIGPLAN Notices, vol. 20–22, 400–415.'
mla: 'Dragoi, Cezara, et al. PSYNC: A Partially Synchronous Language for Fault-Tolerant
Distributed Algorithms. Vol. 20–22, ACM, 2016, pp. 400–15, doi:10.1145/2837614.2837650.'
short: C. Dragoi, T.A. Henzinger, D. Zufferey, in:, ACM, 2016, pp. 400–415.
conference:
end_date: 2016-01-22
location: St. Petersburg, FL, USA
name: 'POPL: Principles of Programming Languages'
start_date: 2016-01-20
date_created: 2018-12-11T11:52:01Z
date_published: 2016-01-11T00:00:00Z
date_updated: 2021-01-12T06:50:45Z
day: '11'
department:
- _id: ToHe
doi: 10.1145/2837614.2837650
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://hal.inria.fr/hal-01251199/
month: '01'
oa: 1
oa_version: Preprint
page: 400 - 415
project:
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '267989'
name: Quantitative Reactive Modeling
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: The Wittgenstein Prize
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
publication_status: published
publisher: ACM
publist_id: '5759'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'PSYNC: A partially synchronous language for fault-tolerant distributed algorithms'
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 20-22
year: '2016'
...
---
_id: '1440'
acknowledgement: The author thanks Banerjee et al. (2016) for providing coordinates
prior to public release and apologizes to colleagues whose work was not cited or
discussed due to the limited space available. The author is supported by grants
from EU FP7 (CIG-303564), HFSP (RGY0084_2012), and FWF (W1232).
author:
- first_name: Harald L
full_name: Janovjak, Harald L
id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
last_name: Janovjak
orcid: 0000-0002-8023-9315
citation:
ama: 'Janovjak HL. Light at the end of the protein: Crystal structure of a C-terminal
light-sensing domain. Structure. 2016;24(2):213-215. doi:10.1016/j.str.2016.01.002'
apa: 'Janovjak, H. L. (2016). Light at the end of the protein: Crystal structure
of a C-terminal light-sensing domain. Structure. Cell Press. https://doi.org/10.1016/j.str.2016.01.002'
chicago: 'Janovjak, Harald L. “Light at the End of the Protein: Crystal Structure
of a C-Terminal Light-Sensing Domain.” Structure. Cell Press, 2016. https://doi.org/10.1016/j.str.2016.01.002.'
ieee: 'H. L. Janovjak, “Light at the end of the protein: Crystal structure of a
C-terminal light-sensing domain,” Structure, vol. 24, no. 2. Cell Press,
pp. 213–215, 2016.'
ista: 'Janovjak HL. 2016. Light at the end of the protein: Crystal structure of
a C-terminal light-sensing domain. Structure. 24(2), 213–215.'
mla: 'Janovjak, Harald L. “Light at the End of the Protein: Crystal Structure of
a C-Terminal Light-Sensing Domain.” Structure, vol. 24, no. 2, Cell Press,
2016, pp. 213–15, doi:10.1016/j.str.2016.01.002.'
short: H.L. Janovjak, Structure 24 (2016) 213–215.
date_created: 2018-12-11T11:52:02Z
date_published: 2016-02-02T00:00:00Z
date_updated: 2021-01-12T06:50:46Z
day: '02'
department:
- _id: HaJa
doi: 10.1016/j.str.2016.01.002
ec_funded: 1
intvolume: ' 24'
issue: '2'
language:
- iso: eng
month: '02'
oa_version: None
page: 213 - 215
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)
- _id: 25548C20-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '303564'
name: Microbial Ion Channels for Synthetic Neurobiology
- _id: 255A6082-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: W1232-B24
name: Molecular Drug Targets
publication: Structure
publication_status: published
publisher: Cell Press
publist_id: '5756'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Light at the end of the protein: Crystal structure of a C-terminal light-sensing
domain'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2016'
...
---
_id: '1441'
abstract:
- lang: eng
text: 'Optogenetics and photopharmacology enable the spatio-temporal control of
cell and animal behavior by light. Although red light offers deep-tissue penetration
and minimal phototoxicity, very few red-light-sensitive optogenetic methods are
currently available. We have now developed a red-light-induced homodimerization
domain. We first showed that an optimized sensory domain of the cyanobacterial
phytochrome 1 can be expressed robustly and without cytotoxicity in human cells.
We then applied this domain to induce the dimerization of two receptor tyrosine
kinases—the fibroblast growth factor receptor 1 and the neurotrophin receptor
trkB. This new optogenetic method was then used to activate the MAPK/ERK pathway
non-invasively in mammalian tissue and in multicolor cell-signaling experiments.
The light-controlled dimerizer and red-light-activated receptor tyrosine kinases
will prove useful to regulate a variety of cellular processes with light. Go deep
with red: The sensory domain (S) of the cyanobacterial phytochrome 1 (CPH1) was
repurposed to induce the homodimerization of proteins in living cells by red light.
By using this domain, light-activated protein kinases were engineered that can
be activated orthogonally from many fluorescent proteins and through mammalian
tissue. Pr/Pfr=red-/far-red-absorbing state of CPH1.'
acknowledgement: 'A.I.-P. was supported by a Ramon Areces fellowship, and E.R. by
the graduate program MolecularDrugTargets (Austrian Science Fund (FWF): W1232) and
a FemTech fellowship (Austrian Research Promotion Agency: 3580812).'
author:
- first_name: Eva
full_name: Gschaider-Reichhart, Eva
id: 3FEE232A-F248-11E8-B48F-1D18A9856A87
last_name: Gschaider-Reichhart
orcid: 0000-0002-7218-7738
- first_name: Álvaro
full_name: Inglés Prieto, Álvaro
id: 2A9DB292-F248-11E8-B48F-1D18A9856A87
last_name: Inglés Prieto
orcid: 0000-0002-5409-8571
- first_name: Alexandra-Madelaine
full_name: Tichy, Alexandra-Madelaine
id: 29D8BB2C-F248-11E8-B48F-1D18A9856A87
last_name: Tichy
- first_name: Catherine
full_name: Mckenzie, Catherine
id: 3EEDE19A-F248-11E8-B48F-1D18A9856A87
last_name: Mckenzie
- first_name: Harald L
full_name: Janovjak, Harald L
id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
last_name: Janovjak
orcid: 0000-0002-8023-9315
citation:
ama: Gschaider-Reichhart E, Inglés Prieto Á, Tichy A-M, Mckenzie C, Janovjak HL.
A phytochrome sensory domain permits receptor activation by red light. Angewandte
Chemie - International Edition. 2016;55(21):6339-6342. doi:10.1002/anie.201601736
apa: Gschaider-Reichhart, E., Inglés Prieto, Á., Tichy, A.-M., Mckenzie, C., &
Janovjak, H. L. (2016). A phytochrome sensory domain permits receptor activation
by red light. Angewandte Chemie - International Edition. Wiley. https://doi.org/10.1002/anie.201601736
chicago: Gschaider-Reichhart, Eva, Álvaro Inglés Prieto, Alexandra-Madelaine Tichy,
Catherine Mckenzie, and Harald L Janovjak. “A Phytochrome Sensory Domain Permits
Receptor Activation by Red Light.” Angewandte Chemie - International Edition.
Wiley, 2016. https://doi.org/10.1002/anie.201601736.
ieee: E. Gschaider-Reichhart, Á. Inglés Prieto, A.-M. Tichy, C. Mckenzie, and H.
L. Janovjak, “A phytochrome sensory domain permits receptor activation by red
light,” Angewandte Chemie - International Edition, vol. 55, no. 21. Wiley,
pp. 6339–6342, 2016.
ista: Gschaider-Reichhart E, Inglés Prieto Á, Tichy A-M, Mckenzie C, Janovjak HL.
2016. A phytochrome sensory domain permits receptor activation by red light. Angewandte
Chemie - International Edition. 55(21), 6339–6342.
mla: Gschaider-Reichhart, Eva, et al. “A Phytochrome Sensory Domain Permits Receptor
Activation by Red Light.” Angewandte Chemie - International Edition, vol.
55, no. 21, Wiley, 2016, pp. 6339–42, doi:10.1002/anie.201601736.
short: E. Gschaider-Reichhart, Á. Inglés Prieto, A.-M. Tichy, C. Mckenzie, H.L.
Janovjak, Angewandte Chemie - International Edition 55 (2016) 6339–6342.
date_created: 2018-12-11T11:52:02Z
date_published: 2016-05-17T00:00:00Z
date_updated: 2023-09-07T12:49:08Z
day: '17'
ddc:
- '571'
- '576'
department:
- _id: HaJa
doi: 10.1002/anie.201601736
ec_funded: 1
file:
- access_level: open_access
checksum: 26da07960e57ac4750b54179197ce57f
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:17:03Z
date_updated: 2020-07-14T12:44:55Z
file_id: '5255'
file_name: IST-2017-840-v1+1_reichhart.pdf
file_size: 1268662
relation: main_file
file_date_updated: 2020-07-14T12:44:55Z
has_accepted_license: '1'
intvolume: ' 55'
issue: '21'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Submitted Version
page: 6339 - 6342
project:
- _id: 25548C20-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '303564'
name: Microbial Ion Channels for Synthetic Neurobiology
- _id: 255A6082-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: W1232-B24
name: Molecular Drug Targets
publication: Angewandte Chemie - International Edition
publication_status: published
publisher: Wiley
publist_id: '5755'
pubrep_id: '840'
quality_controlled: '1'
related_material:
record:
- id: '418'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: A phytochrome sensory domain permits receptor activation by red light
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 55
year: '2016'
...
---
_id: '1446'
abstract:
- lang: eng
text: The accuracy of interdisciplinarity measurements is directly related to the
quality of the underlying bibliographic data. Existing indicators of interdisciplinarity
are not capable of reflecting the inaccuracies introduced by incorrect and incomplete
records because correct and complete bibliographic data can rarely be obtained.
This is the case for the Rao–Stirling index, which cannot handle references that
are not categorized into disciplinary fields. We introduce a method that addresses
this problem. It extends the Rao–Stirling index to acknowledge missing data by
calculating its interval of uncertainty using computational optimization. The
evaluation of our method indicates that the uncertainty interval is not only useful
for estimating the inaccuracy of interdisciplinarity measurements, but it also
delivers slightly more accurate aggregated interdisciplinarity measurements than
the Rao–Stirling index.
article_processing_charge: No
author:
- first_name: Maria
full_name: Calatrava Moreno, Maria
last_name: Calatrava Moreno
- first_name: Thomas
full_name: Auzinger, Thomas
id: 4718F954-F248-11E8-B48F-1D18A9856A87
last_name: Auzinger
orcid: 0000-0002-1546-3265
- first_name: Hannes
full_name: Werthner, Hannes
last_name: Werthner
citation:
ama: Calatrava Moreno M, Auzinger T, Werthner H. On the uncertainty of interdisciplinarity
measurements due to incomplete bibliographic data. Scientometrics. 2016;107(1):213-232.
doi:10.1007/s11192-016-1842-4
apa: Calatrava Moreno, M., Auzinger, T., & Werthner, H. (2016). On the uncertainty
of interdisciplinarity measurements due to incomplete bibliographic data. Scientometrics.
Springer. https://doi.org/10.1007/s11192-016-1842-4
chicago: Calatrava Moreno, Maria, Thomas Auzinger, and Hannes Werthner. “On the
Uncertainty of Interdisciplinarity Measurements Due to Incomplete Bibliographic
Data.” Scientometrics. Springer, 2016. https://doi.org/10.1007/s11192-016-1842-4.
ieee: M. Calatrava Moreno, T. Auzinger, and H. Werthner, “On the uncertainty of
interdisciplinarity measurements due to incomplete bibliographic data,” Scientometrics,
vol. 107, no. 1. Springer, pp. 213–232, 2016.
ista: Calatrava Moreno M, Auzinger T, Werthner H. 2016. On the uncertainty of interdisciplinarity
measurements due to incomplete bibliographic data. Scientometrics. 107(1), 213–232.
mla: Calatrava Moreno, Maria, et al. “On the Uncertainty of Interdisciplinarity
Measurements Due to Incomplete Bibliographic Data.” Scientometrics, vol.
107, no. 1, Springer, 2016, pp. 213–32, doi:10.1007/s11192-016-1842-4.
short: M. Calatrava Moreno, T. Auzinger, H. Werthner, Scientometrics 107 (2016)
213–232.
date_created: 2018-12-11T11:52:04Z
date_published: 2016-04-01T00:00:00Z
date_updated: 2021-11-16T08:29:11Z
day: '01'
ddc:
- '000'
department:
- _id: BeBi
doi: 10.1007/s11192-016-1842-4
file:
- access_level: open_access
checksum: 32d46268588b87d9b686492018e6a2b2
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:56Z
date_updated: 2020-07-14T12:44:55Z
file_id: '4848'
file_name: IST-2016-530-v1+1_s11192-016-1842-4.pdf
file_size: 806035
relation: main_file
file_date_updated: 2020-07-14T12:44:55Z
has_accepted_license: '1'
intvolume: ' 107'
issue: '1'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 213 - 232
publication: Scientometrics
publication_status: published
publisher: Springer
publist_id: '5750'
pubrep_id: '530'
quality_controlled: '1'
related_material:
link:
- relation: erratum
url: https://doi.org/10.1007/s11192-016-1902-9
scopus_import: '1'
status: public
title: On the uncertainty of interdisciplinarity measurements due to incomplete bibliographic
data
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: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 107
year: '2016'
...
---
_id: '1448'
abstract:
- lang: eng
text: We develop a new and systematic method for proving entropic Ricci curvature
lower bounds for Markov chains on discrete sets. Using different methods, such
bounds have recently been obtained in several examples (e.g., 1-dimensional birth
and death chains, product chains, Bernoulli–Laplace models, and random transposition
models). However, a general method to obtain discrete Ricci bounds had been lacking.
Our method covers all of the examples above. In addition we obtain new Ricci curvature
bounds for zero-range processes on the complete graph. The method is inspired
by recent work of Caputo, Dai Pra and Posta on discrete functional inequalities.
acknowledgement: "Supported by the German Research Foundation through the Collaborative
Research Center 1060\r\nThe Mathematics of Emergent Effects and the Hausdorff Center
for Mathematics. Part of this work has been done while M. Fathi visited J. Maas
at the University of Bonn in July 2014.We would like to thank the referees for their
careful reading of the manuscript. "
author:
- first_name: Max
full_name: Fathi, Max
last_name: Fathi
- first_name: Jan
full_name: Maas, Jan
id: 4C5696CE-F248-11E8-B48F-1D18A9856A87
last_name: Maas
orcid: 0000-0002-0845-1338
citation:
ama: Fathi M, Maas J. Entropic Ricci curvature bounds for discrete interacting systems.
The Annals of Applied Probability. 2016;26(3):1774-1806. doi:10.1214/15-AAP1133
apa: Fathi, M., & Maas, J. (2016). Entropic Ricci curvature bounds for discrete
interacting systems. The Annals of Applied Probability. Institute of Mathematical
Statistics. https://doi.org/10.1214/15-AAP1133
chicago: Fathi, Max, and Jan Maas. “Entropic Ricci Curvature Bounds for Discrete
Interacting Systems.” The Annals of Applied Probability. Institute of Mathematical
Statistics, 2016. https://doi.org/10.1214/15-AAP1133.
ieee: M. Fathi and J. Maas, “Entropic Ricci curvature bounds for discrete interacting
systems,” The Annals of Applied Probability, vol. 26, no. 3. Institute
of Mathematical Statistics, pp. 1774–1806, 2016.
ista: Fathi M, Maas J. 2016. Entropic Ricci curvature bounds for discrete interacting
systems. The Annals of Applied Probability. 26(3), 1774–1806.
mla: Fathi, Max, and Jan Maas. “Entropic Ricci Curvature Bounds for Discrete Interacting
Systems.” The Annals of Applied Probability, vol. 26, no. 3, Institute
of Mathematical Statistics, 2016, pp. 1774–806, doi:10.1214/15-AAP1133.
short: M. Fathi, J. Maas, The Annals of Applied Probability 26 (2016) 1774–1806.
date_created: 2018-12-11T11:52:05Z
date_published: 2016-06-01T00:00:00Z
date_updated: 2021-01-12T06:50:49Z
day: '01'
department:
- _id: JaMa
doi: 10.1214/15-AAP1133
intvolume: ' 26'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1501.00562
month: '06'
oa: 1
oa_version: Preprint
page: 1774 - 1806
publication: The Annals of Applied Probability
publication_status: published
publisher: Institute of Mathematical Statistics
publist_id: '5748'
quality_controlled: '1'
scopus_import: 1
status: public
title: Entropic Ricci curvature bounds for discrete interacting systems
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 26
year: '2016'
...
---
_id: '1475'
abstract:
- lang: eng
text: The actin cytoskeleton plays important roles in the formation and internalization
of endocytic vesicles. In yeast, endocytic vesicles move towards early endosomes
along actin cables, however, the molecular machinery regulating interaction between
endocytic vesicles and actin cables is poorly understood. The Eps15-like protein
Pan1p plays a key role in actin-mediated endocytosis and is negatively regulated
by Ark1 and Prk1 kinases. Here we show that pan1 mutated to prevent phosphorylation
at all 18 threonines, pan1-18TA, displayed almost the same endocytic defect as
ark1Δ prk1Δ cells, and contained abnormal actin concentrations including several
endocytic compartments. Early endosomes were highly localized in the actin concentrations
and displayed movement along actin cables. The dephosphorylated form of Pan1p
also caused stable associations between endocytic vesicles and actin cables, and
between endocytic vesicles and endosomes. Thus Pan1 phosphorylation is part of
a novel mechanism that regulates endocytic compartment interactions with each
other and with actin cables.
article_number: e10276
author:
- first_name: Junko
full_name: Toshima, Junko
last_name: Toshima
- first_name: Eri
full_name: Furuya, Eri
last_name: Furuya
- first_name: Makoto
full_name: Nagano, Makoto
last_name: Nagano
- first_name: Chisa
full_name: Kanno, Chisa
last_name: Kanno
- first_name: Yuta
full_name: Sakamoto, Yuta
last_name: Sakamoto
- first_name: Masashi
full_name: Ebihara, Masashi
last_name: Ebihara
- first_name: Daria E
full_name: Siekhaus, Daria E
id: 3D224B9E-F248-11E8-B48F-1D18A9856A87
last_name: Siekhaus
orcid: 0000-0001-8323-8353
- first_name: Jiro
full_name: Toshima, Jiro
last_name: Toshima
citation:
ama: Toshima J, Furuya E, Nagano M, et al. Yeast Eps15-like endocytic protein Pan1p
regulates the interaction between endocytic vesicles, endosomes and the actin
cytoskeleton. eLife. 2016;5(February 2016). doi:10.7554/eLife.10276
apa: Toshima, J., Furuya, E., Nagano, M., Kanno, C., Sakamoto, Y., Ebihara, M.,
… Toshima, J. (2016). Yeast Eps15-like endocytic protein Pan1p regulates the interaction
between endocytic vesicles, endosomes and the actin cytoskeleton. ELife.
eLife Sciences Publications. https://doi.org/10.7554/eLife.10276
chicago: Toshima, Junko, Eri Furuya, Makoto Nagano, Chisa Kanno, Yuta Sakamoto,
Masashi Ebihara, Daria E Siekhaus, and Jiro Toshima. “Yeast Eps15-like Endocytic
Protein Pan1p Regulates the Interaction between Endocytic Vesicles, Endosomes
and the Actin Cytoskeleton.” ELife. eLife Sciences Publications, 2016.
https://doi.org/10.7554/eLife.10276.
ieee: J. Toshima et al., “Yeast Eps15-like endocytic protein Pan1p regulates
the interaction between endocytic vesicles, endosomes and the actin cytoskeleton,”
eLife, vol. 5, no. February 2016. eLife Sciences Publications, 2016.
ista: Toshima J, Furuya E, Nagano M, Kanno C, Sakamoto Y, Ebihara M, Siekhaus DE,
Toshima J. 2016. Yeast Eps15-like endocytic protein Pan1p regulates the interaction
between endocytic vesicles, endosomes and the actin cytoskeleton. eLife. 5(February
2016), e10276.
mla: Toshima, Junko, et al. “Yeast Eps15-like Endocytic Protein Pan1p Regulates
the Interaction between Endocytic Vesicles, Endosomes and the Actin Cytoskeleton.”
ELife, vol. 5, no. February 2016, e10276, eLife Sciences Publications,
2016, doi:10.7554/eLife.10276.
short: J. Toshima, E. Furuya, M. Nagano, C. Kanno, Y. Sakamoto, M. Ebihara, D.E.
Siekhaus, J. Toshima, ELife 5 (2016).
date_created: 2018-12-11T11:52:14Z
date_published: 2016-02-25T00:00:00Z
date_updated: 2021-01-12T06:50:59Z
day: '25'
ddc:
- '570'
department:
- _id: DaSi
doi: 10.7554/eLife.10276
ec_funded: 1
file:
- access_level: open_access
checksum: d1cc44870580756ba8badd8e41adfdb5
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:08Z
date_updated: 2020-07-14T12:44:56Z
file_id: '4793'
file_name: IST-2016-529-v1+1_elife-10276-v1.pdf
file_size: 5198001
relation: main_file
file_date_updated: 2020-07-14T12:44:56Z
has_accepted_license: '1'
intvolume: ' 5'
issue: February 2016
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 2536F660-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '334077'
name: Investigating the role of transporters in invasive migration through junctions
publication: eLife
publication_status: published
publisher: eLife Sciences Publications
publist_id: '5721'
pubrep_id: '529'
quality_controlled: '1'
scopus_import: 1
status: public
title: Yeast Eps15-like endocytic protein Pan1p regulates the interaction between
endocytic vesicles, endosomes and the actin cytoskeleton
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: 5
year: '2016'
...