---
_id: '1874'
abstract:
- lang: eng
text: 'The hippocampal region, comprising the hippocampal formation and the parahippocampal
region, has been one of the most intensively studied parts of the brain for decades.
Better understanding of its functional diversity and complexity has led to an
increased demand for specificity in experimental procedures and manipulations.
In view of the complex 3D structure of the hippocampal region, precisely positioned
experimental approaches require a fine-grained architectural description that
is available and readable to experimentalists lacking detailed anatomical experience.
In this paper, we provide the first cyto- and chemoarchitectural description of
the hippocampal formation and parahippocampal region in the rat at high resolution
and in the three standard sectional planes: coronal, horizontal and sagittal.
The atlas uses a series of adjacent sections stained for neurons and for a number
of chemical marker substances, particularly parvalbumin and calbindin. All the
borders defined in one plane have been cross-checked against their counterparts
in the other two planes. The entire dataset will be made available as a web-based
interactive application through the Rodent Brain WorkBench (http://www.rbwb.org)
which, together with this paper, provides a unique atlas resource.'
article_processing_charge: No
author:
- first_name: Charlotte
full_name: Boccara, Charlotte
id: 3FC06552-F248-11E8-B48F-1D18A9856A87
last_name: Boccara
orcid: 0000-0001-7237-5109
- first_name: Lisa
full_name: Kjønigsen, Lisa
last_name: Kjønigsen
- first_name: Ingvild
full_name: Hammer, Ingvild
last_name: Hammer
- first_name: Jan
full_name: Bjaalie, Jan
last_name: Bjaalie
- first_name: Trygve
full_name: Leergaard, Trygve
last_name: Leergaard
- first_name: Menno
full_name: Witter, Menno
last_name: Witter
citation:
ama: Boccara CN, Kjønigsen L, Hammer I, Bjaalie J, Leergaard T, Witter M. A three-plane
architectonic atlas of the rat hippocampal region. Hippocampus. 2015;25(7):838-857.
doi:10.1002/hipo.22407
apa: Boccara, C. N., Kjønigsen, L., Hammer, I., Bjaalie, J., Leergaard, T., &
Witter, M. (2015). A three-plane architectonic atlas of the rat hippocampal region.
Hippocampus. Wiley. https://doi.org/10.1002/hipo.22407
chicago: Boccara, Charlotte N., Lisa Kjønigsen, Ingvild Hammer, Jan Bjaalie, Trygve
Leergaard, and Menno Witter. “A Three-Plane Architectonic Atlas of the Rat Hippocampal
Region.” Hippocampus. Wiley, 2015. https://doi.org/10.1002/hipo.22407.
ieee: C. N. Boccara, L. Kjønigsen, I. Hammer, J. Bjaalie, T. Leergaard, and M. Witter,
“A three-plane architectonic atlas of the rat hippocampal region,” Hippocampus,
vol. 25, no. 7. Wiley, pp. 838–857, 2015.
ista: Boccara CN, Kjønigsen L, Hammer I, Bjaalie J, Leergaard T, Witter M. 2015.
A three-plane architectonic atlas of the rat hippocampal region. Hippocampus.
25(7), 838–857.
mla: Boccara, Charlotte N., et al. “A Three-Plane Architectonic Atlas of the Rat
Hippocampal Region.” Hippocampus, vol. 25, no. 7, Wiley, 2015, pp. 838–57,
doi:10.1002/hipo.22407.
short: C.N. Boccara, L. Kjønigsen, I. Hammer, J. Bjaalie, T. Leergaard, M. Witter,
Hippocampus 25 (2015) 838–857.
date_created: 2018-12-11T11:54:29Z
date_published: 2015-07-01T00:00:00Z
date_updated: 2025-09-23T07:29:29Z
day: '01'
department:
- _id: JoCs
doi: 10.1002/hipo.22407
external_id:
isi:
- '000356812700007'
intvolume: ' 25'
isi: 1
issue: '7'
language:
- iso: eng
month: '07'
oa_version: None
page: 838 - 857
publication: Hippocampus
publication_status: published
publisher: Wiley
publist_id: '5222'
quality_controlled: '1'
scopus_import: '1'
status: public
title: A three-plane architectonic atlas of the rat hippocampal region
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 25
year: '2015'
...
---
_id: '1878'
abstract:
- lang: eng
text: Petrocoptis is a small genus of chasmophytic plants endemic to the Iberian
Peninsula, with some localized populations in the French Pyrenees. Within the
genus, a dozen species have been recognized based on morphological diversity,
most of them with limited distribution area, in small populations and frequently
with potential threats to their survival. To date, however, a molecular evaluation
of the current systematic treatments has not been carried out. The aim of the
present study is to infer phylogenetic relationships among its subordinate taxa
by using plastidial rps16 intron and nuclear internal transcribed spacer (ITS)
DNA sequences; and evaluate the phylogenetic placement of the genus Petrocoptis
within the family Caryophyllaceae. The monophyly of Petrocoptis is supported by
both ITS and rps16 intron sequence analyses. Furthermore, time estimates using
BEAST analyses indicate a Middle to Late Miocene diversification (10.59 Myr, 6.44–15.26
Myr highest posterior densities [HPD], for ITS; 14.30 Myr, 8.61–21.00 Myr HPD,
for rps16 intron).
article_processing_charge: No
author:
- first_name: Eduardo
full_name: Cires Rodriguez, Eduardo
id: 2AD56A7A-F248-11E8-B48F-1D18A9856A87
last_name: Cires Rodriguez
- first_name: José
full_name: Prieto, José
last_name: Prieto
citation:
ama: Cires Rodriguez E, Prieto J. Phylogenetic relationships of Petrocoptis A. Braun
ex Endl. (Caryophyllaceae), a discussed genus from the Iberian Peninsula. Journal
of Plant Research. 2015;128(2):223-238. doi:10.1007/s10265-014-0691-6
apa: Cires Rodriguez, E., & Prieto, J. (2015). Phylogenetic relationships of
Petrocoptis A. Braun ex Endl. (Caryophyllaceae), a discussed genus from the Iberian
Peninsula. Journal of Plant Research. Springer. https://doi.org/10.1007/s10265-014-0691-6
chicago: Cires Rodriguez, Eduardo, and José Prieto. “Phylogenetic Relationships
of Petrocoptis A. Braun Ex Endl. (Caryophyllaceae), a Discussed Genus from the
Iberian Peninsula.” Journal of Plant Research. Springer, 2015. https://doi.org/10.1007/s10265-014-0691-6.
ieee: E. Cires Rodriguez and J. Prieto, “Phylogenetic relationships of Petrocoptis
A. Braun ex Endl. (Caryophyllaceae), a discussed genus from the Iberian Peninsula,”
Journal of Plant Research, vol. 128, no. 2. Springer, pp. 223–238, 2015.
ista: Cires Rodriguez E, Prieto J. 2015. Phylogenetic relationships of Petrocoptis
A. Braun ex Endl. (Caryophyllaceae), a discussed genus from the Iberian Peninsula.
Journal of Plant Research. 128(2), 223–238.
mla: Cires Rodriguez, Eduardo, and José Prieto. “Phylogenetic Relationships of Petrocoptis
A. Braun Ex Endl. (Caryophyllaceae), a Discussed Genus from the Iberian Peninsula.”
Journal of Plant Research, vol. 128, no. 2, Springer, 2015, pp. 223–38,
doi:10.1007/s10265-014-0691-6.
short: E. Cires Rodriguez, J. Prieto, Journal of Plant Research 128 (2015) 223–238.
corr_author: '1'
date_created: 2018-12-11T11:54:30Z
date_published: 2015-01-24T00:00:00Z
date_updated: 2025-09-23T09:49:04Z
day: '24'
department:
- _id: JiFr
doi: 10.1007/s10265-014-0691-6
external_id:
isi:
- '000350826000001'
intvolume: ' 128'
isi: 1
issue: '2'
language:
- iso: eng
month: '01'
oa_version: None
page: 223 - 238
publication: Journal of Plant Research
publication_status: published
publisher: Springer
publist_id: '5217'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Phylogenetic relationships of Petrocoptis A. Braun ex Endl. (Caryophyllaceae),
a discussed genus from the Iberian Peninsula
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 128
year: '2015'
...
---
_id: '1879'
abstract:
- lang: eng
text: When electron microscopy (EM) was introduced in the 1930s it gave scientists
their first look into the nanoworld of cells. Over the last 80 years EM has vastly
increased our understanding of the complex cellular structures that underlie the
diverse functions that cells need to maintain life. One drawback that has been
difficult to overcome was the inherent lack of volume information, mainly due
to the limit on the thickness of sections that could be viewed in a transmission
electron microscope (TEM). For many years scientists struggled to achieve three-dimensional
(3D) EM using serial section reconstructions, TEM tomography, and scanning EM
(SEM) techniques such as freeze-fracture. Although each technique yielded some
special information, they required a significant amount of time and specialist
expertise to obtain even a very small 3D EM dataset. Almost 20 years ago scientists
began to exploit SEMs to image blocks of embedded tissues and perform serial sectioning
of these tissues inside the SEM chamber. Using first focused ion beams (FIB) and
subsequently robotic ultramicrotomes (serial block-face, SBF-SEM) microscopists
were able to collect large volumes of 3D EM information at resolutions that could
address many important biological questions, and do so in an efficient manner.
We present here some examples of 3D EM taken from the many diverse specimens that
have been imaged in our core facility. We propose that the next major step forward
will be to efficiently correlate functional information obtained using light microscopy
(LM) with 3D EM datasets to more completely investigate the important links between
cell structures and their functions.
acknowledgement: The Zeiss Merlin with Gatan 3View2XP and Zeiss Auriga were acquired
through a CLEM grant from Minister Ingrid Lieten to the VIB Bio-Imaging-Core. Michiel
Krols and Saskia Lippens are the recipients of a fellowship from the FWO (Fonds
Wetenschappelijk Onderzoek) of Flanders.
article_processing_charge: No
author:
- first_name: A
full_name: Kremer, A
last_name: Kremer
- first_name: Stefaan
full_name: Lippens, Stefaan
last_name: Lippens
- first_name: Sonia
full_name: Bartunkova, Sonia
last_name: Bartunkova
- first_name: Bob
full_name: Asselbergh, Bob
last_name: Asselbergh
- first_name: Cendric
full_name: Blanpain, Cendric
last_name: Blanpain
- first_name: Matyas
full_name: Fendrych, Matyas
id: 43905548-F248-11E8-B48F-1D18A9856A87
last_name: Fendrych
orcid: 0000-0002-9767-8699
- first_name: A
full_name: Goossens, A
last_name: Goossens
- first_name: Matthew
full_name: Holt, Matthew
last_name: Holt
- first_name: Sophie
full_name: Janssens, Sophie
last_name: Janssens
- first_name: Michiel
full_name: Krols, Michiel
last_name: Krols
- first_name: Jean
full_name: Larsimont, Jean
last_name: Larsimont
- first_name: Conor
full_name: Mc Guire, Conor
last_name: Mc Guire
- first_name: Moritz
full_name: Nowack, Moritz
last_name: Nowack
- first_name: Xavier
full_name: Saelens, Xavier
last_name: Saelens
- first_name: Andreas
full_name: Schertel, Andreas
last_name: Schertel
- first_name: B
full_name: Schepens, B
last_name: Schepens
- first_name: M
full_name: Slezak, M
last_name: Slezak
- first_name: Vincent
full_name: Timmerman, Vincent
last_name: Timmerman
- first_name: Clara
full_name: Theunis, Clara
last_name: Theunis
- first_name: Ronald
full_name: Van Brempt, Ronald
last_name: Van Brempt
- first_name: Y
full_name: Visser, Y
last_name: Visser
- first_name: Christophe
full_name: Guérin, Christophe
last_name: Guérin
citation:
ama: Kremer A, Lippens S, Bartunkova S, et al. Developing 3D SEM in a broad biological
context. Journal of Microscopy. 2015;259(2):80-96. doi:10.1111/jmi.12211
apa: Kremer, A., Lippens, S., Bartunkova, S., Asselbergh, B., Blanpain, C., Fendrych,
M., … Guérin, C. (2015). Developing 3D SEM in a broad biological context. Journal
of Microscopy. Wiley-Blackwell. https://doi.org/10.1111/jmi.12211
chicago: Kremer, A, Stefaan Lippens, Sonia Bartunkova, Bob Asselbergh, Cendric Blanpain,
Matyas Fendrych, A Goossens, et al. “Developing 3D SEM in a Broad Biological Context.”
Journal of Microscopy. Wiley-Blackwell, 2015. https://doi.org/10.1111/jmi.12211.
ieee: A. Kremer et al., “Developing 3D SEM in a broad biological context,”
Journal of Microscopy, vol. 259, no. 2. Wiley-Blackwell, pp. 80–96, 2015.
ista: Kremer A, Lippens S, Bartunkova S, Asselbergh B, Blanpain C, Fendrych M, Goossens
A, Holt M, Janssens S, Krols M, Larsimont J, Mc Guire C, Nowack M, Saelens X,
Schertel A, Schepens B, Slezak M, Timmerman V, Theunis C, Van Brempt R, Visser
Y, Guérin C. 2015. Developing 3D SEM in a broad biological context. Journal of
Microscopy. 259(2), 80–96.
mla: Kremer, A., et al. “Developing 3D SEM in a Broad Biological Context.” Journal
of Microscopy, vol. 259, no. 2, Wiley-Blackwell, 2015, pp. 80–96, doi:10.1111/jmi.12211.
short: A. Kremer, S. Lippens, S. Bartunkova, B. Asselbergh, C. Blanpain, M. Fendrych,
A. Goossens, M. Holt, S. Janssens, M. Krols, J. Larsimont, C. Mc Guire, M. Nowack,
X. Saelens, A. Schertel, B. Schepens, M. Slezak, V. Timmerman, C. Theunis, R.
Van Brempt, Y. Visser, C. Guérin, Journal of Microscopy 259 (2015) 80–96.
date_created: 2018-12-11T11:54:30Z
date_published: 2015-08-01T00:00:00Z
date_updated: 2025-09-23T08:26:17Z
day: '01'
ddc:
- '570'
department:
- _id: JiFr
doi: 10.1111/jmi.12211
external_id:
isi:
- '000358300600002'
file:
- access_level: open_access
checksum: 3649c5372d1644062d728ea9287e367f
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:11:19Z
date_updated: 2020-07-14T12:45:19Z
file_id: '4872'
file_name: IST-2016-459-v1+1_KREMER_et_al-2015-Journal_of_Microscopy.pdf
file_size: 2899898
relation: main_file
file_date_updated: 2020-07-14T12:45:19Z
has_accepted_license: '1'
intvolume: ' 259'
isi: 1
issue: '2'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 80 - 96
publication: Journal of Microscopy
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5218'
pubrep_id: '459'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Developing 3D SEM in a broad biological context
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 259
year: '2015'
...
---
_id: '1880'
abstract:
- lang: eng
text: We investigate the relation between Bose-Einstein condensation (BEC) and superfluidity
in the ground state of a one-dimensional model of interacting bosons in a strong
random potential. We prove rigorously that in a certain parameter regime the superfluid
fraction can be arbitrarily small while complete BEC prevails. In another regime
there is both complete BEC and complete superfluidity, despite the strong disorder
acknowledgement: Support from the Natural Sciences and Engineering Research Council
of Canada NSERC (MK and RS) and from the Austrian Science Fund FWF (JY, under project
P 22929-N16) is gratefully acknowledged
article_number: '013022'
article_processing_charge: No
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. Superfluid behavior of a Bose-Einstein
condensate in a random potential. New Journal of Physics. 2015;17. doi:10.1088/1367-2630/17/1/013022
apa: Könenberg, M., Moser, T., Seiringer, R., & Yngvason, J. (2015). Superfluid
behavior of a Bose-Einstein condensate in a random potential. New Journal of
Physics. IOP Publishing. https://doi.org/10.1088/1367-2630/17/1/013022
chicago: Könenberg, Martin, Thomas Moser, Robert Seiringer, and Jakob Yngvason.
“Superfluid Behavior of a Bose-Einstein Condensate in a Random Potential.” New
Journal of Physics. IOP Publishing, 2015. https://doi.org/10.1088/1367-2630/17/1/013022.
ieee: M. Könenberg, T. Moser, R. Seiringer, and J. Yngvason, “Superfluid behavior
of a Bose-Einstein condensate in a random potential,” New Journal of Physics,
vol. 17. IOP Publishing, 2015.
ista: Könenberg M, Moser T, Seiringer R, Yngvason J. 2015. Superfluid behavior of
a Bose-Einstein condensate in a random potential. New Journal of Physics. 17,
013022.
mla: Könenberg, Martin, et al. “Superfluid Behavior of a Bose-Einstein Condensate
in a Random Potential.” New Journal of Physics, vol. 17, 013022, IOP Publishing,
2015, doi:10.1088/1367-2630/17/1/013022.
short: M. Könenberg, T. Moser, R. Seiringer, J. Yngvason, New Journal of Physics
17 (2015).
date_created: 2018-12-11T11:54:30Z
date_published: 2015-01-15T00:00:00Z
date_updated: 2025-09-23T10:51:00Z
day: '15'
ddc:
- '530'
department:
- _id: RoSe
doi: 10.1088/1367-2630/17/1/013022
external_id:
isi:
- '000348759300007'
file:
- access_level: open_access
checksum: 38fdf2b5ac30445e26a5d613abd84b16
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:44Z
date_updated: 2020-07-14T12:45:20Z
file_id: '4963'
file_name: IST-2016-447-v1+1_document_1_.pdf
file_size: 768108
relation: main_file
file_date_updated: 2020-07-14T12:45:20Z
has_accepted_license: '1'
intvolume: ' 17'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 26450934-B435-11E9-9278-68D0E5697425
name: NSERC Postdoctoral fellowship
publication: New Journal of Physics
publication_status: published
publisher: IOP Publishing
publist_id: '5214'
pubrep_id: '447'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Superfluid behavior of a Bose-Einstein condensate 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: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 17
year: '2015'
...
---
_id: '1882'
abstract:
- lang: eng
text: We provide a framework for compositional and iterative design and verification
of systems with quantitative information, such as rewards, time or energy. It
is based on disjunctive modal transition systems where we allow actions to bear
various types of quantitative information. Throughout the design process the actions
can be further refined and the information made more precise. We show how to compute
the results of standard operations on the systems, including the quotient (residual),
which has not been previously considered for quantitative non-deterministic systems.
Our quantitative framework has close connections to the modal nu-calculus and
is compositional with respect to general notions of distances between systems
and the standard operations.
acknowledgement: This research was funded in part by the European Research Council
(ERC) under grant agreement 267989 (QUAREM), by the Austrian Science Fund (FWF)
project S11402-N23 (RiSE), and by the Czech Science Foundation, grant No. P202/12/G061.
alternative_title:
- LNCS
article_processing_charge: No
arxiv: 1
author:
- first_name: Uli
full_name: Fahrenberg, Uli
last_name: Fahrenberg
- first_name: Jan
full_name: Kretinsky, Jan
id: 44CEF464-F248-11E8-B48F-1D18A9856A87
last_name: Kretinsky
orcid: 0000-0002-8122-2881
- first_name: Axel
full_name: Legay, Axel
last_name: Legay
- first_name: Louis
full_name: Traonouez, Louis
last_name: Traonouez
citation:
ama: 'Fahrenberg U, Kretinsky J, Legay A, Traonouez L. Compositionality for quantitative
specifications. In: Vol 8997. Springer; 2015:306-324. doi:10.1007/978-3-319-15317-9_19'
apa: 'Fahrenberg, U., Kretinsky, J., Legay, A., & Traonouez, L. (2015). Compositionality
for quantitative specifications (Vol. 8997, pp. 306–324). Presented at the FACS:
Formal Aspects of Component Software, Bertinoro, Italy: Springer. https://doi.org/10.1007/978-3-319-15317-9_19'
chicago: Fahrenberg, Uli, Jan Kretinsky, Axel Legay, and Louis Traonouez. “Compositionality
for Quantitative Specifications,” 8997:306–24. Springer, 2015. https://doi.org/10.1007/978-3-319-15317-9_19.
ieee: 'U. Fahrenberg, J. Kretinsky, A. Legay, and L. Traonouez, “Compositionality
for quantitative specifications,” presented at the FACS: Formal Aspects of Component
Software, Bertinoro, Italy, 2015, vol. 8997, pp. 306–324.'
ista: 'Fahrenberg U, Kretinsky J, Legay A, Traonouez L. 2015. Compositionality for
quantitative specifications. FACS: Formal Aspects of Component Software, LNCS,
vol. 8997, 306–324.'
mla: Fahrenberg, Uli, et al. Compositionality for Quantitative Specifications.
Vol. 8997, Springer, 2015, pp. 306–24, doi:10.1007/978-3-319-15317-9_19.
short: U. Fahrenberg, J. Kretinsky, A. Legay, L. Traonouez, in:, Springer, 2015,
pp. 306–324.
conference:
end_date: 2014-09-12
location: Bertinoro, Italy
name: 'FACS: Formal Aspects of Component Software'
start_date: 2014-09-10
corr_author: '1'
date_created: 2018-12-11T11:54:31Z
date_published: 2015-01-30T00:00:00Z
date_updated: 2025-06-11T07:22:00Z
day: '30'
department:
- _id: ToHe
- _id: KrCh
doi: 10.1007/978-3-319-15317-9_19
ec_funded: 1
external_id:
arxiv:
- '1408.1256'
intvolume: ' 8997'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1408.1256
month: '01'
oa: 1
oa_version: Preprint
page: 306 - 324
project:
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '267989'
name: Quantitative Reactive Modeling
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
publication_status: published
publisher: Springer
publist_id: '5216'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Compositionality for quantitative specifications
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 8997
year: '2015'
...
---
_id: '1883'
abstract:
- lang: eng
text: "We introduce a one-parametric family of tree growth models, in which branching
probabilities decrease with branch age τ as τ-α. Depending on the exponent α,
the scaling of tree depth with tree size n displays a transition between the logarithmic
scaling of random trees and an algebraic growth. At the transition (α=1) tree
depth grows as (logn)2. This anomalous scaling is in good agreement with the trend
observed in evolution of biological species, thus providing a theoretical support
for age-dependent speciation and associating it to the occurrence of a critical
point.\r\n"
article_number: '022803'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Stephanie
full_name: Keller-Schmidt, Stephanie
last_name: Keller-Schmidt
- first_name: Murat
full_name: Tugrul, Murat
id: 37C323C6-F248-11E8-B48F-1D18A9856A87
last_name: Tugrul
orcid: 0000-0002-8523-0758
- first_name: Víctor
full_name: Eguíluz, Víctor
last_name: Eguíluz
- first_name: Emilio
full_name: Hernandez Garcia, Emilio
last_name: Hernandez Garcia
- first_name: Konstantin
full_name: Klemm, Konstantin
last_name: Klemm
citation:
ama: Keller-Schmidt S, Tugrul M, Eguíluz V, Hernandez Garcia E, Klemm K. Anomalous
scaling in an age-dependent branching model. Physical Review E Statistical
Nonlinear and Soft Matter Physics. 2015;91(2). doi:10.1103/PhysRevE.91.022803
apa: Keller-Schmidt, S., Tugrul, M., Eguíluz, V., Hernandez Garcia, E., & Klemm,
K. (2015). Anomalous scaling in an age-dependent branching model. Physical
Review E Statistical Nonlinear and Soft Matter Physics. American Institute
of Physics. https://doi.org/10.1103/PhysRevE.91.022803
chicago: Keller-Schmidt, Stephanie, Murat Tugrul, Víctor Eguíluz, Emilio Hernandez
Garcia, and Konstantin Klemm. “Anomalous Scaling in an Age-Dependent Branching
Model.” Physical Review E Statistical Nonlinear and Soft Matter Physics.
American Institute of Physics, 2015. https://doi.org/10.1103/PhysRevE.91.022803.
ieee: S. Keller-Schmidt, M. Tugrul, V. Eguíluz, E. Hernandez Garcia, and K. Klemm,
“Anomalous scaling in an age-dependent branching model,” Physical Review E
Statistical Nonlinear and Soft Matter Physics, vol. 91, no. 2. American Institute
of Physics, 2015.
ista: Keller-Schmidt S, Tugrul M, Eguíluz V, Hernandez Garcia E, Klemm K. 2015.
Anomalous scaling in an age-dependent branching model. Physical Review E Statistical
Nonlinear and Soft Matter Physics. 91(2), 022803.
mla: Keller-Schmidt, Stephanie, et al. “Anomalous Scaling in an Age-Dependent Branching
Model.” Physical Review E Statistical Nonlinear and Soft Matter Physics,
vol. 91, no. 2, 022803, American Institute of Physics, 2015, doi:10.1103/PhysRevE.91.022803.
short: S. Keller-Schmidt, M. Tugrul, V. Eguíluz, E. Hernandez Garcia, K. Klemm,
Physical Review E Statistical Nonlinear and Soft Matter Physics 91 (2015).
date_created: 2018-12-11T11:54:31Z
date_published: 2015-02-02T00:00:00Z
date_updated: 2025-09-23T07:53:52Z
day: '02'
department:
- _id: NiBa
doi: 10.1103/PhysRevE.91.022803
external_id:
arxiv:
- '1012.3298'
isi:
- '000349860900006'
intvolume: ' 91'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1012.3298
month: '02'
oa: 1
oa_version: Preprint
publication: Physical Review E Statistical Nonlinear and Soft Matter Physics
publication_status: published
publisher: American Institute of Physics
publist_id: '5213'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Anomalous scaling in an age-dependent branching model
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 91
year: '2015'
...
---
_id: '1885'
abstract:
- lang: eng
text: 'The concept of positional information is central to our understanding of
how cells determine their location in a multicellular structure and thereby their
developmental fates. Nevertheless, positional information has neither been defined
mathematically nor quantified in a principled way. Here we provide an information-theoretic
definition in the context of developmental gene expression patterns and examine
the features of expression patterns that affect positional information quantitatively.
We connect positional information with the concept of positional error and develop
tools to directly measure information and error from experimental data. We illustrate
our framework for the case of gap gene expression patterns in the early Drosophila
embryo and show how information that is distributed among only four genes is sufficient
to determine developmental fates with nearly single-cell resolution. Our approach
can be generalized to a variety of different model systems; procedures and examples
are discussed in detail. '
article_processing_charge: No
arxiv: 1
author:
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
- first_name: Julien
full_name: Dubuis, Julien
last_name: Dubuis
- first_name: Mariela
full_name: Petkova, Mariela
last_name: Petkova
- first_name: Thomas
full_name: Gregor, Thomas
last_name: Gregor
citation:
ama: 'Tkačik G, Dubuis J, Petkova M, Gregor T. Positional information, positional
error, and readout precision in morphogenesis: A mathematical framework. Genetics.
2015;199(1):39-59. doi:10.1534/genetics.114.171850'
apa: 'Tkačik, G., Dubuis, J., Petkova, M., & Gregor, T. (2015). Positional information,
positional error, and readout precision in morphogenesis: A mathematical framework.
Genetics. Genetics Society of America. https://doi.org/10.1534/genetics.114.171850'
chicago: 'Tkačik, Gašper, Julien Dubuis, Mariela Petkova, and Thomas Gregor. “Positional
Information, Positional Error, and Readout Precision in Morphogenesis: A Mathematical
Framework.” Genetics. Genetics Society of America, 2015. https://doi.org/10.1534/genetics.114.171850.'
ieee: 'G. Tkačik, J. Dubuis, M. Petkova, and T. Gregor, “Positional information,
positional error, and readout precision in morphogenesis: A mathematical framework,”
Genetics, vol. 199, no. 1. Genetics Society of America, pp. 39–59, 2015.'
ista: 'Tkačik G, Dubuis J, Petkova M, Gregor T. 2015. Positional information, positional
error, and readout precision in morphogenesis: A mathematical framework. Genetics.
199(1), 39–59.'
mla: 'Tkačik, Gašper, et al. “Positional Information, Positional Error, and Readout
Precision in Morphogenesis: A Mathematical Framework.” Genetics, vol. 199,
no. 1, Genetics Society of America, 2015, pp. 39–59, doi:10.1534/genetics.114.171850.'
short: G. Tkačik, J. Dubuis, M. Petkova, T. Gregor, Genetics 199 (2015) 39–59.
corr_author: '1'
date_created: 2018-12-11T11:54:32Z
date_published: 2015-01-01T00:00:00Z
date_updated: 2025-09-23T09:53:07Z
day: '01'
department:
- _id: GaTk
doi: 10.1534/genetics.114.171850
external_id:
arxiv:
- '1404.5599'
isi:
- '000347712900004'
intvolume: ' 199'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1404.5599
month: '01'
oa: 1
oa_version: Preprint
page: 39 - 59
publication: Genetics
publication_status: published
publisher: Genetics Society of America
publist_id: '5210'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Positional information, positional error, and readout precision in morphogenesis:
A mathematical framework'
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 199
year: '2015'
...
---
_id: '1938'
abstract:
- lang: eng
text: 'We numerically investigate the distribution of extrema of ''chaotic'' Laplacian
eigenfunctions on two-dimensional manifolds. Our contribution is two-fold: (a)
we count extrema on grid graphs with a small number of randomly added edges and
show the behavior to coincide with the 1957 prediction of Longuet-Higgins for
the continuous case and (b) we compute the regularity of their spatial distribution
using discrepancy, which is a classical measure from the theory of Monte Carlo
integration. The first part suggests that grid graphs with randomly added edges
should behave like two-dimensional surfaces with ergodic geodesic flow; in the
second part we show that the extrema are more regularly distributed in space than
the grid Z2.'
acknowledgement: "F.P. was supported by the Graduate School of IST Austria. S.S. was
partially supported by CRC1060 of the DFG\r\nThe authors thank Olga Symonova and
Michael Kerber for sharing their implementation of the persistence algorithm. "
article_processing_charge: No
author:
- first_name: Florian
full_name: Pausinger, Florian
id: 2A77D7A2-F248-11E8-B48F-1D18A9856A87
last_name: Pausinger
orcid: 0000-0002-8379-3768
- first_name: Stefan
full_name: Steinerberger, Stefan
last_name: Steinerberger
citation:
ama: Pausinger F, Steinerberger S. On the distribution of local extrema in quantum
chaos. Physics Letters, Section A. 2015;379(6):535-541. doi:10.1016/j.physleta.2014.12.010
apa: Pausinger, F., & Steinerberger, S. (2015). On the distribution of local
extrema in quantum chaos. Physics Letters, Section A. Elsevier. https://doi.org/10.1016/j.physleta.2014.12.010
chicago: Pausinger, Florian, and Stefan Steinerberger. “On the Distribution of Local
Extrema in Quantum Chaos.” Physics Letters, Section A. Elsevier, 2015.
https://doi.org/10.1016/j.physleta.2014.12.010.
ieee: F. Pausinger and S. Steinerberger, “On the distribution of local extrema in
quantum chaos,” Physics Letters, Section A, vol. 379, no. 6. Elsevier,
pp. 535–541, 2015.
ista: Pausinger F, Steinerberger S. 2015. On the distribution of local extrema in
quantum chaos. Physics Letters, Section A. 379(6), 535–541.
mla: Pausinger, Florian, and Stefan Steinerberger. “On the Distribution of Local
Extrema in Quantum Chaos.” Physics Letters, Section A, vol. 379, no. 6,
Elsevier, 2015, pp. 535–41, doi:10.1016/j.physleta.2014.12.010.
short: F. Pausinger, S. Steinerberger, Physics Letters, Section A 379 (2015) 535–541.
corr_author: '1'
date_created: 2018-12-11T11:54:49Z
date_published: 2015-03-06T00:00:00Z
date_updated: 2025-09-23T09:44:12Z
day: '06'
department:
- _id: HeEd
doi: 10.1016/j.physleta.2014.12.010
external_id:
isi:
- '000349586000006'
intvolume: ' 379'
isi: 1
issue: '6'
language:
- iso: eng
month: '03'
oa_version: None
page: 535 - 541
publication: Physics Letters, Section A
publication_status: published
publisher: Elsevier
publist_id: '5152'
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the distribution of local extrema in quantum chaos
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 379
year: '2015'
...
---
_id: '1940'
abstract:
- lang: eng
text: We typically think of cells as responding to external signals independently
by regulating their gene expression levels, yet they often locally exchange information
and coordinate. Can such spatial coupling be of benefit for conveying signals
subject to gene regulatory noise? Here we extend our information-theoretic framework
for gene regulation to spatially extended systems. As an example, we consider
a lattice of nuclei responding to a concentration field of a transcriptional regulator
(the "input") by expressing a single diffusible target gene. When input
concentrations are low, diffusive coupling markedly improves information transmission;
optimal gene activation functions also systematically change. A qualitatively
new regulatory strategy emerges where individual cells respond to the input in
a nearly step-like fashion that is subsequently averaged out by strong diffusion.
While motivated by early patterning events in the Drosophila embryo, our framework
is generically applicable to spatially coupled stochastic gene expression models.
article_number: '062710'
article_processing_charge: No
arxiv: 1
author:
- first_name: Thomas R
full_name: Sokolowski, Thomas R
id: 3E999752-F248-11E8-B48F-1D18A9856A87
last_name: Sokolowski
orcid: 0000-0002-1287-3779
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
citation:
ama: Sokolowski TR, Tkačik G. Optimizing information flow in small genetic networks.
IV. Spatial coupling. Physical Review E Statistical Nonlinear and Soft Matter
Physics. 2015;91(6). doi:10.1103/PhysRevE.91.062710
apa: Sokolowski, T. R., & Tkačik, G. (2015). Optimizing information flow in
small genetic networks. IV. Spatial coupling. Physical Review E Statistical
Nonlinear and Soft Matter Physics. American Institute of Physics. https://doi.org/10.1103/PhysRevE.91.062710
chicago: Sokolowski, Thomas R, and Gašper Tkačik. “Optimizing Information Flow in
Small Genetic Networks. IV. Spatial Coupling.” Physical Review E Statistical
Nonlinear and Soft Matter Physics. American Institute of Physics, 2015. https://doi.org/10.1103/PhysRevE.91.062710.
ieee: T. R. Sokolowski and G. Tkačik, “Optimizing information flow in small genetic
networks. IV. Spatial coupling,” Physical Review E Statistical Nonlinear and
Soft Matter Physics, vol. 91, no. 6. American Institute of Physics, 2015.
ista: Sokolowski TR, Tkačik G. 2015. Optimizing information flow in small genetic
networks. IV. Spatial coupling. Physical Review E Statistical Nonlinear and Soft
Matter Physics. 91(6), 062710.
mla: Sokolowski, Thomas R., and Gašper Tkačik. “Optimizing Information Flow in Small
Genetic Networks. IV. Spatial Coupling.” Physical Review E Statistical Nonlinear
and Soft Matter Physics, vol. 91, no. 6, 062710, American Institute of Physics,
2015, doi:10.1103/PhysRevE.91.062710.
short: T.R. Sokolowski, G. Tkačik, Physical Review E Statistical Nonlinear and Soft
Matter Physics 91 (2015).
corr_author: '1'
date_created: 2018-12-11T11:54:49Z
date_published: 2015-06-15T00:00:00Z
date_updated: 2025-09-23T09:46:10Z
day: '15'
department:
- _id: GaTk
doi: 10.1103/PhysRevE.91.062710
external_id:
arxiv:
- '1501.04015'
isi:
- '000356131600006'
intvolume: ' 91'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1501.04015
month: '06'
oa: 1
oa_version: Preprint
publication: Physical Review E Statistical Nonlinear and Soft Matter Physics
publication_status: published
publisher: American Institute of Physics
publist_id: '5145'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Optimizing information flow in small genetic networks. IV. Spatial coupling
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 91
year: '2015'
...
---
_id: '1944'
acknowledgement: This work was supported by the European Research Council (project
ERC-2011-StG-20101109-PSDP); the Agency for Innovation by Science and Technology
(IWT) (predoctoral fellowship to H.R.); and the People Programme (Marie Curie Actions)
of the European Union
article_processing_charge: No
author:
- first_name: Hana
full_name: Rakusová, Hana
last_name: Rakusová
- first_name: Matyas
full_name: Fendrych, Matyas
id: 43905548-F248-11E8-B48F-1D18A9856A87
last_name: Fendrych
orcid: 0000-0002-9767-8699
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Rakusová H, Fendrych M, Friml J. Intracellular trafficking and PIN-mediated
cell polarity during tropic responses in plants. Current Opinion in Plant Biology.
2015;23(2):116-123. doi:10.1016/j.pbi.2014.12.002
apa: Rakusová, H., Fendrych, M., & Friml, J. (2015). Intracellular trafficking
and PIN-mediated cell polarity during tropic responses in plants. Current Opinion
in Plant Biology. Elsevier. https://doi.org/10.1016/j.pbi.2014.12.002
chicago: Rakusová, Hana, Matyas Fendrych, and Jiří Friml. “Intracellular Trafficking
and PIN-Mediated Cell Polarity during Tropic Responses in Plants.” Current
Opinion in Plant Biology. Elsevier, 2015. https://doi.org/10.1016/j.pbi.2014.12.002.
ieee: H. Rakusová, M. Fendrych, and J. Friml, “Intracellular trafficking and PIN-mediated
cell polarity during tropic responses in plants,” Current Opinion in Plant
Biology, vol. 23, no. 2. Elsevier, pp. 116–123, 2015.
ista: Rakusová H, Fendrych M, Friml J. 2015. Intracellular trafficking and PIN-mediated
cell polarity during tropic responses in plants. Current Opinion in Plant Biology.
23(2), 116–123.
mla: Rakusová, Hana, et al. “Intracellular Trafficking and PIN-Mediated Cell Polarity
during Tropic Responses in Plants.” Current Opinion in Plant Biology, vol.
23, no. 2, Elsevier, 2015, pp. 116–23, doi:10.1016/j.pbi.2014.12.002.
short: H. Rakusová, M. Fendrych, J. Friml, Current Opinion in Plant Biology 23 (2015)
116–123.
corr_author: '1'
date_created: 2018-12-11T11:54:51Z
date_published: 2015-02-01T00:00:00Z
date_updated: 2025-09-23T09:23:09Z
day: '01'
department:
- _id: JiFr
doi: 10.1016/j.pbi.2014.12.002
ec_funded: 1
external_id:
isi:
- '000349880900017'
intvolume: ' 23'
isi: 1
issue: '2'
language:
- iso: eng
month: '02'
oa_version: None
page: 116 - 123
project:
- _id: 25716A02-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '282300'
name: Polarity and subcellular dynamics in plants
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Current Opinion in Plant Biology
publication_status: published
publisher: Elsevier
publist_id: '5140'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Intracellular trafficking and PIN-mediated cell polarity during tropic responses
in plants
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 23
year: '2015'
...
---
_id: '473'
abstract:
- lang: eng
text: We prove that nonlinear Gibbs measures can be obtained from the corresponding
many-body, grand-canonical, quantum Gibbs states, in a mean-field limit where
the temperature T diverges and the interaction strength behaves as 1/T. We proceed
by characterizing the interacting Gibbs state as minimizing a functional counting
the free-energy relatively to the non-interacting case. We then perform an infinite-dimensional
analogue of phase-space semiclassical analysis, using fine properties of the quantum
relative entropy, the link between quantum de Finetti measures and upper/lower
symbols in a coherent state basis, as well as Berezin-Lieb type inequalities.
Our results cover the measure built on the defocusing nonlinear Schrödinger functional
on a finite interval, as well as smoother interactions in dimensions d 2.
author:
- first_name: Mathieu
full_name: Lewin, Mathieu
last_name: Lewin
- first_name: Nam
full_name: Phan Thanh, Nam
id: 404092F4-F248-11E8-B48F-1D18A9856A87
last_name: Phan Thanh
- first_name: Nicolas
full_name: Rougerie, Nicolas
last_name: Rougerie
citation:
ama: Lewin M, Nam P, Rougerie N. Derivation of nonlinear gibbs measures from many-body
quantum mechanics. Journal de l’Ecole Polytechnique - Mathematiques. 2015;2:65-115.
doi:10.5802/jep.18
apa: Lewin, M., Nam, P., & Rougerie, N. (2015). Derivation of nonlinear gibbs
measures from many-body quantum mechanics. Journal de l’Ecole Polytechnique
- Mathematiques. Ecole Polytechnique. https://doi.org/10.5802/jep.18
chicago: Lewin, Mathieu, Phan Nam, and Nicolas Rougerie. “Derivation of Nonlinear
Gibbs Measures from Many-Body Quantum Mechanics.” Journal de l’Ecole Polytechnique
- Mathematiques. Ecole Polytechnique, 2015. https://doi.org/10.5802/jep.18.
ieee: M. Lewin, P. Nam, and N. Rougerie, “Derivation of nonlinear gibbs measures
from many-body quantum mechanics,” Journal de l’Ecole Polytechnique - Mathematiques,
vol. 2. Ecole Polytechnique, pp. 65–115, 2015.
ista: Lewin M, Nam P, Rougerie N. 2015. Derivation of nonlinear gibbs measures from
many-body quantum mechanics. Journal de l’Ecole Polytechnique - Mathematiques.
2, 65–115.
mla: Lewin, Mathieu, et al. “Derivation of Nonlinear Gibbs Measures from Many-Body
Quantum Mechanics.” Journal de l’Ecole Polytechnique - Mathematiques, vol.
2, Ecole Polytechnique, 2015, pp. 65–115, doi:10.5802/jep.18.
short: M. Lewin, P. Nam, N. Rougerie, Journal de l’Ecole Polytechnique - Mathematiques
2 (2015) 65–115.
date_created: 2018-12-11T11:46:40Z
date_published: 2015-01-01T00:00:00Z
date_updated: 2021-01-12T08:00:52Z
day: '01'
ddc:
- '539'
department:
- _id: RoSe
doi: 10.5802/jep.18
ec_funded: 1
file:
- access_level: open_access
checksum: a40eb4016717ddc9927154798a4c164a
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:53Z
date_updated: 2020-07-14T12:46:35Z
file_id: '4974'
file_name: IST-2018-951-v1+1_2015_Thanh-Nam_Derivation_of.pdf
file_size: 1084254
relation: main_file
file_date_updated: 2020-07-14T12:46:35Z
has_accepted_license: '1'
intvolume: ' 2'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 65 - 115
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Journal de l'Ecole Polytechnique - Mathematiques
publication_status: published
publisher: Ecole Polytechnique
publist_id: '7344'
pubrep_id: '951'
quality_controlled: '1'
scopus_import: 1
status: public
title: Derivation of nonlinear gibbs measures from many-body quantum mechanics
tmp:
image: /image/cc_by_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nd/4.0/legalcode
name: Creative Commons Attribution-NoDerivatives 4.0 International (CC BY-ND 4.0)
short: CC BY-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2015'
...
---
_id: '477'
abstract:
- lang: eng
text: Dendritic cells are potent antigen-presenting cells endowed with the unique
ability to initiate adaptive immune responses upon inflammation. Inflammatory
processes are often associated with an increased production of serotonin, which
operates by activating specific receptors. However, the functional role of serotonin
receptors in regulation of dendritic cell functions is poorly understood. Here,
we demonstrate that expression of serotonin receptor 5-HT7 (5-HT7TR) as well as
its downstream effector Cdc42 is upregulated in dendritic cells upon maturation.
Although dendritic cell maturation was independent of 5-HT7TR, receptor stimulation
affected dendritic cell morphology through Cdc42-mediated signaling. In addition,
basal activity of 5-HT7TR was required for the proper expression of the chemokine
receptor CCR7, which is a key factor that controls dendritic cell migration. Consistent
with this, we observed that 5-HT7TR enhances chemotactic motility of dendritic
cells in vitro by modulating their directionality and migration velocity. Accordingly,
migration of dendritic cells in murine colon explants was abolished after pharmacological
receptor inhibition. Our results indicate that there is a crucial role for 5-HT7TR-Cdc42-mediated
signaling in the regulation of dendritic cell morphology and motility, suggesting
that 5-HT7TR could be a new target for treatment of a variety of inflammatory
and immune disorders.
article_processing_charge: No
author:
- first_name: Katrin
full_name: Holst, Katrin
last_name: Holst
- first_name: Daria
full_name: Guseva, Daria
last_name: Guseva
- first_name: Susann
full_name: Schindler, Susann
last_name: Schindler
- 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: Armin
full_name: Braun, Armin
last_name: Braun
- first_name: Himpriya
full_name: Chopra, Himpriya
last_name: Chopra
- first_name: Oliver
full_name: Pabst, Oliver
last_name: Pabst
- first_name: Evgeni
full_name: Ponimaskin, Evgeni
last_name: Ponimaskin
citation:
ama: Holst K, Guseva D, Schindler S, et al. The serotonin receptor 5-HT7R regulates
the morphology and migratory properties of dendritic cells. Journal of Cell
Science. 2015;128(15):2866-2880. doi:10.1242/jcs.167999
apa: Holst, K., Guseva, D., Schindler, S., Sixt, M. K., Braun, A., Chopra, H., …
Ponimaskin, E. (2015). The serotonin receptor 5-HT7R regulates the morphology
and migratory properties of dendritic cells. Journal of Cell Science. Company
of Biologists. https://doi.org/10.1242/jcs.167999
chicago: Holst, Katrin, Daria Guseva, Susann Schindler, Michael K Sixt, Armin Braun,
Himpriya Chopra, Oliver Pabst, and Evgeni Ponimaskin. “The Serotonin Receptor
5-HT7R Regulates the Morphology and Migratory Properties of Dendritic Cells.”
Journal of Cell Science. Company of Biologists, 2015. https://doi.org/10.1242/jcs.167999.
ieee: K. Holst et al., “The serotonin receptor 5-HT7R regulates the morphology
and migratory properties of dendritic cells,” Journal of Cell Science,
vol. 128, no. 15. Company of Biologists, pp. 2866–2880, 2015.
ista: Holst K, Guseva D, Schindler S, Sixt MK, Braun A, Chopra H, Pabst O, Ponimaskin
E. 2015. The serotonin receptor 5-HT7R regulates the morphology and migratory
properties of dendritic cells. Journal of Cell Science. 128(15), 2866–2880.
mla: Holst, Katrin, et al. “The Serotonin Receptor 5-HT7R Regulates the Morphology
and Migratory Properties of Dendritic Cells.” Journal of Cell Science,
vol. 128, no. 15, Company of Biologists, 2015, pp. 2866–80, doi:10.1242/jcs.167999.
short: K. Holst, D. Guseva, S. Schindler, M.K. Sixt, A. Braun, H. Chopra, O. Pabst,
E. Ponimaskin, Journal of Cell Science 128 (2015) 2866–2880.
date_created: 2018-12-11T11:46:41Z
date_published: 2015-06-15T00:00:00Z
date_updated: 2025-09-23T14:16:38Z
day: '15'
department:
- _id: MiSi
doi: 10.1242/jcs.167999
external_id:
isi:
- '000359782100013'
intvolume: ' 128'
isi: 1
issue: '15'
language:
- iso: eng
month: '06'
oa_version: None
page: 2866 - 2880
publication: Journal of Cell Science
publication_status: published
publisher: Company of Biologists
publist_id: '7343'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The serotonin receptor 5-HT7R regulates the morphology and migratory properties
of dendritic cells
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 128
year: '2015'
...
---
_id: '523'
abstract:
- lang: eng
text: We consider two-player games played on weighted directed graphs with mean-payoff
and total-payoff objectives, two classical quantitative objectives. While for
single-dimensional games the complexity and memory bounds for both objectives
coincide, we show that in contrast to multi-dimensional mean-payoff games that
are known to be coNP-complete, multi-dimensional total-payoff games are undecidable.
We introduce conservative approximations of these objectives, where the payoff
is considered over a local finite window sliding along a play, instead of the
whole play. For single dimension, we show that (i) if the window size is polynomial,
deciding the winner takes polynomial time, and (ii) the existence of a bounded
window can be decided in NP ∩ coNP, and is at least as hard as solving mean-payoff
games. For multiple dimensions, we show that (i) the problem with fixed window
size is EXPTIME-complete, and (ii) there is no primitive-recursive algorithm to
decide the existence of a bounded window.
article_processing_charge: No
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: Laurent
full_name: Doyen, Laurent
last_name: Doyen
- first_name: Mickael
full_name: Randour, Mickael
last_name: Randour
- first_name: Jean
full_name: Raskin, Jean
last_name: Raskin
citation:
ama: Chatterjee K, Doyen L, Randour M, Raskin J. Looking at mean-payoff and total-payoff
through windows. Information and Computation. 2015;242(6):25-52. doi:10.1016/j.ic.2015.03.010
apa: Chatterjee, K., Doyen, L., Randour, M., & Raskin, J. (2015). Looking at
mean-payoff and total-payoff through windows. Information and Computation.
Elsevier. https://doi.org/10.1016/j.ic.2015.03.010
chicago: Chatterjee, Krishnendu, Laurent Doyen, Mickael Randour, and Jean Raskin.
“Looking at Mean-Payoff and Total-Payoff through Windows.” Information and
Computation. Elsevier, 2015. https://doi.org/10.1016/j.ic.2015.03.010.
ieee: K. Chatterjee, L. Doyen, M. Randour, and J. Raskin, “Looking at mean-payoff
and total-payoff through windows,” Information and Computation, vol. 242,
no. 6. Elsevier, pp. 25–52, 2015.
ista: Chatterjee K, Doyen L, Randour M, Raskin J. 2015. Looking at mean-payoff and
total-payoff through windows. Information and Computation. 242(6), 25–52.
mla: Chatterjee, Krishnendu, et al. “Looking at Mean-Payoff and Total-Payoff through
Windows.” Information and Computation, vol. 242, no. 6, Elsevier, 2015,
pp. 25–52, doi:10.1016/j.ic.2015.03.010.
short: K. Chatterjee, L. Doyen, M. Randour, J. Raskin, Information and Computation
242 (2015) 25–52.
date_created: 2018-12-11T11:46:57Z
date_published: 2015-03-24T00:00:00Z
date_updated: 2025-09-23T09:29:55Z
day: '24'
department:
- _id: KrCh
doi: 10.1016/j.ic.2015.03.010
ec_funded: 1
external_id:
arxiv:
- '1302.4248'
isi:
- '000355664900003'
intvolume: ' 242'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1302.4248
month: '03'
oa: 1
oa_version: Preprint
page: 25 - 52
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: Information and Computation
publication_status: published
publisher: Elsevier
publist_id: '7296'
quality_controlled: '1'
related_material:
record:
- id: '2279'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Looking at mean-payoff and total-payoff through windows
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 242
year: '2015'
...
---
_id: '524'
abstract:
- lang: eng
text: 'We consider concurrent games played by two players on a finite-state graph,
where in every round the players simultaneously choose a move, and the current
state along with the joint moves determine the successor state. We study the most
fundamental objective for concurrent games, namely, mean-payoff or limit-average
objective, where a reward is associated to each transition, and the goal of player
1 is to maximize the long-run average of the rewards, and the objective of player
2 is strictly the opposite (i.e., the games are zero-sum). The path constraint
for player 1 could be qualitative, i.e., the mean-payoff is the maximal reward,
or arbitrarily close to it; or quantitative, i.e., a given threshold between the
minimal and maximal reward. We consider the computation of the almost-sure (resp.
positive) winning sets, where player 1 can ensure that the path constraint is
satisfied with probability 1 (resp. positive probability). Almost-sure winning
with qualitative constraint exactly corresponds to the question of whether there
exists a strategy to ensure that the payoff is the maximal reward of the game.
Our main results for qualitative path constraints are as follows: (1) we establish
qualitative determinacy results that show that for every state either player 1
has a strategy to ensure almost-sure (resp. positive) winning against all player-2
strategies, or player 2 has a spoiling strategy to falsify almost-sure (resp.
positive) winning against all player-1 strategies; (2) we present optimal strategy
complexity results that precisely characterize the classes of strategies required
for almost-sure and positive winning for both players; and (3) we present quadratic
time algorithms to compute the almost-sure and the positive winning sets, matching
the best known bound of the algorithms for much simpler problems (such as reachability
objectives). For quantitative constraints we show that a polynomial time solution
for the almost-sure or the positive winning set would imply a solution to a long-standing
open problem (of solving the value problem of turn-based deterministic mean-payoff
games) that is not known to be solvable in polynomial time.'
article_processing_charge: No
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: Rasmus
full_name: Ibsen-Jensen, Rasmus
id: 3B699956-F248-11E8-B48F-1D18A9856A87
last_name: Ibsen-Jensen
orcid: 0000-0003-4783-0389
citation:
ama: Chatterjee K, Ibsen-Jensen R. Qualitative analysis of concurrent mean payoff
games. Information and Computation. 2015;242(6):2-24. doi:10.1016/j.ic.2015.03.009
apa: Chatterjee, K., & Ibsen-Jensen, R. (2015). Qualitative analysis of concurrent
mean payoff games. Information and Computation. Elsevier. https://doi.org/10.1016/j.ic.2015.03.009
chicago: Chatterjee, Krishnendu, and Rasmus Ibsen-Jensen. “Qualitative Analysis
of Concurrent Mean Payoff Games.” Information and Computation. Elsevier,
2015. https://doi.org/10.1016/j.ic.2015.03.009.
ieee: K. Chatterjee and R. Ibsen-Jensen, “Qualitative analysis of concurrent mean
payoff games,” Information and Computation, vol. 242, no. 6. Elsevier,
pp. 2–24, 2015.
ista: Chatterjee K, Ibsen-Jensen R. 2015. Qualitative analysis of concurrent mean
payoff games. Information and Computation. 242(6), 2–24.
mla: Chatterjee, Krishnendu, and Rasmus Ibsen-Jensen. “Qualitative Analysis of Concurrent
Mean Payoff Games.” Information and Computation, vol. 242, no. 6, Elsevier,
2015, pp. 2–24, doi:10.1016/j.ic.2015.03.009.
short: K. Chatterjee, R. Ibsen-Jensen, Information and Computation 242 (2015) 2–24.
corr_author: '1'
date_created: 2018-12-11T11:46:57Z
date_published: 2015-10-11T00:00:00Z
date_updated: 2025-09-23T09:56:28Z
day: '11'
department:
- _id: KrCh
doi: 10.1016/j.ic.2015.03.009
external_id:
arxiv:
- '1409.5306'
isi:
- '000355664900002'
intvolume: ' 242'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1409.5306
month: '10'
oa: 1
oa_version: Preprint
page: 2 - 24
publication: Information and Computation
publication_status: published
publisher: Elsevier
publist_id: '7295'
quality_controlled: '1'
related_material:
record:
- id: '5403'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Qualitative analysis of concurrent mean payoff games
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 242
year: '2015'
...
---
_id: '532'
abstract:
- lang: eng
text: Ethylene is a gaseous phytohormone that plays vital roles in plant growth
and development. Previous studies uncovered EIN2 as an essential signal transducer
linking ethylene perception on ER to transcriptional regulation in the nucleus
through a “cleave and shuttle” model. In this study, we report another mechanism
of EIN2-mediated ethylene signaling, whereby EIN2 imposes the translational repression
of EBF1 and EBF2 mRNA. We find that the EBF1/2 3′ UTRs mediate EIN2-directed translational
repression and identify multiple poly-uridylates (PolyU) motifs as functional
cis elements of 3′ UTRs. Furthermore, we demonstrate that ethylene induces EIN2
to associate with 3′ UTRs and target EBF1/2 mRNA to cytoplasmic processing-body
(P-body) through interacting with multiple P-body factors, including EIN5 and
PABs. Our study illustrates translational regulation as a key step in ethylene
signaling and presents mRNA 3′ UTR functioning as a “signal transducer” to sense
and relay cellular signaling in plants.
article_processing_charge: No
author:
- first_name: Wenyang
full_name: Li, Wenyang
last_name: Li
- first_name: Mengdi
full_name: Ma, Mengdi
last_name: Ma
- first_name: Ying
full_name: Feng, Ying
last_name: Feng
- first_name: Hongjiang
full_name: Li, Hongjiang
id: 33CA54A6-F248-11E8-B48F-1D18A9856A87
last_name: Li
orcid: 0000-0001-5039-9660
- first_name: Yichuan
full_name: Wang, Yichuan
last_name: Wang
- first_name: Yutong
full_name: Ma, Yutong
last_name: Ma
- first_name: Mingzhe
full_name: Li, Mingzhe
last_name: Li
- first_name: Fengying
full_name: An, Fengying
last_name: An
- first_name: Hongwei
full_name: Guo, Hongwei
last_name: Guo
citation:
ama: Li W, Ma M, Feng Y, et al. EIN2-directed translational regulation of ethylene
signaling in arabidopsis. Cell. 2015;163(3):670-683. doi:10.1016/j.cell.2015.09.037
apa: Li, W., Ma, M., Feng, Y., Li, H., Wang, Y., Ma, Y., … Guo, H. (2015). EIN2-directed
translational regulation of ethylene signaling in arabidopsis. Cell. Cell
Press. https://doi.org/10.1016/j.cell.2015.09.037
chicago: Li, Wenyang, Mengdi Ma, Ying Feng, Hongjiang Li, Yichuan Wang, Yutong Ma,
Mingzhe Li, Fengying An, and Hongwei Guo. “EIN2-Directed Translational Regulation
of Ethylene Signaling in Arabidopsis.” Cell. Cell Press, 2015. https://doi.org/10.1016/j.cell.2015.09.037.
ieee: W. Li et al., “EIN2-directed translational regulation of ethylene signaling
in arabidopsis,” Cell, vol. 163, no. 3. Cell Press, pp. 670–683, 2015.
ista: Li W, Ma M, Feng Y, Li H, Wang Y, Ma Y, Li M, An F, Guo H. 2015. EIN2-directed
translational regulation of ethylene signaling in arabidopsis. Cell. 163(3), 670–683.
mla: Li, Wenyang, et al. “EIN2-Directed Translational Regulation of Ethylene Signaling
in Arabidopsis.” Cell, vol. 163, no. 3, Cell Press, 2015, pp. 670–83, doi:10.1016/j.cell.2015.09.037.
short: W. Li, M. Ma, Y. Feng, H. Li, Y. Wang, Y. Ma, M. Li, F. An, H. Guo, Cell
163 (2015) 670–683.
date_created: 2018-12-11T11:47:00Z
date_published: 2015-10-22T00:00:00Z
date_updated: 2025-09-23T08:40:43Z
day: '22'
department:
- _id: JiFr
doi: 10.1016/j.cell.2015.09.037
external_id:
isi:
- '000364828900020'
intvolume: ' 163'
isi: 1
issue: '3'
language:
- iso: eng
month: '10'
oa_version: None
page: 670 - 683
publication: Cell
publication_status: published
publisher: Cell Press
publist_id: '7285'
quality_controlled: '1'
scopus_import: '1'
status: public
title: EIN2-directed translational regulation of ethylene signaling in arabidopsis
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 163
year: '2015'
...
---
_id: '5429'
abstract:
- lang: eng
text: "We consider Markov decision processes (MDPs) with multiple limit-average
(or mean-payoff) objectives. \r\nThere have been two different views: (i) the
expectation semantics, where the goal is to optimize the expected mean-payoff
objective, and (ii) the satisfaction semantics, where the goal is to maximize
the probability of runs such that the mean-payoff value stays above a given vector.
\ \r\nWe consider the problem where the goal is to optimize the expectation under
the constraint that the satisfaction semantics is ensured, and thus consider a
generalization that unifies the existing semantics.\r\nOur problem captures the
notion of optimization with respect to strategies that are risk-averse (i.e.,
ensures certain probabilistic guarantee).\r\nOur main results are algorithms for
the decision problem which are always polynomial in the size of the MDP. We also
show that an approximation of the Pareto-curve can be computed in time polynomial
in the size of the MDP, and the approximation factor, but exponential in the number
of dimensions.\r\nFinally, we present a complete characterization of the strategy
complexity (in terms of memory bounds and randomization) required to solve our
problem."
alternative_title:
- IST Austria Technical Report
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Zuzana
full_name: Komarkova, Zuzana
last_name: Komarkova
- first_name: Jan
full_name: Kretinsky, Jan
id: 44CEF464-F248-11E8-B48F-1D18A9856A87
last_name: Kretinsky
orcid: 0000-0002-8122-2881
citation:
ama: Chatterjee K, Komarkova Z, Kretinsky J. Unifying Two Views on Multiple Mean-Payoff
Objectives in Markov Decision Processes. IST Austria; 2015. doi:10.15479/AT:IST-2015-318-v1-1
apa: Chatterjee, K., Komarkova, Z., & Kretinsky, J. (2015). Unifying two
views on multiple mean-payoff objectives in Markov decision processes. IST
Austria. https://doi.org/10.15479/AT:IST-2015-318-v1-1
chicago: Chatterjee, Krishnendu, Zuzana Komarkova, and Jan Kretinsky. Unifying
Two Views on Multiple Mean-Payoff Objectives in Markov Decision Processes.
IST Austria, 2015. https://doi.org/10.15479/AT:IST-2015-318-v1-1.
ieee: K. Chatterjee, Z. Komarkova, and J. Kretinsky, Unifying two views on multiple
mean-payoff objectives in Markov decision processes. IST Austria, 2015.
ista: Chatterjee K, Komarkova Z, Kretinsky J. 2015. Unifying two views on multiple
mean-payoff objectives in Markov decision processes, IST Austria, 41p.
mla: Chatterjee, Krishnendu, et al. Unifying Two Views on Multiple Mean-Payoff
Objectives in Markov Decision Processes. IST Austria, 2015, doi:10.15479/AT:IST-2015-318-v1-1.
short: K. Chatterjee, Z. Komarkova, J. Kretinsky, Unifying Two Views on Multiple
Mean-Payoff Objectives in Markov Decision Processes, IST Austria, 2015.
date_created: 2018-12-12T11:39:17Z
date_published: 2015-01-12T00:00:00Z
date_updated: 2025-09-29T11:00:42Z
day: '12'
ddc:
- '004'
department:
- _id: KrCh
doi: 10.15479/AT:IST-2015-318-v1-1
file:
- access_level: open_access
checksum: e4869a584567c506349abda9c8ec7db3
content_type: application/pdf
creator: system
date_created: 2018-12-12T11:54:11Z
date_updated: 2020-07-14T12:46:52Z
file_id: '5533'
file_name: IST-2015-318-v1+1_main.pdf
file_size: 689863
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file_date_updated: 2020-07-14T12:46:52Z
has_accepted_license: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: '41'
publication_identifier:
issn:
- 2664-1690
publication_status: published
publisher: IST Austria
pubrep_id: '318'
related_material:
record:
- id: '5435'
relation: later_version
status: public
- id: '466'
relation: later_version
status: public
- id: '1657'
relation: later_version
status: public
status: public
title: Unifying two views on multiple mean-payoff objectives in Markov decision processes
type: technical_report
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2015'
...
---
_id: '5430'
abstract:
- lang: eng
text: We consider the core algorithmic problems related to verification of systems
with respect to three classical quantitative properties, namely, the mean- payoff
property, the ratio property, and the minimum initial credit for energy property.
The algorithmic problem given a graph and a quantitative property asks to compute
the optimal value (the infimum value over all traces) from every node of the graph.
We consider graphs with constant treewidth, and it is well-known that the control-flow
graphs of most programs have constant treewidth. Let n denote the number of nodes
of a graph, m the number of edges (for constant treewidth graphs m = O ( n ) )
and W the largest absolute value of the weights. Our main theoretical results
are as follows. First, for constant treewidth graphs we present an algorithm that
approximates the mean-payoff value within a mul- tiplicative factor of ∊ in time
O ( n · log( n/∊ )) and linear space, as compared to the classical algorithms
that require quadratic time. Second, for the ratio property we present an algorithm
that for constant treewidth graphs works in time O ( n · log( | a · b · n | ))
= O ( n · log( n · W )) , when the output is a b , as compared to the previously
best known algorithm with running time O ( n 2 · log( n · W )) . Third, for the
minimum initial credit problem we show that (i) for general graphs the problem
can be solved in O ( n 2 · m ) time and the associated decision problem can be
solved in O ( n · m ) time, improving the previous known O ( n 3 · m · log( n
· W )) and O ( n 2 · m ) bounds, respectively; and (ii) for constant treewidth
graphs we present an algorithm that requires O ( n · log n ) time, improving the
previous known O ( n 4 · log( n · W )) bound. We have implemented some of our
algorithms and show that they present a significant speedup on standard benchmarks.
alternative_title:
- IST Austria Technical Report
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- 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, Ibsen-Jensen R, Pavlogiannis A. Faster Algorithms for Quantitative
Verification in Constant Treewidth Graphs. IST Austria; 2015. doi:10.15479/AT:IST-2015-319-v1-1
apa: Chatterjee, K., Ibsen-Jensen, R., & Pavlogiannis, A. (2015). Faster
algorithms for quantitative verification in constant treewidth graphs. IST
Austria. https://doi.org/10.15479/AT:IST-2015-319-v1-1
chicago: Chatterjee, Krishnendu, Rasmus Ibsen-Jensen, and Andreas Pavlogiannis.
Faster Algorithms for Quantitative Verification in Constant Treewidth Graphs.
IST Austria, 2015. https://doi.org/10.15479/AT:IST-2015-319-v1-1.
ieee: K. Chatterjee, R. Ibsen-Jensen, and A. Pavlogiannis, Faster algorithms
for quantitative verification in constant treewidth graphs. IST Austria, 2015.
ista: Chatterjee K, Ibsen-Jensen R, Pavlogiannis A. 2015. Faster algorithms for
quantitative verification in constant treewidth graphs, IST Austria, 31p.
mla: Chatterjee, Krishnendu, et al. Faster Algorithms for Quantitative Verification
in Constant Treewidth Graphs. IST Austria, 2015, doi:10.15479/AT:IST-2015-319-v1-1.
short: K. Chatterjee, R. Ibsen-Jensen, A. Pavlogiannis, Faster Algorithms for Quantitative
Verification in Constant Treewidth Graphs, IST Austria, 2015.
date_created: 2018-12-12T11:39:17Z
date_published: 2015-02-10T00:00:00Z
date_updated: 2025-09-23T08:47:23Z
day: '10'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.15479/AT:IST-2015-319-v1-1
file:
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checksum: 62c6ea01e342553dcafb88a070fb1ad5
content_type: application/pdf
creator: system
date_created: 2018-12-12T11:53:21Z
date_updated: 2020-07-14T12:46:52Z
file_id: '5482'
file_name: IST-2015-319-v1+1_long.pdf
file_size: 1089651
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file_date_updated: 2020-07-14T12:46:52Z
has_accepted_license: '1'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: '31'
publication_identifier:
issn:
- 2664-1690
publication_status: published
publisher: IST Austria
pubrep_id: '319'
related_material:
record:
- id: '5437'
relation: later_version
status: public
- id: '1607'
relation: later_version
status: public
status: public
title: Faster algorithms for quantitative verification in constant treewidth graphs
type: technical_report
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2015'
...
---
_id: '5431'
abstract:
- lang: eng
text: "We consider finite-state concurrent stochastic games, played by k>=2 players
for an infinite number of rounds, where in every round, each player simultaneously
and independently of the other players chooses an action, whereafter the successor
state is determined by a probability distribution given by the current state and
the chosen actions. We consider reachability objectives that given a target set
of states require that some state in the target set is visited, and the dual safety
objectives that given a target set require that only states in the target set
are visited. We are interested in the complexity of stationary strategies measured
by their patience, which is defined as the inverse of the smallest non-zero probability
employed.\r\n\r\n Our main results are as follows: We show that in two-player
zero-sum concurrent stochastic games (with reachability objective for one player
and the complementary safety objective for the other player): (i) the optimal
bound on the patience of optimal and epsilon-optimal strategies, for both players
is doubly exponential; and (ii) even in games with a single non-absorbing state
exponential (in the number of actions) patience is necessary. In general we study
the class of non-zero-sum games admitting epsilon-Nash equilibria. We show that
if there is at least one player with reachability objective, then doubly-exponential
patience is needed in general for epsilon-Nash equilibrium strategies, whereas
in contrast if all players have safety objectives, then the optimal bound on patience
for epsilon-Nash equilibrium strategies is only exponential."
alternative_title:
- IST Austria Technical Report
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- 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: Kristoffer
full_name: Hansen, Kristoffer
last_name: Hansen
citation:
ama: Chatterjee K, Ibsen-Jensen R, Hansen K. The Patience of Concurrent Stochastic
Games with Safety and Reachability Objectives. IST Austria; 2015. doi:10.15479/AT:IST-2015-322-v1-1
apa: Chatterjee, K., Ibsen-Jensen, R., & Hansen, K. (2015). The patience
of concurrent stochastic games with safety and reachability objectives. IST
Austria. https://doi.org/10.15479/AT:IST-2015-322-v1-1
chicago: Chatterjee, Krishnendu, Rasmus Ibsen-Jensen, and Kristoffer Hansen. The
Patience of Concurrent Stochastic Games with Safety and Reachability Objectives.
IST Austria, 2015. https://doi.org/10.15479/AT:IST-2015-322-v1-1.
ieee: K. Chatterjee, R. Ibsen-Jensen, and K. Hansen, The patience of concurrent
stochastic games with safety and reachability objectives. IST Austria, 2015.
ista: Chatterjee K, Ibsen-Jensen R, Hansen K. 2015. The patience of concurrent stochastic
games with safety and reachability objectives, IST Austria, 25p.
mla: Chatterjee, Krishnendu, et al. The Patience of Concurrent Stochastic Games
with Safety and Reachability Objectives. IST Austria, 2015, doi:10.15479/AT:IST-2015-322-v1-1.
short: K. Chatterjee, R. Ibsen-Jensen, K. Hansen, The Patience of Concurrent Stochastic
Games with Safety and Reachability Objectives, IST Austria, 2015.
date_created: 2018-12-12T11:39:17Z
date_published: 2015-02-19T00:00:00Z
date_updated: 2021-01-12T08:02:13Z
day: '19'
ddc:
- '005'
- '519'
department:
- _id: KrCh
doi: 10.15479/AT:IST-2015-322-v1-1
file:
- access_level: open_access
checksum: bfb858262c30445b8e472c40069178a2
content_type: application/pdf
creator: system
date_created: 2018-12-12T11:53:31Z
date_updated: 2020-07-14T12:46:53Z
file_id: '5491'
file_name: IST-2015-322-v1+1_safetygames.pdf
file_size: 661015
relation: main_file
file_date_updated: 2020-07-14T12:46:53Z
has_accepted_license: '1'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: '25'
publication_identifier:
issn:
- 2664-1690
publication_status: published
publisher: IST Austria
pubrep_id: '322'
status: public
title: The patience of concurrent stochastic games with safety and reachability objectives
type: technical_report
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2015'
...
---
_id: '5432'
abstract:
- lang: eng
text: "Evolution occurs in populations of reproducing individuals. The structure
of the population affects the outcome of the evolutionary process. Evolutionary
graph theory is a powerful approach to study this phenomenon. There are two graphs.
The interaction graph specifies who interacts with whom in the context of evolution.The
replacement graph specifies who competes with whom for reproduction. \r\nThe vertices
of the two graphs are the same, and each vertex corresponds to an individual of
the population. A key quantity is the fixation probability of a new mutant. It
is defined as the probability that a newly introduced mutant (on a single vertex)
generates a lineage of offspring which eventually takes over the entire population
of resident individuals. The basic computational questions are as follows: (i)
the qualitative question asks whether the fixation probability is positive; and
(ii) the quantitative approximation question asks for an approximation of the
fixation probability. \r\nOur main results are:\r\n(1) We show that the qualitative
question is NP-complete and the quantitative approximation question is #P-hard
in the special case when the interaction and the replacement graphs coincide and
even with the restriction that the resident individuals do not reproduce (which
corresponds to an invading population taking over an empty structure).\r\n(2)
We show that in general the qualitative question is PSPACE-complete and the quantitative
approximation question is PSPACE-hard and can be solved in exponential time.\r\n"
alternative_title:
- IST Austria Technical Report
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- 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: Martin
full_name: Nowak, Martin
last_name: Nowak
citation:
ama: Chatterjee K, Ibsen-Jensen R, Nowak M. The Complexity of Evolutionary Games
on Graphs. IST Austria; 2015. doi:10.15479/AT:IST-2015-323-v1-1
apa: Chatterjee, K., Ibsen-Jensen, R., & Nowak, M. (2015). The complexity
of evolutionary games on graphs. IST Austria. https://doi.org/10.15479/AT:IST-2015-323-v1-1
chicago: Chatterjee, Krishnendu, Rasmus Ibsen-Jensen, and Martin Nowak. The Complexity
of Evolutionary Games on Graphs. IST Austria, 2015. https://doi.org/10.15479/AT:IST-2015-323-v1-1.
ieee: K. Chatterjee, R. Ibsen-Jensen, and M. Nowak, The complexity of evolutionary
games on graphs. IST Austria, 2015.
ista: Chatterjee K, Ibsen-Jensen R, Nowak M. 2015. The complexity of evolutionary
games on graphs, IST Austria, 29p.
mla: Chatterjee, Krishnendu, et al. The Complexity of Evolutionary Games on Graphs.
IST Austria, 2015, doi:10.15479/AT:IST-2015-323-v1-1.
short: K. Chatterjee, R. Ibsen-Jensen, M. Nowak, The Complexity of Evolutionary
Games on Graphs, IST Austria, 2015.
date_created: 2018-12-12T11:39:18Z
date_published: 2015-02-19T00:00:00Z
date_updated: 2023-02-23T12:26:33Z
day: '19'
ddc:
- '005'
- '576'
department:
- _id: KrCh
doi: 10.15479/AT:IST-2015-323-v1-1
file:
- access_level: open_access
checksum: 546c1b291d545e7b24aaaf4199dac671
content_type: application/pdf
creator: system
date_created: 2018-12-12T11:53:57Z
date_updated: 2020-07-14T12:46:53Z
file_id: '5519'
file_name: IST-2015-323-v1+1_main.pdf
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file_date_updated: 2020-07-14T12:46:53Z
has_accepted_license: '1'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: '29'
publication_identifier:
issn:
- 2664-1690
publication_status: published
publisher: IST Austria
pubrep_id: '323'
related_material:
record:
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relation: earlier_version
status: public
- id: '5440'
relation: later_version
status: public
status: public
title: The complexity of evolutionary games on graphs
type: technical_report
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2015'
...
---
_id: '5434'
abstract:
- lang: eng
text: DEC-POMDPs extend POMDPs to a multi-agent setting, where several agents operate
in an uncertain environment independently to achieve a joint objective. DEC-POMDPs
have been studied with finite-horizon and infinite-horizon discounted-sum objectives,
and there exist solvers both for exact and approximate solutions. In this work
we consider Goal-DEC-POMDPs, where given a set of target states, the objective
is to ensure that the target set is reached with minimal cost. We consider the
indefinite-horizon (infinite-horizon with either discounted-sum, or undiscounted-sum,
where absorbing goal states have zero-cost) problem. We present a new method to
solve the problem that extends methods for finite-horizon DEC- POMDPs and the
RTDP-Bel approach for POMDPs. We present experimental results on several examples,
and show our approach presents promising results.
alternative_title:
- IST Austria Technical Report
author:
- first_name: '1'
full_name: Anonymous, 1
last_name: Anonymous
- first_name: '2'
full_name: Anonymous, 2
last_name: Anonymous
citation:
ama: Anonymous 1, Anonymous 2. Optimal Cost Indefinite-Horizon Reachability in
Goal DEC-POMDPs. IST Austria; 2015.
apa: Anonymous, 1, & Anonymous, 2. (2015). Optimal cost indefinite-horizon
reachability in goal DEC-POMDPs. IST Austria.
chicago: Anonymous, 1, and 2 Anonymous. Optimal Cost Indefinite-Horizon Reachability
in Goal DEC-POMDPs. IST Austria, 2015.
ieee: 1 Anonymous and 2 Anonymous, Optimal cost indefinite-horizon reachability
in goal DEC-POMDPs. IST Austria, 2015.
ista: Anonymous 1, Anonymous 2. 2015. Optimal cost indefinite-horizon reachability
in goal DEC-POMDPs, IST Austria, 16p.
mla: Anonymous, 1, and 2 Anonymous. Optimal Cost Indefinite-Horizon Reachability
in Goal DEC-POMDPs. IST Austria, 2015.
short: 1 Anonymous, 2 Anonymous, Optimal Cost Indefinite-Horizon Reachability in
Goal DEC-POMDPs, IST Austria, 2015.
date_created: 2018-12-12T11:39:18Z
date_published: 2015-02-19T00:00:00Z
date_updated: 2020-07-14T23:04:59Z
day: '19'
ddc:
- '000'
file:
- access_level: open_access
checksum: 8542fd0b10aed7811cd41077b8ccb632
content_type: application/pdf
creator: system
date_created: 2018-12-12T11:53:14Z
date_updated: 2020-07-14T12:46:53Z
file_id: '5475'
file_name: IST-2015-326-v1+1_main.pdf
file_size: 378162
relation: main_file
- access_level: closed
checksum: 84c31c537bdaf7a91909f18d25d640ab
content_type: text/plain
creator: dernst
date_created: 2019-04-16T13:00:33Z
date_updated: 2020-07-14T12:46:53Z
file_id: '6317'
file_name: IST-2015-326-v1+2_authors.txt
file_size: 64
relation: main_file
file_date_updated: 2020-07-14T12:46:53Z
has_accepted_license: '1'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: '16'
publication_identifier:
issn:
- 2664-1690
publication_status: published
publisher: IST Austria
pubrep_id: '326'
status: public
title: Optimal cost indefinite-horizon reachability in goal DEC-POMDPs
type: technical_report
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2015'
...