---
_id: '151'
abstract:
- lang: eng
text: We construct planar bi-Sobolev mappings whose local volume distortion is bounded
from below by a given function f∈Lp with p>1. More precisely, for any 1<q<(p+1)/2
we construct W1,q-bi-Sobolev maps with identity boundary conditions; for f∈L∞,
we provide bi-Lipschitz maps. The basic building block of our construction are
bi-Lipschitz maps which stretch a given compact subset of the unit square by a
given factor while preserving the boundary. The construction of these stretching
maps relies on a slight strengthening of the celebrated covering result of Alberti,
Csörnyei, and Preiss for measurable planar sets in the case of compact sets. We
apply our result to a model functional in nonlinear elasticity, the integrand
of which features fast blowup as the Jacobian determinant of the deformation becomes
small. For such functionals, the derivation of the equilibrium equations for minimizers
requires an additional regularization of test functions, which our maps provide.
article_processing_charge: No
author:
- first_name: Julian L
full_name: Fischer, Julian L
id: 2C12A0B0-F248-11E8-B48F-1D18A9856A87
last_name: Fischer
orcid: 0000-0002-0479-558X
- first_name: Olivier
full_name: Kneuss, Olivier
last_name: Kneuss
citation:
ama: Fischer JL, Kneuss O. Bi-Sobolev solutions to the prescribed Jacobian inequality
in the plane with L p data and applications to nonlinear elasticity. Journal
of Differential Equations. 2019;266(1):257-311. doi:10.1016/j.jde.2018.07.045
apa: Fischer, J. L., & Kneuss, O. (2019). Bi-Sobolev solutions to the prescribed
Jacobian inequality in the plane with L p data and applications to nonlinear elasticity.
Journal of Differential Equations. Elsevier. https://doi.org/10.1016/j.jde.2018.07.045
chicago: Fischer, Julian L, and Olivier Kneuss. “Bi-Sobolev Solutions to the Prescribed
Jacobian Inequality in the Plane with L p Data and Applications to Nonlinear Elasticity.”
Journal of Differential Equations. Elsevier, 2019. https://doi.org/10.1016/j.jde.2018.07.045.
ieee: J. L. Fischer and O. Kneuss, “Bi-Sobolev solutions to the prescribed Jacobian
inequality in the plane with L p data and applications to nonlinear elasticity,”
Journal of Differential Equations, vol. 266, no. 1. Elsevier, pp. 257–311,
2019.
ista: Fischer JL, Kneuss O. 2019. Bi-Sobolev solutions to the prescribed Jacobian
inequality in the plane with L p data and applications to nonlinear elasticity.
Journal of Differential Equations. 266(1), 257–311.
mla: Fischer, Julian L., and Olivier Kneuss. “Bi-Sobolev Solutions to the Prescribed
Jacobian Inequality in the Plane with L p Data and Applications to Nonlinear Elasticity.”
Journal of Differential Equations, vol. 266, no. 1, Elsevier, 2019, pp.
257–311, doi:10.1016/j.jde.2018.07.045.
short: J.L. Fischer, O. Kneuss, Journal of Differential Equations 266 (2019) 257–311.
date_created: 2018-12-11T11:44:54Z
date_published: 2019-01-05T00:00:00Z
date_updated: 2023-09-08T13:25:35Z
day: '05'
department:
- _id: JuFi
doi: 10.1016/j.jde.2018.07.045
external_id:
arxiv:
- '1408.1587'
isi:
- '000449108500010'
intvolume: ' 266'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1408.1587
month: '01'
oa: 1
oa_version: Preprint
page: 257 - 311
publication: Journal of Differential Equations
publication_status: published
publisher: Elsevier
publist_id: '7770'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Bi-Sobolev solutions to the prescribed Jacobian inequality in the plane with
L p data and applications to nonlinear elasticity
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 266
year: '2019'
...
---
_id: '27'
abstract:
- lang: eng
text: The cerebral cortex is composed of a large variety of distinct cell-types
including projection neurons, interneurons and glial cells which emerge from distinct
neural stem cell (NSC) lineages. The vast majority of cortical projection neurons
and certain classes of glial cells are generated by radial glial progenitor cells
(RGPs) in a highly orchestrated manner. Recent studies employing single cell analysis
and clonal lineage tracing suggest that NSC and RGP lineage progression are regulated
in a profound deterministic manner. In this review we focus on recent advances
based mainly on correlative phenotypic data emerging from functional genetic studies
in mice. We establish hypotheses to test in future research and outline a conceptual
framework how epigenetic cues modulate the generation of cell-type diversity during
cortical development. This article is protected by copyright. All rights reserved.
acknowledgement: " This work was supported by IST Austria institutional funds; NÖ
Forschung und Bildung \r\nn[f+b] (C13-002) to SH; a program grant from
\ the Human Frontiers Science Program (RGP0053/2014) to SH; the People
\ Programme (Marie Curie Actions) of the European Union’s Seventh Framework
Programme (FP7/2007-2013) under REA grant agreement No 618444 to SH, and the European
\ Research Council (ERC) under the European Union’s Horizon 2020 research
\ and innovation programme (grant agreement No 725780 LinPro)to SH.\r\n"
article_processing_charge: Yes (via OA deal)
article_type: review
author:
- first_name: Nicole
full_name: Amberg, Nicole
id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87
last_name: Amberg
orcid: 0000-0002-3183-8207
- first_name: Susanne
full_name: Laukoter, Susanne
id: 2D6B7A9A-F248-11E8-B48F-1D18A9856A87
last_name: Laukoter
orcid: 0000-0002-7903-3010
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
citation:
ama: Amberg N, Laukoter S, Hippenmeyer S. Epigenetic cues modulating the generation
of cell type diversity in the cerebral cortex. Journal of Neurochemistry.
2019;149(1):12-26. doi:10.1111/jnc.14601
apa: Amberg, N., Laukoter, S., & Hippenmeyer, S. (2019). Epigenetic cues modulating
the generation of cell type diversity in the cerebral cortex. Journal of Neurochemistry.
Wiley. https://doi.org/10.1111/jnc.14601
chicago: Amberg, Nicole, Susanne Laukoter, and Simon Hippenmeyer. “Epigenetic Cues
Modulating the Generation of Cell Type Diversity in the Cerebral Cortex.” Journal
of Neurochemistry. Wiley, 2019. https://doi.org/10.1111/jnc.14601.
ieee: N. Amberg, S. Laukoter, and S. Hippenmeyer, “Epigenetic cues modulating the
generation of cell type diversity in the cerebral cortex,” Journal of Neurochemistry,
vol. 149, no. 1. Wiley, pp. 12–26, 2019.
ista: Amberg N, Laukoter S, Hippenmeyer S. 2019. Epigenetic cues modulating the
generation of cell type diversity in the cerebral cortex. Journal of Neurochemistry.
149(1), 12–26.
mla: Amberg, Nicole, et al. “Epigenetic Cues Modulating the Generation of Cell Type
Diversity in the Cerebral Cortex.” Journal of Neurochemistry, vol. 149,
no. 1, Wiley, 2019, pp. 12–26, doi:10.1111/jnc.14601.
short: N. Amberg, S. Laukoter, S. Hippenmeyer, Journal of Neurochemistry 149 (2019)
12–26.
date_created: 2018-12-11T11:44:14Z
date_published: 2019-04-01T00:00:00Z
date_updated: 2023-09-11T13:40:26Z
day: '01'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.1111/jnc.14601
ec_funded: 1
external_id:
isi:
- '000462680200002'
file:
- access_level: open_access
checksum: db027721a95d36f5de36aadcd0bdf7e6
content_type: application/pdf
creator: kschuh
date_created: 2020-01-07T13:35:52Z
date_updated: 2020-07-14T12:45:45Z
file_id: '7239'
file_name: 2019_Wiley_Amberg.pdf
file_size: 889709
relation: main_file
file_date_updated: 2020-07-14T12:45:45Z
has_accepted_license: '1'
intvolume: ' 149'
isi: 1
issue: '1'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 12-26
project:
- _id: 25D92700-B435-11E9-9278-68D0E5697425
grant_number: LS13-002
name: Mapping Cell-Type Specificity of the Genomic Imprintome in the Brain
- _id: 25D7962E-B435-11E9-9278-68D0E5697425
grant_number: RGP0053/2014
name: Quantitative Structure-Function Analysis of Cerebral Cortex Assembly at Clonal
Level
- _id: 25D61E48-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '618444'
name: Molecular Mechanisms of Cerebral Cortex Development
- _id: 260018B0-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '725780'
name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
publication: Journal of Neurochemistry
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Epigenetic cues modulating the generation of cell type diversity in the cerebral
cortex
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 149
year: '2019'
...
---
_id: '5789'
abstract:
- lang: eng
text: Tissue morphogenesis is driven by mechanical forces that elicit changes in
cell size, shape and motion. The extent by which forces deform tissues critically
depends on the rheological properties of the recipient tissue. Yet, whether and
how dynamic changes in tissue rheology affect tissue morphogenesis and how they
are regulated within the developing organism remain unclear. Here, we show that
blastoderm spreading at the onset of zebrafish morphogenesis relies on a rapid,
pronounced and spatially patterned tissue fluidization. Blastoderm fluidization
is temporally controlled by mitotic cell rounding-dependent cell–cell contact
disassembly during the last rounds of cell cleavages. Moreover, fluidization is
spatially restricted to the central blastoderm by local activation of non-canonical
Wnt signalling within the blastoderm margin, increasing cell cohesion and thereby
counteracting the effect of mitotic rounding on contact disassembly. Overall,
our results identify a fluidity transition mediated by loss of cell cohesion as
a critical regulator of embryo morphogenesis.
acknowledged_ssus:
- _id: Bio
article_processing_charge: No
article_type: original
author:
- first_name: Nicoletta
full_name: Petridou, Nicoletta
id: 2A003F6C-F248-11E8-B48F-1D18A9856A87
last_name: Petridou
orcid: 0000-0002-8451-1195
- first_name: Silvia
full_name: Grigolon, Silvia
last_name: Grigolon
- first_name: Guillaume
full_name: Salbreux, Guillaume
last_name: Salbreux
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Petridou N, Grigolon S, Salbreux G, Hannezo EB, Heisenberg C-PJ. Fluidization-mediated
tissue spreading by mitotic cell rounding and non-canonical Wnt signalling. Nature
Cell Biology. 2019;21:169–178. doi:10.1038/s41556-018-0247-4
apa: Petridou, N., Grigolon, S., Salbreux, G., Hannezo, E. B., & Heisenberg,
C.-P. J. (2019). Fluidization-mediated tissue spreading by mitotic cell rounding
and non-canonical Wnt signalling. Nature Cell Biology. Nature Publishing
Group. https://doi.org/10.1038/s41556-018-0247-4
chicago: Petridou, Nicoletta, Silvia Grigolon, Guillaume Salbreux, Edouard B Hannezo,
and Carl-Philipp J Heisenberg. “Fluidization-Mediated Tissue Spreading by Mitotic
Cell Rounding and Non-Canonical Wnt Signalling.” Nature Cell Biology. Nature
Publishing Group, 2019. https://doi.org/10.1038/s41556-018-0247-4.
ieee: N. Petridou, S. Grigolon, G. Salbreux, E. B. Hannezo, and C.-P. J. Heisenberg,
“Fluidization-mediated tissue spreading by mitotic cell rounding and non-canonical
Wnt signalling,” Nature Cell Biology, vol. 21. Nature Publishing Group,
pp. 169–178, 2019.
ista: Petridou N, Grigolon S, Salbreux G, Hannezo EB, Heisenberg C-PJ. 2019. Fluidization-mediated
tissue spreading by mitotic cell rounding and non-canonical Wnt signalling. Nature
Cell Biology. 21, 169–178.
mla: Petridou, Nicoletta, et al. “Fluidization-Mediated Tissue Spreading by Mitotic
Cell Rounding and Non-Canonical Wnt Signalling.” Nature Cell Biology, vol.
21, Nature Publishing Group, 2019, pp. 169–178, doi:10.1038/s41556-018-0247-4.
short: N. Petridou, S. Grigolon, G. Salbreux, E.B. Hannezo, C.-P.J. Heisenberg,
Nature Cell Biology 21 (2019) 169–178.
date_created: 2018-12-30T22:59:15Z
date_published: 2019-02-01T00:00:00Z
date_updated: 2023-09-11T14:03:28Z
day: '01'
ddc:
- '570'
department:
- _id: CaHe
- _id: EdHa
doi: 10.1038/s41556-018-0247-4
ec_funded: 1
external_id:
isi:
- '000457468300011'
pmid:
- '30559456'
file:
- access_level: open_access
checksum: e38523787b3bc84006f2793de99ad70f
content_type: application/pdf
creator: dernst
date_created: 2020-10-21T07:18:35Z
date_updated: 2020-10-21T07:18:35Z
file_id: '8685'
file_name: 2018_NatureCellBio_Petridou_accepted.pdf
file_size: 71590590
relation: main_file
success: 1
file_date_updated: 2020-10-21T07:18:35Z
has_accepted_license: '1'
intvolume: ' 21'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Submitted Version
page: 169–178
pmid: 1
project:
- _id: 260F1432-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742573'
name: Interaction and feedback between cell mechanics and fate specification in
vertebrate gastrulation
- _id: 253E54C8-B435-11E9-9278-68D0E5697425
grant_number: ALTF710-2016
name: Molecular mechanism of auxindriven formative divisions delineating lateral
root organogenesis in plants (EMBO fellowship)
publication: Nature Cell Biology
publication_identifier:
issn:
- '14657392'
publication_status: published
publisher: Nature Publishing Group
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/when-a-fish-becomes-fluid/
scopus_import: '1'
status: public
title: Fluidization-mediated tissue spreading by mitotic cell rounding and non-canonical
Wnt signalling
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 21
year: '2019'
...
---
_id: '196'
abstract:
- lang: eng
text: 'The abelian sandpile serves as a model to study self-organized criticality,
a phenomenon occurring in biological, physical and social processes. The identity
of the abelian group is a fractal composed of self-similar patches, and its limit
is subject of extensive collaborative research. Here, we analyze the evolution
of the sandpile identity under harmonic fields of different orders. We show that
this evolution corresponds to periodic cycles through the abelian group characterized
by the smooth transformation and apparent conservation of the patches constituting
the identity. The dynamics induced by second and third order harmonics resemble
smooth stretchings, respectively translations, of the identity, while the ones
induced by fourth order harmonics resemble magnifications and rotations. Starting
with order three, the dynamics pass through extended regions of seemingly random
configurations which spontaneously reassemble into accentuated patterns. We show
that the space of harmonic functions projects to the extended analogue of the
sandpile group, thus providing a set of universal coordinates identifying configurations
between different domains. Since the original sandpile group is a subgroup of
the extended one, this directly implies that it admits a natural renormalization.
Furthermore, we show that the harmonic fields can be induced by simple Markov
processes, and that the corresponding stochastic dynamics show remarkable robustness
over hundreds of periods. Finally, we encode information into seemingly random
configurations, and decode this information with an algorithm requiring minimal
prior knowledge. Our results suggest that harmonic fields might split the sandpile
group into sub-sets showing different critical coefficients, and that it might
be possible to extend the fractal structure of the identity beyond the boundaries
of its domain. '
acknowledgement: "M.L. is grateful to the members of the C Guet and G Tkacik groups
for valuable comments and support. M.S. is grateful to Nikita Kalinin for inspiring
communications.\r\n"
article_processing_charge: No
article_type: original
author:
- first_name: Moritz
full_name: Lang, Moritz
id: 29E0800A-F248-11E8-B48F-1D18A9856A87
last_name: Lang
- first_name: Mikhail
full_name: Shkolnikov, Mikhail
id: 35084A62-F248-11E8-B48F-1D18A9856A87
last_name: Shkolnikov
orcid: 0000-0002-4310-178X
citation:
ama: Lang M, Shkolnikov M. Harmonic dynamics of the Abelian sandpile. Proceedings
of the National Academy of Sciences. 2019;116(8):2821-2830. doi:10.1073/pnas.1812015116
apa: Lang, M., & Shkolnikov, M. (2019). Harmonic dynamics of the Abelian sandpile.
Proceedings of the National Academy of Sciences. National Academy of Sciences.
https://doi.org/10.1073/pnas.1812015116
chicago: Lang, Moritz, and Mikhail Shkolnikov. “Harmonic Dynamics of the Abelian
Sandpile.” Proceedings of the National Academy of Sciences. National Academy
of Sciences, 2019. https://doi.org/10.1073/pnas.1812015116.
ieee: M. Lang and M. Shkolnikov, “Harmonic dynamics of the Abelian sandpile,” Proceedings
of the National Academy of Sciences, vol. 116, no. 8. National Academy of
Sciences, pp. 2821–2830, 2019.
ista: Lang M, Shkolnikov M. 2019. Harmonic dynamics of the Abelian sandpile. Proceedings
of the National Academy of Sciences. 116(8), 2821–2830.
mla: Lang, Moritz, and Mikhail Shkolnikov. “Harmonic Dynamics of the Abelian Sandpile.”
Proceedings of the National Academy of Sciences, vol. 116, no. 8, National
Academy of Sciences, 2019, pp. 2821–30, doi:10.1073/pnas.1812015116.
short: M. Lang, M. Shkolnikov, Proceedings of the National Academy of Sciences 116
(2019) 2821–2830.
date_created: 2018-12-11T11:45:08Z
date_published: 2019-02-19T00:00:00Z
date_updated: 2023-09-11T14:09:34Z
day: '19'
department:
- _id: CaGu
- _id: GaTk
- _id: TaHa
doi: 10.1073/pnas.1812015116
external_id:
arxiv:
- '1806.10823'
isi:
- '000459074400013'
pmid:
- ' 30728300'
intvolume: ' 116'
isi: 1
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1073/pnas.1812015116
month: '02'
oa: 1
oa_version: Published Version
page: 2821-2830
pmid: 1
publication: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
related_material:
link:
- description: News on IST Webpage
relation: press_release
url: https://ist.ac.at/en/news/famous-sandpile-model-shown-to-move-like-a-traveling-sand-dune/
scopus_import: '1'
status: public
title: Harmonic dynamics of the Abelian sandpile
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 116
year: '2019'
...
---
_id: '5817'
abstract:
- lang: eng
text: We theoretically study the shapes of lipid vesicles confined to a spherical
cavity, elaborating a framework based on the so-called limiting shapes constructed
from geometrically simple structural elements such as double-membrane walls and
edges. Partly inspired by numerical results, the proposed non-compartmentalized
and compartmentalized limiting shapes are arranged in the bilayer-couple phase
diagram which is then compared to its free-vesicle counterpart. We also compute
the area-difference-elasticity phase diagram of the limiting shapes and we use
it to interpret shape transitions experimentally observed in vesicles confined
within another vesicle. The limiting-shape framework may be generalized to theoretically
investigate the structure of certain cell organelles such as the mitochondrion.
article_processing_charge: No
article_type: original
author:
- first_name: Bor
full_name: Kavcic, Bor
id: 350F91D2-F248-11E8-B48F-1D18A9856A87
last_name: Kavcic
orcid: 0000-0001-6041-254X
- first_name: A.
full_name: Sakashita, A.
last_name: Sakashita
- first_name: H.
full_name: Noguchi, H.
last_name: Noguchi
- first_name: P.
full_name: Ziherl, P.
last_name: Ziherl
citation:
ama: Kavcic B, Sakashita A, Noguchi H, Ziherl P. Limiting shapes of confined lipid
vesicles. Soft Matter. 2019;15(4):602-614. doi:10.1039/c8sm01956h
apa: Kavcic, B., Sakashita, A., Noguchi, H., & Ziherl, P. (2019). Limiting shapes
of confined lipid vesicles. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/c8sm01956h
chicago: Kavcic, Bor, A. Sakashita, H. Noguchi, and P. Ziherl. “Limiting Shapes
of Confined Lipid Vesicles.” Soft Matter. Royal Society of Chemistry, 2019.
https://doi.org/10.1039/c8sm01956h.
ieee: B. Kavcic, A. Sakashita, H. Noguchi, and P. Ziherl, “Limiting shapes of confined
lipid vesicles,” Soft Matter, vol. 15, no. 4. Royal Society of Chemistry,
pp. 602–614, 2019.
ista: Kavcic B, Sakashita A, Noguchi H, Ziherl P. 2019. Limiting shapes of confined
lipid vesicles. Soft Matter. 15(4), 602–614.
mla: Kavcic, Bor, et al. “Limiting Shapes of Confined Lipid Vesicles.” Soft Matter,
vol. 15, no. 4, Royal Society of Chemistry, 2019, pp. 602–14, doi:10.1039/c8sm01956h.
short: B. Kavcic, A. Sakashita, H. Noguchi, P. Ziherl, Soft Matter 15 (2019) 602–614.
date_created: 2019-01-11T07:37:47Z
date_published: 2019-01-10T00:00:00Z
date_updated: 2023-09-13T08:47:16Z
day: '10'
ddc:
- '530'
department:
- _id: GaTk
doi: 10.1039/c8sm01956h
external_id:
isi:
- '000457329700003'
pmid:
- '30629082'
file:
- access_level: open_access
checksum: 614c337d6424ccd3d48d1b1f9513510d
content_type: application/pdf
creator: bkavcic
date_created: 2020-10-09T11:00:05Z
date_updated: 2020-10-09T11:00:05Z
file_id: '8641'
file_name: lmt_sftmtr_V8.pdf
file_size: 5370762
relation: main_file
success: 1
file_date_updated: 2020-10-09T11:00:05Z
has_accepted_license: '1'
intvolume: ' 15'
isi: 1
issue: '4'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/3.0/
month: '01'
oa: 1
oa_version: Submitted Version
page: 602-614
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: Limiting shapes of confined lipid vesicles
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/3.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivs 3.0 Unported (CC BY-NC-ND
3.0)
short: CC BY-NC-ND (3.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 15
year: '2019'
...
---
_id: '73'
abstract:
- lang: eng
text: We consider the space of probability measures on a discrete set X, endowed
with a dynamical optimal transport metric. Given two probability measures supported
in a subset Y⊆X, it is natural to ask whether they can be connected by a constant
speed geodesic with support in Y at all times. Our main result answers this question
affirmatively, under a suitable geometric condition on Y introduced in this paper.
The proof relies on an extension result for subsolutions to discrete Hamilton-Jacobi
equations, which is of independent interest.
article_number: '19'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Matthias
full_name: Erbar, Matthias
last_name: Erbar
- first_name: Jan
full_name: Maas, Jan
id: 4C5696CE-F248-11E8-B48F-1D18A9856A87
last_name: Maas
orcid: 0000-0002-0845-1338
- first_name: Melchior
full_name: Wirth, Melchior
last_name: Wirth
citation:
ama: Erbar M, Maas J, Wirth M. On the geometry of geodesics in discrete optimal
transport. Calculus of Variations and Partial Differential Equations. 2019;58(1).
doi:10.1007/s00526-018-1456-1
apa: Erbar, M., Maas, J., & Wirth, M. (2019). On the geometry of geodesics in
discrete optimal transport. Calculus of Variations and Partial Differential
Equations. Springer. https://doi.org/10.1007/s00526-018-1456-1
chicago: Erbar, Matthias, Jan Maas, and Melchior Wirth. “On the Geometry of Geodesics
in Discrete Optimal Transport.” Calculus of Variations and Partial Differential
Equations. Springer, 2019. https://doi.org/10.1007/s00526-018-1456-1.
ieee: M. Erbar, J. Maas, and M. Wirth, “On the geometry of geodesics in discrete
optimal transport,” Calculus of Variations and Partial Differential Equations,
vol. 58, no. 1. Springer, 2019.
ista: Erbar M, Maas J, Wirth M. 2019. On the geometry of geodesics in discrete optimal
transport. Calculus of Variations and Partial Differential Equations. 58(1), 19.
mla: Erbar, Matthias, et al. “On the Geometry of Geodesics in Discrete Optimal Transport.”
Calculus of Variations and Partial Differential Equations, vol. 58, no.
1, 19, Springer, 2019, doi:10.1007/s00526-018-1456-1.
short: M. Erbar, J. Maas, M. Wirth, Calculus of Variations and Partial Differential
Equations 58 (2019).
date_created: 2018-12-11T11:44:29Z
date_published: 2019-02-01T00:00:00Z
date_updated: 2023-09-13T09:12:35Z
day: '01'
ddc:
- '510'
department:
- _id: JaMa
doi: 10.1007/s00526-018-1456-1
ec_funded: 1
external_id:
arxiv:
- '1805.06040'
isi:
- '000452849400001'
file:
- access_level: open_access
checksum: ba05ac2d69de4c58d2cd338b63512798
content_type: application/pdf
creator: dernst
date_created: 2019-01-28T15:37:11Z
date_updated: 2020-07-14T12:47:55Z
file_id: '5895'
file_name: 2018_Calculus_Erbar.pdf
file_size: 645565
relation: main_file
file_date_updated: 2020-07-14T12:47:55Z
has_accepted_license: '1'
intvolume: ' 58'
isi: 1
issue: '1'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 256E75B8-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '716117'
name: Optimal Transport and Stochastic Dynamics
- _id: 260482E2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: ' F06504'
name: Taming Complexity in Partial Di erential Systems
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Calculus of Variations and Partial Differential Equations
publication_identifier:
issn:
- '09442669'
publication_status: published
publisher: Springer
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the geometry of geodesics in discrete optimal transport
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 58
year: '2019'
...
---
_id: '6982'
abstract:
- lang: eng
text: "We present an efficient algorithm for a problem in the interface between
clustering and graph embeddings. An embedding ϕ : G → M of a graph G into a 2-manifold
M maps the vertices in V(G) to distinct points and the edges in E(G) to interior-disjoint
Jordan arcs between the corresponding vertices. In applications in clustering,
cartography, and visualization, nearby vertices and edges are often bundled to
the same point or overlapping arcs due to data compression or low resolution.
This raises the computational problem of deciding whether a given map ϕ : G →
M comes from an embedding. A map ϕ : G → M is a weak embedding if it can be perturbed
into an embedding ψ ϵ : G → M with ‖ ϕ − ψ ϵ ‖ < ϵ for every ϵ > 0, where ‖.‖
is the unform norm.\r\nA polynomial-time algorithm for recognizing weak embeddings
has recently been found by Fulek and Kynčl. It reduces the problem to solving
a system of linear equations over Z2. It runs in O(n2ω)≤ O(n4.75) time, where
ω ∈ [2,2.373) is the matrix multiplication exponent and n is the number of vertices
and edges of G. We improve the running time to O(n log n). Our algorithm is also
conceptually simpler: We perform a sequence of local operations that gradually
“untangles” the image ϕ(G) into an embedding ψ(G) or reports that ϕ is not a weak
embedding. It combines local constraints on the orientation of subgraphs directly,
thereby eliminating the need for solving large systems of linear equations.\r\n"
article_number: '50'
article_type: original
author:
- first_name: Hugo
full_name: Akitaya, Hugo
last_name: Akitaya
- first_name: Radoslav
full_name: Fulek, Radoslav
id: 39F3FFE4-F248-11E8-B48F-1D18A9856A87
last_name: Fulek
orcid: 0000-0001-8485-1774
- first_name: Csaba
full_name: Tóth, Csaba
last_name: Tóth
citation:
ama: Akitaya H, Fulek R, Tóth C. Recognizing weak embeddings of graphs. ACM Transactions
on Algorithms. 2019;15(4). doi:10.1145/3344549
apa: Akitaya, H., Fulek, R., & Tóth, C. (2019). Recognizing weak embeddings
of graphs. ACM Transactions on Algorithms. ACM. https://doi.org/10.1145/3344549
chicago: Akitaya, Hugo, Radoslav Fulek, and Csaba Tóth. “Recognizing Weak Embeddings
of Graphs.” ACM Transactions on Algorithms. ACM, 2019. https://doi.org/10.1145/3344549.
ieee: H. Akitaya, R. Fulek, and C. Tóth, “Recognizing weak embeddings of graphs,”
ACM Transactions on Algorithms, vol. 15, no. 4. ACM, 2019.
ista: Akitaya H, Fulek R, Tóth C. 2019. Recognizing weak embeddings of graphs. ACM
Transactions on Algorithms. 15(4), 50.
mla: Akitaya, Hugo, et al. “Recognizing Weak Embeddings of Graphs.” ACM Transactions
on Algorithms, vol. 15, no. 4, 50, ACM, 2019, doi:10.1145/3344549.
short: H. Akitaya, R. Fulek, C. Tóth, ACM Transactions on Algorithms 15 (2019).
date_created: 2019-11-04T15:45:17Z
date_published: 2019-10-01T00:00:00Z
date_updated: 2023-09-15T12:19:31Z
day: '01'
department:
- _id: UlWa
doi: 10.1145/3344549
external_id:
arxiv:
- '1709.09209'
intvolume: ' 15'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1709.09209
month: '10'
oa: 1
oa_version: Preprint
project:
- _id: 261FA626-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02281
name: Eliminating intersections in drawings of graphs
publication: ACM Transactions on Algorithms
publication_status: published
publisher: ACM
quality_controlled: '1'
related_material:
record:
- id: '309'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: Recognizing weak embeddings of graphs
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15
year: '2019'
...
---
_id: '6894'
abstract:
- lang: eng
text: "Hybrid automata combine finite automata and dynamical systems, and model
the interaction of digital with physical systems. Formal analysis that can guarantee
the safety of all behaviors or rigorously witness failures, while unsolvable in
general, has been tackled algorithmically using, e.g., abstraction, bounded model-checking,
assisted theorem proving.\r\nNevertheless, very few methods have addressed the
time-unbounded reachability analysis of hybrid automata and, for current sound
and automatic tools, scalability remains critical. We develop methods for the
polyhedral abstraction of hybrid automata, which construct coarse overapproximations
and tightens them incrementally, in a CEGAR fashion. We use template polyhedra,
i.e., polyhedra whose facets are normal to a given set of directions.\r\nWhile,
previously, directions were given by the user, we introduce (1) the first method\r\nfor
computing template directions from spurious counterexamples, so as to generalize
and\r\neliminate them. The method applies naturally to convex hybrid automata,
i.e., hybrid\r\nautomata with (possibly non-linear) convex constraints on derivatives
only, while for linear\r\nODE requires further abstraction. Specifically, we introduce
(2) the conic abstractions,\r\nwhich, partitioning the state space into appropriate
(possibly non-uniform) cones, divide\r\ncurvy trajectories into relatively straight
sections, suitable for polyhedral abstractions.\r\nFinally, we introduce (3) space-time
interpolation, which, combining interval arithmetic\r\nand template refinement,
computes appropriate (possibly non-uniform) time partitioning\r\nand template
directions along spurious trajectories, so as to eliminate them.\r\nWe obtain
sound and automatic methods for the reachability analysis over dense\r\nand unbounded
time of convex hybrid automata and hybrid automata with linear ODE.\r\nWe build
prototype tools and compare—favorably—our methods against the respective\r\nstate-of-the-art
tools, on several benchmarks."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Mirco
full_name: Giacobbe, Mirco
id: 3444EA5E-F248-11E8-B48F-1D18A9856A87
last_name: Giacobbe
orcid: 0000-0001-8180-0904
citation:
ama: Giacobbe M. Automatic time-unbounded reachability analysis of hybrid systems.
2019. doi:10.15479/AT:ISTA:6894
apa: Giacobbe, M. (2019). Automatic time-unbounded reachability analysis of hybrid
systems. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:6894
chicago: Giacobbe, Mirco. “Automatic Time-Unbounded Reachability Analysis of Hybrid
Systems.” Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:6894.
ieee: M. Giacobbe, “Automatic time-unbounded reachability analysis of hybrid systems,”
Institute of Science and Technology Austria, 2019.
ista: Giacobbe M. 2019. Automatic time-unbounded reachability analysis of hybrid
systems. Institute of Science and Technology Austria.
mla: Giacobbe, Mirco. Automatic Time-Unbounded Reachability Analysis of Hybrid
Systems. Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:6894.
short: M. Giacobbe, Automatic Time-Unbounded Reachability Analysis of Hybrid Systems,
Institute of Science and Technology Austria, 2019.
date_created: 2019-09-22T14:08:44Z
date_published: 2019-09-30T00:00:00Z
date_updated: 2023-09-19T09:30:43Z
day: '30'
ddc:
- '000'
degree_awarded: PhD
department:
- _id: ToHe
doi: 10.15479/AT:ISTA:6894
file:
- access_level: open_access
checksum: 773beaf4a85dc2acc2c12b578fbe1965
content_type: application/pdf
creator: mgiacobbe
date_created: 2019-09-27T14:15:05Z
date_updated: 2020-07-14T12:47:43Z
file_id: '6916'
file_name: giacobbe_thesis.pdf
file_size: 4100685
relation: main_file
- access_level: closed
checksum: 97f1c3da71feefd27e6e625d32b4c75b
content_type: application/gzip
creator: mgiacobbe
date_created: 2019-09-27T14:22:04Z
date_updated: 2020-07-14T12:47:43Z
file_id: '6917'
file_name: giacobbe_thesis_src.tar.gz
file_size: 7959732
relation: source_file
file_date_updated: 2020-07-14T12:47:43Z
has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '132'
publication_identifier:
eissn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '631'
relation: part_of_dissertation
status: public
- id: '647'
relation: part_of_dissertation
status: public
- id: '140'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
title: Automatic time-unbounded reachability analysis of hybrid systems
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: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '9805'
abstract:
- lang: eng
text: The spread of adaptive alleles is fundamental to evolution, and in theory,
this process is well‐understood. However, only rarely can we follow this process—whether
it originates from the spread of a new mutation, or by introgression from another
population. In this issue of Molecular Ecology, Hanemaaijer et al. (2018) report
on a 25‐year long study of the mosquitoes Anopheles gambiae (Figure 1) and Anopheles
coluzzi in Mali, based on genotypes at 15 single‐nucleotide polymorphism (SNP).
The species are usually reproductively isolated from each other, but in 2002 and
2006, bursts of hybridization were observed, when F1 hybrids became abundant.
Alleles backcrossed from A. gambiae into A. coluzzi, but after the first event,
these declined over the following years. In contrast, after 2006, an insecticide
resistance allele that had established in A. gambiae spread into A. coluzzi, and
rose to high frequency there, over 6 years (~75 generations). Whole genome sequences
of 74 individuals showed that A. gambiae SNP from across the genome had become
common in the A. coluzzi population, but that most of these were clustered in
34 genes around the resistance locus. A new set of SNP from 25 of these genes
were assayed over time; over the 4 years since near‐fixation of the resistance
allele; some remained common, whereas others declined. What do these patterns
tell us about this introgression event?
article_processing_charge: No
author:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: 'Barton NH. Data from: The consequences of an introgression event. 2019. doi:10.5061/dryad.2kb6fh4'
apa: 'Barton, N. H. (2019). Data from: The consequences of an introgression event.
Dryad. https://doi.org/10.5061/dryad.2kb6fh4'
chicago: 'Barton, Nicholas H. “Data from: The Consequences of an Introgression Event.”
Dryad, 2019. https://doi.org/10.5061/dryad.2kb6fh4.'
ieee: 'N. H. Barton, “Data from: The consequences of an introgression event.” Dryad,
2019.'
ista: 'Barton NH. 2019. Data from: The consequences of an introgression event, Dryad,
10.5061/dryad.2kb6fh4.'
mla: 'Barton, Nicholas H. Data from: The Consequences of an Introgression Event.
Dryad, 2019, doi:10.5061/dryad.2kb6fh4.'
short: N.H. Barton, (2019).
date_created: 2021-08-06T12:03:50Z
date_published: 2019-01-09T00:00:00Z
date_updated: 2023-09-19T10:06:07Z
day: '09'
department:
- _id: NiBa
doi: 10.5061/dryad.2kb6fh4
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.2kb6fh4
month: '01'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '40'
relation: used_in_publication
status: public
status: public
title: 'Data from: The consequences of an introgression event'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2019'
...
---
_id: '8'
abstract:
- lang: eng
text: Despite their different origins, Drosophila glia and hemocytes are related
cell populations that provide an immune function. Drosophila hemocytes patrol
the body cavity and act as macrophages outside the nervous system whereas glia
originate from the neuroepithelium and provide the scavenger population of the
nervous system. Drosophila glia are hence the functional orthologs of vertebrate
microglia, even though the latter are cells of immune origin that subsequently
move into the brain during development. Interestingly, the Drosophila immune cells
within (glia) and outside the nervous system (hemocytes) require the same transcription
factor Glide/Gcm for their development. This raises the issue of how do glia specifically
differentiate in the nervous system and hemocytes in the procephalic mesoderm.
The Repo homeodomain transcription factor and pan-glial direct target of Glide/Gcm
is known to ensure glial terminal differentiation. Here we show that Repo also
takes center stage in the process that discriminates between glia and hemocytes.
First, Repo expression is repressed in the hemocyte anlagen by mesoderm-specific
factors. Second, Repo ectopic activation in the procephalic mesoderm is sufficient
to repress the expression of hemocyte-specific genes. Third, the lack of Repo
triggers the expression of hemocyte markers in glia. Thus, a complex network of
tissue-specific cues biases the potential of Glide/Gcm. These data allow us to
revise the concept of fate determinants and help us understand the bases of cell
specification. Both sexes were analyzed.SIGNIFICANCE STATEMENTDistinct cell types
often require the same pioneer transcription factor, raising the issue of how
does one factor trigger different fates. In Drosophila, glia and hemocytes provide
a scavenger activity within and outside the nervous system, respectively. While
they both require the Glide/Gcm transcription factor, glia originate from the
ectoderm, hemocytes from the mesoderm. Here we show that tissue-specific factors
inhibit the gliogenic potential of Glide/Gcm in the mesoderm by repressing the
expression of the homeodomain protein Repo, a major glial-specific target of Glide/Gcm.
Repo expression in turn inhibits the expression of hemocyte-specific genes in
the nervous system. These cell-specific networks secure the establishment of the
glial fate only in the nervous system and allow cell diversification.
acknowledgement: This work was supported by INSERM, CNRS, UDS, Ligue Régionale contre
le Cancer, Hôpital de Strasbourg, Association pour la Recherche sur le Cancer (ARC)
and Agence Nationale de la Recherche (ANR) grants. P.B.C. was funded by the ANR
and by the ARSEP (Fondation pour l'Aide à la Recherche sur la Sclérose en Plaques),
and G.T. by governmental and ARC fellowships. This work was also supported by grants
from the Ataxia UK (2491) and the NC3R (NC/L000199/1) awarded to M.F. The Institut
de Génétique et de Biologie Moléculaire et Cellulaire was also supported by a French
state fund through the ANR labex. D.E.S. was funded by Marie Curie Grant CIG 334077/IRTIM.
We thank B. Altenhein, K. Brückner, M. Crozatier, L. Waltzer, M. Logan, E. Kurant,
R. Reuter, E. Kurucz, J.L Dimarcq, J. Hoffmann, C. Goodman, the DHSB, and the BDSC
for reagents and flies. We also thank all of the laboratory members for comments
on the manuscript; C. Diebold, C. Delaporte, M. Pezze, the fly, and imaging and
antibody facilities for technical assistance; and D. Dembele for help with statistics.
In addition, we thank Alison Brewer for help with Luciferase assays.
article_processing_charge: No
article_type: original
author:
- first_name: Guillaume
full_name: Trébuchet, Guillaume
last_name: Trébuchet
- first_name: Pierre B
full_name: Cattenoz, Pierre B
last_name: Cattenoz
- first_name: János
full_name: Zsámboki, János
last_name: Zsámboki
- first_name: David
full_name: Mazaud, David
last_name: Mazaud
- 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: Manolis
full_name: Fanto, Manolis
last_name: Fanto
- first_name: Angela
full_name: Giangrande, Angela
last_name: Giangrande
citation:
ama: Trébuchet G, Cattenoz PB, Zsámboki J, et al. The Repo homeodomain transcription
factor suppresses hematopoiesis in Drosophila and preserves the glial fate. Journal
of Neuroscience. 2019;39(2):238-255. doi:10.1523/JNEUROSCI.1059-18.2018
apa: Trébuchet, G., Cattenoz, P. B., Zsámboki, J., Mazaud, D., Siekhaus, D. E.,
Fanto, M., & Giangrande, A. (2019). The Repo homeodomain transcription factor
suppresses hematopoiesis in Drosophila and preserves the glial fate. Journal
of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.1059-18.2018
chicago: Trébuchet, Guillaume, Pierre B Cattenoz, János Zsámboki, David Mazaud,
Daria E Siekhaus, Manolis Fanto, and Angela Giangrande. “The Repo Homeodomain
Transcription Factor Suppresses Hematopoiesis in Drosophila and Preserves the
Glial Fate.” Journal of Neuroscience. Society for Neuroscience, 2019. https://doi.org/10.1523/JNEUROSCI.1059-18.2018.
ieee: G. Trébuchet et al., “The Repo homeodomain transcription factor suppresses
hematopoiesis in Drosophila and preserves the glial fate,” Journal of Neuroscience,
vol. 39, no. 2. Society for Neuroscience, pp. 238–255, 2019.
ista: Trébuchet G, Cattenoz PB, Zsámboki J, Mazaud D, Siekhaus DE, Fanto M, Giangrande
A. 2019. The Repo homeodomain transcription factor suppresses hematopoiesis in
Drosophila and preserves the glial fate. Journal of Neuroscience. 39(2), 238–255.
mla: Trébuchet, Guillaume, et al. “The Repo Homeodomain Transcription Factor Suppresses
Hematopoiesis in Drosophila and Preserves the Glial Fate.” Journal of Neuroscience,
vol. 39, no. 2, Society for Neuroscience, 2019, pp. 238–55, doi:10.1523/JNEUROSCI.1059-18.2018.
short: G. Trébuchet, P.B. Cattenoz, J. Zsámboki, D. Mazaud, D.E. Siekhaus, M. Fanto,
A. Giangrande, Journal of Neuroscience 39 (2019) 238–255.
date_created: 2018-12-11T11:44:07Z
date_published: 2019-01-09T00:00:00Z
date_updated: 2023-09-19T10:10:55Z
day: '09'
ddc:
- '570'
department:
- _id: DaSi
doi: 10.1523/JNEUROSCI.1059-18.2018
ec_funded: 1
external_id:
isi:
- '000455189900006'
pmid:
- '30504274'
file:
- access_level: open_access
checksum: 8f6925eb4cd1e8747d8ea25929c68de6
content_type: application/pdf
creator: dernst
date_created: 2020-10-02T09:33:28Z
date_updated: 2020-10-02T09:33:28Z
file_id: '8596'
file_name: 2019_JournNeuroscience_Trebuchet.pdf
file_size: 9455414
relation: main_file
success: 1
file_date_updated: 2020-10-02T09:33:28Z
has_accepted_license: '1'
intvolume: ' 39'
isi: 1
issue: '2'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 238-255
pmid: 1
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: Journal of Neuroscience
publication_status: published
publisher: Society for Neuroscience
publist_id: '8048'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The Repo homeodomain transcription factor suppresses hematopoiesis in Drosophila
and preserves the glial fate
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 39
year: '2019'
...
---
_id: '5'
abstract:
- lang: eng
text: In this paper, we introduce a quantum version of the wonderful compactification
of a group as a certain noncommutative projective scheme. Our approach stems from
the fact that the wonderful compactification encodes the asymptotics of matrix
coefficients, and from its realization as a GIT quotient of the Vinberg semigroup.
In order to define the wonderful compactification for a quantum group, we adopt
a generalized formalism of Proj categories in the spirit of Artin and Zhang. Key
to our construction is a quantum version of the Vinberg semigroup, which we define
as a q-deformation of a certain Rees algebra, compatible with a standard Poisson
structure. Furthermore, we discuss quantum analogues of the stratification of
the wonderful compactification by orbits for a certain group action, and provide
explicit computations in the case of SL2.
article_processing_charge: Yes (via OA deal)
author:
- first_name: Iordan V
full_name: Ganev, Iordan V
id: 447491B8-F248-11E8-B48F-1D18A9856A87
last_name: Ganev
citation:
ama: Ganev IV. The wonderful compactification for quantum groups. Journal of
the London Mathematical Society. 2019;99(3):778-806. doi:10.1112/jlms.12193
apa: Ganev, I. V. (2019). The wonderful compactification for quantum groups. Journal
of the London Mathematical Society. Wiley. https://doi.org/10.1112/jlms.12193
chicago: Ganev, Iordan V. “The Wonderful Compactification for Quantum Groups.” Journal
of the London Mathematical Society. Wiley, 2019. https://doi.org/10.1112/jlms.12193.
ieee: I. V. Ganev, “The wonderful compactification for quantum groups,” Journal
of the London Mathematical Society, vol. 99, no. 3. Wiley, pp. 778–806, 2019.
ista: Ganev IV. 2019. The wonderful compactification for quantum groups. Journal
of the London Mathematical Society. 99(3), 778–806.
mla: Ganev, Iordan V. “The Wonderful Compactification for Quantum Groups.” Journal
of the London Mathematical Society, vol. 99, no. 3, Wiley, 2019, pp. 778–806,
doi:10.1112/jlms.12193.
short: I.V. Ganev, Journal of the London Mathematical Society 99 (2019) 778–806.
date_created: 2018-12-11T11:44:06Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2023-09-19T10:13:08Z
day: '01'
ddc:
- '510'
department:
- _id: TaHa
doi: 10.1112/jlms.12193
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isi:
- '000470025900008'
file:
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issue: '3'
language:
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month: '06'
oa: 1
oa_version: Published Version
page: 778-806
publication: Journal of the London Mathematical Society
publication_status: published
publisher: Wiley
publist_id: '8052'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The wonderful compactification for quantum groups
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 99
year: '2019'
...
---
_id: '7172'
abstract:
- lang: eng
text: "The development and growth of Arabidopsis thaliana is regulated by a combination
of genetic programing and also by the environmental influences. An important role
in these processes play the phytohormones and among them, auxin is crucial as
it controls many important functions. It is transported through the whole plant
body by creating local and temporal concentration maxima and minima, which have
an impact on the cell status, tissue and organ identity. Auxin has the property
to undergo a directional and finely regulated cell-to-cell transport, which is
enabled by the transport proteins, localized on the plasma membrane. An important
role in this process have the PIN auxin efflux proteins, which have an asymmetric/polar
subcellular localization and determine the directionality of the auxin transport.
During the last years, there were significant advances in understanding how the
trafficking molecular machineries function, including studies on molecular interactions,
function, subcellular localization and intracellular distribution. However, there
is still a lack of detailed characterization on the steps of endocytosis, exocytosis,
endocytic recycling and degradation. Due to this fact, I focused on the identification
of novel trafficking factors and better characterization of the intracellular
trafficking pathways. My PhD thesis consists of an introductory chapter, three
experimental chapters, a chapter containing general discussion, conclusions and
perspectives and also an appendix chapter with published collaborative papers.\r\nThe
first chapter is separated in two different parts: I start by a general introduction
to auxin biology and then I introduce the trafficking pathways in the model plant
Arabidopsis thaliana. Then, I explain also the phosphorylation-signals for polar
targeting and also the roles of the phytohormone strigolactone.\r\nThe second
chapter includes the characterization of bar1/sacsin mutant, which was identified
in a forward genetic screen for novel trafficking components in Arabidopsis thaliana,
where by the implementation of an EMS-treated pPIN1::PIN1-GFP marker line and
by using the established inhibitor of ARF-GEFs, Brefeldin A (BFA) as a tool to
study trafficking processes, we identified a novel factor, which is mediating
the adaptation of the plant cell to ARF-GEF inhibition. The mutation is in a previously
uncharacterized gene, encoding a very big protein that we, based on its homologies,
called SACSIN with domains suggesting roles as a molecular chaperon or as a component
of the ubiquitin-proteasome system. Our physiology and imaging studies revealed
that SACSIN is a crucial plant cell component of the adaptation to the ARF-GEF
inhibition.\r\nThe third chapter includes six subchapters, where I focus on the
role of the phytohormone strigolactone, which interferes with auxin feedback on
PIN internalization. Strigolactone moderates the polar auxin transport by increasing
the internalization of the PIN auxin efflux carriers, which reduces the canalization
related growth responses. In addition, I also studied the role of phosphorylation
in the strigolactone regulation of auxin feedback on PIN internalization. In this
chapter I also present my results on the MAX2-dependence of strigolactone-mediated
root growth inhibition and I also share my results on the auxin metabolomics profiling
after application of GR24.\r\nIn the fourth chapter I studied the effect of two
small molecules ES-9 and ES9-17, which were identified from a collection of small
molecules with the property to impair the clathrin-mediated endocytosis.\r\nIn
the fifth chapter, I discuss all my observations and experimental findings and
suggest alternative hypothesis to interpret my results.\r\nIn the appendix there
are three collaborative published projects. In the first, I participated in the
characterization of the role of ES9 as a small molecule, which is inhibitor of
clathrin- mediated endocytosis in different model organisms. In the second paper,
I contributed to the characterization of another small molecule ES9-17, which
is a non-protonophoric analog of ES9 and also impairs the clathrin-mediated endocytosis
not only in plant cells, but also in mammalian HeLa cells. Last but not least,
I also attach another paper, where I tried to establish the grafting method as
a technique in our lab to study canalization related processes."
acknowledged_ssus:
- _id: LifeSc
- _id: Bio
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Mina K
full_name: Vasileva, Mina K
id: 3407EB18-F248-11E8-B48F-1D18A9856A87
last_name: Vasileva
citation:
ama: Vasileva MK. Molecular mechanisms of endomembrane trafficking in Arabidopsis
thaliana. 2019. doi:10.15479/AT:ISTA:7172
apa: Vasileva, M. K. (2019). Molecular mechanisms of endomembrane trafficking
in Arabidopsis thaliana. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7172
chicago: Vasileva, Mina K. “Molecular Mechanisms of Endomembrane Trafficking in
Arabidopsis Thaliana.” Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:7172.
ieee: M. K. Vasileva, “Molecular mechanisms of endomembrane trafficking in Arabidopsis
thaliana,” Institute of Science and Technology Austria, 2019.
ista: Vasileva MK. 2019. Molecular mechanisms of endomembrane trafficking in Arabidopsis
thaliana. Institute of Science and Technology Austria.
mla: Vasileva, Mina K. Molecular Mechanisms of Endomembrane Trafficking in Arabidopsis
Thaliana. Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:7172.
short: M.K. Vasileva, Molecular Mechanisms of Endomembrane Trafficking in Arabidopsis
Thaliana, Institute of Science and Technology Austria, 2019.
date_created: 2019-12-11T21:24:39Z
date_published: 2019-12-12T00:00:00Z
date_updated: 2023-09-19T10:39:33Z
day: '12'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: JiFr
doi: 10.15479/AT:ISTA:7172
file:
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file_id: '7175'
file_name: Thesis_Mina_final_upload_7.docx
file_size: 20454014
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date_updated: 2020-07-14T12:47:51Z
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language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: '192'
publication_identifier:
eissn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
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relation: part_of_dissertation
status: public
- id: '6377'
relation: part_of_dissertation
status: public
- id: '449'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
title: Molecular mechanisms of endomembrane trafficking in Arabidopsis thaliana
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '6093'
abstract:
- lang: eng
text: Blebs are cellular protrusions observed in migrating cells and in cells undergoing
spreading, cytokinesis, and apoptosis. Here we investigate the flow of cytoplasm
during bleb formation and the concurrent changes in cell volume using zebrafish
primordial germ cells (PGCs) as an in vivo model. We show that bleb inflation
occurs concomitantly with cytoplasmic inflow into it and that during this process
the total cell volume does not change. We thus show that bleb formation in primordial
germ cells results primarily from redistribution of material within the cell rather
than being driven by flow of water from an external source.
article_number: e0212699
article_processing_charge: No
author:
- first_name: Mohammad
full_name: Goudarzi, Mohammad
id: 3384113A-F248-11E8-B48F-1D18A9856A87
last_name: Goudarzi
- first_name: Aleix
full_name: Boquet-Pujadas, Aleix
last_name: Boquet-Pujadas
- first_name: Jean Christophe
full_name: Olivo-Marin, Jean Christophe
last_name: Olivo-Marin
- first_name: Erez
full_name: Raz, Erez
last_name: Raz
citation:
ama: Goudarzi M, Boquet-Pujadas A, Olivo-Marin JC, Raz E. Fluid dynamics during
bleb formation in migrating cells in vivo. PLOS ONE. 2019;14(2). doi:10.1371/journal.pone.0212699
apa: Goudarzi, M., Boquet-Pujadas, A., Olivo-Marin, J. C., & Raz, E. (2019).
Fluid dynamics during bleb formation in migrating cells in vivo. PLOS ONE.
Public Library of Science. https://doi.org/10.1371/journal.pone.0212699
chicago: Goudarzi, Mohammad, Aleix Boquet-Pujadas, Jean Christophe Olivo-Marin,
and Erez Raz. “Fluid Dynamics during Bleb Formation in Migrating Cells in Vivo.”
PLOS ONE. Public Library of Science, 2019. https://doi.org/10.1371/journal.pone.0212699.
ieee: M. Goudarzi, A. Boquet-Pujadas, J. C. Olivo-Marin, and E. Raz, “Fluid dynamics
during bleb formation in migrating cells in vivo,” PLOS ONE, vol. 14, no.
2. Public Library of Science, 2019.
ista: Goudarzi M, Boquet-Pujadas A, Olivo-Marin JC, Raz E. 2019. Fluid dynamics
during bleb formation in migrating cells in vivo. PLOS ONE. 14(2), e0212699.
mla: Goudarzi, Mohammad, et al. “Fluid Dynamics during Bleb Formation in Migrating
Cells in Vivo.” PLOS ONE, vol. 14, no. 2, e0212699, Public Library of Science,
2019, doi:10.1371/journal.pone.0212699.
short: M. Goudarzi, A. Boquet-Pujadas, J.C. Olivo-Marin, E. Raz, PLOS ONE 14 (2019).
date_created: 2019-03-10T22:59:21Z
date_published: 2019-02-26T00:00:00Z
date_updated: 2023-09-19T14:46:47Z
day: '26'
ddc:
- '570'
department:
- _id: Bio
doi: 10.1371/journal.pone.0212699
external_id:
isi:
- '000459712100022'
file:
- access_level: open_access
checksum: b885de050ed4bb3c86f706487a47197f
content_type: application/pdf
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date_created: 2019-03-11T16:09:23Z
date_updated: 2020-07-14T12:47:19Z
file_id: '6096'
file_name: 2019_PLoSOne_Goudarzi.pdf
file_size: 2967731
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has_accepted_license: '1'
intvolume: ' 14'
isi: 1
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: PLOS ONE
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: Fluid dynamics during bleb formation in migrating cells in vivo
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 14
year: '2019'
...
---
_id: '6473'
abstract:
- lang: eng
text: "Single cells are constantly interacting with their environment and each other,
more importantly, the accurate perception of environmental cues is crucial for
growth, survival, and reproduction. This communication between cells and their
environment can be formalized in mathematical terms and be quantified as the information
flow between them, as prescribed by information theory. \r\nThe recent availability
of real–time dynamical patterns of signaling molecules in single cells has allowed
us to identify encoding about the identity of the environment in the time–series.
However, efficient estimation of the information transmitted by these signals
has been a data–analysis challenge due to the high dimensionality of the trajectories
and the limited number of samples. In the first part of this thesis, we develop
and evaluate decoding–based estimation methods to lower bound the mutual information
and derive model–based precise information estimates for biological reaction networks
governed by the chemical master equation. This is followed by applying the decoding-based
methods to study the intracellular representation of extracellular changes in
budding yeast, by observing the transient dynamics of nuclear translocation of
10 transcription factors in response to 3 stress conditions. Additionally, we
apply these estimators to previously published data on ERK and Ca2+ signaling
and yeast stress response. We argue that this single cell decoding-based measure
of information provides an unbiased, quantitative and interpretable measure for
the fidelity of biological signaling processes. \r\nFinally, in the last section,
we deal with gene regulation which is primarily controlled by transcription factors
(TFs) that bind to the DNA to activate gene expression. The possibility that non-cognate
TFs activate transcription diminishes the accuracy of regulation with potentially
disastrous effects for the cell. This ’crosstalk’ acts as a previously unexplored
source of noise in biochemical networks and puts a strong constraint on their
performance. To mitigate erroneous initiation we propose an out of equilibrium
scheme that implements kinetic proofreading. We show that such architectures are
favored over their equilibrium counterparts for complex organisms despite introducing
noise in gene expression. "
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Sarah A
full_name: Cepeda Humerez, Sarah A
id: 3DEE19A4-F248-11E8-B48F-1D18A9856A87
last_name: Cepeda Humerez
citation:
ama: Cepeda Humerez SA. Estimating information flow in single cells. 2019. doi:10.15479/AT:ISTA:6473
apa: Cepeda Humerez, S. A. (2019). Estimating information flow in single cells.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:6473
chicago: Cepeda Humerez, Sarah A. “Estimating Information Flow in Single Cells.”
Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:6473.
ieee: S. A. Cepeda Humerez, “Estimating information flow in single cells,” Institute
of Science and Technology Austria, 2019.
ista: Cepeda Humerez SA. 2019. Estimating information flow in single cells. Institute
of Science and Technology Austria.
mla: Cepeda Humerez, Sarah A. Estimating Information Flow in Single Cells.
Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:6473.
short: S.A. Cepeda Humerez, Estimating Information Flow in Single Cells, Institute
of Science and Technology Austria, 2019.
date_created: 2019-05-21T00:11:23Z
date_published: 2019-05-23T00:00:00Z
date_updated: 2023-09-19T15:13:26Z
day: '23'
ddc:
- '004'
degree_awarded: PhD
department:
- _id: GaTk
doi: 10.15479/AT:ISTA:6473
file:
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creator: scepeda
date_created: 2019-05-23T11:18:16Z
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creator: scepeda
date_created: 2019-05-23T11:18:13Z
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file_name: CepedaThesis.pdf
file_size: 16646985
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keyword:
- Information estimation
- Time-series
- data analysis
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: '135'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '1576'
relation: dissertation_contains
status: public
- id: '6900'
relation: dissertation_contains
status: public
- id: '281'
relation: dissertation_contains
status: public
- id: '2016'
relation: dissertation_contains
status: public
status: public
supervisor:
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
title: Estimating information flow in single cells
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: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '6071'
abstract:
- lang: eng
text: 'Transcription factors, by binding to specific sequences on the DNA, control
the precise spatio-temporal expression of genes inside a cell. However, this specificity
is limited, leading to frequent incorrect binding of transcription factors that
might have deleterious consequences on the cell. By constructing a biophysical
model of TF-DNA binding in the context of gene regulation, I will first explore
how regulatory constraints can strongly shape the distribution of a population
in sequence space. Then, by directly linking this to a picture of multiple types
of transcription factors performing their functions simultaneously inside the
cell, I will explore the extent of regulatory crosstalk -- incorrect binding interactions
between transcription factors and binding sites that lead to erroneous regulatory
states -- and understand the constraints this places on the design of regulatory
systems. I will then develop a generic theoretical framework to investigate the
coevolution of multiple transcription factors and multiple binding sites, in the
context of a gene regulatory network that performs a certain function. As a particular
tractable version of this problem, I will consider the evolution of two transcription
factors when they transmit upstream signals to downstream target genes. Specifically,
I will describe the evolutionary steady states and the evolutionary pathways involved,
along with their timescales, of a system that initially undergoes a transcription
factor duplication event. To connect this important theoretical model to the prominent
biological event of transcription factor duplication giving rise to paralogous
families, I will then describe a bioinformatics analysis of C2H2 Zn-finger transcription
factors, a major family in humans, and focus on the patterns of evolution that
paralogs have undergone in their various protein domains in the recent past. '
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Roshan
full_name: Prizak, Roshan
id: 4456104E-F248-11E8-B48F-1D18A9856A87
last_name: Prizak
citation:
ama: Prizak R. Coevolution of transcription factors and their binding sites in sequence
space. 2019. doi:10.15479/at:ista:th6071
apa: Prizak, R. (2019). Coevolution of transcription factors and their binding
sites in sequence space. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:th6071
chicago: Prizak, Roshan. “Coevolution of Transcription Factors and Their Binding
Sites in Sequence Space.” Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/at:ista:th6071.
ieee: R. Prizak, “Coevolution of transcription factors and their binding sites in
sequence space,” Institute of Science and Technology Austria, 2019.
ista: Prizak R. 2019. Coevolution of transcription factors and their binding sites
in sequence space. Institute of Science and Technology Austria.
mla: Prizak, Roshan. Coevolution of Transcription Factors and Their Binding Sites
in Sequence Space. Institute of Science and Technology Austria, 2019, doi:10.15479/at:ista:th6071.
short: R. Prizak, Coevolution of Transcription Factors and Their Binding Sites in
Sequence Space, Institute of Science and Technology Austria, 2019.
date_created: 2019-03-06T16:16:10Z
date_published: 2019-03-11T00:00:00Z
date_updated: 2023-09-22T10:00:48Z
day: '11'
ddc:
- '576'
degree_awarded: PhD
department:
- _id: GaTk
- _id: NiBa
doi: 10.15479/at:ista:th6071
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creator: rprizak
date_created: 2019-03-06T16:05:07Z
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date_updated: 2020-07-14T12:47:18Z
file_id: '6073'
file_name: thesis_v2_merge.zip
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has_accepted_license: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: '189'
project:
- _id: 254E9036-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28844-B27
name: Biophysics of information processing in gene regulation
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '1358'
relation: part_of_dissertation
status: public
- id: '955'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
title: Coevolution of transcription factors and their binding sites in sequence space
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2019'
...
---
_id: '7436'
abstract:
- lang: eng
text: 'For an ordinary K3 surface over an algebraically closed field of positive
characteristic we show that every automorphism lifts to characteristic zero. Moreover,
we show that the Fourier-Mukai partners of an ordinary K3 surface are in one-to-one
correspondence with the Fourier-Mukai partners of the geometric generic fiber
of its canonical lift. We also prove that the explicit counting formula for Fourier-Mukai
partners of the K3 surfaces with Picard rank two and with discriminant equal to
minus of a prime number, in terms of the class number of the prime, holds over
a field of positive characteristic as well. We show that the image of the derived
autoequivalence group of a K3 surface of finite height in the group of isometries
of its crystalline cohomology has index at least two. Moreover, we provide a conditional
upper bound on the kernel of this natural cohomological descent map. Further,
we give an extended remark in the appendix on the possibility of an F-crystal
structure on the crystalline cohomology of a K3 surface over an algebraically
closed field of positive characteristic and show that the naive F-crystal structure
fails in being compatible with inner product. '
article_processing_charge: No
article_type: original
author:
- first_name: Tanya K
full_name: Srivastava, Tanya K
id: 4D046628-F248-11E8-B48F-1D18A9856A87
last_name: Srivastava
citation:
ama: Srivastava TK. On derived equivalences of k3 surfaces in positive characteristic.
Documenta Mathematica. 2019;24:1135-1177. doi:10.25537/dm.2019v24.1135-1177
apa: Srivastava, T. K. (2019). On derived equivalences of k3 surfaces in positive
characteristic. Documenta Mathematica. EMS Press. https://doi.org/10.25537/dm.2019v24.1135-1177
chicago: Srivastava, Tanya K. “On Derived Equivalences of K3 Surfaces in Positive
Characteristic.” Documenta Mathematica. EMS Press, 2019. https://doi.org/10.25537/dm.2019v24.1135-1177.
ieee: T. K. Srivastava, “On derived equivalences of k3 surfaces in positive characteristic,”
Documenta Mathematica, vol. 24. EMS Press, pp. 1135–1177, 2019.
ista: Srivastava TK. 2019. On derived equivalences of k3 surfaces in positive characteristic.
Documenta Mathematica. 24, 1135–1177.
mla: Srivastava, Tanya K. “On Derived Equivalences of K3 Surfaces in Positive Characteristic.”
Documenta Mathematica, vol. 24, EMS Press, 2019, pp. 1135–77, doi:10.25537/dm.2019v24.1135-1177.
short: T.K. Srivastava, Documenta Mathematica 24 (2019) 1135–1177.
date_created: 2020-02-02T23:01:06Z
date_published: 2019-05-20T00:00:00Z
date_updated: 2023-10-17T07:42:21Z
day: '20'
ddc:
- '510'
department:
- _id: TaHa
doi: 10.25537/dm.2019v24.1135-1177
external_id:
arxiv:
- '1809.08970'
isi:
- '000517806400019'
file:
- access_level: open_access
checksum: 9a1a64bd49ab03fa4f738fb250fc4f90
content_type: application/pdf
creator: dernst
date_created: 2020-02-03T06:26:12Z
date_updated: 2020-07-14T12:47:58Z
file_id: '7438'
file_name: 2019_DocumMath_Srivastava.pdf
file_size: 469730
relation: main_file
file_date_updated: 2020-07-14T12:47:58Z
has_accepted_license: '1'
intvolume: ' 24'
isi: 1
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 1135-1177
publication: Documenta Mathematica
publication_identifier:
eissn:
- 1431-0643
issn:
- 1431-0635
publication_status: published
publisher: EMS Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: On derived equivalences of k3 surfaces in positive characteristic
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: 24
year: '2019'
...
---
_id: '72'
abstract:
- lang: eng
text: We consider the totally asymmetric simple exclusion process (TASEP) with non-random
initial condition having density ρ on ℤ− and λ on ℤ+, and a second class particle
initially at the origin. For ρ<λ, there is a shock and the second class particle
moves with speed 1−λ−ρ. For large time t, we show that the position of the second
class particle fluctuates on a t1/3 scale and determine its limiting law. We also
obtain the limiting distribution of the number of steps made by the second class
particle until time t.
article_processing_charge: No
article_type: original
author:
- first_name: Patrick
full_name: Ferrari, Patrick
last_name: Ferrari
- first_name: Promit
full_name: Ghosal, Promit
last_name: Ghosal
- first_name: Peter
full_name: Nejjar, Peter
id: 4BF426E2-F248-11E8-B48F-1D18A9856A87
last_name: Nejjar
citation:
ama: Ferrari P, Ghosal P, Nejjar P. Limit law of a second class particle in TASEP
with non-random initial condition. Annales de l’institut Henri Poincare (B)
Probability and Statistics. 2019;55(3):1203-1225. doi:10.1214/18-AIHP916
apa: Ferrari, P., Ghosal, P., & Nejjar, P. (2019). Limit law of a second class
particle in TASEP with non-random initial condition. Annales de l’institut
Henri Poincare (B) Probability and Statistics. Institute of Mathematical Statistics.
https://doi.org/10.1214/18-AIHP916
chicago: Ferrari, Patrick, Promit Ghosal, and Peter Nejjar. “Limit Law of a Second
Class Particle in TASEP with Non-Random Initial Condition.” Annales de l’institut
Henri Poincare (B) Probability and Statistics. Institute of Mathematical Statistics,
2019. https://doi.org/10.1214/18-AIHP916.
ieee: P. Ferrari, P. Ghosal, and P. Nejjar, “Limit law of a second class particle
in TASEP with non-random initial condition,” Annales de l’institut Henri Poincare
(B) Probability and Statistics, vol. 55, no. 3. Institute of Mathematical
Statistics, pp. 1203–1225, 2019.
ista: Ferrari P, Ghosal P, Nejjar P. 2019. Limit law of a second class particle
in TASEP with non-random initial condition. Annales de l’institut Henri Poincare
(B) Probability and Statistics. 55(3), 1203–1225.
mla: Ferrari, Patrick, et al. “Limit Law of a Second Class Particle in TASEP with
Non-Random Initial Condition.” Annales de l’institut Henri Poincare (B) Probability
and Statistics, vol. 55, no. 3, Institute of Mathematical Statistics, 2019,
pp. 1203–25, doi:10.1214/18-AIHP916.
short: P. Ferrari, P. Ghosal, P. Nejjar, Annales de l’institut Henri Poincare (B)
Probability and Statistics 55 (2019) 1203–1225.
date_created: 2018-12-11T11:44:29Z
date_published: 2019-09-25T00:00:00Z
date_updated: 2023-10-17T08:53:45Z
day: '25'
department:
- _id: LaEr
- _id: JaMa
doi: 10.1214/18-AIHP916
ec_funded: 1
external_id:
arxiv:
- '1710.02323'
isi:
- '000487763200001'
intvolume: ' 55'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1710.02323
month: '09'
oa: 1
oa_version: Preprint
page: 1203-1225
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
- _id: 256E75B8-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '716117'
name: Optimal Transport and Stochastic Dynamics
publication: Annales de l'institut Henri Poincare (B) Probability and Statistics
publication_identifier:
issn:
- 0246-0203
publication_status: published
publisher: Institute of Mathematical Statistics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Limit law of a second class particle in TASEP with non-random initial condition
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 55
year: '2019'
...
---
_id: '6657'
abstract:
- lang: eng
text: 'In this article a model is described how Open Access definitions can be formed
on the basis of objective criteria. The common Open Access definitions such as
"gold" and "green" are not exactly defined. This becomes a problem as soon as
one begins to measure Open Access, for example if the development of the Open
Access share should be monitored. This was discussed in the working group on Open
Access Monitoring of the AT2OA project and the present model was developed,
which is based on 5 critics with 4 characteristics: location, licence, version,
embargo and conditions of the Open Access publication are taken into account.
In the meantime, the model has also been tested in practice using R scripts, and
the initial results are quite promising.'
article_processing_charge: No
article_type: original
author:
- first_name: Patrick
full_name: Danowski, Patrick
id: 2EBD1598-F248-11E8-B48F-1D18A9856A87
last_name: Danowski
orcid: 0000-0002-6026-4409
citation:
ama: Danowski P. An Austrian proposal for the classification of Open Access Tuples
(COAT) - distinguish different open access types beyond colors. Mitteilungen
der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare. 2019;72(1):59-65.
doi:10.31263/voebm.v72i1.2276
apa: Danowski, P. (2019). An Austrian proposal for the classification of Open Access
Tuples (COAT) - distinguish different open access types beyond colors. Mitteilungen
Der Vereinigung Österreichischer Bibliothekarinnen Und Bibliothekare. Vereinigung
Österreichischer Bibliothekarinnen und Bibliothekare. https://doi.org/10.31263/voebm.v72i1.2276
chicago: Danowski, Patrick. “An Austrian Proposal for the Classification of Open
Access Tuples (COAT) - Distinguish Different Open Access Types beyond Colors.”
Mitteilungen Der Vereinigung Österreichischer Bibliothekarinnen Und Bibliothekare.
Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, 2019. https://doi.org/10.31263/voebm.v72i1.2276.
ieee: P. Danowski, “An Austrian proposal for the classification of Open Access Tuples
(COAT) - distinguish different open access types beyond colors,” Mitteilungen
der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, vol.
72, no. 1. Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, pp.
59–65, 2019.
ista: Danowski P. 2019. An Austrian proposal for the classification of Open Access
Tuples (COAT) - distinguish different open access types beyond colors. Mitteilungen
der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare. 72(1), 59–65.
mla: Danowski, Patrick. “An Austrian Proposal for the Classification of Open Access
Tuples (COAT) - Distinguish Different Open Access Types beyond Colors.” Mitteilungen
Der Vereinigung Österreichischer Bibliothekarinnen Und Bibliothekare, vol.
72, no. 1, Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, 2019,
pp. 59–65, doi:10.31263/voebm.v72i1.2276.
short: P. Danowski, Mitteilungen Der Vereinigung Österreichischer Bibliothekarinnen
Und Bibliothekare 72 (2019) 59–65.
date_created: 2019-07-21T21:59:15Z
date_published: 2019-05-17T00:00:00Z
date_updated: 2023-10-17T11:33:58Z
day: '17'
ddc:
- '020'
department:
- _id: E-Lib
doi: 10.31263/voebm.v72i1.2276
file:
- access_level: open_access
checksum: c0d2695d6d0d34e62ba06fb3f0ebaaed
content_type: application/pdf
creator: apreinsp
date_created: 2019-07-22T08:45:03Z
date_updated: 2020-07-14T12:47:35Z
file_id: '6661'
file_name: 2019_MitteilungenDerVOEB_Danowski.pdf
file_size: 468558
relation: main_file
file_date_updated: 2020-07-14T12:47:35Z
has_accepted_license: '1'
intvolume: ' 72'
issue: '1'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 59-65
publication: Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare
publication_identifier:
eissn:
- 1022-2588
publication_status: published
publisher: Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare
quality_controlled: '1'
related_material:
record:
- id: '5686'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: An Austrian proposal for the classification of Open Access Tuples (COAT) -
distinguish different open access types beyond colors
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: 72
year: '2019'
...
---
_id: '6646'
abstract:
- lang: eng
text: We demonstrate robust retention of valley coherence and its control via polariton
pseudospin precession through the optical TE-TM splitting in bilayer WS2 microcavity
exciton polaritons at room temperature.
article_number: paper JTu2A.52
article_processing_charge: No
author:
- first_name: Mandeep
full_name: Khatoniar, Mandeep
last_name: Khatoniar
- first_name: Nicholas
full_name: Yama, Nicholas
last_name: Yama
- first_name: Areg
full_name: Ghazaryan, Areg
id: 4AF46FD6-F248-11E8-B48F-1D18A9856A87
last_name: Ghazaryan
orcid: 0000-0001-9666-3543
- first_name: Sriram
full_name: Guddala, Sriram
last_name: Guddala
- first_name: Pouyan
full_name: Ghaemi, Pouyan
last_name: Ghaemi
- first_name: Vinod
full_name: Menon, Vinod
last_name: Menon
citation:
ama: 'Khatoniar M, Yama N, Ghazaryan A, Guddala S, Ghaemi P, Menon V. Room temperature
control of valley coherence in bilayer WS2 exciton polaritons. In: CLEO: Applications
and Technology. Optica Publishing Group; 2019. doi:10.1364/cleo_at.2019.jtu2a.52'
apa: 'Khatoniar, M., Yama, N., Ghazaryan, A., Guddala, S., Ghaemi, P., & Menon,
V. (2019). Room temperature control of valley coherence in bilayer WS2 exciton
polaritons. In CLEO: Applications and Technology. San Jose, CA, United
States: Optica Publishing Group. https://doi.org/10.1364/cleo_at.2019.jtu2a.52'
chicago: 'Khatoniar, Mandeep, Nicholas Yama, Areg Ghazaryan, Sriram Guddala, Pouyan
Ghaemi, and Vinod Menon. “Room Temperature Control of Valley Coherence in Bilayer
WS2 Exciton Polaritons.” In CLEO: Applications and Technology. Optica
Publishing Group, 2019. https://doi.org/10.1364/cleo_at.2019.jtu2a.52.'
ieee: 'M. Khatoniar, N. Yama, A. Ghazaryan, S. Guddala, P. Ghaemi, and V. Menon,
“Room temperature control of valley coherence in bilayer WS2 exciton polaritons,”
in CLEO: Applications and Technology, San Jose, CA, United States, 2019.'
ista: 'Khatoniar M, Yama N, Ghazaryan A, Guddala S, Ghaemi P, Menon V. 2019. Room
temperature control of valley coherence in bilayer WS2 exciton polaritons. CLEO:
Applications and Technology. CLEO: Conference on Lasers and Electro-Optics, paper
JTu2A.52.'
mla: 'Khatoniar, Mandeep, et al. “Room Temperature Control of Valley Coherence in
Bilayer WS2 Exciton Polaritons.” CLEO: Applications and Technology, paper
JTu2A.52, Optica Publishing Group, 2019, doi:10.1364/cleo_at.2019.jtu2a.52.'
short: 'M. Khatoniar, N. Yama, A. Ghazaryan, S. Guddala, P. Ghaemi, V. Menon, in:,
CLEO: Applications and Technology, Optica Publishing Group, 2019.'
conference:
end_date: 2019-05-10
location: San Jose, CA, United States
name: 'CLEO: Conference on Lasers and Electro-Optics'
start_date: 2019-05-05
date_created: 2019-07-17T09:40:44Z
date_published: 2019-05-01T00:00:00Z
date_updated: 2023-10-17T12:14:29Z
day: '01'
department:
- _id: MiLe
doi: 10.1364/cleo_at.2019.jtu2a.52
language:
- iso: eng
month: '05'
oa_version: None
publication: 'CLEO: Applications and Technology'
publication_identifier:
isbn:
- '9781943580576'
publication_status: published
publisher: Optica Publishing Group
quality_controlled: '1'
scopus_import: '1'
status: public
title: Room temperature control of valley coherence in bilayer WS2 exciton polaritons
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2019'
...
---
_id: '7233'
abstract:
- lang: eng
text: We demonstrate electro-optic frequency comb generation using a doubly resonant
system comprising a whispering gallery mode disk resonator made of lithium niobate
mounted inside a three dimensional copper cavity. We observe 180 sidebands centred
at 1550 nm.
article_number: NM2A.5
article_processing_charge: No
author:
- first_name: Alfredo R
full_name: Rueda Sanchez, Alfredo R
id: 3B82B0F8-F248-11E8-B48F-1D18A9856A87
last_name: Rueda Sanchez
orcid: 0000-0001-6249-5860
- first_name: Florian
full_name: Sedlmeir, Florian
last_name: Sedlmeir
- first_name: Gerd
full_name: Leuchs, Gerd
last_name: Leuchs
- first_name: Madhuri
full_name: Kumari, Madhuri
last_name: Kumari
- first_name: Harald G.L.
full_name: Schwefel, Harald G.L.
last_name: Schwefel
citation:
ama: 'Rueda Sanchez AR, Sedlmeir F, Leuchs G, Kumari M, Schwefel HGL. Resonant electro-optic
frequency comb generation in lithium niobate disk resonator inside a microwave
cavity. In: Nonlinear Optics, OSA Technical Digest. Optica Publishing
Group; 2019. doi:10.1364/NLO.2019.NM2A.5'
apa: 'Rueda Sanchez, A. R., Sedlmeir, F., Leuchs, G., Kumari, M., & Schwefel,
H. G. L. (2019). Resonant electro-optic frequency comb generation in lithium niobate
disk resonator inside a microwave cavity. In Nonlinear Optics, OSA Technical
Digest. Waikoloa Beach, Hawaii (HI), United States: Optica Publishing Group.
https://doi.org/10.1364/NLO.2019.NM2A.5'
chicago: Rueda Sanchez, Alfredo R, Florian Sedlmeir, Gerd Leuchs, Madhuri Kumari,
and Harald G.L. Schwefel. “Resonant Electro-Optic Frequency Comb Generation in
Lithium Niobate Disk Resonator inside a Microwave Cavity.” In Nonlinear Optics,
OSA Technical Digest. Optica Publishing Group, 2019. https://doi.org/10.1364/NLO.2019.NM2A.5.
ieee: A. R. Rueda Sanchez, F. Sedlmeir, G. Leuchs, M. Kumari, and H. G. L. Schwefel,
“Resonant electro-optic frequency comb generation in lithium niobate disk resonator
inside a microwave cavity,” in Nonlinear Optics, OSA Technical Digest,
Waikoloa Beach, Hawaii (HI), United States, 2019.
ista: 'Rueda Sanchez AR, Sedlmeir F, Leuchs G, Kumari M, Schwefel HGL. 2019. Resonant
electro-optic frequency comb generation in lithium niobate disk resonator inside
a microwave cavity. Nonlinear Optics, OSA Technical Digest. NLO: Nonlinear Optics,
NM2A.5.'
mla: Rueda Sanchez, Alfredo R., et al. “Resonant Electro-Optic Frequency Comb Generation
in Lithium Niobate Disk Resonator inside a Microwave Cavity.” Nonlinear Optics,
OSA Technical Digest, NM2A.5, Optica Publishing Group, 2019, doi:10.1364/NLO.2019.NM2A.5.
short: A.R. Rueda Sanchez, F. Sedlmeir, G. Leuchs, M. Kumari, H.G.L. Schwefel, in:,
Nonlinear Optics, OSA Technical Digest, Optica Publishing Group, 2019.
conference:
end_date: 2019-07-19
location: Waikoloa Beach, Hawaii (HI), United States
name: 'NLO: Nonlinear Optics'
start_date: 2019-07-15
date_created: 2020-01-05T23:00:48Z
date_published: 2019-07-15T00:00:00Z
date_updated: 2023-10-17T12:14:46Z
day: '15'
department:
- _id: JoFi
doi: 10.1364/NLO.2019.NM2A.5
language:
- iso: eng
month: '07'
oa_version: None
publication: Nonlinear Optics, OSA Technical Digest
publication_identifier:
isbn:
- '9781557528209'
publication_status: published
publisher: Optica Publishing Group
quality_controlled: '1'
scopus_import: '1'
status: public
title: Resonant electro-optic frequency comb generation in lithium niobate disk resonator
inside a microwave cavity
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2019'
...