---
_id: '11858'
abstract:
- lang: eng
text: "This paper is a continuation of Part I of this project, where we developed
a new local well-posedness theory for nonlinear stochastic PDEs with Gaussian
noise. In the current Part II we consider blow-up criteria and regularization
phenomena. As in Part I we can allow nonlinearities with polynomial growth and
rough initial values from critical spaces. In the first main result we obtain
several new blow-up criteria for quasi- and semilinear stochastic evolution equations.
In particular, for semilinear equations we obtain a Serrin type blow-up criterium,
which extends a recent result of Prüss–Simonett–Wilke (J Differ Equ 264(3):2028–2074,
2018) to the stochastic setting. Blow-up criteria can be used to prove global
well-posedness for SPDEs. As in Part I, maximal regularity techniques and weights
in time play a central role in the proofs. Our second contribution is a new method
to bootstrap Sobolev and Hölder regularity in time and space, which does not require
smoothness of the initial data. The blow-up criteria are at the basis of these
new methods. Moreover, in applications the bootstrap results can be combined with
our blow-up criteria, to obtain efficient ways to prove global existence. This
gives new results even in classical \U0001D43F2-settings, which we illustrate
for a concrete SPDE. In future works in preparation we apply the results of the
current paper to obtain global well-posedness results and regularity for several
concrete SPDEs. These include stochastic Navier–Stokes equations, reaction– diffusion
equations and the Allen–Cahn equation. Our setting allows to put these SPDEs into
a more flexible framework, where less restrictions on the nonlinearities are needed,
and we are able to treat rough initial values from critical spaces. Moreover,
we will obtain higher-order regularity results."
acknowledgement: "The authors thank Emiel Lorist for helpful comments. The authors
thank the anonymous referees for their helpful remarks to improve the presentation.\r\nOpen
access funding provided by Institute of Science and Technology (IST Austria)."
article_number: '56'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Antonio
full_name: Agresti, Antonio
id: 673cd0cc-9b9a-11eb-b144-88f30e1fbb72
last_name: Agresti
orcid: 0000-0002-9573-2962
- first_name: Mark
full_name: Veraar, Mark
last_name: Veraar
citation:
ama: Agresti A, Veraar M. Nonlinear parabolic stochastic evolution equations in
critical spaces part II. Journal of Evolution Equations. 2022;22(2). doi:10.1007/s00028-022-00786-7
apa: Agresti, A., & Veraar, M. (2022). Nonlinear parabolic stochastic evolution
equations in critical spaces part II. Journal of Evolution Equations. Springer
Nature. https://doi.org/10.1007/s00028-022-00786-7
chicago: Agresti, Antonio, and Mark Veraar. “Nonlinear Parabolic Stochastic Evolution
Equations in Critical Spaces Part II.” Journal of Evolution Equations.
Springer Nature, 2022. https://doi.org/10.1007/s00028-022-00786-7.
ieee: A. Agresti and M. Veraar, “Nonlinear parabolic stochastic evolution equations
in critical spaces part II,” Journal of Evolution Equations, vol. 22, no.
2. Springer Nature, 2022.
ista: Agresti A, Veraar M. 2022. Nonlinear parabolic stochastic evolution equations
in critical spaces part II. Journal of Evolution Equations. 22(2), 56.
mla: Agresti, Antonio, and Mark Veraar. “Nonlinear Parabolic Stochastic Evolution
Equations in Critical Spaces Part II.” Journal of Evolution Equations,
vol. 22, no. 2, 56, Springer Nature, 2022, doi:10.1007/s00028-022-00786-7.
short: A. Agresti, M. Veraar, Journal of Evolution Equations 22 (2022).
date_created: 2022-08-16T08:39:43Z
date_published: 2022-06-01T00:00:00Z
date_updated: 2023-08-03T12:53:51Z
day: '01'
ddc:
- '510'
department:
- _id: JuFi
doi: 10.1007/s00028-022-00786-7
external_id:
isi:
- '000809108500001'
file:
- access_level: open_access
checksum: 59b99d1b48b6bd40983e7ce298524a21
content_type: application/pdf
creator: kschuh
date_created: 2022-08-16T08:52:46Z
date_updated: 2022-08-16T08:52:46Z
file_id: '11862'
file_name: 2022_Journal of Evolution Equations_Agresti.pdf
file_size: 1758371
relation: main_file
success: 1
file_date_updated: 2022-08-16T08:52:46Z
has_accepted_license: '1'
intvolume: ' 22'
isi: 1
issue: '2'
keyword:
- Mathematics (miscellaneous)
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: Journal of Evolution Equations
publication_identifier:
eissn:
- 1424-3202
issn:
- 1424-3199
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Nonlinear parabolic stochastic evolution equations in critical spaces part
II
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 22
year: '2022'
...
---
_id: '11879'
abstract:
- lang: eng
text: "As the overall global mean surface temperature is increasing due to climate
change, plant\r\nadaptation to those stressful conditions is of utmost importance
for their survival. Plants are\r\nsessile organisms, thus to compensate for their
lack of mobility, they evolved a variety of\r\nmechanisms enabling them to flexibly
adjust their physiological, growth and developmental\r\nprocesses to fluctuating
temperatures and to survive in harsh environments. While these unique\r\nadaptation
abilities provide an important evolutionary advantage, overall modulation of plant\r\ngrowth
and developmental program due to non-optimal temperature negatively affects biomass\r\nproduction,
crop productivity or sensitivity to pathogens. Thus, understanding molecular\r\nprocesses
underlying plant adaptation to increased temperature can provide important\r\nresources
for breeding strategies to ensure sufficient agricultural food production.\r\nAn
increase in ambient temperature by a few degrees leads to profound changes in
organ growth\r\nincluding enhanced hypocotyl elongation, expansion of petioles,
hyponastic growth of leaves and\r\ncotyledons, collectively named thermomorphogenesis
(Casal & Balasubramanian, 2019). Auxin,\r\none of the best-studied growth hormones,
plays an essential role in this process by direct\r\nactivation of transcriptional
and non-transcriptional processes resulting in elongation growth\r\n(Majda & Robert,
2018).To modulate hypocotyl growth in response to high ambient temperature\r\n(hAT),
auxin needs to be redistributed accordingly. PINs, auxin efflux transporters,
are key\r\ncomponents of the polar auxin transport (PAT) machinery, which controls
the amount and\r\ndirection of auxin translocated in the plant tissues and organs(Adamowski
& Friml, 2015). Hence,\r\nPIN-mediated transport is tightly linked with thermo-morphogenesis,
and interference with PAT\r\nthrough either chemical or genetic means dramatically
affecting the adaptive responses to hAT.\r\nIntriguingly, despite the key role
of PIN mediated transport in growth response to hAT, whether\r\nand how PINs at
the level of expression adapt to fluctuation in temperature is scarcely\r\nunderstood.\r\nWith
genetic, molecular and advanced bio-imaging approaches, we demonstrate the role
of PIN\r\nauxin transporters in the regulation of hypocotyl growth in response
to hAT. We show that via\r\nadjustment of PIN3, PIN4 and PIN7 expression in cotyledons
and hypocotyls, auxin distribution is modulated thereby determining elongation
pattern of epidermal cells at hAT. Furthermore, we\r\nidentified three Zinc-Finger
(ZF) transcription factors as novel molecular components of the\r\nthermo-regulatory
network, which through negative regulation of PIN transcription adjust the\r\ntransport
of auxin at hAT. Our results suggest that the ZF-PIN module might be a part of
the\r\nnegative feedback loop attenuating the activity of the thermo-sensing pathway
to restrain\r\nexaggerated growth and developmental responses to hAT."
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
- _id: SSU
acknowledgement: I would like to acknowledge ISTA and all the people from the Scientific
Service Units and at ISTA, in particular Dorota Jaworska for excellent technical
and scientific support as well as ÖAW for funding my research for over 3 years (DOC
ÖAW Fellowship PR1022OEAW02).
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Christina
full_name: Artner, Christina
id: 45DF286A-F248-11E8-B48F-1D18A9856A87
last_name: Artner
citation:
ama: Artner C. Modulation of auxin transport via ZF proteins adjust plant response
to high ambient temperature. 2022. doi:10.15479/at:ista:11879
apa: Artner, C. (2022). Modulation of auxin transport via ZF proteins adjust
plant response to high ambient temperature. Institute of Science and Technology
Austria. https://doi.org/10.15479/at:ista:11879
chicago: Artner, Christina. “Modulation of Auxin Transport via ZF Proteins Adjust
Plant Response to High Ambient Temperature.” Institute of Science and Technology
Austria, 2022. https://doi.org/10.15479/at:ista:11879.
ieee: C. Artner, “Modulation of auxin transport via ZF proteins adjust plant response
to high ambient temperature,” Institute of Science and Technology Austria, 2022.
ista: Artner C. 2022. Modulation of auxin transport via ZF proteins adjust plant
response to high ambient temperature. Institute of Science and Technology Austria.
mla: Artner, Christina. Modulation of Auxin Transport via ZF Proteins Adjust
Plant Response to High Ambient Temperature. Institute of Science and Technology
Austria, 2022, doi:10.15479/at:ista:11879.
short: C. Artner, Modulation of Auxin Transport via ZF Proteins Adjust Plant Response
to High Ambient Temperature, Institute of Science and Technology Austria, 2022.
date_created: 2022-08-17T07:58:53Z
date_published: 2022-08-17T00:00:00Z
date_updated: 2023-09-09T22:30:04Z
day: '17'
ddc:
- '580'
degree_awarded: PhD
department:
- _id: GradSch
- _id: EvBe
doi: 10.15479/at:ista:11879
file:
- access_level: open_access
checksum: a2c2fdc28002538840490bfa6a08b2cb
content_type: application/pdf
creator: cartner
date_created: 2022-08-17T12:08:49Z
date_updated: 2023-09-09T22:30:03Z
embargo: 2023-09-08
file_id: '11907'
file_name: ChristinaArtner_PhD_Thesis_2022.pdf
file_size: 11113608
relation: main_file
- access_level: closed
checksum: 66b461c074b815fbe63481b3f46a9f43
content_type: application/octet-stream
creator: cartner
date_created: 2022-08-17T12:08:59Z
date_updated: 2023-09-09T22:30:03Z
embargo_to: open_access
file_id: '11908'
file_name: ChristinaArtner_PhD_Thesis_2022.7z
file_size: 19097730
relation: source_file
file_date_updated: 2023-09-09T22:30:03Z
has_accepted_license: '1'
keyword:
- high ambient temperature
- auxin
- PINs
- Zinc-Finger proteins
- thermomorphogenesis
- stress
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: '128'
project:
- _id: 2685A872-B435-11E9-9278-68D0E5697425
name: Hormonal regulation of plant adaptive responses to environmental signals
publication_identifier:
isbn:
- 978-3-99078-022-0
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
status: public
supervisor:
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
title: Modulation of auxin transport via ZF proteins adjust plant response to high
ambient temperature
type: dissertation
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '11916'
abstract:
- lang: eng
text: A domain is called Kac regular for a quadratic form on L2 if every functions
vanishing almost everywhere outside the domain can be approximated in form norm
by functions with compact support in the domain. It is shown that this notion
is stable under domination of quadratic forms. As applications measure perturbations
of quasi-regular Dirichlet forms, Cheeger energies on metric measure spaces and
Schrödinger operators on manifolds are studied. Along the way a characterization
of the Sobolev space with Dirichlet boundary conditions on domains in infinitesimally
Riemannian metric measure spaces is obtained.
acknowledgement: "The author was supported by the German Academic Scholarship Foundation
(Studienstiftung des deutschen Volkes) and by the German Research Foundation (DFG)
via RTG 1523/2. The author would like to thank Daniel Lenz for his support and encouragement
during the author’s ongoing graduate studies and him as well as Marcel Schmidt for
fruitful discussions on domination of quadratic forms. He wants to thank Batu Güneysu
and Peter Stollmann for valuable comments on a preliminary version of this article.
He would also like to thank the organizers of the conference Analysis and Geometry
on Graphs and Manifolds in Potsdam, where the initial motivation of this article
was conceived, and the organizers of the intense activity period Metric Measure
Spaces and Ricci Curvature at MPIM in Bonn, where this work was finished.\r\nOpen
access funding provided by Institute of Science and Technology (IST Austria)."
article_number: '38'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Melchior
full_name: Wirth, Melchior
id: 88644358-0A0E-11EA-8FA5-49A33DDC885E
last_name: Wirth
orcid: 0000-0002-0519-4241
citation:
ama: Wirth M. Kac regularity and domination of quadratic forms. Advances in Operator
Theory. 2022;7(3). doi:10.1007/s43036-022-00199-w
apa: Wirth, M. (2022). Kac regularity and domination of quadratic forms. Advances
in Operator Theory. Springer Nature. https://doi.org/10.1007/s43036-022-00199-w
chicago: Wirth, Melchior. “Kac Regularity and Domination of Quadratic Forms.” Advances
in Operator Theory. Springer Nature, 2022. https://doi.org/10.1007/s43036-022-00199-w.
ieee: M. Wirth, “Kac regularity and domination of quadratic forms,” Advances
in Operator Theory, vol. 7, no. 3. Springer Nature, 2022.
ista: Wirth M. 2022. Kac regularity and domination of quadratic forms. Advances
in Operator Theory. 7(3), 38.
mla: Wirth, Melchior. “Kac Regularity and Domination of Quadratic Forms.” Advances
in Operator Theory, vol. 7, no. 3, 38, Springer Nature, 2022, doi:10.1007/s43036-022-00199-w.
short: M. Wirth, Advances in Operator Theory 7 (2022).
date_created: 2022-08-18T07:22:24Z
date_published: 2022-07-01T00:00:00Z
date_updated: 2023-02-21T10:08:07Z
day: '01'
ddc:
- '510'
department:
- _id: JaMa
doi: 10.1007/s43036-022-00199-w
file:
- access_level: open_access
checksum: 913474844a1b38264fb710746d5e2e98
content_type: application/pdf
creator: dernst
date_created: 2022-08-18T08:02:34Z
date_updated: 2022-08-18T08:02:34Z
file_id: '11921'
file_name: 2022_AdvancesOperatorTheory_Wirth.pdf
file_size: 389060
relation: main_file
success: 1
file_date_updated: 2022-08-18T08:02:34Z
has_accepted_license: '1'
intvolume: ' 7'
issue: '3'
keyword:
- Algebra and Number Theory
- Analysis
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
publication: Advances in Operator Theory
publication_identifier:
eissn:
- 2538-225X
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Kac regularity and domination of quadratic forms
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: 7
year: '2022'
...
---
_id: '11917'
abstract:
- lang: eng
text: We study the many-body dynamics of an initially factorized bosonic wave function
in the mean-field regime. We prove large deviation estimates for the fluctuations
around the condensate. We derive an upper bound extending a recent result to more
general interactions. Furthermore, we derive a new lower bound which agrees with
the upper bound in leading order.
acknowledgement: "The authors thank Gérard Ben Arous for pointing out the question
of a lower bound. Funding from the European Union’s Horizon 2020 research and innovation
programme under the ERC Grant Agreement No. 694227 (R.S.) and under the Marie Skłodowska-Curie
Grant Agreement No. 754411 (S.R.) is gratefully acknowledged.\r\nOpen access funding
provided by IST Austria."
article_number: '9'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Simone Anna Elvira
full_name: Rademacher, Simone Anna Elvira
id: 856966FE-A408-11E9-977E-802DE6697425
last_name: Rademacher
orcid: 0000-0001-5059-4466
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Rademacher SAE, Seiringer R. Large deviation estimates for weakly interacting
bosons. Journal of Statistical Physics. 2022;188. doi:10.1007/s10955-022-02940-4
apa: Rademacher, S. A. E., & Seiringer, R. (2022). Large deviation estimates
for weakly interacting bosons. Journal of Statistical Physics. Springer
Nature. https://doi.org/10.1007/s10955-022-02940-4
chicago: Rademacher, Simone Anna Elvira, and Robert Seiringer. “Large Deviation
Estimates for Weakly Interacting Bosons.” Journal of Statistical Physics.
Springer Nature, 2022. https://doi.org/10.1007/s10955-022-02940-4.
ieee: S. A. E. Rademacher and R. Seiringer, “Large deviation estimates for weakly
interacting bosons,” Journal of Statistical Physics, vol. 188. Springer
Nature, 2022.
ista: Rademacher SAE, Seiringer R. 2022. Large deviation estimates for weakly interacting
bosons. Journal of Statistical Physics. 188, 9.
mla: Rademacher, Simone Anna Elvira, and Robert Seiringer. “Large Deviation Estimates
for Weakly Interacting Bosons.” Journal of Statistical Physics, vol. 188,
9, Springer Nature, 2022, doi:10.1007/s10955-022-02940-4.
short: S.A.E. Rademacher, R. Seiringer, Journal of Statistical Physics 188 (2022).
date_created: 2022-08-18T07:23:26Z
date_published: 2022-07-01T00:00:00Z
date_updated: 2023-08-03T12:55:58Z
day: '01'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1007/s10955-022-02940-4
ec_funded: 1
external_id:
isi:
- '000805175000001'
file:
- access_level: open_access
checksum: 44418cb44f07fa21ed3907f85abf7f39
content_type: application/pdf
creator: dernst
date_created: 2022-08-18T08:09:00Z
date_updated: 2022-08-18T08:09:00Z
file_id: '11922'
file_name: 2022_JournalStatisticalPhysics_Rademacher.pdf
file_size: 483481
relation: main_file
success: 1
file_date_updated: 2022-08-18T08:09:00Z
has_accepted_license: '1'
intvolume: ' 188'
isi: 1
keyword:
- Mathematical Physics
- Statistical and Nonlinear Physics
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Journal of Statistical Physics
publication_identifier:
eissn:
- 1572-9613
issn:
- 0022-4715
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Large deviation estimates for weakly interacting bosons
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 188
year: '2022'
...
---
_id: '11932'
abstract:
- lang: eng
text: "The ability to form and retrieve memories is central to survival. In mammals,
the hippocampus\r\nis a brain region essential to the acquisition and consolidation
of new memories. It is also\r\ninvolved in keeping track of one’s position in
space and aids navigation. Although this\r\nspace-memory has been a source of
contradiction, evidence supports the view that the role of\r\nthe hippocampus
in navigation is memory, thanks to the formation of cognitive maps. First\r\nintroduced
by Tolman in 1948, cognitive maps are generally used to organize experiences in\r\nmemory;
however, the detailed mechanisms by which these maps are formed and stored are
not\r\nyet agreed upon. Some influential theories describe this process as involving
three fundamental\r\nsteps: initial encoding by the hippocampus, interactions
between the hippocampus and other\r\ncortical areas, and long-term extra-hippocampal
consolidation. In this thesis, I will show how\r\nthe investigation of cognitive
maps of space helped to shed light on each of these three memory\r\nprocesses.\r\nThe
first study included in this thesis deals with the initial encoding of spatial
memories in\r\nthe hippocampus. Much is known about encoding at the level of single
cells, but less about\r\ntheir co-activity or joint contribution to the encoding
of novel spatial information. I will\r\ndescribe the structure of an interaction
network that allows for efficient encoding of noisy\r\nspatial information during
the first exploration of a novel environment.\r\nThe second study describes the
interactions between the hippocampus and the prefrontal\r\ncortex (PFC), two areas
directly and indirectly connected. It is known that the PFC, in concert\r\nwith
the hippocampus, is involved in various processes, including memory storage and
spatial\r\nnavigation. Nonetheless, the detailed mechanisms by which PFC receives
information from the\r\nhippocampus are not clear. I will show how a transient
improvement in theta phase locking of\r\nPFC cells enables interactions of cell
pairs across the two regions.\r\nThe third study describes the learning of behaviorally-relevant
spatial locations in the hippocampus and the medial entorhinal cortex. I will
show how the accumulation of firing around\r\ngoal locations, a correlate of learning,
can shed light on the transition from short- to long-term\r\nspatial memories
and the speed of consolidation in different brain areas.\r\nThe studies included
in this thesis represent the main scientific contributions of my Ph.D. They\r\ninvolve
statistical analyses and models of neural responses of cells in different brain
areas of\r\nrats executing spatial tasks. I will conclude the thesis by discussing
the impact of the findings\r\non principles of memory formation and retention,
including the mechanisms, the speed, and\r\nthe duration of these processes."
acknowledgement: I acknowledge the support from the European Union’s Horizon 2020
research and innovation program under the Marie Skłodowska-Curie Grant Agreement
No. 665385.
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Michele
full_name: Nardin, Michele
id: 30BD0376-F248-11E8-B48F-1D18A9856A87
last_name: Nardin
orcid: 0000-0001-8849-6570
citation:
ama: Nardin M. On the encoding, transfer, and consolidation of spatial memories.
2022. doi:10.15479/at:ista:11932
apa: Nardin, M. (2022). On the encoding, transfer, and consolidation of spatial
memories. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:11932
chicago: Nardin, Michele. “On the Encoding, Transfer, and Consolidation of Spatial
Memories.” Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/at:ista:11932.
ieee: M. Nardin, “On the encoding, transfer, and consolidation of spatial memories,”
Institute of Science and Technology Austria, 2022.
ista: Nardin M. 2022. On the encoding, transfer, and consolidation of spatial memories.
Institute of Science and Technology Austria.
mla: Nardin, Michele. On the Encoding, Transfer, and Consolidation of Spatial
Memories. Institute of Science and Technology Austria, 2022, doi:10.15479/at:ista:11932.
short: M. Nardin, On the Encoding, Transfer, and Consolidation of Spatial Memories,
Institute of Science and Technology Austria, 2022.
date_created: 2022-08-19T08:52:30Z
date_published: 2022-08-19T00:00:00Z
date_updated: 2023-09-05T12:02:14Z
day: '19'
ddc:
- '573'
degree_awarded: PhD
department:
- _id: GradSch
- _id: JoCs
doi: 10.15479/at:ista:11932
ec_funded: 1
file:
- access_level: closed
checksum: 2dbb70c74aaa3b64c1f463e943baf09c
content_type: application/zip
creator: mnardin
date_created: 2022-08-19T16:31:34Z
date_updated: 2023-06-20T22:30:04Z
embargo_to: open_access
file_id: '11935'
file_name: Michele Nardin, Ph.D. Thesis - ISTA (1).zip
file_size: 13515457
relation: source_file
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checksum: 0ec94035ea35a47a9f589ed168e60b48
content_type: application/pdf
creator: mnardin
date_created: 2022-08-22T09:43:50Z
date_updated: 2023-06-20T22:30:04Z
embargo: 2023-06-19
file_id: '11941'
file_name: Michele_Nardin_Phd_Thesis_PDFA.pdf
file_size: 9906458
relation: main_file
file_date_updated: 2023-06-20T22:30:04Z
has_accepted_license: '1'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: '136'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '10077'
relation: part_of_dissertation
status: public
- id: '6194'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Jozsef L
full_name: Csicsvari, Jozsef L
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
title: On the encoding, transfer, and consolidation of spatial memories
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2022'
...
---
_id: '11937'
abstract:
- lang: eng
text: Most experimentally known high-pressure ice phases have a body-centred cubic
(bcc) oxygen lattice. Our large-scale molecular-dynamics simulations with a machine-learning
potential indicate that, amongst these bcc ice phases, ices VII, VII′ and X are
the same thermodynamic phase under different conditions, whereas superionic ice
VII″ has a first-order phase boundary with ice VII′. Moreover, at about 300 GPa,
the transformation between ice X and the Pbcm phase has a sharp structural change
but no apparent activation barrier, whilst at higher pressures the barrier gradually
increases. Our study thus clarifies the phase behaviour of the high-pressure ices
and reveals peculiar solid–solid transition mechanisms not known in other systems.
acknowledgement: We thank Chris Pickard for providing the initial structures of high-pressure
ice phases and for useful advice. A.R. and B.C. acknowledge resources provided by
the Cambridge Tier-2 system operated by the University of Cambridge Research Computing
Service funded by EPSRC Tier-2 capital grant EP/P020259/1. M.B. was supported by
the European Union within the Marie Skłodowska-Curie actions (xICE grant 894725)
and acknowledges computational resources at North-German Supercomputing Alliance
(HLRN) facilities. S.H. and M.M. acknowledge support from LDRD 19-ERD-031 and computing
support from the Lawrence Livermore National Laboratory (LLNL) Institutional Computing
Grand Challenge programme. F.C. acknowledges support from the US DOE Office of Science,
Office of Fusion Energy Sciences. Lawrence Livermore National Laboratory is operated
by Lawrence Livermore National Security, LLC, for the U.S. Department of Energy,
National Nuclear Security Administration under Contract DE-AC52-07NA27344.
article_number: '4707'
article_processing_charge: No
article_type: original
author:
- first_name: Aleks
full_name: Reinhardt, Aleks
last_name: Reinhardt
- first_name: Mandy
full_name: Bethkenhagen, Mandy
last_name: Bethkenhagen
- first_name: Federica
full_name: Coppari, Federica
last_name: Coppari
- first_name: Marius
full_name: Millot, Marius
last_name: Millot
- first_name: Sebastien
full_name: Hamel, Sebastien
last_name: Hamel
- first_name: Bingqing
full_name: Cheng, Bingqing
id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
last_name: Cheng
orcid: 0000-0002-3584-9632
citation:
ama: Reinhardt A, Bethkenhagen M, Coppari F, Millot M, Hamel S, Cheng B. Thermodynamics
of high-pressure ice phases explored with atomistic simulations. Nature Communications.
2022;13. doi:10.1038/s41467-022-32374-1
apa: Reinhardt, A., Bethkenhagen, M., Coppari, F., Millot, M., Hamel, S., &
Cheng, B. (2022). Thermodynamics of high-pressure ice phases explored with atomistic
simulations. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-022-32374-1
chicago: Reinhardt, Aleks, Mandy Bethkenhagen, Federica Coppari, Marius Millot,
Sebastien Hamel, and Bingqing Cheng. “Thermodynamics of High-Pressure Ice Phases
Explored with Atomistic Simulations.” Nature Communications. Springer Nature,
2022. https://doi.org/10.1038/s41467-022-32374-1.
ieee: A. Reinhardt, M. Bethkenhagen, F. Coppari, M. Millot, S. Hamel, and B. Cheng,
“Thermodynamics of high-pressure ice phases explored with atomistic simulations,”
Nature Communications, vol. 13. Springer Nature, 2022.
ista: Reinhardt A, Bethkenhagen M, Coppari F, Millot M, Hamel S, Cheng B. 2022.
Thermodynamics of high-pressure ice phases explored with atomistic simulations.
Nature Communications. 13, 4707.
mla: Reinhardt, Aleks, et al. “Thermodynamics of High-Pressure Ice Phases Explored
with Atomistic Simulations.” Nature Communications, vol. 13, 4707, Springer
Nature, 2022, doi:10.1038/s41467-022-32374-1.
short: A. Reinhardt, M. Bethkenhagen, F. Coppari, M. Millot, S. Hamel, B. Cheng,
Nature Communications 13 (2022).
date_created: 2022-08-21T22:01:55Z
date_published: 2022-08-10T00:00:00Z
date_updated: 2023-08-03T13:00:40Z
day: '10'
ddc:
- '540'
department:
- _id: BiCh
doi: 10.1038/s41467-022-32374-1
external_id:
isi:
- '000838655300022'
pmid:
- '35948550'
file:
- access_level: open_access
checksum: 8ff9b689cde59fd3a9959a9f01929dea
content_type: application/pdf
creator: dernst
date_created: 2022-08-22T06:33:02Z
date_updated: 2022-08-22T06:33:02Z
file_id: '11939'
file_name: 2022_NatureCommunications_Reinhardt.pdf
file_size: 1767206
relation: main_file
success: 1
file_date_updated: 2022-08-22T06:33:02Z
has_accepted_license: '1'
intvolume: ' 13'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
pmid: 1
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Thermodynamics of high-pressure ice phases explored with atomistic simulations
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 13
year: '2022'
...
---
_id: '11938'
abstract:
- lang: eng
text: A matching is compatible to two or more labeled point sets of size n with
labels {1, . . . , n} if its straight-line drawing on each of these point sets
is crossing-free. We study the maximum number of edges in a matching compatible
to two or more labeled point sets in general position in the plane. We show that
for any two labeled sets of n points in convex position there exists a compatible
matching with ⌊√2n + 1 − 1⌋ edges. More generally, for any ℓ labeled point sets
we construct compatible matchings of size Ω(n1/ℓ). As a corresponding upper bound,
we use probabilistic arguments to show that for any ℓ given sets of n points there
exists a labeling of each set such that the largest compatible matching has O(n2/(ℓ+1))
edges. Finally, we show that Θ(log n) copies of any set of n points are necessary
and sufficient for the existence of labelings of these point sets such that any
compatible matching consists only of a single edge.
acknowledgement: 'A.A. funded by the Marie Sklodowska-Curie grant agreement No 754411.
Z.M. partially funded by Wittgenstein Prize, Austrian Science Fund (FWF), grant
no. Z 342-N31. I.P., D.P., and B.V. partially supported by FWF within the collaborative
DACH project Arrangements and Drawings as FWF project I 3340-N35. A.P. supported
by a Schrödinger fellowship of the FWF: J-3847-N35. J.T. partially supported by
ERC Start grant no. (279307: Graph Games), FWF grant no. P23499-N23 and S11407-N23
(RiSE).'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Oswin
full_name: Aichholzer, Oswin
last_name: Aichholzer
- first_name: Alan M
full_name: Arroyo Guevara, Alan M
id: 3207FDC6-F248-11E8-B48F-1D18A9856A87
last_name: Arroyo Guevara
orcid: 0000-0003-2401-8670
- first_name: Zuzana
full_name: Masárová, Zuzana
id: 45CFE238-F248-11E8-B48F-1D18A9856A87
last_name: Masárová
orcid: 0000-0002-6660-1322
- first_name: Irene
full_name: Parada, Irene
last_name: Parada
- first_name: Daniel
full_name: Perz, Daniel
last_name: Perz
- first_name: Alexander
full_name: Pilz, Alexander
last_name: Pilz
- first_name: Josef
full_name: Tkadlec, Josef
id: 3F24CCC8-F248-11E8-B48F-1D18A9856A87
last_name: Tkadlec
orcid: 0000-0002-1097-9684
- first_name: Birgit
full_name: Vogtenhuber, Birgit
last_name: Vogtenhuber
citation:
ama: Aichholzer O, Arroyo Guevara AM, Masárová Z, et al. On compatible matchings.
Journal of Graph Algorithms and Applications. 2022;26(2):225-240. doi:10.7155/jgaa.00591
apa: Aichholzer, O., Arroyo Guevara, A. M., Masárová, Z., Parada, I., Perz, D.,
Pilz, A., … Vogtenhuber, B. (2022). On compatible matchings. Journal of Graph
Algorithms and Applications. Brown University. https://doi.org/10.7155/jgaa.00591
chicago: Aichholzer, Oswin, Alan M Arroyo Guevara, Zuzana Masárová, Irene Parada,
Daniel Perz, Alexander Pilz, Josef Tkadlec, and Birgit Vogtenhuber. “On Compatible
Matchings.” Journal of Graph Algorithms and Applications. Brown University,
2022. https://doi.org/10.7155/jgaa.00591.
ieee: O. Aichholzer et al., “On compatible matchings,” Journal of Graph
Algorithms and Applications, vol. 26, no. 2. Brown University, pp. 225–240,
2022.
ista: Aichholzer O, Arroyo Guevara AM, Masárová Z, Parada I, Perz D, Pilz A, Tkadlec
J, Vogtenhuber B. 2022. On compatible matchings. Journal of Graph Algorithms and
Applications. 26(2), 225–240.
mla: Aichholzer, Oswin, et al. “On Compatible Matchings.” Journal of Graph Algorithms
and Applications, vol. 26, no. 2, Brown University, 2022, pp. 225–40, doi:10.7155/jgaa.00591.
short: O. Aichholzer, A.M. Arroyo Guevara, Z. Masárová, I. Parada, D. Perz, A. Pilz,
J. Tkadlec, B. Vogtenhuber, Journal of Graph Algorithms and Applications 26 (2022)
225–240.
date_created: 2022-08-21T22:01:56Z
date_published: 2022-06-01T00:00:00Z
date_updated: 2023-02-23T13:54:21Z
day: '01'
ddc:
- '000'
department:
- _id: UlWa
- _id: HeEd
- _id: KrCh
doi: 10.7155/jgaa.00591
ec_funded: 1
external_id:
arxiv:
- '2101.03928'
file:
- access_level: open_access
checksum: dc6e255e3558faff924fd9e370886c11
content_type: application/pdf
creator: dernst
date_created: 2022-08-22T06:42:42Z
date_updated: 2022-08-22T06:42:42Z
file_id: '11940'
file_name: 2022_JourGraphAlgorithmsApplic_Aichholzer.pdf
file_size: 694538
relation: main_file
success: 1
file_date_updated: 2022-08-22T06:42:42Z
has_accepted_license: '1'
intvolume: ' 26'
issue: '2'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 225-240
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
- _id: 268116B8-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00342
name: The Wittgenstein Prize
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _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
publication: Journal of Graph Algorithms and Applications
publication_identifier:
issn:
- 1526-1719
publication_status: published
publisher: Brown University
quality_controlled: '1'
related_material:
record:
- id: '9296'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: On compatible matchings
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: 26
year: '2022'
...
---
_id: '11943'
abstract:
- lang: eng
text: Complex wiring between neurons underlies the information-processing network
enabling all brain functions, including cognition and memory. For understanding
how the network is structured, processes information, and changes over time, comprehensive
visualization of the architecture of living brain tissue with its cellular and
molecular components would open up major opportunities. However, electron microscopy
(EM) provides nanometre-scale resolution required for full in-silico
reconstruction1–5, yet is limited to fixed specimens and
static representations. Light microscopy allows live observation, with super-resolution
approaches6–12 facilitating nanoscale visualization, but
comprehensive 3D-reconstruction of living brain tissue has been hindered by tissue
photo-burden, photobleaching, insufficient 3D-resolution, and inadequate signal-to-noise
ratio (SNR). Here we demonstrate saturated reconstruction of living brain tissue.
We developed an integrated imaging and analysis technology, adapting stimulated
emission depletion (STED) microscopy6,13 in extracellularly
labelled tissue14 for high SNR and near-isotropic resolution.
Centrally, a two-stage deep-learning approach leveraged previously obtained information
on sample structure to drastically reduce photo-burden and enable automated volumetric
reconstruction down to single synapse level. Live reconstruction provides unbiased
analysis of tissue architecture across time in relation to functional activity
and targeted activation, and contextual understanding of molecular labelling.
This adoptable technology will facilitate novel insights into the dynamic functional
architecture of living brain tissue.
article_processing_charge: No
author:
- first_name: Philipp
full_name: Velicky, Philipp
id: 39BDC62C-F248-11E8-B48F-1D18A9856A87
last_name: Velicky
orcid: 0000-0002-2340-7431
- first_name: Eder
full_name: Miguel Villalba, Eder
id: 3FB91342-F248-11E8-B48F-1D18A9856A87
last_name: Miguel Villalba
orcid: 0000-0001-5665-0430
- first_name: Julia M
full_name: Michalska, Julia M
id: 443DB6DE-F248-11E8-B48F-1D18A9856A87
last_name: Michalska
orcid: 0000-0003-3862-1235
- first_name: Donglai
full_name: Wei, Donglai
last_name: Wei
- first_name: Zudi
full_name: Lin, Zudi
last_name: Lin
- first_name: Jake
full_name: Watson, Jake
id: 63836096-4690-11EA-BD4E-32803DDC885E
last_name: Watson
orcid: 0000-0002-8698-3823
- first_name: Jakob
full_name: Troidl, Jakob
last_name: Troidl
- first_name: Johanna
full_name: Beyer, Johanna
last_name: Beyer
- first_name: Yoav
full_name: Ben Simon, Yoav
id: 43DF3136-F248-11E8-B48F-1D18A9856A87
last_name: Ben Simon
- first_name: Christoph M
full_name: Sommer, Christoph M
id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87
last_name: Sommer
orcid: 0000-0003-1216-9105
- first_name: Wiebke
full_name: Jahr, Wiebke
id: 425C1CE8-F248-11E8-B48F-1D18A9856A87
last_name: Jahr
- first_name: Alban
full_name: Cenameri, Alban
id: 9ac8f577-2357-11eb-997a-e566c5550886
last_name: Cenameri
- first_name: Johannes
full_name: Broichhagen, Johannes
last_name: Broichhagen
- first_name: Seth G. N.
full_name: Grant, Seth G. N.
last_name: Grant
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
- first_name: Hanspeter
full_name: Pfister, Hanspeter
last_name: Pfister
- first_name: Bernd
full_name: Bickel, Bernd
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
citation:
ama: Velicky P, Miguel Villalba E, Michalska JM, et al. Saturated reconstruction
of living brain tissue. bioRxiv. doi:10.1101/2022.03.16.484431
apa: Velicky, P., Miguel Villalba, E., Michalska, J. M., Wei, D., Lin, Z., Watson,
J., … Danzl, J. G. (n.d.). Saturated reconstruction of living brain tissue. bioRxiv.
Cold Spring Harbor Laboratory. https://doi.org/10.1101/2022.03.16.484431
chicago: Velicky, Philipp, Eder Miguel Villalba, Julia M Michalska, Donglai Wei,
Zudi Lin, Jake Watson, Jakob Troidl, et al. “Saturated Reconstruction of Living
Brain Tissue.” BioRxiv. Cold Spring Harbor Laboratory, n.d. https://doi.org/10.1101/2022.03.16.484431.
ieee: P. Velicky et al., “Saturated reconstruction of living brain tissue,”
bioRxiv. Cold Spring Harbor Laboratory.
ista: Velicky P, Miguel Villalba E, Michalska JM, Wei D, Lin Z, Watson J, Troidl
J, Beyer J, Ben Simon Y, Sommer CM, Jahr W, Cenameri A, Broichhagen J, Grant SGN,
Jonas PM, Novarino G, Pfister H, Bickel B, Danzl JG. Saturated reconstruction
of living brain tissue. bioRxiv, 10.1101/2022.03.16.484431.
mla: Velicky, Philipp, et al. “Saturated Reconstruction of Living Brain Tissue.”
BioRxiv, Cold Spring Harbor Laboratory, doi:10.1101/2022.03.16.484431.
short: P. Velicky, E. Miguel Villalba, J.M. Michalska, D. Wei, Z. Lin, J. Watson,
J. Troidl, J. Beyer, Y. Ben Simon, C.M. Sommer, W. Jahr, A. Cenameri, J. Broichhagen,
S.G.N. Grant, P.M. Jonas, G. Novarino, H. Pfister, B. Bickel, J.G. Danzl, BioRxiv
(n.d.).
date_created: 2022-08-23T11:07:59Z
date_published: 2022-05-09T00:00:00Z
date_updated: 2024-03-25T23:30:11Z
day: '09'
department:
- _id: PeJo
- _id: GaNo
- _id: BeBi
- _id: JoDa
doi: 10.1101/2022.03.16.484431
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2022.03.16.484431
month: '05'
oa: 1
oa_version: Preprint
publication: bioRxiv
publication_status: submitted
publisher: Cold Spring Harbor Laboratory
related_material:
record:
- id: '12470'
relation: dissertation_contains
status: public
status: public
title: Saturated reconstruction of living brain tissue
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '11945'
abstract:
- lang: eng
text: "G protein-coupled receptors (GPCRs) respond to specific ligands and regulate
multiple processes ranging from cell growth and immune responses to neuronal signal
transmission. However, ligands for many GPCRs remain unknown, suffer from off-target
effects or have poor bioavailability. Additional challenges exist to dissect cell-type
specific responses when the same GPCR is expressed on several cell types within
the body. Here, we overcome these limitations by engineering DREADD-based GPCR
chimeras that selectively bind their agonist clozapine-N-oxide (CNO) and mimic
a GPCR-of-interest in a desired cell type.\r\nWe validated our approach with β2-adrenergic
receptor (β2AR/ADRB2) and show that our chimeric DREADD-β2AR triggers comparable
responses on second messenger and kinase activity, post-translational modifications,
and protein-protein interactions. Since β2AR is also enriched in microglia, which
can drive inflammation in the central nervous system, we expressed chimeric DREADD-β2AR
in primary microglia and successfully recapitulate β2AR-mediated filopodia formation
through CNO stimulation. To dissect the role of selected GPCRs during microglial
inflammation, we additionally generated DREADD-based chimeras for microglia-enriched
GPR65 and GPR109A/HCAR2. In a microglia cell line, DREADD-β2AR and DREADD-GPR65
both modulated the inflammatory response with a similar profile as endogenously
expressed β2AR, while DREADD-GPR109A showed no impact.\r\nOur DREADD-based approach
provides the means to obtain mechanistic and functional insights into GPCR signaling
on a cell-type specific level."
acknowledged_ssus:
- _id: Bio
- _id: PreCl
- _id: LifeSc
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Rouven
full_name: Schulz, Rouven
id: 4C5E7B96-F248-11E8-B48F-1D18A9856A87
last_name: Schulz
orcid: 0000-0001-5297-733X
citation:
ama: Schulz R. Chimeric G protein-coupled receptors mimic distinct signaling pathways
and modulate microglia function. 2022. doi:10.15479/at:ista:11945
apa: Schulz, R. (2022). Chimeric G protein-coupled receptors mimic distinct signaling
pathways and modulate microglia function. Institute of Science and Technology
Austria. https://doi.org/10.15479/at:ista:11945
chicago: Schulz, Rouven. “Chimeric G Protein-Coupled Receptors Mimic Distinct Signaling
Pathways and Modulate Microglia Function.” Institute of Science and Technology
Austria, 2022. https://doi.org/10.15479/at:ista:11945.
ieee: R. Schulz, “Chimeric G protein-coupled receptors mimic distinct signaling
pathways and modulate microglia function,” Institute of Science and Technology
Austria, 2022.
ista: Schulz R. 2022. Chimeric G protein-coupled receptors mimic distinct signaling
pathways and modulate microglia function. Institute of Science and Technology
Austria.
mla: Schulz, Rouven. Chimeric G Protein-Coupled Receptors Mimic Distinct Signaling
Pathways and Modulate Microglia Function. Institute of Science and Technology
Austria, 2022, doi:10.15479/at:ista:11945.
short: R. Schulz, Chimeric G Protein-Coupled Receptors Mimic Distinct Signaling
Pathways and Modulate Microglia Function, Institute of Science and Technology
Austria, 2022.
date_created: 2022-08-23T11:33:11Z
date_published: 2022-08-23T00:00:00Z
date_updated: 2023-08-03T13:02:26Z
day: '23'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: GradSch
- _id: SaSi
doi: 10.15479/at:ista:11945
file:
- access_level: open_access
checksum: 61b1b666a210ff7cdd0e95ea75207a13
content_type: application/pdf
creator: rschulz
date_created: 2022-08-25T08:59:57Z
date_updated: 2022-08-25T08:59:57Z
file_id: '11970'
file_name: Thesis_Rouven_Schulz_2022_final.pdf
file_size: 28079331
relation: main_file
success: 1
- access_level: closed
checksum: 2b8f95ea1c134dbdb927b41b1dbeeeb5
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: rschulz
date_created: 2022-08-25T09:00:11Z
date_updated: 2022-08-25T09:33:31Z
file_id: '11971'
file_name: Thesis_Rouven_Schulz_2022_final.docx
file_size: 27226963
relation: source_file
file_date_updated: 2022-08-25T09:33:31Z
has_accepted_license: '1'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: '133'
project:
- _id: 267F75D8-B435-11E9-9278-68D0E5697425
name: Modulating microglia through G protein-coupled receptor (GPCR) signaling
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '11995'
relation: dissertation_contains
status: public
status: public
supervisor:
- first_name: Sandra
full_name: Siegert, Sandra
id: 36ACD32E-F248-11E8-B48F-1D18A9856A87
last_name: Siegert
orcid: 0000-0001-8635-0877
title: Chimeric G protein-coupled receptors mimic distinct signaling pathways and
modulate microglia function
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: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2022'
...
---
_id: '11950'
abstract:
- lang: eng
text: Mapping the complex and dense arrangement of cells and their connectivity
in brain tissue demands nanoscale spatial resolution imaging. Super-resolution
optical microscopy excels at visualizing specific molecules and individual cells
but fails to provide tissue context. Here we developed Comprehensive Analysis
of Tissues across Scales (CATS), a technology to densely map brain tissue architecture
from millimeter regional to nanoscopic synaptic scales in diverse chemically fixed
brain preparations, including rodent and human. CATS leverages fixation-compatible
extracellular labeling and advanced optical readout, in particular stimulated-emission
depletion and expansion microscopy, to comprehensively delineate cellular structures.
It enables 3D-reconstructing single synapses and mapping synaptic connectivity
by identification and tailored analysis of putative synaptic cleft regions. Applying
CATS to the hippocampal mossy fiber circuitry, we demonstrate its power to reveal
the system’s molecularly informed ultrastructure across spatial scales and assess
local connectivity by reconstructing and quantifying the synaptic input and output
structure of identified neurons.
article_processing_charge: No
author:
- first_name: Julia M
full_name: Michalska, Julia M
id: 443DB6DE-F248-11E8-B48F-1D18A9856A87
last_name: Michalska
orcid: 0000-0003-3862-1235
- first_name: Julia
full_name: Lyudchik, Julia
id: 46E28B80-F248-11E8-B48F-1D18A9856A87
last_name: Lyudchik
- first_name: Philipp
full_name: Velicky, Philipp
id: 39BDC62C-F248-11E8-B48F-1D18A9856A87
last_name: Velicky
orcid: 0000-0002-2340-7431
- first_name: Hana
full_name: Korinkova, Hana
id: ee3cb6ca-ec98-11ea-ae11-ff703e2254ed
last_name: Korinkova
- first_name: Jake
full_name: Watson, Jake
id: 63836096-4690-11EA-BD4E-32803DDC885E
last_name: Watson
orcid: 0000-0002-8698-3823
- first_name: Alban
full_name: Cenameri, Alban
id: 9ac8f577-2357-11eb-997a-e566c5550886
last_name: Cenameri
- first_name: Christoph M
full_name: Sommer, Christoph M
id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87
last_name: Sommer
orcid: 0000-0003-1216-9105
- first_name: Alessandro
full_name: Venturino, Alessandro
id: 41CB84B2-F248-11E8-B48F-1D18A9856A87
last_name: Venturino
orcid: 0000-0003-2356-9403
- first_name: Karl
full_name: Roessler, Karl
last_name: Roessler
- first_name: Thomas
full_name: Czech, Thomas
last_name: Czech
- first_name: Sandra
full_name: Siegert, Sandra
id: 36ACD32E-F248-11E8-B48F-1D18A9856A87
last_name: Siegert
orcid: 0000-0001-8635-0877
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
citation:
ama: Michalska JM, Lyudchik J, Velicky P, et al. Uncovering brain tissue architecture
across scales with super-resolution light microscopy. bioRxiv. doi:10.1101/2022.08.17.504272
apa: Michalska, J. M., Lyudchik, J., Velicky, P., Korinkova, H., Watson, J., Cenameri,
A., … Danzl, J. G. (n.d.). Uncovering brain tissue architecture across scales
with super-resolution light microscopy. bioRxiv. Cold Spring Harbor Laboratory.
https://doi.org/10.1101/2022.08.17.504272
chicago: Michalska, Julia M, Julia Lyudchik, Philipp Velicky, Hana Korinkova, Jake
Watson, Alban Cenameri, Christoph M Sommer, et al. “Uncovering Brain Tissue Architecture
across Scales with Super-Resolution Light Microscopy.” BioRxiv. Cold Spring
Harbor Laboratory, n.d. https://doi.org/10.1101/2022.08.17.504272.
ieee: J. M. Michalska et al., “Uncovering brain tissue architecture across
scales with super-resolution light microscopy,” bioRxiv. Cold Spring Harbor
Laboratory.
ista: Michalska JM, Lyudchik J, Velicky P, Korinkova H, Watson J, Cenameri A, Sommer
CM, Venturino A, Roessler K, Czech T, Siegert S, Novarino G, Jonas PM, Danzl JG.
Uncovering brain tissue architecture across scales with super-resolution light
microscopy. bioRxiv, 10.1101/2022.08.17.504272.
mla: Michalska, Julia M., et al. “Uncovering Brain Tissue Architecture across Scales
with Super-Resolution Light Microscopy.” BioRxiv, Cold Spring Harbor Laboratory,
doi:10.1101/2022.08.17.504272.
short: J.M. Michalska, J. Lyudchik, P. Velicky, H. Korinkova, J. Watson, A. Cenameri,
C.M. Sommer, A. Venturino, K. Roessler, T. Czech, S. Siegert, G. Novarino, P.M.
Jonas, J.G. Danzl, BioRxiv (n.d.).
date_created: 2022-08-24T08:24:52Z
date_published: 2022-08-18T00:00:00Z
date_updated: 2024-03-25T23:30:11Z
day: '18'
department:
- _id: SaSi
- _id: GaNo
- _id: PeJo
- _id: JoDa
doi: 10.1101/2022.08.17.504272
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2022.08.17.504272
month: '08'
oa: 1
oa_version: Preprint
publication: bioRxiv
publication_status: submitted
publisher: Cold Spring Harbor Laboratory
related_material:
record:
- id: '12470'
relation: dissertation_contains
status: public
status: public
title: Uncovering brain tissue architecture across scales with super-resolution light
microscopy
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '11951'
abstract:
- lang: eng
text: The mammalian hippocampal formation (HF) plays a key role in several higher
brain functions, such as spatial coding, learning and memory. Its simple circuit
architecture is often viewed as a trisynaptic loop, processing input originating
from the superficial layers of the entorhinal cortex (EC) and sending it back
to its deeper layers. Here, we show that excitatory neurons in layer 6b of the
mouse EC project to all sub-regions comprising the HF and receive input from the
CA1, thalamus and claustrum. Furthermore, their output is characterized by unique
slow-decaying excitatory postsynaptic currents capable of driving plateau-like
potentials in their postsynaptic targets. Optogenetic inhibition of the EC-6b
pathway affects spatial coding in CA1 pyramidal neurons, while cell ablation impairs
not only acquisition of new spatial memories, but also degradation of previously
acquired ones. Our results provide evidence of a functional role for cortical
layer 6b neurons in the adult brain.
acknowledged_ssus:
- _id: Bio
- _id: SSU
acknowledgement: We thank F. Marr and A. Schlögl for technical assistance, E. Kralli-Beller
for manuscript editing, as well as C. Sommer and the Imaging and Optics Facility
of the Institute of Science and Technology Austria (ISTA) for image analysis scripts
and microscopy support. We extend our gratitude to J. Wallenschus and D. Rangel
Guerrero for technical assistance acquiring single-unit data and I. Gridchyn for
help with single-unit clustering. Finally, we also thank B. Suter for discussions,
A. Saunders, M. Jösch, and H. Monyer for critically reading earlier versions of
the manuscript, C. Petersen for sharing clearing protocols, and the Scientific Service
Units of ISTA for efficient support. This project was funded by the European Research
Council (ERC) under the European Union’s Horizon 2020 research and innovation programme
(ERC advanced grant No 692692 to P.J.) and the Fond zur Förderung der Wissenschaftlichen
Forschung (Z 312-B27, Wittgenstein award for P.J. and I3600-B27 for J.G.D. and P.V.).
article_number: '4826'
article_processing_charge: No
article_type: original
author:
- first_name: Yoav
full_name: Ben Simon, Yoav
id: 43DF3136-F248-11E8-B48F-1D18A9856A87
last_name: Ben Simon
- first_name: Karola
full_name: Käfer, Karola
id: 2DAA49AA-F248-11E8-B48F-1D18A9856A87
last_name: Käfer
- first_name: Philipp
full_name: Velicky, Philipp
id: 39BDC62C-F248-11E8-B48F-1D18A9856A87
last_name: Velicky
orcid: 0000-0002-2340-7431
- first_name: Jozsef L
full_name: Csicsvari, Jozsef L
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
citation:
ama: Ben Simon Y, Käfer K, Velicky P, Csicsvari JL, Danzl JG, Jonas PM. A direct
excitatory projection from entorhinal layer 6b neurons to the hippocampus contributes
to spatial coding and memory. Nature Communications. 2022;13. doi:10.1038/s41467-022-32559-8
apa: Ben Simon, Y., Käfer, K., Velicky, P., Csicsvari, J. L., Danzl, J. G., &
Jonas, P. M. (2022). A direct excitatory projection from entorhinal layer 6b neurons
to the hippocampus contributes to spatial coding and memory. Nature Communications.
Springer Nature. https://doi.org/10.1038/s41467-022-32559-8
chicago: Ben Simon, Yoav, Karola Käfer, Philipp Velicky, Jozsef L Csicsvari, Johann
G Danzl, and Peter M Jonas. “A Direct Excitatory Projection from Entorhinal Layer
6b Neurons to the Hippocampus Contributes to Spatial Coding and Memory.” Nature
Communications. Springer Nature, 2022. https://doi.org/10.1038/s41467-022-32559-8.
ieee: Y. Ben Simon, K. Käfer, P. Velicky, J. L. Csicsvari, J. G. Danzl, and P. M.
Jonas, “A direct excitatory projection from entorhinal layer 6b neurons to the
hippocampus contributes to spatial coding and memory,” Nature Communications,
vol. 13. Springer Nature, 2022.
ista: Ben Simon Y, Käfer K, Velicky P, Csicsvari JL, Danzl JG, Jonas PM. 2022. A
direct excitatory projection from entorhinal layer 6b neurons to the hippocampus
contributes to spatial coding and memory. Nature Communications. 13, 4826.
mla: Ben Simon, Yoav, et al. “A Direct Excitatory Projection from Entorhinal Layer
6b Neurons to the Hippocampus Contributes to Spatial Coding and Memory.” Nature
Communications, vol. 13, 4826, Springer Nature, 2022, doi:10.1038/s41467-022-32559-8.
short: Y. Ben Simon, K. Käfer, P. Velicky, J.L. Csicsvari, J.G. Danzl, P.M. Jonas,
Nature Communications 13 (2022).
date_created: 2022-08-24T08:25:50Z
date_published: 2022-08-16T00:00:00Z
date_updated: 2023-08-03T13:01:19Z
day: '16'
ddc:
- '570'
department:
- _id: JoCs
- _id: PeJo
- _id: JoDa
doi: 10.1038/s41467-022-32559-8
ec_funded: 1
external_id:
isi:
- '000841396400008'
file:
- access_level: open_access
checksum: 405936d9e4d33625d80c093c9713a91f
content_type: application/pdf
creator: dernst
date_created: 2022-08-26T11:51:40Z
date_updated: 2022-08-26T11:51:40Z
file_id: '11990'
file_name: 2022_NatureCommunications_BenSimon.pdf
file_size: 5910357
relation: main_file
success: 1
file_date_updated: 2022-08-26T11:51:40Z
has_accepted_license: '1'
intvolume: ' 13'
isi: 1
keyword:
- General Physics and Astronomy
- General Biochemistry
- Genetics and Molecular Biology
- General Chemistry
- Multidisciplinary
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 25B7EB9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '692692'
name: Biophysics and circuit function of a giant cortical glumatergic synapse
- _id: 265CB4D0-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03600
name: Optical control of synaptic function via adhesion molecules
- _id: 25C5A090-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00312
name: The Wittgenstein Prize
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: A direct excitatory projection from entorhinal layer 6b neurons to the hippocampus
contributes to spatial coding and memory
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 13
year: '2022'
...
---
_id: '11991'
abstract:
- lang: eng
text: The study of the complexity of the constraint satisfaction problem (CSP),
centred around the Feder-Vardi Dichotomy Conjecture, has been very prominent in
the last two decades. After a long concerted effort and many partial results,
the Dichotomy Conjecture has been proved in 2017 independently by Bulatov and
Zhuk. At about the same time, a vast generalisation of CSP, called promise CSP,
has started to gain prominence. In this survey, we explain the importance of promise
CSP and highlight many new very interesting features that the study of promise
CSP has brought to light. The complexity classification quest for the promise
CSP is wide open, and we argue that, despite the promise CSP being more general,
this quest is rather more accessible to a wide range of researchers than the dichotomy-led
study of the CSP has been.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Andrei
full_name: Krokhin, Andrei
last_name: Krokhin
- first_name: Jakub
full_name: Opršal, Jakub
id: ec596741-c539-11ec-b829-c79322a91242
last_name: Opršal
orcid: 0000-0003-1245-3456
citation:
ama: Krokhin A, Opršal J. An invitation to the promise constraint satisfaction problem.
ACM SIGLOG News. 2022;9(3):30-59. doi:10.1145/3559736.3559740
apa: Krokhin, A., & Opršal, J. (2022). An invitation to the promise constraint
satisfaction problem. ACM SIGLOG News. Association for Computing Machinery.
https://doi.org/10.1145/3559736.3559740
chicago: Krokhin, Andrei, and Jakub Opršal. “An Invitation to the Promise Constraint
Satisfaction Problem.” ACM SIGLOG News. Association for Computing Machinery,
2022. https://doi.org/10.1145/3559736.3559740.
ieee: A. Krokhin and J. Opršal, “An invitation to the promise constraint satisfaction
problem,” ACM SIGLOG News, vol. 9, no. 3. Association for Computing Machinery,
pp. 30–59, 2022.
ista: Krokhin A, Opršal J. 2022. An invitation to the promise constraint satisfaction
problem. ACM SIGLOG News. 9(3), 30–59.
mla: Krokhin, Andrei, and Jakub Opršal. “An Invitation to the Promise Constraint
Satisfaction Problem.” ACM SIGLOG News, vol. 9, no. 3, Association for
Computing Machinery, 2022, pp. 30–59, doi:10.1145/3559736.3559740.
short: A. Krokhin, J. Opršal, ACM SIGLOG News 9 (2022) 30–59.
date_created: 2022-08-27T11:23:37Z
date_published: 2022-07-01T00:00:00Z
date_updated: 2022-09-05T08:19:38Z
day: '01'
department:
- _id: UlWa
doi: 10.1145/3559736.3559740
external_id:
arxiv:
- '2208.13538'
intvolume: ' 9'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/2208.13538
month: '07'
oa: 1
oa_version: Preprint
page: 30-59
publication: ACM SIGLOG News
publication_identifier:
issn:
- 2372-3491
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
status: public
title: An invitation to the promise constraint satisfaction problem
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2022'
...
---
_id: '11993'
abstract:
- lang: eng
text: Moulding refers to a set of manufacturing techniques in which a mould, usually
a cavity or a solid frame, is used to shape a liquid or pliable material into
an object of the desired shape. The popularity of moulding comes from its effectiveness,
scalability and versatility in terms of employed materials. Its relevance as a
fabrication process is demonstrated by the extensive literature covering different
aspects related to mould design, from material flow simulation to the automation
of mould geometry design. In this state-of-the-art report, we provide an extensive
review of the automatic methods for the design of moulds, focusing on contributions
from a geometric perspective. We classify existing mould design methods based
on their computational approach and the nature of their target moulding process.
We summarize the relationships between computational approaches and moulding techniques,
highlighting their strengths and limitations. Finally, we discuss potential future
research directions.
article_processing_charge: No
article_type: original
author:
- first_name: Thomas
full_name: Alderighi, Thomas
last_name: Alderighi
- first_name: Luigi
full_name: Malomo, Luigi
last_name: Malomo
- first_name: Thomas
full_name: Auzinger, Thomas
id: 4718F954-F248-11E8-B48F-1D18A9856A87
last_name: Auzinger
orcid: 0000-0002-1546-3265
- first_name: Bernd
full_name: Bickel, Bernd
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Paulo
full_name: Cignoni, Paulo
last_name: Cignoni
- first_name: Nico
full_name: Pietroni, Nico
last_name: Pietroni
citation:
ama: Alderighi T, Malomo L, Auzinger T, Bickel B, Cignoni P, Pietroni N. State of
the art in computational mould design. Computer Graphics Forum. 2022;41(6):435-452.
doi:10.1111/cgf.14581
apa: Alderighi, T., Malomo, L., Auzinger, T., Bickel, B., Cignoni, P., & Pietroni,
N. (2022). State of the art in computational mould design. Computer Graphics
Forum. Wiley. https://doi.org/10.1111/cgf.14581
chicago: Alderighi, Thomas, Luigi Malomo, Thomas Auzinger, Bernd Bickel, Paulo Cignoni,
and Nico Pietroni. “State of the Art in Computational Mould Design.” Computer
Graphics Forum. Wiley, 2022. https://doi.org/10.1111/cgf.14581.
ieee: T. Alderighi, L. Malomo, T. Auzinger, B. Bickel, P. Cignoni, and N. Pietroni,
“State of the art in computational mould design,” Computer Graphics Forum,
vol. 41, no. 6. Wiley, pp. 435–452, 2022.
ista: Alderighi T, Malomo L, Auzinger T, Bickel B, Cignoni P, Pietroni N. 2022.
State of the art in computational mould design. Computer Graphics Forum. 41(6),
435–452.
mla: Alderighi, Thomas, et al. “State of the Art in Computational Mould Design.”
Computer Graphics Forum, vol. 41, no. 6, Wiley, 2022, pp. 435–52, doi:10.1111/cgf.14581.
short: T. Alderighi, L. Malomo, T. Auzinger, B. Bickel, P. Cignoni, N. Pietroni,
Computer Graphics Forum 41 (2022) 435–452.
date_created: 2022-08-28T18:17:01Z
date_published: 2022-09-01T00:00:00Z
date_updated: 2023-08-03T13:21:55Z
day: '01'
ddc:
- '000'
department:
- _id: BeBi
doi: 10.1111/cgf.14581
external_id:
isi:
- '000842638900001'
file:
- access_level: open_access
checksum: c40cc8ceb7b7f0512172b883d712198e
content_type: application/pdf
creator: bbickel
date_created: 2022-08-28T18:18:08Z
date_updated: 2022-08-28T18:18:08Z
description: 'This is the pre-peer reviewed version of the following article: Alderighi,
T., Malomo, L., Auzinger, T., Bickel, B., Cignoni, P. and Pietroni, N. (2022),
State of the Art in Computational Mould Design. Computer Graphics Forum, which
has been published in final form at https://doi.org/10.1111/cgf.14581. This article
may be used for non-commercial purposes in accordance with Wiley Terms and Conditions
for Use of Self-Archived Versions.'
file_id: '11994'
file_name: star_molding_preprint.pdf
file_size: 32480850
relation: main_file
title: pre-peer reviewed version
file_date_updated: 2022-08-28T18:18:08Z
has_accepted_license: '1'
intvolume: ' 41'
isi: 1
issue: '6'
keyword:
- Computer Graphics and Computer-Aided Design
language:
- iso: eng
month: '09'
oa: 1
oa_version: Submitted Version
page: 435-452
publication: Computer Graphics Forum
publication_identifier:
eissn:
- 1467-8659
issn:
- 0167-7055
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: State of the art in computational mould design
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 41
year: '2022'
...
---
_id: '11995'
abstract:
- lang: eng
text: G protein-coupled receptors (GPCRs) regulate processes ranging from immune
responses to neuronal signaling. However, ligands for many GPCRs remain unknown,
suffer from off-target effects or have poor bioavailability. Additionally, dissecting
cell type-specific responses is challenging when the same GPCR is expressed on
different cells within a tissue. Here, we overcome these limitations by engineering
DREADD-based GPCR chimeras that bind clozapine-N-oxide and mimic a GPCR-of-interest.
We show that chimeric DREADD-β2AR triggers responses comparable to β2AR on second
messenger and kinase activity, post-translational modifications, and protein-protein
interactions. Moreover, we successfully recapitulate β2AR-mediated filopodia formation
in microglia, an immune cell capable of driving central nervous system inflammation.
When dissecting microglial inflammation, we included two additional DREADD-based
chimeras mimicking microglia-enriched GPR65 and GPR109A. DREADD-β2AR and DREADD-GPR65
modulate the inflammatory response with high similarity to endogenous β2AR, while
DREADD-GPR109A shows no impact. Our DREADD-based approach allows investigation
of cell type-dependent pathways without known endogenous ligands.
acknowledged_ssus:
- _id: PreCl
- _id: Bio
- _id: LifeSc
acknowledgement: The authors thank the Scientific Service Units at ISTA, in particular
the Molecular Biology Service of the Lab Support Facility, Imaging & Optics Facility,
and the Preclinical Facility, and the Novarino group, Harald Janoviak, and Marco
Benevento for sharing reagents and expertise. This research was supported by a DOC
Fellowship (24979) awarded to R.S. by the Austrian Academy of Sciences.
article_number: '4728'
article_processing_charge: No
article_type: original
author:
- first_name: Rouven
full_name: Schulz, Rouven
id: 4C5E7B96-F248-11E8-B48F-1D18A9856A87
last_name: Schulz
orcid: 0000-0001-5297-733X
- first_name: Medina
full_name: Korkut, Medina
id: 4B51CE74-F248-11E8-B48F-1D18A9856A87
last_name: Korkut
orcid: 0000-0003-4309-2251
- first_name: Alessandro
full_name: Venturino, Alessandro
id: 41CB84B2-F248-11E8-B48F-1D18A9856A87
last_name: Venturino
orcid: 0000-0003-2356-9403
- first_name: Gloria
full_name: Colombo, Gloria
id: 3483CF6C-F248-11E8-B48F-1D18A9856A87
last_name: Colombo
orcid: 0000-0001-9434-8902
- first_name: Sandra
full_name: Siegert, Sandra
id: 36ACD32E-F248-11E8-B48F-1D18A9856A87
last_name: Siegert
orcid: 0000-0001-8635-0877
citation:
ama: Schulz R, Korkut M, Venturino A, Colombo G, Siegert S. Chimeric GPCRs mimic
distinct signaling pathways and modulate microglia responses. Nature Communications.
2022;13. doi:10.1038/s41467-022-32390-1
apa: Schulz, R., Korkut, M., Venturino, A., Colombo, G., & Siegert, S. (2022).
Chimeric GPCRs mimic distinct signaling pathways and modulate microglia responses.
Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-022-32390-1
chicago: Schulz, Rouven, Medina Korkut, Alessandro Venturino, Gloria Colombo, and
Sandra Siegert. “Chimeric GPCRs Mimic Distinct Signaling Pathways and Modulate
Microglia Responses.” Nature Communications. Springer Nature, 2022. https://doi.org/10.1038/s41467-022-32390-1.
ieee: R. Schulz, M. Korkut, A. Venturino, G. Colombo, and S. Siegert, “Chimeric
GPCRs mimic distinct signaling pathways and modulate microglia responses,” Nature
Communications, vol. 13. Springer Nature, 2022.
ista: Schulz R, Korkut M, Venturino A, Colombo G, Siegert S. 2022. Chimeric GPCRs
mimic distinct signaling pathways and modulate microglia responses. Nature Communications.
13, 4728.
mla: Schulz, Rouven, et al. “Chimeric GPCRs Mimic Distinct Signaling Pathways and
Modulate Microglia Responses.” Nature Communications, vol. 13, 4728, Springer
Nature, 2022, doi:10.1038/s41467-022-32390-1.
short: R. Schulz, M. Korkut, A. Venturino, G. Colombo, S. Siegert, Nature Communications
13 (2022).
date_created: 2022-08-28T22:01:59Z
date_published: 2022-08-15T00:00:00Z
date_updated: 2024-02-21T12:34:51Z
day: '15'
ddc:
- '570'
department:
- _id: SaSi
doi: 10.1038/s41467-022-32390-1
external_id:
isi:
- '000840984400032'
pmid:
- '35970889'
file:
- access_level: open_access
checksum: 191d9db0266e14a28d3a56dc7f65da84
content_type: application/pdf
creator: cchlebak
date_created: 2022-08-29T06:44:30Z
date_updated: 2022-08-29T06:44:30Z
file_id: '12002'
file_name: 2022_NatComm_Schulz.pdf
file_size: 7317396
relation: main_file
success: 1
file_date_updated: 2022-08-29T06:44:30Z
has_accepted_license: '1'
intvolume: ' 13'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 267F75D8-B435-11E9-9278-68D0E5697425
name: Modulating microglia through G protein-coupled receptor (GPCR) signaling
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: News on ISTA website
relation: press_release
url: https://ista.ac.at/en/news/dreaddful-mimicry/
record:
- id: '11945'
relation: part_of_dissertation
status: public
- id: '11542'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Chimeric GPCRs mimic distinct signaling pathways and modulate microglia responses
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 13
year: '2022'
...
---
_id: '11996'
abstract:
- lang: eng
text: If you mix fruit syrups with alcohol to make a schnapps, the two liquids will
remain perfectly blended forever. But if you mix oil with vinegar to make a vinaigrette,
the oil and vinegar will soon separate back into their previous selves. Such liquid-liquid
phase separation is a thermodynamically driven phenomenon and plays an important
role in many biological processes (1). Although energy injection at the macroscale
can reverse the phase separation—a strong shake is the normal response to a separated
vinaigrette—little is known about the effect of energy added at the microscopic
level on phase separation. This fundamental question has deep ramifications, notably
in biology, because active processes also make the interior of a living cell different
from a dead one. On page 768 of this issue, Adkins et al. (2) examine how mechanical
activity at the microscopic scale affects liquid-liquid phase separation and allows
liquids to climb surfaces.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
citation:
ama: Palacci JA. A soft active matter that can climb walls. Science. 2022;377(6607):710-711.
doi:10.1126/science.adc9202
apa: Palacci, J. A. (2022). A soft active matter that can climb walls. Science.
American Association for the Advancement of Science. https://doi.org/10.1126/science.adc9202
chicago: Palacci, Jérémie A. “A Soft Active Matter That Can Climb Walls.” Science.
American Association for the Advancement of Science, 2022. https://doi.org/10.1126/science.adc9202.
ieee: J. A. Palacci, “A soft active matter that can climb walls,” Science,
vol. 377, no. 6607. American Association for the Advancement of Science, pp. 710–711,
2022.
ista: Palacci JA. 2022. A soft active matter that can climb walls. Science. 377(6607),
710–711.
mla: Palacci, Jérémie A. “A Soft Active Matter That Can Climb Walls.” Science,
vol. 377, no. 6607, American Association for the Advancement of Science, 2022,
pp. 710–11, doi:10.1126/science.adc9202.
short: J.A. Palacci, Science 377 (2022) 710–711.
date_created: 2022-08-28T22:02:00Z
date_published: 2022-08-12T00:00:00Z
date_updated: 2022-09-05T07:37:37Z
day: '12'
department:
- _id: JePa
doi: 10.1126/science.adc9202
external_id:
pmid:
- '35951689 '
intvolume: ' 377'
issue: '6607'
language:
- iso: eng
month: '08'
oa_version: None
page: 710-711
pmid: 1
publication: Science
publication_identifier:
eissn:
- 1095-9203
issn:
- 0036-8075
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: A soft active matter that can climb walls
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 377
year: '2022'
...
---
_id: '11997'
abstract:
- lang: eng
text: "We study the fate of an impurity in an ultracold heteronuclear Bose mixture,
focusing on the experimentally relevant case of a ⁴¹K - ⁸⁷Rb mixture, with the
impurity in a ⁴¹K hyperfine state. Our paper provides a comprehensive description
of an impurity in a BEC mixture with contact interactions across its phase diagram.
We present results for the miscible and immiscible regimes, as well as for the
impurity in a self-bound quantum droplet. Here, varying the interactions, we find
exotic states where the impurity localizes either at the center or\r\nat the surface
of the droplet. "
acknowledgement: We thank A. Simoni for providing the calculations of the intercomponent
scattering lengths. We gratefully acknowledge stimulating discussions with L. A.
Peña Ardila, R. Schmidt, H. Silva, V. Zampronio, and M. Prevedelli for careful reading.
G.B. acknowledges support from the Austrian Science Fund (FWF) under Project No.
M2641-N27. T.M. acknowledges CNPq for support through Bolsa de produtividade em
Pesquisa No. 311079/2015-6. This work is supported by the Deutsche Forschungsgemeinschaft
(DFG, German Research Foundation) under Germany's Excellence Strategy No. EXC2181/1-390900948
(the Heidelberg STRUCTURES Excellence Cluster). This work was supported by the Serrapilheira
Institute (Grant No. Serra-1812-27802). We thank the High-Performance Computing
Center (NPAD) at UFRN for providing computational resources.
article_number: '023301'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Giacomo
full_name: Bighin, Giacomo
id: 4CA96FD4-F248-11E8-B48F-1D18A9856A87
last_name: Bighin
orcid: 0000-0001-8823-9777
- first_name: A.
full_name: Burchianti, A.
last_name: Burchianti
- first_name: F.
full_name: Minardi, F.
last_name: Minardi
- first_name: T.
full_name: Macrì, T.
last_name: Macrì
citation:
ama: Bighin G, Burchianti A, Minardi F, Macrì T. Impurity in a heteronuclear two-component
Bose mixture. Physical Review A. 2022;106(2). doi:10.1103/PhysRevA.106.023301
apa: Bighin, G., Burchianti, A., Minardi, F., & Macrì, T. (2022). Impurity in
a heteronuclear two-component Bose mixture. Physical Review A. American
Physical Society. https://doi.org/10.1103/PhysRevA.106.023301
chicago: Bighin, Giacomo, A. Burchianti, F. Minardi, and T. Macrì. “Impurity in
a Heteronuclear Two-Component Bose Mixture.” Physical Review A. American
Physical Society, 2022. https://doi.org/10.1103/PhysRevA.106.023301.
ieee: G. Bighin, A. Burchianti, F. Minardi, and T. Macrì, “Impurity in a heteronuclear
two-component Bose mixture,” Physical Review A, vol. 106, no. 2. American
Physical Society, 2022.
ista: Bighin G, Burchianti A, Minardi F, Macrì T. 2022. Impurity in a heteronuclear
two-component Bose mixture. Physical Review A. 106(2), 023301.
mla: Bighin, Giacomo, et al. “Impurity in a Heteronuclear Two-Component Bose Mixture.”
Physical Review A, vol. 106, no. 2, 023301, American Physical Society,
2022, doi:10.1103/PhysRevA.106.023301.
short: G. Bighin, A. Burchianti, F. Minardi, T. Macrì, Physical Review A 106 (2022).
date_created: 2022-08-28T22:02:00Z
date_published: 2022-08-04T00:00:00Z
date_updated: 2024-08-07T07:16:52Z
day: '04'
department:
- _id: MiLe
doi: 10.1103/PhysRevA.106.023301
external_id:
arxiv:
- '2109.07451'
isi:
- '000837953600006'
intvolume: ' 106'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2109.07451
month: '08'
oa: 1
oa_version: Preprint
project:
- _id: 26986C82-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02641
name: A path-integral approach to composite impurities
publication: Physical Review A
publication_identifier:
eissn:
- 2469-9934
issn:
- 2469-9926
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Impurity in a heteronuclear two-component Bose mixture
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 106
year: '2022'
...
---
_id: '11998'
abstract:
- lang: eng
text: Recently it became possible to study highly excited rotational states of molecules
in superfluid helium through nonadiabatic alignment experiments (Cherepanov et
al 2021 Phys. Rev. A 104 L061303). This calls for theoretical approaches that
go beyond explaining renormalized values of molecular spectroscopic constants,
which suffices when only the lowest few rotational states are involved. As the
first step in this direction, here we present a basic quantum mechanical model
describing highly excited rotational states of molecules in superfluid helium
nanodroplets. We show that a linear molecule immersed in a superfluid can be seen
as an effective symmetric top, similar to the rotational structure of radicals,
such as OH or NO, but with the angular momentum of the superfluid playing the
role of the electronic angular momentum in free molecules. The simple theory sheds
light onto what happens when the rotational angular momentum of the molecule increases
beyond the lowest excited states accessible by infrared spectroscopy. In addition,
the model allows to estimate the effective rotational and centrifugal distortion
constants for a broad range of species and to explain the crossover between light
and heavy molecules in superfluid 4He in terms of the many-body wavefunction structure.
Some of the above mentioned insights can be acquired by analyzing a simple 2 ×
2 matrix.
acknowledgement: IC acknowledges the support by the European Union's Horizon 2020
research and innovation programme under the Marie Skłodowska-Curie Grant Agreement
No. 665385. GB acknowledges support from the Austrian Science Fund (FWF), under
Project No. M2461-N27 and from the Deutsche Forschungsgemeinschaft (DFG, German
Research Foundation) under Germany's Excellence Strategy EXC2181/1-390900948 (the
Heidelberg STRUCTURES Excellence Cluster). ML acknowledges support by the Austrian
Science Fund (FWF), under Project No. P29902-N27, and by the European Research Council
(ERC) starting Grant No. 801770 (ANGULON). HS acknowledges support from the Independent
Research Fund Denmark (Project No. 8021-00232B) and from the Villum Fonden through
a Villum Investigator Grant No. 25886.
article_number: '075004'
article_processing_charge: Yes
article_type: original
author:
- first_name: Igor
full_name: Cherepanov, Igor
id: 339C7E5A-F248-11E8-B48F-1D18A9856A87
last_name: Cherepanov
- first_name: Giacomo
full_name: Bighin, Giacomo
id: 4CA96FD4-F248-11E8-B48F-1D18A9856A87
last_name: Bighin
orcid: 0000-0001-8823-9777
- first_name: Constant A.
full_name: Schouder, Constant A.
last_name: Schouder
- first_name: Adam S.
full_name: Chatterley, Adam S.
last_name: Chatterley
- first_name: Henrik
full_name: Stapelfeldt, Henrik
last_name: Stapelfeldt
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
citation:
ama: Cherepanov I, Bighin G, Schouder CA, Chatterley AS, Stapelfeldt H, Lemeshko
M. A simple model for high rotational excitations of molecules in a superfluid.
New Journal of Physics. 2022;24(7). doi:10.1088/1367-2630/ac8113
apa: Cherepanov, I., Bighin, G., Schouder, C. A., Chatterley, A. S., Stapelfeldt,
H., & Lemeshko, M. (2022). A simple model for high rotational excitations
of molecules in a superfluid. New Journal of Physics. IOP. https://doi.org/10.1088/1367-2630/ac8113
chicago: Cherepanov, Igor, Giacomo Bighin, Constant A. Schouder, Adam S. Chatterley,
Henrik Stapelfeldt, and Mikhail Lemeshko. “A Simple Model for High Rotational
Excitations of Molecules in a Superfluid.” New Journal of Physics. IOP,
2022. https://doi.org/10.1088/1367-2630/ac8113.
ieee: I. Cherepanov, G. Bighin, C. A. Schouder, A. S. Chatterley, H. Stapelfeldt,
and M. Lemeshko, “A simple model for high rotational excitations of molecules
in a superfluid,” New Journal of Physics, vol. 24, no. 7. IOP, 2022.
ista: Cherepanov I, Bighin G, Schouder CA, Chatterley AS, Stapelfeldt H, Lemeshko
M. 2022. A simple model for high rotational excitations of molecules in a superfluid.
New Journal of Physics. 24(7), 075004.
mla: Cherepanov, Igor, et al. “A Simple Model for High Rotational Excitations of
Molecules in a Superfluid.” New Journal of Physics, vol. 24, no. 7, 075004,
IOP, 2022, doi:10.1088/1367-2630/ac8113.
short: I. Cherepanov, G. Bighin, C.A. Schouder, A.S. Chatterley, H. Stapelfeldt,
M. Lemeshko, New Journal of Physics 24 (2022).
date_created: 2022-08-28T22:02:01Z
date_published: 2022-08-11T00:00:00Z
date_updated: 2024-08-07T07:16:52Z
day: '11'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.1088/1367-2630/ac8113
ec_funded: 1
external_id:
isi:
- '000839216900001'
file:
- access_level: open_access
checksum: 10116a08d3489befc13dba2cc44490f1
content_type: application/pdf
creator: alisjak
date_created: 2022-08-29T09:57:40Z
date_updated: 2022-08-29T09:57:40Z
file_id: '12005'
file_name: 2022_NewJournalofPhysics_Cherepanov.pdf
file_size: 1912882
relation: main_file
success: 1
file_date_updated: 2022-08-29T09:57:40Z
has_accepted_license: '1'
intvolume: ' 24'
isi: 1
issue: '7'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: 2688CF98-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '801770'
name: 'Angulon: physics and applications of a new quasiparticle'
- _id: 26986C82-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02641
name: A path-integral approach to composite impurities
publication: New Journal of Physics
publication_identifier:
issn:
- 1367-2630
publication_status: published
publisher: IOP
quality_controlled: '1'
scopus_import: '1'
status: public
title: A simple model for high rotational excitations of molecules in a superfluid
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 24
year: '2022'
...
---
_id: '12000'
abstract:
- lang: eng
text: "We consider the quantitative problem of obtaining lower-bounds on the probability
of termination of a given non-deterministic probabilistic program. Specifically,
given a non-termination threshold p∈[0,1], we aim for certificates proving that
the program terminates with probability at least 1−p. The basic idea of our approach
is to find a terminating stochastic invariant, i.e. a subset SI of program states
such that (i) the probability of the program ever leaving SI is no more than p,
and (ii) almost-surely, the program either leaves SI or terminates.\r\n\r\nWhile
stochastic invariants are already well-known, we provide the first proof that
the idea above is not only sound, but also complete for quantitative termination
analysis. We then introduce a novel sound and complete characterization of stochastic
invariants that enables template-based approaches for easy synthesis of quantitative
termination certificates, especially in affine or polynomial forms. Finally, by
combining this idea with the existing martingale-based methods that are relatively
complete for qualitative termination analysis, we obtain the first automated,
sound, and relatively complete algorithm for quantitative termination analysis.
Notably, our completeness guarantees for quantitative termination analysis are
as strong as the best-known methods for the qualitative variant.\r\n\r\nOur prototype
implementation demonstrates the effectiveness of our approach on various probabilistic
programs. We also demonstrate that our algorithm certifies lower bounds on termination
probability for probabilistic programs that are beyond the reach of previous methods."
acknowledgement: This research was partially supported by the ERC CoG 863818 (ForM-SMArt),
the HKUST-Kaisa Joint Research Institute Project Grant HKJRI3A-055, the HKUST Startup
Grant R9272 and the European Union’s Horizon 2020 research and innovation programme
under the Marie Skłodowska-Curie Grant Agreement No. 665385.
alternative_title:
- LNCS
article_processing_charge: Yes (in subscription journal)
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Amir Kafshdar
full_name: Goharshady, Amir Kafshdar
id: 391365CE-F248-11E8-B48F-1D18A9856A87
last_name: Goharshady
orcid: 0000-0003-1702-6584
- first_name: Tobias
full_name: Meggendorfer, Tobias
id: b21b0c15-30a2-11eb-80dc-f13ca25802e1
last_name: Meggendorfer
orcid: 0000-0002-1712-2165
- first_name: Dorde
full_name: Zikelic, Dorde
id: 294AA7A6-F248-11E8-B48F-1D18A9856A87
last_name: Zikelic
orcid: 0000-0002-4681-1699
citation:
ama: 'Chatterjee K, Goharshady AK, Meggendorfer T, Zikelic D. Sound and complete
certificates for auantitative termination analysis of probabilistic programs.
In: Proceedings of the 34th International Conference on Computer Aided Verification.
Vol 13371. Springer; 2022:55-78. doi:10.1007/978-3-031-13185-1_4'
apa: 'Chatterjee, K., Goharshady, A. K., Meggendorfer, T., & Zikelic, D. (2022).
Sound and complete certificates for auantitative termination analysis of probabilistic
programs. In Proceedings of the 34th International Conference on Computer Aided
Verification (Vol. 13371, pp. 55–78). Haifa, Israel: Springer. https://doi.org/10.1007/978-3-031-13185-1_4'
chicago: Chatterjee, Krishnendu, Amir Kafshdar Goharshady, Tobias Meggendorfer,
and Dorde Zikelic. “Sound and Complete Certificates for Auantitative Termination
Analysis of Probabilistic Programs.” In Proceedings of the 34th International
Conference on Computer Aided Verification, 13371:55–78. Springer, 2022. https://doi.org/10.1007/978-3-031-13185-1_4.
ieee: K. Chatterjee, A. K. Goharshady, T. Meggendorfer, and D. Zikelic, “Sound and complete
certificates for auantitative termination analysis of probabilistic programs,”
in Proceedings of the 34th International Conference on Computer Aided Verification,
Haifa, Israel, 2022, vol. 13371, pp. 55–78.
ista: 'Chatterjee K, Goharshady AK, Meggendorfer T, Zikelic D. 2022. Sound and complete
certificates for auantitative termination analysis of probabilistic programs.
Proceedings of the 34th International Conference on Computer Aided Verification.
CAV: Computer Aided Verification, LNCS, vol. 13371, 55–78.'
mla: Chatterjee, Krishnendu, et al. “Sound and Complete Certificates for Auantitative
Termination Analysis of Probabilistic Programs.” Proceedings of the 34th International
Conference on Computer Aided Verification, vol. 13371, Springer, 2022, pp.
55–78, doi:10.1007/978-3-031-13185-1_4.
short: K. Chatterjee, A.K. Goharshady, T. Meggendorfer, D. Zikelic, in:, Proceedings
of the 34th International Conference on Computer Aided Verification, Springer,
2022, pp. 55–78.
conference:
end_date: 2022-08-10
location: Haifa, Israel
name: 'CAV: Computer Aided Verification'
start_date: 2022-08-07
date_created: 2022-08-28T22:02:02Z
date_published: 2022-08-07T00:00:00Z
date_updated: 2025-07-14T09:09:58Z
day: '07'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1007/978-3-031-13185-1_4
ec_funded: 1
external_id:
isi:
- '000870304500004'
file:
- access_level: open_access
checksum: 24e0f810ec52735a90ade95198bc641d
content_type: application/pdf
creator: alisjak
date_created: 2022-08-29T09:17:01Z
date_updated: 2022-08-29T09:17:01Z
file_id: '12003'
file_name: 2022_LNCS_Chatterjee.pdf
file_size: 505094
relation: main_file
success: 1
file_date_updated: 2022-08-29T09:17:01Z
has_accepted_license: '1'
intvolume: ' 13371'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 55-78
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '863818'
name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication: Proceedings of the 34th International Conference on Computer Aided Verification
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783031131844'
issn:
- 0302-9743
publication_status: published
publisher: Springer
quality_controlled: '1'
related_material:
record:
- id: '14539'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Sound and complete certificates for auantitative termination analysis of probabilistic
programs
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 13371
year: '2022'
...
---
_id: '12001'
abstract:
- lang: eng
text: 'Sexual antagonism is a common hypothesis for driving the evolution of sex
chromosomes, whereby recombination suppression is favored between sexually antagonistic
loci and the sex-determining locus to maintain beneficial combinations of alleles.
This results in the formation of a sex-determining region. Chromosomal inversions
may contribute to recombination suppression but their precise role in sex chromosome
evolution remains unclear. Because local adaptation is frequently facilitated
through the suppression of recombination between adaptive loci by chromosomal
inversions, there is potential for inversions that cover sex-determining regions
to be involved in local adaptation as well, particularly if habitat variation
creates environment-dependent sexual antagonism. With these processes in mind,
we investigated sex determination in a well-studied example of local adaptation
within a species: the intertidal snail, Littorina saxatilis. Using SNP data from
a Swedish hybrid zone, we find novel evidence for a female-heterogametic sex determination
system that is restricted to one ecotype. Our results suggest that four putative
chromosomal inversions, two previously described and two newly discovered, span
the putative sex chromosome pair. We determine their differing associations with
sex, which suggest distinct strata of differing ages. The same inversions are
found in the second ecotype but do not show any sex association. The striking
disparity in inversion-sex associations between ecotypes that are connected by
gene flow across a habitat transition that is just a few meters wide indicates
a difference in selective regime that has produced a distinct barrier to the spread
of the newly discovered sex-determining region between ecotypes. Such sex chromosome-environment
interactions have not previously been uncovered in L. saxatilis and are known
in few other organisms. A combination of both sex-specific selection and divergent
natural selection is required to explain these highly unusual patterns.'
acknowledgement: We thank A. Wright and four anonymous reviewers for valuable comments
on an earlier draft of this manuscript and all members of the Littorina group for
helpful discussions. This work was supported by a European Research Council grant
to RKB and by a Natural Environment Research Council studentship to KEH through
the ACCE doctoral training program. KJ acknowledges support from the Swedish Science
Research Council VR (Vetenskaprådet) (2017-03798). RF was supported by an FCT CEEC
(Fundação para a Ciênca e a Tecnologia, Concurso Estímulo ao Emprego Científico)
contract (2020.00275.CEECIND).
article_processing_charge: Yes
article_type: original
author:
- first_name: Katherine E.
full_name: Hearn, Katherine E.
last_name: Hearn
- first_name: Eva L.
full_name: Koch, Eva L.
last_name: Koch
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
citation:
ama: Hearn KE, Koch EL, Stankowski S, et al. Differing associations between sex
determination and sex-linked inversions in two ecotypes of Littorina saxatilis.
Evolution Letters. 2022;6(5):358-374. doi:10.1002/evl3.295
apa: Hearn, K. E., Koch, E. L., Stankowski, S., Butlin, R. K., Faria, R., Johannesson,
K., & Westram, A. M. (2022). Differing associations between sex determination
and sex-linked inversions in two ecotypes of Littorina saxatilis. Evolution
Letters. Oxford Academic. https://doi.org/10.1002/evl3.295
chicago: Hearn, Katherine E., Eva L. Koch, Sean Stankowski, Roger K. Butlin, Rui
Faria, Kerstin Johannesson, and Anja M Westram. “Differing Associations between
Sex Determination and Sex-Linked Inversions in Two Ecotypes of Littorina Saxatilis.”
Evolution Letters. Oxford Academic, 2022. https://doi.org/10.1002/evl3.295.
ieee: K. E. Hearn et al., “Differing associations between sex determination
and sex-linked inversions in two ecotypes of Littorina saxatilis,” Evolution
Letters, vol. 6, no. 5. Oxford Academic, pp. 358–374, 2022.
ista: Hearn KE, Koch EL, Stankowski S, Butlin RK, Faria R, Johannesson K, Westram
AM. 2022. Differing associations between sex determination and sex-linked inversions
in two ecotypes of Littorina saxatilis. Evolution Letters. 6(5), 358–374.
mla: Hearn, Katherine E., et al. “Differing Associations between Sex Determination
and Sex-Linked Inversions in Two Ecotypes of Littorina Saxatilis.” Evolution
Letters, vol. 6, no. 5, Oxford Academic, 2022, pp. 358–74, doi:10.1002/evl3.295.
short: K.E. Hearn, E.L. Koch, S. Stankowski, R.K. Butlin, R. Faria, K. Johannesson,
A.M. Westram, Evolution Letters 6 (2022) 358–374.
date_created: 2022-08-28T22:02:02Z
date_published: 2022-10-01T00:00:00Z
date_updated: 2023-08-03T13:18:17Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1002/evl3.295
external_id:
isi:
- '000839621100001'
file:
- access_level: open_access
checksum: 2dcd06186a11b7d1be4cddc6b189f8fb
content_type: application/pdf
creator: dernst
date_created: 2023-02-27T07:17:42Z
date_updated: 2023-02-27T07:17:42Z
file_id: '12686'
file_name: 2022_EvolutionLetters_Hearn.pdf
file_size: 2368965
relation: main_file
success: 1
file_date_updated: 2023-02-27T07:17:42Z
has_accepted_license: '1'
intvolume: ' 6'
isi: 1
issue: '5'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 358-374
publication: Evolution Letters
publication_identifier:
eissn:
- 2056-3744
publication_status: published
publisher: Oxford Academic
quality_controlled: '1'
scopus_import: '1'
status: public
title: Differing associations between sex determination and sex-linked inversions
in two ecotypes of Littorina saxatilis
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 6
year: '2022'
...
---
_id: '12009'
abstract:
- lang: eng
text: Changes in the short-term dynamics of excitatory synapses over development
have been observed throughout cortex, but their purpose and consequences remain
unclear. Here, we propose that developmental changes in synaptic dynamics buffer
the effect of slow inhibitory long-term plasticity, allowing for continuously
stable neural activity. Using computational modeling we demonstrate that early
in development excitatory short-term depression quickly stabilises neural activity,
even in the face of strong, unbalanced excitation. We introduce a model of the
commonly observed developmental shift from depression to facilitation and show
that neural activity remains stable throughout development, while inhibitory synaptic
plasticity slowly balances excitation, consistent with experimental observations.
Our model predicts changes in the input responses from phasic to phasic-and-tonic
and more precise spike timings. We also observe a gradual emergence of short-lasting
memory traces governed by short-term plasticity development. We conclude that
the developmental depression-to-facilitation shift may control excitation-inhibition
balance throughout development with important functional consequences.
acknowledgement: We would like to thank the Vogels Lab for feedback on an earlier
version of this manuscript. D.W.J. was supported by a Marshall Scholarship and a
Clarendon Scholarship. R.P.C. and T.P.V. were supported by a Wellcome Trust and
Royal Society Sir Henry Dale Fellowship (WT 100000), a Wellcome Trust Senior Research
Fellowship (214316/Z/18/Z), and an ERC Consolidator Grant (SYNAPSEEK).
article_number: '873'
article_processing_charge: No
article_type: original
author:
- first_name: David W.
full_name: Jia, David W.
last_name: Jia
- first_name: Tim P
full_name: Vogels, Tim P
id: CB6FF8D2-008F-11EA-8E08-2637E6697425
last_name: Vogels
orcid: 0000-0003-3295-6181
- first_name: Rui Ponte
full_name: Costa, Rui Ponte
last_name: Costa
citation:
ama: Jia DW, Vogels TP, Costa RP. Developmental depression-to-facilitation shift
controls excitation-inhibition balance. Communications biology. 2022;5.
doi:10.1038/s42003-022-03801-2
apa: Jia, D. W., Vogels, T. P., & Costa, R. P. (2022). Developmental depression-to-facilitation
shift controls excitation-inhibition balance. Communications Biology. Springer
Nature. https://doi.org/10.1038/s42003-022-03801-2
chicago: Jia, David W., Tim P Vogels, and Rui Ponte Costa. “Developmental Depression-to-Facilitation
Shift Controls Excitation-Inhibition Balance.” Communications Biology.
Springer Nature, 2022. https://doi.org/10.1038/s42003-022-03801-2.
ieee: D. W. Jia, T. P. Vogels, and R. P. Costa, “Developmental depression-to-facilitation
shift controls excitation-inhibition balance,” Communications biology,
vol. 5. Springer Nature, 2022.
ista: Jia DW, Vogels TP, Costa RP. 2022. Developmental depression-to-facilitation
shift controls excitation-inhibition balance. Communications biology. 5, 873.
mla: Jia, David W., et al. “Developmental Depression-to-Facilitation Shift Controls
Excitation-Inhibition Balance.” Communications Biology, vol. 5, 873, Springer
Nature, 2022, doi:10.1038/s42003-022-03801-2.
short: D.W. Jia, T.P. Vogels, R.P. Costa, Communications Biology 5 (2022).
date_created: 2022-09-04T22:02:02Z
date_published: 2022-08-25T00:00:00Z
date_updated: 2023-08-03T13:22:42Z
day: '25'
ddc:
- '570'
department:
- _id: TiVo
doi: 10.1038/s42003-022-03801-2
ec_funded: 1
external_id:
isi:
- '000844814800007'
file:
- access_level: open_access
checksum: 3ec724c4f6d3440028c217305e32915f
content_type: application/pdf
creator: dernst
date_created: 2022-09-05T08:55:11Z
date_updated: 2022-09-05T08:55:11Z
file_id: '12022'
file_name: 2022_CommBiology_Jia.pdf
file_size: 2491191
relation: main_file
success: 1
file_date_updated: 2022-09-05T08:55:11Z
has_accepted_license: '1'
intvolume: ' 5'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: c084a126-5a5b-11eb-8a69-d75314a70a87
grant_number: 214316/Z/18/Z
name: What’s in a memory? Spatiotemporal dynamics in strongly coupled recurrent
neuronal networks.
- _id: 0aacfa84-070f-11eb-9043-d7eb2c709234
call_identifier: H2020
grant_number: '819603'
name: Learning the shape of synaptic plasticity rules for neuronal architectures
and function through machine learning.
publication: Communications biology
publication_identifier:
eissn:
- 2399-3642
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Developmental depression-to-facilitation shift controls excitation-inhibition
balance
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 5
year: '2022'
...