---
_id: '12716'
abstract:
- lang: eng
text: "The process of detecting and evaluating sensory information to guide behaviour
is termed perceptual decision-making (PDM), and is critical for the ability of
an organism to interact with its external world. Individuals with autism, a neurodevelopmental
condition primarily characterised by social and communication difficulties, frequently
exhibit altered sensory processing and PDM difficulties are widely reported. Recent
technological advancements have pushed forward our understanding of the genetic
changes accompanying this condition, however our understanding of how these mutations
affect the function of specific neuronal circuits and bring about the corresponding
behavioural changes remains limited. Here, we use an innate PDM task, the looming
avoidance response (LAR) paradigm, to identify a convergent behavioural abnormality
across three molecularly distinct genetic mouse models of autism (Cul3, Setd5
and Ptchd1). Although mutant mice can rapidly detect threatening visual stimuli,
their responses are consistently delayed, requiring longer to initiate an appropriate
response than their wild-type siblings. Mutant animals show abnormal adaptation
in both their stimulus- evoked escape responses and exploratory dynamics following
repeated stimulus presentations. Similarly delayed behavioural responses are observed
in wild-type animals when faced with more ambiguous threats, suggesting the mutant
phenotype could arise from a dysfunction in the flexible control of this PDM process.\r\nOur
knowledge of the core neuronal circuitry mediating the LAR facilitated a detailed
dissection of the neuronal mechanisms underlying the behavioural impairment. In
vivo extracellular recording revealed that visual responses were unaffected within
a key brain region for the rapid processing of visual threats, the superior colliculus
(SC), indicating that the behavioural delay was unlikely to originate from sensory
impairments. Delayed behavioural responses were recapitulated in the Setd5 model
following optogenetic stimulation of the excitatory output neurons of the SC,
which are known to mediate escape initiation through the activation of cells in
the underlying dorsal periaqueductal grey (dPAG). In vitro patch-clamp recordings
of dPAG cells uncovered a stark hypoexcitability phenotype in two out of the three
genetic models investigated (Setd5 and Ptchd1), that in Setd5, is mediated by
the misregulation of voltage-gated potassium channels. Overall, our results show
that the ability to use visual information to drive efficient escape responses
is impaired in three diverse genetic mouse models of autism and that, in one of
the models studied, this behavioural delay likely originates from differences
in the intrinsic excitability of a key subcortical node, the dPAG. Furthermore,
this work showcases the use of an innate behavioural paradigm to mechanistically
dissect PDM processes in autism."
acknowledged_ssus:
- _id: PreCl
- _id: Bio
- _id: LifeSc
- _id: M-Shop
- _id: CampIT
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Laura
full_name: Burnett, Laura
id: 3B717F68-F248-11E8-B48F-1D18A9856A87
last_name: Burnett
orcid: 0000-0002-8937-410X
citation:
ama: Burnett L. To flee, or not to flee? Using innate defensive behaviours to investigate
rapid perceptual decision-making through subcortical circuits in mouse models
of autism. 2023. doi:10.15479/at:ista:12716
apa: Burnett, L. (2023). To flee, or not to flee? Using innate defensive behaviours
to investigate rapid perceptual decision-making through subcortical circuits in
mouse models of autism. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:12716
chicago: Burnett, Laura. “To Flee, or Not to Flee? Using Innate Defensive Behaviours
to Investigate Rapid Perceptual Decision-Making through Subcortical Circuits in
Mouse Models of Autism.” Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/at:ista:12716.
ieee: L. Burnett, “To flee, or not to flee? Using innate defensive behaviours to
investigate rapid perceptual decision-making through subcortical circuits in mouse
models of autism,” Institute of Science and Technology Austria, 2023.
ista: Burnett L. 2023. To flee, or not to flee? Using innate defensive behaviours
to investigate rapid perceptual decision-making through subcortical circuits in
mouse models of autism. Institute of Science and Technology Austria.
mla: Burnett, Laura. To Flee, or Not to Flee? Using Innate Defensive Behaviours
to Investigate Rapid Perceptual Decision-Making through Subcortical Circuits in
Mouse Models of Autism. Institute of Science and Technology Austria, 2023,
doi:10.15479/at:ista:12716.
short: L. Burnett, To Flee, or Not to Flee? Using Innate Defensive Behaviours to
Investigate Rapid Perceptual Decision-Making through Subcortical Circuits in Mouse
Models of Autism, Institute of Science and Technology Austria, 2023.
date_created: 2023-03-08T15:19:45Z
date_published: 2023-03-10T00:00:00Z
date_updated: 2023-04-05T10:59:04Z
day: '10'
ddc:
- '599'
- '573'
degree_awarded: PhD
department:
- _id: GradSch
- _id: MaJö
doi: 10.15479/at:ista:12716
ec_funded: 1
file:
- access_level: closed
checksum: 6c6d9cc2c4cdacb74e6b1047a34d7332
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: lburnett
date_created: 2023-03-08T15:08:46Z
date_updated: 2023-03-08T15:08:46Z
file_id: '12717'
file_name: Burnett_Thesis_2023.docx
file_size: 23029260
relation: source_file
- access_level: open_access
checksum: cebc77705288bf4382db9b3541483cd0
content_type: application/pdf
creator: lburnett
date_created: 2023-03-08T15:08:46Z
date_updated: 2023-03-08T15:08:46Z
file_id: '12718'
file_name: Burnett_Thesis_2023_pdfA.pdf
file_size: 11959869
relation: main_file
success: 1
file_date_updated: 2023-03-08T15:08:46Z
has_accepted_license: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: '178'
project:
- _id: 2634E9D2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '756502'
name: Circuits of Visual Attention
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
status: public
supervisor:
- first_name: Maximilian A
full_name: Jösch, Maximilian A
id: 2BD278E6-F248-11E8-B48F-1D18A9856A87
last_name: Jösch
orcid: 0000-0002-3937-1330
title: To flee, or not to flee? Using innate defensive behaviours to investigate rapid
perceptual decision-making through subcortical circuits in mouse models of autism
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2023'
...
---
_id: '12854'
abstract:
- lang: eng
text: "The main idea behind BUBAAK is to run multiple program analyses in parallel
and use runtime monitoring and enforcement to observe and control their progress
in real time. The analyses send information about (un)explored states of the program
and discovered invariants to a monitor. The monitor processes the received data
and can force an analysis to stop the search of certain program parts (which have
already been analyzed by other analyses), or to make it utilize a program invariant
found by another analysis.\r\nAt SV-COMP 2023, the implementation of data exchange
between the monitor and the analyses was not yet completed, which is why BUBAAK
only ran several analyses in parallel, without any coordination. Still, BUBAAK
won the meta-category FalsificationOverall and placed very well in several other
(sub)-categories of the competition."
acknowledgement: This work was supported by the ERC-2020-AdG 10102009 grant.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Marek
full_name: Chalupa, Marek
id: 87e34708-d6c6-11ec-9f5b-9391e7be2463
last_name: Chalupa
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
citation:
ama: 'Chalupa M, Henzinger TA. Bubaak: Runtime monitoring of program verifiers.
In: Tools and Algorithms for the Construction and Analysis of Systems.
Vol 13994. Springer Nature; 2023:535-540. doi:10.1007/978-3-031-30820-8_32'
apa: 'Chalupa, M., & Henzinger, T. A. (2023). Bubaak: Runtime monitoring of
program verifiers. In Tools and Algorithms for the Construction and Analysis
of Systems (Vol. 13994, pp. 535–540). Paris, France: Springer Nature. https://doi.org/10.1007/978-3-031-30820-8_32'
chicago: 'Chalupa, Marek, and Thomas A Henzinger. “Bubaak: Runtime Monitoring of
Program Verifiers.” In Tools and Algorithms for the Construction and Analysis
of Systems, 13994:535–40. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-30820-8_32.'
ieee: 'M. Chalupa and T. A. Henzinger, “Bubaak: Runtime monitoring of program verifiers,”
in Tools and Algorithms for the Construction and Analysis of Systems, Paris,
France, 2023, vol. 13994, pp. 535–540.'
ista: 'Chalupa M, Henzinger TA. 2023. Bubaak: Runtime monitoring of program verifiers.
Tools and Algorithms for the Construction and Analysis of Systems. TACAS: Tools
and Algorithms for the Construction and Analysis of Systems, LNCS, vol. 13994,
535–540.'
mla: 'Chalupa, Marek, and Thomas A. Henzinger. “Bubaak: Runtime Monitoring of Program
Verifiers.” Tools and Algorithms for the Construction and Analysis of Systems,
vol. 13994, Springer Nature, 2023, pp. 535–40, doi:10.1007/978-3-031-30820-8_32.'
short: M. Chalupa, T.A. Henzinger, in:, Tools and Algorithms for the Construction
and Analysis of Systems, Springer Nature, 2023, pp. 535–540.
conference:
end_date: 2023-04-27
location: Paris, France
name: 'TACAS: Tools and Algorithms for the Construction and Analysis of Systems'
start_date: 2023-04-22
date_created: 2023-04-20T08:22:53Z
date_published: 2023-04-20T00:00:00Z
date_updated: 2023-04-25T07:02:43Z
day: '20'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1007/978-3-031-30820-8_32
ec_funded: 1
file:
- access_level: open_access
checksum: 120d2c2a38384058ad0630fdf8288312
content_type: application/pdf
creator: dernst
date_created: 2023-04-25T06:58:36Z
date_updated: 2023-04-25T06:58:36Z
file_id: '12864'
file_name: 2023_LNCS_Chalupa.pdf
file_size: 16096413
relation: main_file
success: 1
file_date_updated: 2023-04-25T06:58:36Z
has_accepted_license: '1'
intvolume: ' 13994'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '04'
oa: 1
oa_version: Published Version
page: 535-540
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: Tools and Algorithms for the Construction and Analysis of Systems
publication_identifier:
eisbn:
- '9783031308208'
eissn:
- 1611-3349
isbn:
- '9783031308192'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: 'Bubaak: Runtime monitoring of program verifiers'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13994
year: '2023'
...
---
_id: '12846'
abstract:
- lang: eng
text: We present a formula for the signed area of a spherical polygon via prequantization.
In contrast to the traditional formula based on the Gauss-Bonnet theorem that
requires measuring angles, the new formula mimics Green's theorem and is applicable
to a wider range of degenerate spherical curves and polygons.
acknowledgement: The authors acknowledge Chris Wojtan for his continuous support to
the present work through discussions and advice. The second author thanks Anna Sisak
for a fruitful discussion on prequantum bundles. This project was funded in part
by the European Research Council (ERC Consolidator Grant 101045083 CoDiNA).
article_number: '2303.14555'
article_processing_charge: No
author:
- first_name: Albert
full_name: Chern, Albert
last_name: Chern
- first_name: Sadashige
full_name: Ishida, Sadashige
id: 6F7C4B96-A8E9-11E9-A7CA-09ECE5697425
last_name: Ishida
citation:
ama: Chern A, Ishida S. Area formula for spherical polygons via prequantization.
arXiv. doi:10.48550/arXiv.2303.14555
apa: Chern, A., & Ishida, S. (n.d.). Area formula for spherical polygons via
prequantization. arXiv. https://doi.org/10.48550/arXiv.2303.14555
chicago: Chern, Albert, and Sadashige Ishida. “Area Formula for Spherical Polygons
via Prequantization.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2303.14555.
ieee: A. Chern and S. Ishida, “Area formula for spherical polygons via prequantization,”
arXiv. .
ista: Chern A, Ishida S. Area formula for spherical polygons via prequantization.
arXiv, 2303.14555.
mla: Chern, Albert, and Sadashige Ishida. “Area Formula for Spherical Polygons via
Prequantization.” ArXiv, 2303.14555, doi:10.48550/arXiv.2303.14555.
short: A. Chern, S. Ishida, ArXiv (n.d.).
date_created: 2023-04-18T19:16:06Z
date_published: 2023-03-25T00:00:00Z
date_updated: 2023-04-25T06:51:21Z
day: '25'
department:
- _id: GradSch
- _id: ChWo
doi: 10.48550/arXiv.2303.14555
external_id:
arxiv:
- '2303.14555'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2303.14555
month: '03'
oa: 1
oa_version: Preprint
project:
- _id: 34bc2376-11ca-11ed-8bc3-9a3b3961a088
grant_number: '101045083'
name: Computational Discovery of Numerical Algorithms for Animation and Simulation
of Natural Phenomena
publication: arXiv
publication_status: submitted
status: public
title: Area formula for spherical polygons via prequantization
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '12856'
abstract:
- lang: eng
text: "As the complexity and criticality of software increase every year, so does
the importance of run-time monitoring. Third-party monitoring, with limited knowledge
of the monitored software, and best-effort monitoring, which keeps pace with the
monitored software, are especially valuable, yet underexplored areas of run-time
monitoring. Most existing monitoring frameworks do not support their combination
because they either require access to the monitored code for instrumentation purposes
or the processing of all observed events, or both.\r\n\r\nWe present a middleware
framework, VAMOS, for the run-time monitoring of software which is explicitly
designed to support third-party and best-effort scenarios. The design goals of
VAMOS are (i) efficiency (keeping pace at low overhead), (ii) flexibility (the
ability to monitor black-box code through a variety of different event channels,
and the connectability to monitors written in different specification languages),
and (iii) ease-of-use. To achieve its goals, VAMOS combines aspects of event broker
and event recognition systems with aspects of stream processing systems.\r\nWe
implemented a prototype toolchain for VAMOS and conducted experiments including
a case study of monitoring for data races. The results indicate that VAMOS enables
writing useful yet efficient monitors, is compatible with a variety of event sources
and monitor specifications, and simplifies key aspects of setting up a monitoring
system from scratch."
acknowledgement: This work was supported in part by the ERC-2020-AdG 101020093. The
authors would like to thank the anonymous FASE reviewers for their valuable feedback
and suggestions.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Marek
full_name: Chalupa, Marek
id: 87e34708-d6c6-11ec-9f5b-9391e7be2463
last_name: Chalupa
- first_name: Fabian
full_name: Mühlböck, Fabian
id: 6395C5F6-89DF-11E9-9C97-6BDFE5697425
last_name: Mühlböck
orcid: 0000-0003-1548-0177
- first_name: Stefanie
full_name: Muroya Lei, Stefanie
id: a376de31-8972-11ed-ae7b-d0251c13c8ff
last_name: Muroya Lei
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
citation:
ama: 'Chalupa M, Mühlböck F, Muroya Lei S, Henzinger TA. Vamos: Middleware for best-effort
third-party monitoring. In: Fundamental Approaches to Software Engineering.
Vol 13991. Springer Nature; 2023:260-281. doi:10.1007/978-3-031-30826-0_15'
apa: 'Chalupa, M., Mühlböck, F., Muroya Lei, S., & Henzinger, T. A. (2023).
Vamos: Middleware for best-effort third-party monitoring. In Fundamental Approaches
to Software Engineering (Vol. 13991, pp. 260–281). Paris, France: Springer
Nature. https://doi.org/10.1007/978-3-031-30826-0_15'
chicago: 'Chalupa, Marek, Fabian Mühlböck, Stefanie Muroya Lei, and Thomas A Henzinger.
“Vamos: Middleware for Best-Effort Third-Party Monitoring.” In Fundamental
Approaches to Software Engineering, 13991:260–81. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-30826-0_15.'
ieee: 'M. Chalupa, F. Mühlböck, S. Muroya Lei, and T. A. Henzinger, “Vamos: Middleware
for best-effort third-party monitoring,” in Fundamental Approaches to Software
Engineering, Paris, France, 2023, vol. 13991, pp. 260–281.'
ista: 'Chalupa M, Mühlböck F, Muroya Lei S, Henzinger TA. 2023. Vamos: Middleware
for best-effort third-party monitoring. Fundamental Approaches to Software Engineering.
FASE: Fundamental Approaches to Software Engineering, LNCS, vol. 13991, 260–281.'
mla: 'Chalupa, Marek, et al. “Vamos: Middleware for Best-Effort Third-Party Monitoring.”
Fundamental Approaches to Software Engineering, vol. 13991, Springer Nature,
2023, pp. 260–81, doi:10.1007/978-3-031-30826-0_15.'
short: M. Chalupa, F. Mühlböck, S. Muroya Lei, T.A. Henzinger, in:, Fundamental
Approaches to Software Engineering, Springer Nature, 2023, pp. 260–281.
conference:
end_date: 2023-04-27
location: Paris, France
name: 'FASE: Fundamental Approaches to Software Engineering'
start_date: 2023-04-22
date_created: 2023-04-20T08:29:42Z
date_published: 2023-04-20T00:00:00Z
date_updated: 2023-04-25T07:19:07Z
day: '20'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1007/978-3-031-30826-0_15
ec_funded: 1
file:
- access_level: open_access
checksum: 17a7c8e08be609cf2408d37ea55e322c
content_type: application/pdf
creator: dernst
date_created: 2023-04-25T07:16:36Z
date_updated: 2023-04-25T07:16:36Z
file_id: '12865'
file_name: 2023_LNCS_ChalupaM.pdf
file_size: 580828
relation: main_file
success: 1
file_date_updated: 2023-04-25T07:16:36Z
has_accepted_license: '1'
intvolume: ' 13991'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 260-281
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: Fundamental Approaches to Software Engineering
publication_identifier:
eisbn:
- '9783031308260'
eissn:
- 1611-3349
isbn:
- '9783031308253'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '12407'
relation: earlier_version
status: public
status: public
title: 'Vamos: Middleware for best-effort third-party monitoring'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13991
year: '2023'
...
---
_id: '12407'
abstract:
- lang: eng
text: "As the complexity and criticality of software increase every year, so does
the importance of run-time monitoring. Third-party monitoring, with limited knowledge
of the monitored software, and best-effort monitoring, which keeps pace with the
monitored software, are especially valuable, yet underexplored areas of run-time
monitoring. Most existing monitoring frameworks do not support their combination
because they either require access to the monitored code for instrumentation purposes
or the processing of all observed events, or both.\r\n\r\nWe present a middleware
framework, VAMOS, for the run-time monitoring of software which is explicitly
designed to support third-party and best-effort scenarios. The design goals of
VAMOS are (i) efficiency (keeping pace at low overhead), (ii) flexibility (the
ability to monitor black-box code through a variety of different event channels,
and the connectability to monitors written in different specification languages),
and (iii) ease-of-use. To achieve its goals, VAMOS combines aspects of event broker
and event recognition systems with aspects of stream processing systems.\r\n\r\nWe
implemented a prototype toolchain for VAMOS and conducted experiments including
a case study of monitoring for data races. The results indicate that VAMOS enables
writing useful yet efficient monitors, is compatible with a variety of event sources
and monitor specifications, and simplifies key aspects of setting up a monitoring
system from scratch."
acknowledgement: "This work was supported in part by the ERC-2020-AdG 101020093. \r\nThe
authors would like to thank the anonymous FASE reviewers for their valuable feedback
and suggestions."
alternative_title:
- IST Austria Technical Report
article_processing_charge: No
author:
- first_name: Marek
full_name: Chalupa, Marek
id: 87e34708-d6c6-11ec-9f5b-9391e7be2463
last_name: Chalupa
- first_name: Fabian
full_name: Mühlböck, Fabian
id: 6395C5F6-89DF-11E9-9C97-6BDFE5697425
last_name: Mühlböck
orcid: 0000-0003-1548-0177
- first_name: Stefanie
full_name: Muroya Lei, Stefanie
id: a376de31-8972-11ed-ae7b-d0251c13c8ff
last_name: Muroya Lei
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
citation:
ama: 'Chalupa M, Mühlböck F, Muroya Lei S, Henzinger TA. VAMOS: Middleware for
Best-Effort Third-Party Monitoring. Institute of Science and Technology Austria;
2023. doi:10.15479/AT:ISTA:12407'
apa: 'Chalupa, M., Mühlböck, F., Muroya Lei, S., & Henzinger, T. A. (2023).
VAMOS: Middleware for Best-Effort Third-Party Monitoring. Institute of
Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:12407'
chicago: 'Chalupa, Marek, Fabian Mühlböck, Stefanie Muroya Lei, and Thomas A Henzinger.
VAMOS: Middleware for Best-Effort Third-Party Monitoring. Institute of
Science and Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:12407.'
ieee: 'M. Chalupa, F. Mühlböck, S. Muroya Lei, and T. A. Henzinger, VAMOS: Middleware
for Best-Effort Third-Party Monitoring. Institute of Science and Technology
Austria, 2023.'
ista: 'Chalupa M, Mühlböck F, Muroya Lei S, Henzinger TA. 2023. VAMOS: Middleware
for Best-Effort Third-Party Monitoring, Institute of Science and Technology Austria,
38p.'
mla: 'Chalupa, Marek, et al. VAMOS: Middleware for Best-Effort Third-Party Monitoring.
Institute of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:12407.'
short: 'M. Chalupa, F. Mühlböck, S. Muroya Lei, T.A. Henzinger, VAMOS: Middleware
for Best-Effort Third-Party Monitoring, Institute of Science and Technology Austria,
2023.'
date_created: 2023-01-27T03:18:08Z
date_published: 2023-01-27T00:00:00Z
date_updated: 2023-04-25T07:19:06Z
day: '27'
ddc:
- '005'
department:
- _id: ToHe
doi: 10.15479/AT:ISTA:12407
ec_funded: 1
file:
- access_level: open_access
checksum: 55426e463fdeafe9777fc3ff635154c7
content_type: application/pdf
creator: fmuehlbo
date_created: 2023-01-27T03:18:34Z
date_updated: 2023-01-27T03:18:34Z
file_id: '12408'
file_name: main.pdf
file_size: 662409
relation: main_file
success: 1
file_date_updated: 2023-01-27T03:18:34Z
has_accepted_license: '1'
keyword:
- runtime monitoring
- best effort
- third party
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: '38'
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication_identifier:
eissn:
- 2664-1690
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '12856'
relation: later_version
status: public
status: public
title: 'VAMOS: Middleware for Best-Effort Third-Party Monitoring'
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: technical_report
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '12866'
abstract:
- lang: eng
text: "Autism spectrum disorder (ASD) and epilepsy are frequently comorbid neurodevelopmental
disorders. Extensive research has demonstrated shared pathological pathways, etiologies,
and phenotypes. Many risk factors for these disorders, like genetic mutations
and environmental pressures, are linked to changes in childhood brain development,
which is a critical period for their manifestation.\r\nDecades of research have
yielded many signatures for ASD and epilepsy, some shared and others unique or
opposing. The anatomical, physiological, and behavioral correlates of these disorders
are discussed in this chapter in the context of understanding shared pathological
pathways. We end with important takeaways on the presentation, prevention, intervention,
and policy changes for ASD and epilepsy. This chapter aims to explore the complexity
of these disorders, both in etiology and phenotypes, with the further goal of
appreciating the expanse of unknowns still to explore about the brain."
alternative_title:
- 'Vol. 1: Biological Development and Physical Health'
article_processing_charge: No
author:
- first_name: Christopher
full_name: Currin, Christopher
id: e8321fc5-3091-11eb-8a53-83f309a11ac9
last_name: Currin
orcid: 0000-0002-4809-5059
- first_name: Chad
full_name: Beyer, Chad
last_name: Beyer
citation:
ama: 'Currin C, Beyer C. Altered childhood brain development in autism and epilepsy.
In: Halpern-Felsher B, ed. Encyclopedia of Child and Adolescent Health.
1st ed. Elsevier; 2023:86-98. doi:10.1016/b978-0-12-818872-9.00129-1'
apa: Currin, C., & Beyer, C. (2023). Altered childhood brain development in
autism and epilepsy. In B. Halpern-Felsher (Ed.), Encyclopedia of Child and
Adolescent Health (1st ed., pp. 86–98). Elsevier. https://doi.org/10.1016/b978-0-12-818872-9.00129-1
chicago: Currin, Christopher, and Chad Beyer. “Altered Childhood Brain Development
in Autism and Epilepsy.” In Encyclopedia of Child and Adolescent Health,
edited by Bonnie Halpern-Felsher, 1st ed., 86–98. Elsevier, 2023. https://doi.org/10.1016/b978-0-12-818872-9.00129-1.
ieee: C. Currin and C. Beyer, “Altered childhood brain development in autism and
epilepsy,” in Encyclopedia of Child and Adolescent Health, 1st ed., B.
Halpern-Felsher, Ed. Elsevier, 2023, pp. 86–98.
ista: 'Currin C, Beyer C. 2023.Altered childhood brain development in autism and
epilepsy. In: Encyclopedia of Child and Adolescent Health. Vol. 1: Biological
Development and Physical Health, , 86–98.'
mla: Currin, Christopher, and Chad Beyer. “Altered Childhood Brain Development in
Autism and Epilepsy.” Encyclopedia of Child and Adolescent Health, edited
by Bonnie Halpern-Felsher, 1st ed., Elsevier, 2023, pp. 86–98, doi:10.1016/b978-0-12-818872-9.00129-1.
short: C. Currin, C. Beyer, in:, B. Halpern-Felsher (Ed.), Encyclopedia of Child
and Adolescent Health, 1st ed., Elsevier, 2023, pp. 86–98.
date_created: 2023-04-25T07:52:43Z
date_published: 2023-02-01T00:00:00Z
date_updated: 2023-04-25T09:25:40Z
day: '01'
department:
- _id: TiVo
doi: 10.1016/b978-0-12-818872-9.00129-1
edition: '1'
editor:
- first_name: Bonnie
full_name: Halpern-Felsher, Bonnie
last_name: Halpern-Felsher
language:
- iso: eng
month: '02'
oa_version: None
page: 86-98
publication: Encyclopedia of Child and Adolescent Health
publication_identifier:
isbn:
- '9780128188736'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Altered childhood brain development in autism and epilepsy
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '12809'
abstract:
- lang: eng
text: "Understanding the mechanisms of learning and memory formation has always
been one of\r\nthe main goals in neuroscience. Already Pavlov (1927) in his early
days has used his classic\r\nconditioning experiments to study the neural mechanisms
governing behavioral adaptation.\r\nWhat was not known back then was that the
part of the brain that is largely responsible for\r\nthis type of associative
learning is the cerebellum.\r\nSince then, plenty of theories on cerebellar learning
have emerged. Despite their differences,\r\none thing they all have in common
is that learning relies on synaptic and intrinsic plasticity.\r\nThe goal of my
PhD project was to unravel the molecular mechanisms underlying synaptic\r\nplasticity
in two synapses that have been shown to be implicated in motor learning, in an\r\neffort
to understand how learning and memory formation are processed in the cerebellum.\r\nOne
of the earliest and most well-known cerebellar theories postulates that motor
learning\r\nlargely depends on long-term depression at the parallel fiber-Purkinje
cell (PC-PC) synapse.\r\nHowever, the discovery of other types of plasticity in
the cerebellar circuitry, like long-term\r\npotentiation (LTP) at the PC-PC synapse,
potentiation of molecular layer interneurons (MLIs),\r\nand plasticity transfer
from the cortex to the cerebellar/ vestibular nuclei has increased the\r\npopularity
of the idea that multiple sites of plasticity might be involved in learning.\r\nStill
a lot remains unknown about the molecular mechanisms responsible for these types
of\r\nplasticity and whether they occur during physiological learning.\r\nIn the
first part of this thesis we have analyzed the variation and nanodistribution
of voltagegated calcium channels (VGCCs) and α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic
acid\r\ntype glutamate receptors (AMPARs) on the parallel fiber-Purkinje cell
synapse after vestibuloocular reflex phase reversal adaptation, a behavior that
has been suggested to rely on PF-PC\r\nLTP. We have found that on the last day
of adaptation there is no learning trace in form of\r\nVGCCs nor AMPARs variation
at the PF-PC synapse, but instead a decrease in the number of\r\nPF-PC synapses.
These data seem to support the view that learning is only stored in the\r\ncerebellar
cortex in an initial learning phase, being transferred later to the vestibular
nuclei.\r\nNext, we have studied the role of MLIs in motor learning using a relatively
simple and well characterized behavioral paradigm – horizontal optokinetic reflex
(HOKR) adaptation. We\r\nhave found behavior-induced MLI potentiation in form
of release probability increase that\r\ncould be explained by the increase of
VGCCs at the presynaptic side. Our results strengthen\r\nthe idea of distributed
cerebellar plasticity contributing to learning and provide a novel\r\nmechanism
for release probability increase. "
acknowledged_ssus:
- _id: EM-Fac
- _id: Bio
- _id: PreCl
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Catarina
full_name: Alcarva, Catarina
id: 3A96634C-F248-11E8-B48F-1D18A9856A87
last_name: Alcarva
citation:
ama: 'Alcarva C. Plasticity in the cerebellum: What molecular mechanisms are behind
physiological learning. 2023. doi:10.15479/at:ista:12809'
apa: 'Alcarva, C. (2023). Plasticity in the cerebellum: What molecular mechanisms
are behind physiological learning. Institute of Science and Technology Austria.
https://doi.org/10.15479/at:ista:12809'
chicago: 'Alcarva, Catarina. “Plasticity in the Cerebellum: What Molecular Mechanisms
Are behind Physiological Learning.” Institute of Science and Technology Austria,
2023. https://doi.org/10.15479/at:ista:12809.'
ieee: 'C. Alcarva, “Plasticity in the cerebellum: What molecular mechanisms are
behind physiological learning,” Institute of Science and Technology Austria, 2023.'
ista: 'Alcarva C. 2023. Plasticity in the cerebellum: What molecular mechanisms
are behind physiological learning. Institute of Science and Technology Austria.'
mla: 'Alcarva, Catarina. Plasticity in the Cerebellum: What Molecular Mechanisms
Are behind Physiological Learning. Institute of Science and Technology Austria,
2023, doi:10.15479/at:ista:12809.'
short: 'C. Alcarva, Plasticity in the Cerebellum: What Molecular Mechanisms Are
behind Physiological Learning, Institute of Science and Technology Austria, 2023.'
date_created: 2023-04-06T07:54:09Z
date_published: 2023-04-06T00:00:00Z
date_updated: 2023-04-26T12:16:56Z
day: '06'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: GradSch
- _id: RySh
doi: 10.15479/at:ista:12809
file:
- access_level: closed
checksum: 35b5997d2b0acb461f9d33d073da0df5
content_type: application/pdf
creator: cchlebak
date_created: 2023-04-07T06:16:06Z
date_updated: 2023-04-07T06:16:06Z
embargo: 2024-04-07
embargo_to: open_access
file_id: '12814'
file_name: Thesis_CatarinaAlcarva_final pdfA.pdf
file_size: 9881969
relation: main_file
- access_level: closed
checksum: 81198f63c294890f6d58e8b29782efdc
content_type: application/pdf
creator: cchlebak
date_created: 2023-04-07T06:17:11Z
date_updated: 2023-04-07T06:17:11Z
file_id: '12815'
file_name: Thesis_CatarinaAlcarva_final_for printing.pdf
file_size: 44201583
relation: source_file
- access_level: closed
checksum: 0317bf7f457bb585f99d453ffa69eb53
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: cchlebak
date_created: 2023-04-07T06:18:05Z
date_updated: 2023-04-07T06:18:05Z
file_id: '12816'
file_name: Thesis_CatarinaAlcarva_final.docx
file_size: 84731244
relation: source_file
file_date_updated: 2023-04-07T06:18:05Z
has_accepted_license: '1'
language:
- iso: eng
month: '04'
oa_version: Published Version
page: '115'
project:
- _id: 267DFB90-B435-11E9-9278-68D0E5697425
name: 'Plasticity in the cerebellum: Which molecular mechanisms are behind physiological
learning?'
publication_identifier:
issn:
- 2663 - 337X
publication_status: published
publisher: Institute of Science and Technology Austria
status: public
supervisor:
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
title: 'Plasticity in the cerebellum: What molecular mechanisms are behind physiological
learning'
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2023'
...
---
_id: '12668'
abstract:
- lang: eng
text: "Background: Plant and animal embryogenesis have conserved and distinct features.
Cell fate transitions occur during embryogenesis in both plants and animals. The
epigenomic processes regulating plant embryogenesis remain largely elusive.\r\n\r\nResults:
Here, we elucidate chromatin and transcriptomic dynamics during embryogenesis
of the most cultivated crop, hexaploid wheat. Time-series analysis reveals stage-specific
and proximal–distal distinct chromatin accessibility and dynamics concordant with
transcriptome changes. Following fertilization, the remodeling kinetics of H3K4me3,
H3K27ac, and H3K27me3 differ from that in mammals, highlighting considerable species-specific
epigenomic dynamics during zygotic genome activation. Polycomb repressive complex
2 (PRC2)-mediated H3K27me3 deposition is important for embryo establishment. Later
H3K27ac, H3K27me3, and chromatin accessibility undergo dramatic remodeling to
establish a permissive chromatin environment facilitating the access of transcription
factors to cis-elements for fate patterning. Embryonic maturation is characterized
by increasing H3K27me3 and decreasing chromatin accessibility, which likely participates
in restricting totipotency while preventing extensive organogenesis. Finally,
epigenomic signatures are correlated with biased expression among homeolog triads
and divergent expression after polyploidization, revealing an epigenomic contributor
to subgenome diversification in an allohexaploid genome.\r\n\r\nConclusions: Collectively,
we present an invaluable resource for comparative and mechanistic analysis of
the epigenomic regulation of crop embryogenesis."
article_number: '7'
article_processing_charge: No
article_type: original
author:
- first_name: Long
full_name: Zhao, Long
last_name: Zhao
- first_name: Yiman
full_name: Yang, Yiman
last_name: Yang
- first_name: Jinchao
full_name: Chen, Jinchao
last_name: Chen
- first_name: Xuelei
full_name: Lin, Xuelei
last_name: Lin
- first_name: Hao
full_name: Zhang, Hao
last_name: Zhang
- first_name: Hao
full_name: Wang, Hao
last_name: Wang
- first_name: Hongzhe
full_name: Wang, Hongzhe
last_name: Wang
- first_name: Xiaomin
full_name: Bie, Xiaomin
last_name: Bie
- first_name: Jiafu
full_name: Jiang, Jiafu
last_name: Jiang
- first_name: Xiaoqi
full_name: Feng, Xiaoqi
id: e0164712-22ee-11ed-b12a-d80fcdf35958
last_name: Feng
orcid: 0000-0002-4008-1234
- first_name: Xiangdong
full_name: Fu, Xiangdong
last_name: Fu
- first_name: Xiansheng
full_name: Zhang, Xiansheng
last_name: Zhang
- first_name: Zhuo
full_name: Du, Zhuo
last_name: Du
- first_name: Jun
full_name: Xiao, Jun
last_name: Xiao
citation:
ama: Zhao L, Yang Y, Chen J, et al. Dynamic chromatin regulatory programs during
embryogenesis of hexaploid wheat. Genome Biology. 2023;24. doi:10.1186/s13059-022-02844-2
apa: Zhao, L., Yang, Y., Chen, J., Lin, X., Zhang, H., Wang, H., … Xiao, J. (2023).
Dynamic chromatin regulatory programs during embryogenesis of hexaploid wheat.
Genome Biology. Springer Nature. https://doi.org/10.1186/s13059-022-02844-2
chicago: Zhao, Long, Yiman Yang, Jinchao Chen, Xuelei Lin, Hao Zhang, Hao Wang,
Hongzhe Wang, et al. “Dynamic Chromatin Regulatory Programs during Embryogenesis
of Hexaploid Wheat.” Genome Biology. Springer Nature, 2023. https://doi.org/10.1186/s13059-022-02844-2.
ieee: L. Zhao et al., “Dynamic chromatin regulatory programs during embryogenesis
of hexaploid wheat,” Genome Biology, vol. 24. Springer Nature, 2023.
ista: Zhao L, Yang Y, Chen J, Lin X, Zhang H, Wang H, Wang H, Bie X, Jiang J, Feng
X, Fu X, Zhang X, Du Z, Xiao J. 2023. Dynamic chromatin regulatory programs during
embryogenesis of hexaploid wheat. Genome Biology. 24, 7.
mla: Zhao, Long, et al. “Dynamic Chromatin Regulatory Programs during Embryogenesis
of Hexaploid Wheat.” Genome Biology, vol. 24, 7, Springer Nature, 2023,
doi:10.1186/s13059-022-02844-2.
short: L. Zhao, Y. Yang, J. Chen, X. Lin, H. Zhang, H. Wang, H. Wang, X. Bie, J.
Jiang, X. Feng, X. Fu, X. Zhang, Z. Du, J. Xiao, Genome Biology 24 (2023).
date_created: 2023-02-23T09:13:49Z
date_published: 2023-01-13T00:00:00Z
date_updated: 2023-05-08T10:52:49Z
day: '13'
department:
- _id: XiFe
doi: 10.1186/s13059-022-02844-2
extern: '1'
external_id:
pmid:
- '36639687'
intvolume: ' 24'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1186/s13059-022-02844-2
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: Genome Biology
publication_identifier:
issn:
- 1474-760X
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Dynamic chromatin regulatory programs during embryogenesis of hexaploid wheat
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2023'
...
---
_id: '12920'
abstract:
- lang: eng
text: The multicomponent approach allows to incorporate several functionalities
into a single covalent organic framework (COF) and consequently allows the construction
of bifunctional materials for cooperative catalysis. The well-defined structure
of such multicomponent COFs is furthermore ideally suited for structure-activity
relationship studies. We report a series of multicomponent COFs that contain acridine-
and 2,2’-bipyridine linkers connected through 1,3,5-benzenetrialdehyde derivatives.
The acridine motif is responsible for broad light absorption, while the bipyridine
unit enables complexation of nickel catalysts. These features enable the usage
of the framework materials as catalysts for light-mediated carbon−heteroatom cross-couplings.
Variation of the node units shows that the catalytic activity correlates to the
keto-enamine tautomer isomerism. This allows switching between high charge-carrier
mobility and persistent, localized charge-separated species depending on the nodes,
a tool to tailor the materials for specific reactions. Moreover, nickel-loaded
COFs are recyclable and catalyze cross-couplings even using red light irradiation.
article_number: e202202967
article_processing_charge: No
article_type: original
author:
- first_name: Michael
full_name: Traxler, Michael
last_name: Traxler
- first_name: Susanne
full_name: Reischauer, Susanne
last_name: Reischauer
- first_name: Sarah
full_name: Vogl, Sarah
last_name: Vogl
- first_name: Jérôme
full_name: Roeser, Jérôme
last_name: Roeser
- first_name: Jabor
full_name: Rabeah, Jabor
last_name: Rabeah
- first_name: Christopher
full_name: Penschke, Christopher
last_name: Penschke
- first_name: Peter
full_name: Saalfrank, Peter
last_name: Saalfrank
- first_name: Bartholomäus
full_name: Pieber, Bartholomäus
id: 93e5e5b2-0da6-11ed-8a41-af589a024726
last_name: Pieber
orcid: 0000-0001-8689-388X
- first_name: Arne
full_name: Thomas, Arne
last_name: Thomas
citation:
ama: Traxler M, Reischauer S, Vogl S, et al. Programmable photocatalytic activity
of multicomponent covalent organic frameworks used as metallaphotocatalysts. Chemistry
– A European Journal. 2023;29(4). doi:10.1002/chem.202202967
apa: Traxler, M., Reischauer, S., Vogl, S., Roeser, J., Rabeah, J., Penschke, C.,
… Thomas, A. (2023). Programmable photocatalytic activity of multicomponent covalent
organic frameworks used as metallaphotocatalysts. Chemistry – A European Journal.
Wiley. https://doi.org/10.1002/chem.202202967
chicago: Traxler, Michael, Susanne Reischauer, Sarah Vogl, Jérôme Roeser, Jabor
Rabeah, Christopher Penschke, Peter Saalfrank, Bartholomäus Pieber, and Arne Thomas.
“Programmable Photocatalytic Activity of Multicomponent Covalent Organic Frameworks
Used as Metallaphotocatalysts.” Chemistry – A European Journal. Wiley,
2023. https://doi.org/10.1002/chem.202202967.
ieee: M. Traxler et al., “Programmable photocatalytic activity of multicomponent
covalent organic frameworks used as metallaphotocatalysts,” Chemistry – A European
Journal, vol. 29, no. 4. Wiley, 2023.
ista: Traxler M, Reischauer S, Vogl S, Roeser J, Rabeah J, Penschke C, Saalfrank
P, Pieber B, Thomas A. 2023. Programmable photocatalytic activity of multicomponent
covalent organic frameworks used as metallaphotocatalysts. Chemistry – A European
Journal. 29(4), e202202967.
mla: Traxler, Michael, et al. “Programmable Photocatalytic Activity of Multicomponent
Covalent Organic Frameworks Used as Metallaphotocatalysts.” Chemistry – A European
Journal, vol. 29, no. 4, e202202967, Wiley, 2023, doi:10.1002/chem.202202967.
short: M. Traxler, S. Reischauer, S. Vogl, J. Roeser, J. Rabeah, C. Penschke, P.
Saalfrank, B. Pieber, A. Thomas, Chemistry – A European Journal 29 (2023).
date_created: 2023-05-08T08:25:34Z
date_published: 2023-01-18T00:00:00Z
date_updated: 2023-05-15T08:39:24Z
day: '18'
doi: 10.1002/chem.202202967
extern: '1'
intvolume: ' 29'
issue: '4'
keyword:
- General Chemistry
- Catalysis
- Organic Chemistry
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1002/chem.202202967
month: '01'
oa: 1
oa_version: Published Version
publication: Chemistry – A European Journal
publication_identifier:
eissn:
- 1521-3765
issn:
- 0947-6539
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Programmable photocatalytic activity of multicomponent covalent organic frameworks
used as metallaphotocatalysts
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 29
year: '2023'
...
---
_id: '12921'
abstract:
- lang: eng
text: Visible-light photocatalysis provides numerous useful methodologies for synthetic
organic chemistry. However, the mechanisms of these reactions are often not fully
understood. Common mechanistic experiments mainly aim to characterize excited
state properties of photocatalysts and their interaction with other species. Recently,
in situ reaction monitoring using dedicated techniques was shown to be well-suited
for the identification of intermediates and to obtain kinetic insights, thereby
providing more holistic pictures of the reactions of interest. This minireview
surveys these technologies and discusses selected examples where reaction monitoring
was used to elucidate the mechanism of photocatalytic reactions.
article_number: e202201583
article_processing_charge: No
article_type: original
author:
- first_name: Amiera
full_name: Madani, Amiera
last_name: Madani
- first_name: Bartholomäus
full_name: Pieber, Bartholomäus
id: 93e5e5b2-0da6-11ed-8a41-af589a024726
last_name: Pieber
orcid: 0000-0001-8689-388X
citation:
ama: Madani A, Pieber B. In situ reaction monitoring in photocatalytic organic synthesis.
ChemCatChem. 2023;15(7). doi:10.1002/cctc.202201583
apa: Madani, A., & Pieber, B. (2023). In situ reaction monitoring in photocatalytic
organic synthesis. ChemCatChem. Wiley. https://doi.org/10.1002/cctc.202201583
chicago: Madani, Amiera, and Bartholomäus Pieber. “In Situ Reaction Monitoring in
Photocatalytic Organic Synthesis.” ChemCatChem. Wiley, 2023. https://doi.org/10.1002/cctc.202201583.
ieee: A. Madani and B. Pieber, “In situ reaction monitoring in photocatalytic organic
synthesis,” ChemCatChem, vol. 15, no. 7. Wiley, 2023.
ista: Madani A, Pieber B. 2023. In situ reaction monitoring in photocatalytic organic
synthesis. ChemCatChem. 15(7), e202201583.
mla: Madani, Amiera, and Bartholomäus Pieber. “In Situ Reaction Monitoring in Photocatalytic
Organic Synthesis.” ChemCatChem, vol. 15, no. 7, e202201583, Wiley, 2023,
doi:10.1002/cctc.202201583.
short: A. Madani, B. Pieber, ChemCatChem 15 (2023).
date_created: 2023-05-08T08:25:55Z
date_published: 2023-04-06T00:00:00Z
date_updated: 2023-05-15T08:35:48Z
day: '06'
doi: 10.1002/cctc.202201583
extern: '1'
intvolume: ' 15'
issue: '7'
keyword:
- Inorganic Chemistry
- Organic Chemistry
- Physical and Theoretical Chemistry
- Catalysis
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1002/cctc.202201583
month: '04'
oa: 1
oa_version: Published Version
publication: ChemCatChem
publication_identifier:
eissn:
- 1867-3899
issn:
- 1867-3880
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: In situ reaction monitoring in photocatalytic organic synthesis
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15
year: '2023'
...
---
_id: '12919'
abstract:
- lang: eng
text: We report the visible light photocatalytic cleavage of trityl thioethers or
ethers under pH-neutral conditions. The method results in the formation of the
respective symmetrical disulfides and alcohols in moderate to excellent yield.
The protocol only requires the addition of a suitable photocatalyst and light
rendering it orthogonal to several functionalities, including acid labile protective
groups. The same conditions can be used to directly convert trityl-protected thiols
into unsymmetrical disulfides or selenosulfides, and to cleave trityl resins in
solid phase organic synthesis.
article_processing_charge: No
article_type: original
author:
- first_name: Sho
full_name: Murakami, Sho
last_name: Murakami
- first_name: Cosima
full_name: Brudy, Cosima
last_name: Brudy
- first_name: Moritz
full_name: Bachmann, Moritz
last_name: Bachmann
- first_name: Yoshiji
full_name: Takemoto, Yoshiji
last_name: Takemoto
- first_name: Bartholomäus
full_name: Pieber, Bartholomäus
id: 93e5e5b2-0da6-11ed-8a41-af589a024726
last_name: Pieber
orcid: 0000-0001-8689-388X
citation:
ama: Murakami S, Brudy C, Bachmann M, Takemoto Y, Pieber B. Photocatalytic cleavage
of trityl protected thiols and alcohols. Synthesis. 2023;55(09):1367-1374.
doi:10.1055/a-1979-5933
apa: Murakami, S., Brudy, C., Bachmann, M., Takemoto, Y., & Pieber, B. (2023).
Photocatalytic cleavage of trityl protected thiols and alcohols. Synthesis.
Georg Thieme Verlag. https://doi.org/10.1055/a-1979-5933
chicago: Murakami, Sho, Cosima Brudy, Moritz Bachmann, Yoshiji Takemoto, and Bartholomäus
Pieber. “Photocatalytic Cleavage of Trityl Protected Thiols and Alcohols.” Synthesis.
Georg Thieme Verlag, 2023. https://doi.org/10.1055/a-1979-5933.
ieee: S. Murakami, C. Brudy, M. Bachmann, Y. Takemoto, and B. Pieber, “Photocatalytic
cleavage of trityl protected thiols and alcohols,” Synthesis, vol. 55,
no. 09. Georg Thieme Verlag, pp. 1367–1374, 2023.
ista: Murakami S, Brudy C, Bachmann M, Takemoto Y, Pieber B. 2023. Photocatalytic
cleavage of trityl protected thiols and alcohols. Synthesis. 55(09), 1367–1374.
mla: Murakami, Sho, et al. “Photocatalytic Cleavage of Trityl Protected Thiols and
Alcohols.” Synthesis, vol. 55, no. 09, Georg Thieme Verlag, 2023, pp. 1367–74,
doi:10.1055/a-1979-5933.
short: S. Murakami, C. Brudy, M. Bachmann, Y. Takemoto, B. Pieber, Synthesis 55
(2023) 1367–1374.
date_created: 2023-05-08T08:25:08Z
date_published: 2023-05-01T00:00:00Z
date_updated: 2023-05-15T08:43:50Z
day: '01'
doi: 10.1055/a-1979-5933
extern: '1'
intvolume: ' 55'
issue: '09'
keyword:
- Organic Chemistry
- Catalysis
language:
- iso: eng
month: '05'
oa_version: None
page: 1367-1374
publication: Synthesis
publication_identifier:
eissn:
- 1437-210X
issn:
- 0039-7881
publication_status: published
publisher: Georg Thieme Verlag
quality_controlled: '1'
scopus_import: '1'
status: public
title: Photocatalytic cleavage of trityl protected thiols and alcohols
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 55
year: '2023'
...
---
_id: '13048'
abstract:
- lang: eng
text: In this paper we introduce a pruning of the medial axis called the (λ,α)-medial
axis (axλα). We prove that the (λ,α)-medial axis of a set K is stable in a Gromov-Hausdorff
sense under weak assumptions. More formally we prove that if K and K′ are close
in the Hausdorff (dH) sense then the (λ,α)-medial axes of K and K′ are close as
metric spaces, that is the Gromov-Hausdorff distance (dGH) between the two is
1/4-Hölder in the sense that dGH (axλα(K),axλα(K′)) ≲ dH(K,K′)1/4. The Hausdorff
distance between the two medial axes is also bounded, by dH (axλα(K),λα(K′)) ≲
dH(K,K′)1/2. These quantified stability results provide guarantees for practical
computations of medial axes from approximations. Moreover, they provide key ingredients
for studying the computability of the medial axis in the context of computable
analysis.
acknowledgement: "We are greatly indebted to Erin Chambers for posing a number of
questions that eventually led to this paper. We would also like to thank the other
organizers of the workshop on ‘Algorithms\r\nfor the medial axis’. We are also indebted
to Tatiana Ezubova for helping with the search for and translation of Russian literature.
The second author thanks all members of the Edelsbrunner and Datashape groups for
the atmosphere in which the research was conducted.\r\nThe research leading to these
results has received funding from the European Research Council (ERC) under the
European Union’s Seventh Framework Programme (FP/2007-2013) / ERC Grant Agreement
No. 339025 GUDHI (Algorithmic Foundations of Geometry Understanding in Higher Dimensions).
Supported by the European Union’s Horizon 2020 research and innovation programme
under the Marie Skłodowska-Curie grant agreement No. 754411. The Austrian science
fund (FWF) M-3073."
article_processing_charge: No
author:
- first_name: André
full_name: Lieutier, André
last_name: Lieutier
- first_name: Mathijs
full_name: Wintraecken, Mathijs
id: 307CFBC8-F248-11E8-B48F-1D18A9856A87
last_name: Wintraecken
orcid: 0000-0002-7472-2220
citation:
ama: 'Lieutier A, Wintraecken M. Hausdorff and Gromov-Hausdorff stable subsets of
the medial axis. In: Proceedings of the 55th Annual ACM Symposium on Theory
of Computing. Association for Computing Machinery; 2023:1768-1776. doi:10.1145/3564246.3585113'
apa: 'Lieutier, A., & Wintraecken, M. (2023). Hausdorff and Gromov-Hausdorff
stable subsets of the medial axis. In Proceedings of the 55th Annual ACM Symposium
on Theory of Computing (pp. 1768–1776). Orlando, FL, United States: Association
for Computing Machinery. https://doi.org/10.1145/3564246.3585113'
chicago: Lieutier, André, and Mathijs Wintraecken. “Hausdorff and Gromov-Hausdorff
Stable Subsets of the Medial Axis.” In Proceedings of the 55th Annual ACM Symposium
on Theory of Computing, 1768–76. Association for Computing Machinery, 2023.
https://doi.org/10.1145/3564246.3585113.
ieee: A. Lieutier and M. Wintraecken, “Hausdorff and Gromov-Hausdorff stable subsets
of the medial axis,” in Proceedings of the 55th Annual ACM Symposium on Theory
of Computing, Orlando, FL, United States, 2023, pp. 1768–1776.
ista: 'Lieutier A, Wintraecken M. 2023. Hausdorff and Gromov-Hausdorff stable subsets
of the medial axis. Proceedings of the 55th Annual ACM Symposium on Theory of
Computing. STOC: Symposium on Theory of Computing, 1768–1776.'
mla: Lieutier, André, and Mathijs Wintraecken. “Hausdorff and Gromov-Hausdorff Stable
Subsets of the Medial Axis.” Proceedings of the 55th Annual ACM Symposium on
Theory of Computing, Association for Computing Machinery, 2023, pp. 1768–76,
doi:10.1145/3564246.3585113.
short: A. Lieutier, M. Wintraecken, in:, Proceedings of the 55th Annual ACM Symposium
on Theory of Computing, Association for Computing Machinery, 2023, pp. 1768–1776.
conference:
end_date: 2023-06-23
location: Orlando, FL, United States
name: 'STOC: Symposium on Theory of Computing'
start_date: 2023-06-20
date_created: 2023-05-22T08:02:02Z
date_published: 2023-06-02T00:00:00Z
date_updated: 2023-05-22T08:15:19Z
day: '02'
department:
- _id: HeEd
doi: 10.1145/3564246.3585113
ec_funded: 1
external_id:
arxiv:
- '2303.04014'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2303.04014
month: '06'
oa: 1
oa_version: Preprint
page: 1768-1776
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
- _id: fc390959-9c52-11eb-aca3-afa58bd282b2
grant_number: M03073
name: Learning and triangulating manifolds via collapses
publication: Proceedings of the 55th Annual ACM Symposium on Theory of Computing
publication_identifier:
isbn:
- '9781450399135'
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
status: public
title: Hausdorff and Gromov-Hausdorff stable subsets of the medial axis
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13053'
abstract:
- lang: eng
text: 'Deep neural networks (DNNs) often have to be compressed, via pruning and/or
quantization, before they can be deployed in practical settings. In this work
we propose a new compression-aware minimizer dubbed CrAM that modifies the optimization
step in a principled way, in order to produce models whose local loss behavior
is stable under compression operations such as pruning. Thus, dense models trained
via CrAM should be compressible post-training, in a single step, without significant
accuracy loss. Experimental results on standard benchmarks, such as residual networks
for ImageNet classification and BERT models for language modelling, show that
CrAM produces dense models that can be more accurate than the standard SGD/Adam-based
baselines, but which are stable under weight pruning: specifically, we can prune
models in one-shot to 70-80% sparsity with almost no accuracy loss, and to 90%
with reasonable (∼1%) accuracy loss, which is competitive with gradual compression
methods. Additionally, CrAM can produce sparse models which perform well for transfer
learning, and it also works for semi-structured 2:4 pruning patterns supported
by GPU hardware. The code for reproducing the results is available at this https
URL .'
acknowledged_ssus:
- _id: ScienComp
acknowledgement: "AP, EK, DA received funding from the European Research Council (ERC)
under the European\r\nUnion’s Horizon 2020 research and innovation programme (grant
agreement No 805223 ScaleML). AV acknowledges the support of the French Agence Nationale
de la Recherche (ANR), under grant ANR-21-CE48-0016 (project COMCOPT). We further
acknowledge the support from the Scientific Service Units (SSU) of ISTA through
resources provided by Scientific Computing (SciComp)-"
article_processing_charge: No
author:
- first_name: Elena-Alexandra
full_name: Peste, Elena-Alexandra
id: 32D78294-F248-11E8-B48F-1D18A9856A87
last_name: Peste
- first_name: Adrian
full_name: Vladu, Adrian
last_name: Vladu
- first_name: Eldar
full_name: Kurtic, Eldar
id: 47beb3a5-07b5-11eb-9b87-b108ec578218
last_name: Kurtic
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
citation:
ama: 'Peste E-A, Vladu A, Kurtic E, Lampert C, Alistarh D-A. CrAM: A Compression-Aware
Minimizer. In: 11th International Conference on Learning Representations .'
apa: 'Peste, E.-A., Vladu, A., Kurtic, E., Lampert, C., & Alistarh, D.-A. (n.d.).
CrAM: A Compression-Aware Minimizer. In 11th International Conference on Learning
Representations . Kigali, Rwanda .'
chicago: 'Peste, Elena-Alexandra, Adrian Vladu, Eldar Kurtic, Christoph Lampert,
and Dan-Adrian Alistarh. “CrAM: A Compression-Aware Minimizer.” In 11th International
Conference on Learning Representations , n.d.'
ieee: 'E.-A. Peste, A. Vladu, E. Kurtic, C. Lampert, and D.-A. Alistarh, “CrAM:
A Compression-Aware Minimizer,” in 11th International Conference on Learning
Representations , Kigali, Rwanda .'
ista: 'Peste E-A, Vladu A, Kurtic E, Lampert C, Alistarh D-A. CrAM: A Compression-Aware
Minimizer. 11th International Conference on Learning Representations . ICLR: International
Conference on Learning Representations.'
mla: 'Peste, Elena-Alexandra, et al. “CrAM: A Compression-Aware Minimizer.” 11th
International Conference on Learning Representations .'
short: E.-A. Peste, A. Vladu, E. Kurtic, C. Lampert, D.-A. Alistarh, in:, 11th International
Conference on Learning Representations , n.d.
conference:
end_date: 2023-05-05
location: 'Kigali, Rwanda '
name: 'ICLR: International Conference on Learning Representations'
start_date: 2023-05-01
date_created: 2023-05-23T11:36:18Z
date_published: 2023-05-01T00:00:00Z
date_updated: 2023-06-01T12:54:45Z
department:
- _id: GradSch
- _id: DaAl
- _id: ChLa
ec_funded: 1
external_id:
arxiv:
- '2207.14200'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://openreview.net/pdf?id=_eTZBs-yedr
month: '05'
oa: 1
oa_version: Preprint
project:
- _id: 268A44D6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '805223'
name: Elastic Coordination for Scalable Machine Learning
publication: '11th International Conference on Learning Representations '
publication_status: accepted
quality_controlled: '1'
related_material:
record:
- id: '13074'
relation: dissertation_contains
status: public
status: public
title: 'CrAM: A Compression-Aware Minimizer'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13143'
abstract:
- lang: eng
text: "GIMPS and PrimeGrid are large-scale distributed projects dedicated to searching
giant prime numbers, usually of special forms like Mersenne and Proth primes.
The numbers in the current search-space are millions of digits large and the participating
volunteers need to run resource-consuming primality tests. Once a candidate prime
N has been found, the only way for another party to independently verify the primality
of N used to be by repeating the expensive primality test. To avoid the need for
second recomputation of each primality test, these projects have recently adopted
certifying mechanisms that enable efficient verification of performed tests. However,
the mechanisms presently in place only detect benign errors and there is no guarantee
against adversarial behavior: a malicious volunteer can mislead the project to
reject a giant prime as being non-prime.\r\nIn this paper, we propose a practical,
cryptographically-sound mechanism for certifying the non-primality of Proth numbers.
That is, a volunteer can – parallel to running the primality test for N – generate
an efficiently verifiable proof at a little extra cost certifying that N is not
prime. The interactive protocol has statistical soundness and can be made non-interactive
using the Fiat-Shamir heuristic.\r\nOur approach is based on a cryptographic primitive
called Proof of Exponentiation (PoE) which, for a group G, certifies that a tuple
(x,y,T)∈G2×N satisfies x2T=y (Pietrzak, ITCS 2019 and Wesolowski, J. Cryptol.
2020). In particular, we show how to adapt Pietrzak’s PoE at a moderate additional
cost to make it a cryptographically-sound certificate of non-primality."
acknowledgement: 'We are grateful to Pavel Atnashev for clarifying via e-mail several
aspects of the primality tests implementated in the PrimeGrid project. Pavel Hubáček
is supported by the Czech Academy of Sciences (RVO 67985840), the Grant Agency of
the Czech Republic under the grant agreement no. 19-27871X, and by the Charles University
project UNCE/SCI/004. Chethan Kamath is supported by Azrieli International Postdoctoral
Fellowship, ISF grants 484/18 and 1789/19, and ERC StG project SPP: Secrecy Preserving
Proofs.'
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Charlotte
full_name: Hoffmann, Charlotte
id: 0f78d746-dc7d-11ea-9b2f-83f92091afe7
last_name: Hoffmann
- first_name: Pavel
full_name: Hubáček, Pavel
last_name: Hubáček
- first_name: Chethan
full_name: Kamath, Chethan
last_name: Kamath
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
citation:
ama: 'Hoffmann C, Hubáček P, Kamath C, Pietrzak KZ. Certifying giant nonprimes.
In: Public-Key Cryptography - PKC 2023. Vol 13940. Springer Nature; 2023:530-553.
doi:10.1007/978-3-031-31368-4_19'
apa: 'Hoffmann, C., Hubáček, P., Kamath, C., & Pietrzak, K. Z. (2023). Certifying
giant nonprimes. In Public-Key Cryptography - PKC 2023 (Vol. 13940, pp.
530–553). Atlanta, GA, United States: Springer Nature. https://doi.org/10.1007/978-3-031-31368-4_19'
chicago: Hoffmann, Charlotte, Pavel Hubáček, Chethan Kamath, and Krzysztof Z Pietrzak.
“Certifying Giant Nonprimes.” In Public-Key Cryptography - PKC 2023, 13940:530–53.
Springer Nature, 2023. https://doi.org/10.1007/978-3-031-31368-4_19.
ieee: C. Hoffmann, P. Hubáček, C. Kamath, and K. Z. Pietrzak, “Certifying giant
nonprimes,” in Public-Key Cryptography - PKC 2023, Atlanta, GA, United
States, 2023, vol. 13940, pp. 530–553.
ista: 'Hoffmann C, Hubáček P, Kamath C, Pietrzak KZ. 2023. Certifying giant nonprimes.
Public-Key Cryptography - PKC 2023. PKC: Public-Key Cryptography, LNCS, vol. 13940,
530–553.'
mla: Hoffmann, Charlotte, et al. “Certifying Giant Nonprimes.” Public-Key Cryptography
- PKC 2023, vol. 13940, Springer Nature, 2023, pp. 530–53, doi:10.1007/978-3-031-31368-4_19.
short: C. Hoffmann, P. Hubáček, C. Kamath, K.Z. Pietrzak, in:, Public-Key Cryptography
- PKC 2023, Springer Nature, 2023, pp. 530–553.
conference:
end_date: 2023-05-10
location: Atlanta, GA, United States
name: 'PKC: Public-Key Cryptography'
start_date: 2023-05-07
date_created: 2023-06-18T22:00:47Z
date_published: 2023-05-02T00:00:00Z
date_updated: 2023-06-19T08:03:37Z
day: '02'
department:
- _id: KrPi
doi: 10.1007/978-3-031-31368-4_19
intvolume: ' 13940'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2023/238
month: '05'
oa: 1
oa_version: Submitted Version
page: 530-553
publication: Public-Key Cryptography - PKC 2023
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783031313677'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Certifying giant nonprimes
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13940
year: '2023'
...
---
_id: '13142'
abstract:
- lang: eng
text: Reinforcement learning has received much attention for learning controllers
of deterministic systems. We consider a learner-verifier framework for stochastic
control systems and survey recent methods that formally guarantee a conjunction
of reachability and safety properties. Given a property and a lower bound on the
probability of the property being satisfied, our framework jointly learns a control
policy and a formal certificate to ensure the satisfaction of the property with
a desired probability threshold. Both the control policy and the formal certificate
are continuous functions from states to reals, which are learned as parameterized
neural networks. While in the deterministic case, the certificates are invariant
and barrier functions for safety, or Lyapunov and ranking functions for liveness,
in the stochastic case the certificates are supermartingales. For certificate
verification, we use interval arithmetic abstract interpretation to bound the
expected values of neural network functions.
acknowledgement: This work was supported in part by the ERC-2020-AdG 101020093, ERC
CoG 863818 (FoRM-SMArt) 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: No
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
- first_name: Mathias
full_name: Lechner, Mathias
id: 3DC22916-F248-11E8-B48F-1D18A9856A87
last_name: Lechner
- first_name: Dorde
full_name: Zikelic, Dorde
id: 294AA7A6-F248-11E8-B48F-1D18A9856A87
last_name: Zikelic
citation:
ama: 'Chatterjee K, Henzinger TA, Lechner M, Zikelic D. A learner-verifier framework
for neural network controllers and certificates of stochastic systems. In: Tools
and Algorithms for the Construction and Analysis of Systems . Vol 13993. Springer
Nature; 2023:3-25. doi:10.1007/978-3-031-30823-9_1'
apa: 'Chatterjee, K., Henzinger, T. A., Lechner, M., & Zikelic, D. (2023). A
learner-verifier framework for neural network controllers and certificates of
stochastic systems. In Tools and Algorithms for the Construction and Analysis
of Systems (Vol. 13993, pp. 3–25). Paris, France: Springer Nature. https://doi.org/10.1007/978-3-031-30823-9_1'
chicago: Chatterjee, Krishnendu, Thomas A Henzinger, Mathias Lechner, and Dorde
Zikelic. “A Learner-Verifier Framework for Neural Network Controllers and Certificates
of Stochastic Systems.” In Tools and Algorithms for the Construction and Analysis
of Systems , 13993:3–25. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-30823-9_1.
ieee: K. Chatterjee, T. A. Henzinger, M. Lechner, and D. Zikelic, “A learner-verifier
framework for neural network controllers and certificates of stochastic systems,”
in Tools and Algorithms for the Construction and Analysis of Systems ,
Paris, France, 2023, vol. 13993, pp. 3–25.
ista: 'Chatterjee K, Henzinger TA, Lechner M, Zikelic D. 2023. A learner-verifier
framework for neural network controllers and certificates of stochastic systems.
Tools and Algorithms for the Construction and Analysis of Systems . TACAS: Tools
and Algorithms for the Construction and Analysis of Systems, LNCS, vol. 13993,
3–25.'
mla: Chatterjee, Krishnendu, et al. “A Learner-Verifier Framework for Neural Network
Controllers and Certificates of Stochastic Systems.” Tools and Algorithms for
the Construction and Analysis of Systems , vol. 13993, Springer Nature, 2023,
pp. 3–25, doi:10.1007/978-3-031-30823-9_1.
short: K. Chatterjee, T.A. Henzinger, M. Lechner, D. Zikelic, in:, Tools and Algorithms
for the Construction and Analysis of Systems , Springer Nature, 2023, pp. 3–25.
conference:
end_date: 2023-04-27
location: Paris, France
name: 'TACAS: Tools and Algorithms for the Construction and Analysis of Systems'
start_date: 2023-04-22
date_created: 2023-06-18T22:00:47Z
date_published: 2023-04-22T00:00:00Z
date_updated: 2023-06-19T08:30:54Z
day: '22'
ddc:
- '000'
department:
- _id: KrCh
- _id: ToHe
doi: 10.1007/978-3-031-30823-9_1
ec_funded: 1
file:
- access_level: open_access
checksum: 3d8a8bb24d211bc83360dfc2fd744307
content_type: application/pdf
creator: dernst
date_created: 2023-06-19T08:29:30Z
date_updated: 2023-06-19T08:29:30Z
file_id: '13150'
file_name: 2023_LNCS_Chatterjee.pdf
file_size: 528455
relation: main_file
success: 1
file_date_updated: 2023-06-19T08:29:30Z
has_accepted_license: '1'
intvolume: ' 13993'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 3-25
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: 'Tools and Algorithms for the Construction and Analysis of Systems '
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783031308222'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: A learner-verifier framework for neural network controllers and certificates
of stochastic systems
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13993
year: '2023'
...
---
_id: '13141'
abstract:
- lang: eng
text: "We automatically compute a new class of environment assumptions in two-player
turn-based finite graph games which characterize an “adequate cooperation” needed
from the environment to allow the system player to win. Given an ω-regular winning
condition Φ for the system player, we compute an ω-regular assumption Ψ for the
environment player, such that (i) every environment strategy compliant with Ψ
allows the system to fulfill Φ (sufficiency), (ii) Ψ\r\n can be fulfilled by the
environment for every strategy of the system (implementability), and (iii) Ψ does
not prevent any cooperative strategy choice (permissiveness).\r\nFor parity games,
which are canonical representations of ω-regular games, we present a polynomial-time
algorithm for the symbolic computation of adequately permissive assumptions and
show that our algorithm runs faster and produces better assumptions than existing
approaches—both theoretically and empirically. To the best of our knowledge, for
ω\r\n-regular games, we provide the first algorithm to compute sufficient and
implementable environment assumptions that are also permissive."
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Ashwani
full_name: Anand, Ashwani
last_name: Anand
- first_name: Kaushik
full_name: Mallik, Kaushik
id: 0834ff3c-6d72-11ec-94e0-b5b0a4fb8598
last_name: Mallik
orcid: 0000-0001-9864-7475
- first_name: Satya Prakash
full_name: Nayak, Satya Prakash
last_name: Nayak
- first_name: Anne Kathrin
full_name: Schmuck, Anne Kathrin
last_name: Schmuck
citation:
ama: 'Anand A, Mallik K, Nayak SP, Schmuck AK. Computing adequately permissive assumptions
for synthesis. In: TACAS 2023: Tools and Algorithms for the Construction and
Analysis of Systems. Vol 13994. Springer Nature; 2023:211-228. doi:10.1007/978-3-031-30820-8_15'
apa: 'Anand, A., Mallik, K., Nayak, S. P., & Schmuck, A. K. (2023). Computing
adequately permissive assumptions for synthesis. In TACAS 2023: Tools and Algorithms
for the Construction and Analysis of Systems (Vol. 13994, pp. 211–228). Paris,
France: Springer Nature. https://doi.org/10.1007/978-3-031-30820-8_15'
chicago: 'Anand, Ashwani, Kaushik Mallik, Satya Prakash Nayak, and Anne Kathrin
Schmuck. “Computing Adequately Permissive Assumptions for Synthesis.” In TACAS
2023: Tools and Algorithms for the Construction and Analysis of Systems, 13994:211–28.
Springer Nature, 2023. https://doi.org/10.1007/978-3-031-30820-8_15.'
ieee: 'A. Anand, K. Mallik, S. P. Nayak, and A. K. Schmuck, “Computing adequately
permissive assumptions for synthesis,” in TACAS 2023: Tools and Algorithms
for the Construction and Analysis of Systems, Paris, France, 2023, vol. 13994,
pp. 211–228.'
ista: 'Anand A, Mallik K, Nayak SP, Schmuck AK. 2023. Computing adequately permissive
assumptions for synthesis. TACAS 2023: Tools and Algorithms for the Construction
and Analysis of Systems. TACAS: Tools and Algorithms for the Construction and
Analysis of Systems, LNCS, vol. 13994, 211–228.'
mla: 'Anand, Ashwani, et al. “Computing Adequately Permissive Assumptions for Synthesis.”
TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems,
vol. 13994, Springer Nature, 2023, pp. 211–28, doi:10.1007/978-3-031-30820-8_15.'
short: 'A. Anand, K. Mallik, S.P. Nayak, A.K. Schmuck, in:, TACAS 2023: Tools and
Algorithms for the Construction and Analysis of Systems, Springer Nature, 2023,
pp. 211–228.'
conference:
end_date: 2023-04-27
location: Paris, France
name: 'TACAS: Tools and Algorithms for the Construction and Analysis of Systems'
start_date: 2023-04-22
date_created: 2023-06-18T22:00:47Z
date_published: 2023-04-20T00:00:00Z
date_updated: 2023-06-19T08:49:46Z
day: '20'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1007/978-3-031-30820-8_15
file:
- access_level: open_access
checksum: 60dcafc1b4f6f070be43bad3fe877974
content_type: application/pdf
creator: dernst
date_created: 2023-06-19T08:43:21Z
date_updated: 2023-06-19T08:43:21Z
file_id: '13151'
file_name: 2023_LNCS_Anand.pdf
file_size: 521425
relation: main_file
success: 1
file_date_updated: 2023-06-19T08:43:21Z
has_accepted_license: '1'
intvolume: ' 13994'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 211-228
publication: 'TACAS 2023: Tools and Algorithms for the Construction and Analysis of
Systems'
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783031308192'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Computing adequately permissive assumptions for synthesis
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13994
year: '2023'
...
---
_id: '12826'
abstract:
- lang: eng
text: "During navigation, animals can infer the structure of the environment by
computing the optic flow cues elicited by their own movements, and subsequently
use this information to instruct proper locomotor actions. These computations
require a panoramic assessment of the visual environment in order to disambiguate
similar sensory experiences that may require distinct behavioral responses. The
estimation of the global motion patterns is therefore essential for successful
navigation. Yet, our understanding of the algorithms and implementations that
enable coherent panoramic visual perception remains scarce. Here I pursue this
problem by dissecting the functional aspects of interneuronal communication in
the lobula plate tangential cell network in Drosophila melanogaster. The results
presented in the thesis demonstrate that the basis for effective interpretation
of the optic flow in this circuit are stereotyped synaptic connections that mediate
the formation of distinct subnetworks, each extracting a particular pattern of
global motion. \r\nFirstly, I show that gap junctions are essential for a correct
interpretation of binocular motion cues by horizontal motion-sensitive cells.
HS cells form electrical synapses with contralateral H2 neurons that are involved
in detecting yaw rotation and translation. I developed an FlpStop-mediated mutant
of a gap junction protein ShakB that disrupts these electrical synapses. While
the loss of electrical synapses does not affect the tuning of the direction selectivity
in HS neurons, it severely alters their sensitivity to horizontal motion in the
contralateral side. These physiological changes result in an inappropriate integration
of binocular motion cues in walking animals. While wild-type flies form a binocular
perception of visual motion by non-linear integration of monocular optic flow
cues, the mutant flies sum the monocular inputs linearly. These results indicate
that rather than averaging signals in neighboring neurons, gap-junctions operate
in conjunction with chemical synapses to mediate complex non-linear optic flow
computations.\r\nSecondly, I show that stochastic manipulation of neuronal activity
in the lobula plate tangential cell network is a powerful approach to study the
neuronal implementation of optic flow-based navigation in flies. Tangential neurons
form multiple subnetworks, each mediating course-stabilizing response to a particular
global pattern of visual motion. Application of genetic mosaic techniques can
provide sparse optogenetic activation of HS cells in numerous combinations. These
distinct combinations of activated neurons drive an array of distinct behavioral
responses, providing important insights into how visuomotor transformation is
performed in the lobula plate tangential cell network. This approach can be complemented
by stochastic silencing of tangential neurons, enabling direct assessment of the
functional role of individual tangential neurons in the processing of specific
visual motion patterns.\r\n\tTaken together, the findings presented in this thesis
suggest that establishing specific activity patterns of tangential cells via stereotyped
synaptic connectivity is a key to efficient optic flow-based navigation in Drosophila
melanogaster."
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Victoria
full_name: Pokusaeva, Victoria
id: 3184041C-F248-11E8-B48F-1D18A9856A87
last_name: Pokusaeva
orcid: 0000-0001-7660-444X
citation:
ama: Pokusaeva V. Neural control of optic flow-based navigation in Drosophila melanogaster.
2023. doi:10.15479/at:ista:12826
apa: Pokusaeva, V. (2023). Neural control of optic flow-based navigation in Drosophila
melanogaster. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:12826
chicago: Pokusaeva, Victoria. “Neural Control of Optic Flow-Based Navigation in
Drosophila Melanogaster.” Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/at:ista:12826.
ieee: V. Pokusaeva, “Neural control of optic flow-based navigation in Drosophila
melanogaster,” Institute of Science and Technology Austria, 2023.
ista: Pokusaeva V. 2023. Neural control of optic flow-based navigation in Drosophila
melanogaster. Institute of Science and Technology Austria.
mla: Pokusaeva, Victoria. Neural Control of Optic Flow-Based Navigation in Drosophila
Melanogaster. Institute of Science and Technology Austria, 2023, doi:10.15479/at:ista:12826.
short: V. Pokusaeva, Neural Control of Optic Flow-Based Navigation in Drosophila
Melanogaster, Institute of Science and Technology Austria, 2023.
date_created: 2023-04-14T14:56:04Z
date_published: 2023-04-18T00:00:00Z
date_updated: 2023-06-23T09:47:36Z
day: '18'
ddc:
- '570'
- '571'
degree_awarded: PhD
department:
- _id: MaJö
- _id: GradSch
doi: 10.15479/at:ista:12826
ec_funded: 1
file:
- access_level: closed
checksum: 5f589a9af025f7eeebfd0c186209913e
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: vpokusae
date_created: 2023-04-20T09:14:38Z
date_updated: 2023-04-20T09:26:51Z
file_id: '12857'
file_name: Thesis_Pokusaeva.docx
file_size: 14507243
relation: source_file
- access_level: open_access
checksum: bbeed76db45a996b4c91a9abe12ce0ec
content_type: application/pdf
creator: vpokusae
date_created: 2023-04-20T09:14:44Z
date_updated: 2023-04-20T09:14:44Z
file_id: '12858'
file_name: Thesis_Pokusaeva.pdf
file_size: 10090711
relation: main_file
success: 1
file_date_updated: 2023-04-20T09:26:51Z
has_accepted_license: '1'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: '106'
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
status: public
supervisor:
- first_name: Maximilian A
full_name: Jösch, Maximilian A
id: 2BD278E6-F248-11E8-B48F-1D18A9856A87
last_name: Jösch
orcid: 0000-0002-3937-1330
title: Neural control of optic flow-based navigation in Drosophila melanogaster
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: '2023'
...
---
_id: '12086'
abstract:
- lang: eng
text: We present a simple algorithm for computing higher-order Delaunay mosaics
that works in Euclidean spaces of any finite dimensions. The algorithm selects
the vertices of the order-k mosaic from incrementally constructed lower-order
mosaics and uses an algorithm for weighted first-order Delaunay mosaics as a black-box
to construct the order-k mosaic from its vertices. Beyond this black-box, the
algorithm uses only combinatorial operations, thus facilitating easy implementation.
We extend this algorithm to compute higher-order α-shapes and provide open-source
implementations. We present experimental results for properties of higher-order
Delaunay mosaics of random point sets.
acknowledgement: Open access funding provided by Austrian Science Fund (FWF). This
project has received funding from the European Research Council (ERC) under the
European Union’s Horizon 2020 research and innovation programme, Grant No. 788183,
from the Wittgenstein Prize, Austrian Science Fund (FWF), Grant No. Z 342-N31, and
from the DFG Collaborative Research Center TRR 109, ‘Discretization in Geometry
and Dynamics’, Austrian Science Fund (FWF), Grant No. I 02979-N35.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Georg F
full_name: Osang, Georg F
id: 464B40D6-F248-11E8-B48F-1D18A9856A87
last_name: Osang
citation:
ama: Edelsbrunner H, Osang GF. A simple algorithm for higher-order Delaunay mosaics
and alpha shapes. Algorithmica. 2023;85:277-295. doi:10.1007/s00453-022-01027-6
apa: Edelsbrunner, H., & Osang, G. F. (2023). A simple algorithm for higher-order
Delaunay mosaics and alpha shapes. Algorithmica. Springer Nature. https://doi.org/10.1007/s00453-022-01027-6
chicago: Edelsbrunner, Herbert, and Georg F Osang. “A Simple Algorithm for Higher-Order
Delaunay Mosaics and Alpha Shapes.” Algorithmica. Springer Nature, 2023.
https://doi.org/10.1007/s00453-022-01027-6.
ieee: H. Edelsbrunner and G. F. Osang, “A simple algorithm for higher-order Delaunay
mosaics and alpha shapes,” Algorithmica, vol. 85. Springer Nature, pp.
277–295, 2023.
ista: Edelsbrunner H, Osang GF. 2023. A simple algorithm for higher-order Delaunay
mosaics and alpha shapes. Algorithmica. 85, 277–295.
mla: Edelsbrunner, Herbert, and Georg F. Osang. “A Simple Algorithm for Higher-Order
Delaunay Mosaics and Alpha Shapes.” Algorithmica, vol. 85, Springer Nature,
2023, pp. 277–95, doi:10.1007/s00453-022-01027-6.
short: H. Edelsbrunner, G.F. Osang, Algorithmica 85 (2023) 277–295.
date_created: 2022-09-11T22:01:57Z
date_published: 2023-01-01T00:00:00Z
date_updated: 2023-06-27T12:53:43Z
day: '01'
ddc:
- '510'
department:
- _id: HeEd
doi: 10.1007/s00453-022-01027-6
ec_funded: 1
external_id:
isi:
- '000846967100001'
file:
- access_level: open_access
checksum: 71685ca5121f4c837f40c3f8eb50c915
content_type: application/pdf
creator: dernst
date_created: 2023-01-20T10:02:48Z
date_updated: 2023-01-20T10:02:48Z
file_id: '12322'
file_name: 2023_Algorithmica_Edelsbrunner.pdf
file_size: 911017
relation: main_file
success: 1
file_date_updated: 2023-01-20T10:02:48Z
has_accepted_license: '1'
intvolume: ' 85'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 277-295
project:
- _id: 266A2E9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '788183'
name: Alpha Shape Theory Extended
- _id: 268116B8-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00342
name: The Wittgenstein Prize
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I02979-N35
name: Persistence and stability of geometric complexes
publication: Algorithmica
publication_identifier:
eissn:
- 1432-0541
issn:
- 0178-4617
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: A simple algorithm for higher-order Delaunay mosaics and alpha shapes
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: 2EBD1598-F248-11E8-B48F-1D18A9856A87
volume: 85
year: '2023'
...
---
_id: '12104'
abstract:
- lang: eng
text: We study ergodic decompositions of Dirichlet spaces under intertwining via
unitary order isomorphisms. We show that the ergodic decomposition of a quasi-regular
Dirichlet space is unique up to a unique isomorphism of the indexing space. Furthermore,
every unitary order isomorphism intertwining two quasi-regular Dirichlet spaces
is decomposable over their ergodic decompositions up to conjugation via an isomorphism
of the corresponding indexing spaces.
acknowledgement: Research supported by the Austrian Science Fund (FWF) grant F65 at
the Institute of Science and Technology Austria and by the European Research Council
(ERC) (Grant agreement No. 716117 awarded to Prof. Dr. Jan Maas). L.D.S. gratefully
acknowledges funding of his current position by the Austrian Science Fund (FWF)
through the ESPRIT Programme (Grant No. 208). M.W. gratefully acknowledges funding
of his current position by the Austrian Science Fund (FWF) through the ESPRIT Programme
(Grant No. 156).
article_number: '9'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Lorenzo
full_name: Dello Schiavo, Lorenzo
id: ECEBF480-9E4F-11EA-B557-B0823DDC885E
last_name: Dello Schiavo
orcid: 0000-0002-9881-6870
- first_name: Melchior
full_name: Wirth, Melchior
id: 88644358-0A0E-11EA-8FA5-49A33DDC885E
last_name: Wirth
orcid: 0000-0002-0519-4241
citation:
ama: Dello Schiavo L, Wirth M. Ergodic decompositions of Dirichlet forms under order
isomorphisms. Journal of Evolution Equations. 2023;23(1). doi:10.1007/s00028-022-00859-7
apa: Dello Schiavo, L., & Wirth, M. (2023). Ergodic decompositions of Dirichlet
forms under order isomorphisms. Journal of Evolution Equations. Springer
Nature. https://doi.org/10.1007/s00028-022-00859-7
chicago: Dello Schiavo, Lorenzo, and Melchior Wirth. “Ergodic Decompositions of
Dirichlet Forms under Order Isomorphisms.” Journal of Evolution Equations.
Springer Nature, 2023. https://doi.org/10.1007/s00028-022-00859-7.
ieee: L. Dello Schiavo and M. Wirth, “Ergodic decompositions of Dirichlet forms
under order isomorphisms,” Journal of Evolution Equations, vol. 23, no.
1. Springer Nature, 2023.
ista: Dello Schiavo L, Wirth M. 2023. Ergodic decompositions of Dirichlet forms
under order isomorphisms. Journal of Evolution Equations. 23(1), 9.
mla: Dello Schiavo, Lorenzo, and Melchior Wirth. “Ergodic Decompositions of Dirichlet
Forms under Order Isomorphisms.” Journal of Evolution Equations, vol. 23,
no. 1, 9, Springer Nature, 2023, doi:10.1007/s00028-022-00859-7.
short: L. Dello Schiavo, M. Wirth, Journal of Evolution Equations 23 (2023).
date_created: 2023-01-08T23:00:53Z
date_published: 2023-01-01T00:00:00Z
date_updated: 2023-06-28T11:54:35Z
day: '01'
ddc:
- '510'
department:
- _id: JaMa
doi: 10.1007/s00028-022-00859-7
ec_funded: 1
external_id:
isi:
- '000906214600004'
file:
- access_level: open_access
checksum: 1f34f3e2cb521033de6154f274ea3a4e
content_type: application/pdf
creator: dernst
date_created: 2023-01-20T10:45:06Z
date_updated: 2023-01-20T10:45:06Z
file_id: '12325'
file_name: 2023_JourEvolutionEquations_DelloSchiavo.pdf
file_size: 422612
relation: main_file
success: 1
file_date_updated: 2023-01-20T10:45:06Z
has_accepted_license: '1'
intvolume: ' 23'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: fc31cba2-9c52-11eb-aca3-ff467d239cd2
grant_number: F6504
name: Taming Complexity in Partial Differential Systems
- _id: 256E75B8-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '716117'
name: Optimal Transport and Stochastic Dynamics
- _id: 34dbf174-11ca-11ed-8bc3-afe9d43d4b9c
grant_number: E208
name: Configuration Spaces over Non-Smooth Spaces
- _id: 34c6ea2d-11ca-11ed-8bc3-c04f3c502833
grant_number: ESP156_N
name: Gradient flow techniques for quantum Markov semigroups
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: Ergodic decompositions of Dirichlet forms under order isomorphisms
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: 23
year: '2023'
...
---
_id: '11434'
abstract:
- lang: eng
text: The Indian summer monsoon rainfall (ISMR) has been declining since the 1950s.
However, since 2002 it is reported to have revived. For these observed changes
in the ISMR, several explanations have been reported. Among these explanations,
however, the role of the eastern equatorial Indian Ocean (EEIO) is missing despite
being one of the warmest regions in the Indian Ocean, and monotonously warming.
A recent study reported that EEIO warming impacts the rainfall over northern India.
Here we report that warming in the EEIO weakens the low-level Indian summer monsoon
circulation and reduces ISMR. A warm EEIO drives easterly winds in the Indo–Pacific
sector as a Gill response. The warm EEIO also enhances nocturnal convection offshore
the western coast of Sumatra. The latent heating associated with the increased
convection augments the Gill response and the resultant circulation opposes the
monsoon low-level circulation and weakens the seasonal rainfall.
acknowledgement: This work was supported by the National Research Foundation of Korea
(NRF) grant funded by the Korea government (MSIT) (NRF-2018R1A5A1024958). Model
simulation and data transfer were supported by the National Supercomputing Center
with supercomputing resources including technical support (KSC-2019-CHA-0005), the
National Center for Meteorological Supercomputer of Korea Meteorological Administration,
and by the Korea Research Environment Open NETwork (KREONET), respectively. The
authors declare no conflicts of interest.
article_processing_charge: No
article_type: original
author:
- first_name: Bidyut B
full_name: Goswami, Bidyut B
id: 3a4ac09c-6d61-11ec-bf66-884cde66b64b
last_name: Goswami
citation:
ama: GOSWAMI BB. Role of the eastern equatorial Indian Ocean warming in the Indian
summer monsoon rainfall trend. Climate Dynamics. 2023;60:427-442. doi:10.1007/s00382-022-06337-7
apa: GOSWAMI, B. B. (2023). Role of the eastern equatorial Indian Ocean warming
in the Indian summer monsoon rainfall trend. Climate Dynamics. Springer
Nature. https://doi.org/10.1007/s00382-022-06337-7
chicago: GOSWAMI, BIDYUT B. “Role of the Eastern Equatorial Indian Ocean Warming
in the Indian Summer Monsoon Rainfall Trend.” Climate Dynamics. Springer
Nature, 2023. https://doi.org/10.1007/s00382-022-06337-7.
ieee: B. B. GOSWAMI, “Role of the eastern equatorial Indian Ocean warming in the
Indian summer monsoon rainfall trend,” Climate Dynamics, vol. 60. Springer
Nature, pp. 427–442, 2023.
ista: GOSWAMI BB. 2023. Role of the eastern equatorial Indian Ocean warming in the
Indian summer monsoon rainfall trend. Climate Dynamics. 60, 427–442.
mla: GOSWAMI, BIDYUT B. “Role of the Eastern Equatorial Indian Ocean Warming in
the Indian Summer Monsoon Rainfall Trend.” Climate Dynamics, vol. 60, Springer
Nature, 2023, pp. 427–42, doi:10.1007/s00382-022-06337-7.
short: B.B. GOSWAMI, Climate Dynamics 60 (2023) 427–442.
date_created: 2022-06-05T22:01:50Z
date_published: 2023-01-01T00:00:00Z
date_updated: 2023-06-28T11:49:58Z
day: '01'
department:
- _id: CaMu
doi: 10.1007/s00382-022-06337-7
external_id:
isi:
- '000803119400002'
intvolume: ' 60'
isi: 1
language:
- iso: eng
month: '01'
oa_version: None
page: 427-442
publication: Climate Dynamics
publication_identifier:
eissn:
- 1432-0894
issn:
- 0930-7575
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: erratum
url: ' https://doi.org/10.1007/s00382-022-06401-2'
scopus_import: '1'
status: public
title: Role of the eastern equatorial Indian Ocean warming in the Indian summer monsoon
rainfall trend
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 60
year: '2023'
...
---
_id: '12467'
abstract:
- lang: eng
text: Safety and liveness are elementary concepts of computation, and the foundation
of many verification paradigms. The safety-liveness classification of boolean
properties characterizes whether a given property can be falsified by observing
a finite prefix of an infinite computation trace (always for safety, never for
liveness). In quantitative specification and verification, properties assign not
truth values, but quantitative values to infinite traces (e.g., a cost, or the
distance to a boolean property). We introduce quantitative safety and liveness,
and we prove that our definitions induce conservative quantitative generalizations
of both (1)~the safety-progress hierarchy of boolean properties and (2)~the safety-liveness
decomposition of boolean properties. In particular, we show that every quantitative
property can be written as the pointwise minimum of a quantitative safety property
and a quantitative liveness property. Consequently, like boolean properties, also
quantitative properties can be min-decomposed into safety and liveness parts,
or alternatively, max-decomposed into co-safety and co-liveness parts. Moreover,
quantitative properties can be approximated naturally. We prove that every quantitative
property that has both safe and co-safe approximations can be monitored arbitrarily
precisely by a monitor that uses only a finite number of states.
acknowledgement: We thank the anonymous reviewers for their helpful comments. This
work was supported in part by the ERC-2020-AdG 101020093.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
- first_name: Nicolas Adrien
full_name: Mazzocchi, Nicolas Adrien
id: b26baa86-3308-11ec-87b0-8990f34baa85
last_name: Mazzocchi
- first_name: Naci E
full_name: Sarac, Naci E
id: 8C6B42F8-C8E6-11E9-A03A-F2DCE5697425
last_name: Sarac
citation:
ama: 'Henzinger TA, Mazzocchi NA, Sarac NE. Quantitative safety and liveness. In:
26th International Conference Foundations of Software Science and Computation
Structures. Vol 13992. Springer Nature; 2023:349-370. doi:10.1007/978-3-031-30829-1_17'
apa: 'Henzinger, T. A., Mazzocchi, N. A., & Sarac, N. E. (2023). Quantitative
safety and liveness. In 26th International Conference Foundations of Software
Science and Computation Structures (Vol. 13992, pp. 349–370). Paris, France:
Springer Nature. https://doi.org/10.1007/978-3-031-30829-1_17'
chicago: Henzinger, Thomas A, Nicolas Adrien Mazzocchi, and Naci E Sarac. “Quantitative
Safety and Liveness.” In 26th International Conference Foundations of Software
Science and Computation Structures, 13992:349–70. Springer Nature, 2023. https://doi.org/10.1007/978-3-031-30829-1_17.
ieee: T. A. Henzinger, N. A. Mazzocchi, and N. E. Sarac, “Quantitative safety and
liveness,” in 26th International Conference Foundations of Software Science
and Computation Structures, Paris, France, 2023, vol. 13992, pp. 349–370.
ista: 'Henzinger TA, Mazzocchi NA, Sarac NE. 2023. Quantitative safety and liveness.
26th International Conference Foundations of Software Science and Computation
Structures. FOSSACS: Foundations of Software Science and Computation Structures,
LNCS, vol. 13992, 349–370.'
mla: Henzinger, Thomas A., et al. “Quantitative Safety and Liveness.” 26th International
Conference Foundations of Software Science and Computation Structures, vol.
13992, Springer Nature, 2023, pp. 349–70, doi:10.1007/978-3-031-30829-1_17.
short: T.A. Henzinger, N.A. Mazzocchi, N.E. Sarac, in:, 26th International Conference
Foundations of Software Science and Computation Structures, Springer Nature, 2023,
pp. 349–370.
conference:
end_date: 2023-04-27
location: Paris, France
name: 'FOSSACS: Foundations of Software Science and Computation Structures'
start_date: 2023-04-22
date_created: 2023-01-31T07:23:56Z
date_published: 2023-04-21T00:00:00Z
date_updated: 2023-07-14T11:20:27Z
day: '21'
ddc:
- '000'
department:
- _id: GradSch
- _id: ToHe
doi: 10.1007/978-3-031-30829-1_17
ec_funded: 1
external_id:
arxiv:
- '2301.11175'
file:
- access_level: open_access
checksum: 981025aed580b6b27c426cb8856cf63e
content_type: application/pdf
creator: esarac
date_created: 2023-01-31T07:22:21Z
date_updated: 2023-01-31T07:22:21Z
file_id: '12468'
file_name: qsl.pdf
file_size: 449027
relation: main_file
success: 1
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checksum: f16e2af1e0eb243158ab0f0fe74e7d5a
content_type: application/pdf
creator: dernst
date_created: 2023-06-19T10:28:09Z
date_updated: 2023-06-19T10:28:09Z
file_id: '13153'
file_name: 2023_LNCS_HenzingerT.pdf
file_size: 1048171
relation: main_file
success: 1
file_date_updated: 2023-06-19T10:28:09Z
has_accepted_license: '1'
intvolume: ' 13992'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 349-370
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: 26th International Conference Foundations of Software Science and Computation
Structures
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783031308284'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Quantitative safety and liveness
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: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 13992
year: '2023'
...
---
_id: '13179'
abstract:
- lang: eng
text: "Writing concurrent code that is both correct and efficient is notoriously
difficult. Thus, programmers often prefer to use synchronization abstractions,
which render code simpler and easier to reason about. Despite a wealth of work
on this topic, there is still a gap between the rich semantics provided by synchronization
abstractions in modern programming languages—specifically, fair FIFO ordering
of synchronization requests and support for abortable operations—and frameworks
for implementing it correctly and efficiently. Supporting such semantics is critical
given the rising popularity of constructs for asynchronous programming, such as
coroutines, which abort frequently and are cheaper to suspend and resume compared
to native threads.\r\n\r\nThis paper introduces a new framework called CancellableQueueSynchronizer
(CQS), which enables simple yet efficient implementations of a wide range of fair
and abortable synchronization primitives: mutexes, semaphores, barriers, count-down
latches, and blocking pools. Our main contribution is algorithmic, as implementing
both fairness and abortability efficiently at this level of generality is non-trivial.
Importantly, all our algorithms, including the CQS framework and the primitives
built on top of it, come with formal proofs in the Iris framework for Coq for
many of their properties. These proofs are modular, so it is easy to show correctness
for new primitives implemented on top of CQS. From a practical perspective, implementation
of CQS for native threads on the JVM improves throughput by up to two orders of
magnitude over Java’s AbstractQueuedSynchronizer, the only practical abstraction
offering similar semantics. Further, we successfully integrated CQS as a core
component of the popular Kotlin Coroutines library, validating the framework’s
practical impact and expressiveness in a real-world environment. In sum, CancellableQueueSynchronizer
is the first framework to combine expressiveness with formal guarantees and solid
practical performance. Our approach should be extensible to other languages and
families of synchronization primitives."
article_number: '116'
article_processing_charge: No
article_type: original
author:
- first_name: Nikita
full_name: Koval, Nikita
id: 2F4DB10C-F248-11E8-B48F-1D18A9856A87
last_name: Koval
- first_name: Dmitry
full_name: Khalanskiy, Dmitry
last_name: Khalanskiy
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
citation:
ama: 'Koval N, Khalanskiy D, Alistarh D-A. CQS: A formally-verified framework for
fair and abortable synchronization. Proceedings of the ACM on Programming Languages.
2023;7. doi:10.1145/3591230'
apa: 'Koval, N., Khalanskiy, D., & Alistarh, D.-A. (2023). CQS: A formally-verified
framework for fair and abortable synchronization. Proceedings of the ACM on
Programming Languages. Association for Computing Machinery . https://doi.org/10.1145/3591230'
chicago: 'Koval, Nikita, Dmitry Khalanskiy, and Dan-Adrian Alistarh. “CQS: A Formally-Verified
Framework for Fair and Abortable Synchronization.” Proceedings of the ACM on
Programming Languages. Association for Computing Machinery , 2023. https://doi.org/10.1145/3591230.'
ieee: 'N. Koval, D. Khalanskiy, and D.-A. Alistarh, “CQS: A formally-verified framework
for fair and abortable synchronization,” Proceedings of the ACM on Programming
Languages, vol. 7. Association for Computing Machinery , 2023.'
ista: 'Koval N, Khalanskiy D, Alistarh D-A. 2023. CQS: A formally-verified framework
for fair and abortable synchronization. Proceedings of the ACM on Programming
Languages. 7, 116.'
mla: 'Koval, Nikita, et al. “CQS: A Formally-Verified Framework for Fair and Abortable
Synchronization.” Proceedings of the ACM on Programming Languages, vol.
7, 116, Association for Computing Machinery , 2023, doi:10.1145/3591230.'
short: N. Koval, D. Khalanskiy, D.-A. Alistarh, Proceedings of the ACM on Programming
Languages 7 (2023).
date_created: 2023-07-02T22:00:43Z
date_published: 2023-06-06T00:00:00Z
date_updated: 2023-07-17T08:43:19Z
day: '06'
ddc:
- '000'
department:
- _id: DaAl
doi: 10.1145/3591230
file:
- access_level: open_access
checksum: 5dba6e73f0ed79adbdae14d165bc2f68
content_type: application/pdf
creator: alisjak
date_created: 2023-07-03T13:09:39Z
date_updated: 2023-07-03T13:09:39Z
file_id: '13187'
file_name: 2023_ACMProgram.Lang._Koval.pdf
file_size: 1266773
relation: main_file
success: 1
file_date_updated: 2023-07-03T13:09:39Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: Proceedings of the ACM on Programming Languages
publication_identifier:
eissn:
- 2475-1421
publication_status: published
publisher: 'Association for Computing Machinery '
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'CQS: A formally-verified framework for fair and abortable synchronization'
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: '2023'
...
---
_id: '13180'
abstract:
- lang: eng
text: We study the density of everywhere locally soluble diagonal quadric surfaces,
parameterised by rational points that lie on a split quadric surface
article_processing_charge: No
article_type: original
author:
- first_name: Timothy D
full_name: Browning, Timothy D
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
- first_name: Julian
full_name: Lyczak, Julian
id: 3572849A-F248-11E8-B48F-1D18A9856A87
last_name: Lyczak
- first_name: Roman
full_name: Sarapin, Roman
last_name: Sarapin
citation:
ama: Browning TD, Lyczak J, Sarapin R. Local solubility for a family of quadrics
over a split quadric surface. Involve. 2023;16(2):331-342. doi:10.2140/involve.2023.16.331
apa: Browning, T. D., Lyczak, J., & Sarapin, R. (2023). Local solubility for
a family of quadrics over a split quadric surface. Involve. Mathematical
Sciences Publishers. https://doi.org/10.2140/involve.2023.16.331
chicago: Browning, Timothy D, Julian Lyczak, and Roman Sarapin. “Local Solubility
for a Family of Quadrics over a Split Quadric Surface.” Involve. Mathematical
Sciences Publishers, 2023. https://doi.org/10.2140/involve.2023.16.331.
ieee: T. D. Browning, J. Lyczak, and R. Sarapin, “Local solubility for a family
of quadrics over a split quadric surface,” Involve, vol. 16, no. 2. Mathematical
Sciences Publishers, pp. 331–342, 2023.
ista: Browning TD, Lyczak J, Sarapin R. 2023. Local solubility for a family of quadrics
over a split quadric surface. Involve. 16(2), 331–342.
mla: Browning, Timothy D., et al. “Local Solubility for a Family of Quadrics over
a Split Quadric Surface.” Involve, vol. 16, no. 2, Mathematical Sciences
Publishers, 2023, pp. 331–42, doi:10.2140/involve.2023.16.331.
short: T.D. Browning, J. Lyczak, R. Sarapin, Involve 16 (2023) 331–342.
date_created: 2023-07-02T22:00:43Z
date_published: 2023-05-26T00:00:00Z
date_updated: 2023-07-17T08:39:19Z
day: '26'
department:
- _id: TiBr
doi: 10.2140/involve.2023.16.331
external_id:
arxiv:
- '2203.06881'
intvolume: ' 16'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2203.06881
month: '05'
oa: 1
oa_version: Preprint
page: 331-342
publication: Involve
publication_identifier:
eissn:
- 1944-4184
issn:
- 1944-4176
publication_status: published
publisher: Mathematical Sciences Publishers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Local solubility for a family of quadrics over a split quadric surface
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 16
year: '2023'
...
---
_id: '13162'
article_processing_charge: No
author:
- first_name: Stefano
full_name: Elefante, Stefano
id: 490F40CE-F248-11E8-B48F-1D18A9856A87
last_name: Elefante
- first_name: Stephan
full_name: Stadlbauer, Stephan
id: 4D0BC184-F248-11E8-B48F-1D18A9856A87
last_name: Stadlbauer
- first_name: Michael F
full_name: Alexander, Michael F
id: 3A02A8FA-F248-11E8-B48F-1D18A9856A87
last_name: Alexander
- first_name: Alois
full_name: Schlögl, Alois
id: 45BF87EE-F248-11E8-B48F-1D18A9856A87
last_name: Schlögl
orcid: 0000-0002-5621-8100
citation:
ama: 'Elefante S, Stadlbauer S, Alexander MF, Schlögl A. Cryo-EM software packages:
A sys-admins point of view. In: ASHPC23 - Austrian-Slovenian HPC Meeting 2023.
EuroCC; :42-42.'
apa: 'Elefante, S., Stadlbauer, S., Alexander, M. F., & Schlögl, A. (n.d.).
Cryo-EM software packages: A sys-admins point of view. In ASHPC23 - Austrian-Slovenian
HPC Meeting 2023 (pp. 42–42). Maribor, Slovenia: EuroCC.'
chicago: 'Elefante, Stefano, Stephan Stadlbauer, Michael F Alexander, and Alois
Schlögl. “Cryo-EM Software Packages: A Sys-Admins Point of View.” In ASHPC23
- Austrian-Slovenian HPC Meeting 2023, 42–42. EuroCC, n.d.'
ieee: 'S. Elefante, S. Stadlbauer, M. F. Alexander, and A. Schlögl, “Cryo-EM software
packages: A sys-admins point of view,” in ASHPC23 - Austrian-Slovenian HPC
Meeting 2023, Maribor, Slovenia, pp. 42–42.'
ista: 'Elefante S, Stadlbauer S, Alexander MF, Schlögl A. Cryo-EM software packages:
A sys-admins point of view. ASHPC23 - Austrian-Slovenian HPC Meeting 2023. ASHPC:
Austrian-Slovenian HPC Meeting, 42–42.'
mla: 'Elefante, Stefano, et al. “Cryo-EM Software Packages: A Sys-Admins Point of
View.” ASHPC23 - Austrian-Slovenian HPC Meeting 2023, EuroCC, pp. 42–42.'
short: S. Elefante, S. Stadlbauer, M.F. Alexander, A. Schlögl, in:, ASHPC23 - Austrian-Slovenian
HPC Meeting 2023, EuroCC, n.d., pp. 42–42.
conference:
end_date: 2023-06-15
location: Maribor, Slovenia
name: 'ASHPC: Austrian-Slovenian HPC Meeting'
start_date: 2023-06-12
date_created: 2023-06-23T11:03:18Z
date_published: 2023-07-01T00:00:00Z
date_updated: 2023-07-18T09:32:16Z
day: '01'
ddc:
- '000'
department:
- _id: ScienComp
file:
- access_level: open_access
checksum: 0ab6173cd5c5634ed773cd37ff012681
content_type: application/pdf
creator: dernst
date_created: 2023-07-18T09:28:30Z
date_updated: 2023-07-18T09:28:30Z
file_id: '13250'
file_name: 2023_ASHPC_Elefante.pdf
file_size: 380354
relation: main_file
success: 1
file_date_updated: 2023-07-18T09:28:30Z
has_accepted_license: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Submitted Version
page: 42-42
publication: ASHPC23 - Austrian-Slovenian HPC Meeting 2023
publication_status: accepted
publisher: EuroCC
quality_controlled: '1'
status: public
title: 'Cryo-EM software packages: A sys-admins point of view'
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_abstract
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13161'
acknowledgement: Thanks to Jesse Hansen for his suggestions on improving the abstract.
article_processing_charge: No
author:
- first_name: Alois
full_name: Schlögl, Alois
id: 45BF87EE-F248-11E8-B48F-1D18A9856A87
last_name: Schlögl
orcid: 0000-0002-5621-8100
- first_name: Stefano
full_name: Elefante, Stefano
id: 490F40CE-F248-11E8-B48F-1D18A9856A87
last_name: Elefante
- first_name: Victor-Valentin
full_name: Hodirnau, Victor-Valentin
id: 3661B498-F248-11E8-B48F-1D18A9856A87
last_name: Hodirnau
citation:
ama: 'Schlögl A, Elefante S, Hodirnau V-V. Running Windows-applications on a Linux
HPC cluster using WINE. In: ASHPC23 - Austrian-Slovenian HPC Meeting 2023.
EuroCC; :59-59.'
apa: 'Schlögl, A., Elefante, S., & Hodirnau, V.-V. (n.d.). Running Windows-applications
on a Linux HPC cluster using WINE. In ASHPC23 - Austrian-Slovenian HPC Meeting
2023 (pp. 59–59). Maribor, Slovenia: EuroCC.'
chicago: Schlögl, Alois, Stefano Elefante, and Victor-Valentin Hodirnau. “Running
Windows-Applications on a Linux HPC Cluster Using WINE.” In ASHPC23 - Austrian-Slovenian
HPC Meeting 2023, 59–59. EuroCC, n.d.
ieee: A. Schlögl, S. Elefante, and V.-V. Hodirnau, “Running Windows-applications
on a Linux HPC cluster using WINE,” in ASHPC23 - Austrian-Slovenian HPC Meeting
2023, Maribor, Slovenia, pp. 59–59.
ista: 'Schlögl A, Elefante S, Hodirnau V-V. Running Windows-applications on a Linux
HPC cluster using WINE. ASHPC23 - Austrian-Slovenian HPC Meeting 2023. ASHPC:
Austrian-Slovenian HPC Meeting, 59–59.'
mla: Schlögl, Alois, et al. “Running Windows-Applications on a Linux HPC Cluster
Using WINE.” ASHPC23 - Austrian-Slovenian HPC Meeting 2023, EuroCC, pp.
59–59.
short: A. Schlögl, S. Elefante, V.-V. Hodirnau, in:, ASHPC23 - Austrian-Slovenian
HPC Meeting 2023, EuroCC, n.d., pp. 59–59.
conference:
end_date: 2023-06-15
location: Maribor, Slovenia
name: 'ASHPC: Austrian-Slovenian HPC Meeting'
start_date: 2023-06-13
date_created: 2023-06-23T11:01:23Z
date_published: 2023-07-01T00:00:00Z
date_updated: 2023-07-18T09:30:54Z
day: '01'
ddc:
- '000'
department:
- _id: ScienComp
- _id: EM-Fac
file:
- access_level: open_access
checksum: ec8e4295d54171032cdd1b01423eb4a6
content_type: application/pdf
creator: dernst
date_created: 2023-07-18T09:18:55Z
date_updated: 2023-07-18T09:18:55Z
file_id: '13249'
file_name: 2023_ASHPC_Schloegl.pdf
file_size: 316959
relation: main_file
success: 1
file_date_updated: 2023-07-18T09:18:55Z
has_accepted_license: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Submitted Version
page: 59-59
publication: ASHPC23 - Austrian-Slovenian HPC Meeting 2023
publication_status: inpress
publisher: EuroCC
quality_controlled: '1'
status: public
title: Running Windows-applications on a Linux HPC cluster using WINE
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_abstract
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13251'
abstract:
- lang: eng
text: A rotating organic cation and a dynamically disordered soft inorganic cage
are the hallmark features of organic-inorganic lead-halide perovskites. Understanding
the interplay between these two subsystems is a challenging problem, but it is
this coupling that is widely conjectured to be responsible for the unique behavior
of photocarriers in these materials. In this work, we use the fact that the polarizability
of the organic cation strongly depends on the ambient electrostatic environment
to put the molecule forward as a sensitive probe of the local crystal fields inside
the lattice cell. We measure the average polarizability of the C/N–H bond stretching
mode by means of infrared spectroscopy, which allows us to deduce the character
of the motion of the cation molecule, find the magnitude of the local crystal
field, and place an estimate on the strength of the hydrogen bond between the
hydrogen and halide atoms. Our results pave the way for understanding electric
fields in lead-halide perovskites using infrared bond spectroscopy.
acknowledgement: "We thank Bingqing Cheng and Hong-Zhou Ye for valuable discussions;
Y.W.’s work at IST Austria was supported through ISTernship summer internship program
funded by OeADGmbH; D.L. and Z.A. acknowledge support by IST Austria (ISTA); M.L.
acknowledges support by the European Research Council (ERC) Starting Grant No. 801770
(ANGULON).\r\nA.A.Z. and O.M.B. acknowledge support by KAUST."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Yujing
full_name: Wei, Yujing
id: 0c5ff007-2600-11ee-b896-98bd8d663294
last_name: Wei
orcid: 0000-0001-8913-9719
- first_name: Artem
full_name: Volosniev, Artem
id: 37D278BC-F248-11E8-B48F-1D18A9856A87
last_name: Volosniev
orcid: 0000-0003-0393-5525
- first_name: Dusan
full_name: Lorenc, Dusan
id: 40D8A3E6-F248-11E8-B48F-1D18A9856A87
last_name: Lorenc
- first_name: Ayan A.
full_name: Zhumekenov, Ayan A.
last_name: Zhumekenov
- first_name: Osman M.
full_name: Bakr, Osman M.
last_name: Bakr
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
- first_name: Zhanybek
full_name: Alpichshev, Zhanybek
id: 45E67A2A-F248-11E8-B48F-1D18A9856A87
last_name: Alpichshev
orcid: 0000-0002-7183-5203
citation:
ama: Wei Y, Volosniev A, Lorenc D, et al. Bond polarizability as a probe of local
crystal fields in hybrid lead-halide perovskites. The Journal of Physical Chemistry
Letters. 2023;14(27):6309-6314. doi:10.1021/acs.jpclett.3c01158
apa: Wei, Y., Volosniev, A., Lorenc, D., Zhumekenov, A. A., Bakr, O. M., Lemeshko,
M., & Alpichshev, Z. (2023). Bond polarizability as a probe of local crystal
fields in hybrid lead-halide perovskites. The Journal of Physical Chemistry
Letters. American Chemical Society. https://doi.org/10.1021/acs.jpclett.3c01158
chicago: Wei, Yujing, Artem Volosniev, Dusan Lorenc, Ayan A. Zhumekenov, Osman M.
Bakr, Mikhail Lemeshko, and Zhanybek Alpichshev. “Bond Polarizability as a Probe
of Local Crystal Fields in Hybrid Lead-Halide Perovskites.” The Journal of
Physical Chemistry Letters. American Chemical Society, 2023. https://doi.org/10.1021/acs.jpclett.3c01158.
ieee: Y. Wei et al., “Bond polarizability as a probe of local crystal fields
in hybrid lead-halide perovskites,” The Journal of Physical Chemistry Letters,
vol. 14, no. 27. American Chemical Society, pp. 6309–6314, 2023.
ista: Wei Y, Volosniev A, Lorenc D, Zhumekenov AA, Bakr OM, Lemeshko M, Alpichshev
Z. 2023. Bond polarizability as a probe of local crystal fields in hybrid lead-halide
perovskites. The Journal of Physical Chemistry Letters. 14(27), 6309–6314.
mla: Wei, Yujing, et al. “Bond Polarizability as a Probe of Local Crystal Fields
in Hybrid Lead-Halide Perovskites.” The Journal of Physical Chemistry Letters,
vol. 14, no. 27, American Chemical Society, 2023, pp. 6309–14, doi:10.1021/acs.jpclett.3c01158.
short: Y. Wei, A. Volosniev, D. Lorenc, A.A. Zhumekenov, O.M. Bakr, M. Lemeshko,
Z. Alpichshev, The Journal of Physical Chemistry Letters 14 (2023) 6309–6314.
date_created: 2023-07-18T11:13:17Z
date_published: 2023-07-05T00:00:00Z
date_updated: 2023-07-19T06:59:19Z
day: '05'
ddc:
- '530'
department:
- _id: MiLe
- _id: ZhAl
doi: 10.1021/acs.jpclett.3c01158
ec_funded: 1
external_id:
arxiv:
- '2304.14198'
isi:
- '001022811500001'
file:
- access_level: open_access
checksum: c0c040063f06a51b9c463adc504f1a23
content_type: application/pdf
creator: dernst
date_created: 2023-07-19T06:55:39Z
date_updated: 2023-07-19T06:55:39Z
file_id: '13253'
file_name: 2023_JourPhysChemistry_Wei.pdf
file_size: 2121252
relation: main_file
success: 1
file_date_updated: 2023-07-19T06:55:39Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
issue: '27'
keyword:
- General Materials Science
- Physical and Theoretical Chemistry
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 6309-6314
project:
- _id: 2688CF98-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '801770'
name: 'Angulon: physics and applications of a new quasiparticle'
publication: The Journal of Physical Chemistry Letters
publication_identifier:
eissn:
- 1948-7185
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
status: public
title: Bond polarizability as a probe of local crystal fields in hybrid lead-halide
perovskites
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: 14
year: '2023'
...
---
_id: '13292'
abstract:
- lang: eng
text: The operator precedence languages (OPLs) represent the largest known subclass
of the context-free languages which enjoys all desirable closure and decidability
properties. This includes the decidability of language inclusion, which is the
ultimate verification problem. Operator precedence grammars, automata, and logics
have been investigated and used, for example, to verify programs with arithmetic
expressions and exceptions (both of which are deterministic pushdown but lie outside
the scope of the visibly pushdown languages). In this paper, we complete the picture
and give, for the first time, an algebraic characterization of the class of OPLs
in the form of a syntactic congruence that has finitely many equivalence classes
exactly for the operator precedence languages. This is a generalization of the
celebrated Myhill-Nerode theorem for the regular languages to OPLs. As one of
the consequences, we show that universality and language inclusion for nondeterministic
operator precedence automata can be solved by an antichain algorithm. Antichain
algorithms avoid determinization and complementation through an explicit subset
construction, by leveraging a quasi-order on words, which allows the pruning of
the search space for counterexample words without sacrificing completeness. Antichain
algorithms can be implemented symbolically, and these implementations are today
the best-performing algorithms in practice for the inclusion of finite automata.
We give a generic construction of the quasi-order needed for antichain algorithms
from a finite syntactic congruence. This yields the first antichain algorithm
for OPLs, an algorithm that solves the ExpTime-hard language inclusion problem
for OPLs in exponential time.
acknowledgement: "This work was supported in part by the ERC-2020-AdG 101020093.\r\nWe
thank Pierre Ganty for early discussions and the anonymous reviewers for their helpful
comments.\r\n"
alternative_title:
- LIPIcs
article_processing_charge: Yes
author:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
- first_name: Pavol
full_name: Kebis, Pavol
last_name: Kebis
- first_name: Nicolas Adrien
full_name: Mazzocchi, Nicolas Adrien
id: b26baa86-3308-11ec-87b0-8990f34baa85
last_name: Mazzocchi
- first_name: Naci E
full_name: Sarac, Naci E
id: 8C6B42F8-C8E6-11E9-A03A-F2DCE5697425
last_name: Sarac
citation:
ama: 'Henzinger TA, Kebis P, Mazzocchi NA, Sarac NE. Regular methods for operator
precedence languages. In: 50th International Colloquium on Automata, Languages,
and Programming. Vol 261. Schloss Dagstuhl - Leibniz-Zentrum für Informatik;
2023:129:1--129:20. doi:10.4230/LIPIcs.ICALP.2023.129'
apa: 'Henzinger, T. A., Kebis, P., Mazzocchi, N. A., & Sarac, N. E. (2023).
Regular methods for operator precedence languages. In 50th International Colloquium
on Automata, Languages, and Programming (Vol. 261, p. 129:1--129:20). Paderborn,
Germany: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.ICALP.2023.129'
chicago: Henzinger, Thomas A, Pavol Kebis, Nicolas Adrien Mazzocchi, and Naci E
Sarac. “Regular Methods for Operator Precedence Languages.” In 50th International
Colloquium on Automata, Languages, and Programming, 261:129:1--129:20. Schloss
Dagstuhl - Leibniz-Zentrum für Informatik, 2023. https://doi.org/10.4230/LIPIcs.ICALP.2023.129.
ieee: T. A. Henzinger, P. Kebis, N. A. Mazzocchi, and N. E. Sarac, “Regular methods
for operator precedence languages,” in 50th International Colloquium on Automata,
Languages, and Programming, Paderborn, Germany, 2023, vol. 261, p. 129:1--129:20.
ista: 'Henzinger TA, Kebis P, Mazzocchi NA, Sarac NE. 2023. Regular methods for
operator precedence languages. 50th International Colloquium on Automata, Languages,
and Programming. ICALP: International Colloquium on Automata, Languages, and Programming,
LIPIcs, vol. 261, 129:1--129:20.'
mla: Henzinger, Thomas A., et al. “Regular Methods for Operator Precedence Languages.”
50th International Colloquium on Automata, Languages, and Programming,
vol. 261, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023, p. 129:1--129:20,
doi:10.4230/LIPIcs.ICALP.2023.129.
short: T.A. Henzinger, P. Kebis, N.A. Mazzocchi, N.E. Sarac, in:, 50th International
Colloquium on Automata, Languages, and Programming, Schloss Dagstuhl - Leibniz-Zentrum
für Informatik, 2023, p. 129:1--129:20.
conference:
end_date: 2023-07-14
location: Paderborn, Germany
name: 'ICALP: International Colloquium on Automata, Languages, and Programming'
start_date: 2023-07-10
date_created: 2023-07-24T15:11:41Z
date_published: 2023-07-05T00:00:00Z
date_updated: 2023-07-31T08:38:38Z
day: '05'
ddc:
- '000'
department:
- _id: GradSch
- _id: ToHe
doi: 10.4230/LIPIcs.ICALP.2023.129
ec_funded: 1
external_id:
arxiv:
- '2305.03447'
file:
- access_level: open_access
checksum: 5d4c8932ef3450615a53b9bb15d92eb2
content_type: application/pdf
creator: esarac
date_created: 2023-07-24T15:11:05Z
date_updated: 2023-07-24T15:11:05Z
file_id: '13293'
file_name: icalp23.pdf
file_size: 859379
relation: main_file
success: 1
file_date_updated: 2023-07-24T15:11:05Z
has_accepted_license: '1'
intvolume: ' 261'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 129:1--129:20
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: 50th International Colloquium on Automata, Languages, and Programming
publication_identifier:
eissn:
- 1868-8969
isbn:
- '9783959772785'
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
status: public
title: Regular methods for operator precedence languages
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 261
year: '2023'
...
---
_id: '13277'
abstract:
- lang: eng
text: Recent experimental advances have inspired the development of theoretical
tools to describe the non-equilibrium dynamics of quantum systems. Among them
an exact representation of quantum spin systems in terms of classical stochastic
processes has been proposed. Here we provide first steps towards the extension
of this stochastic approach to bosonic systems by considering the one-dimensional
quantum quartic oscillator. We show how to exactly parameterize the time evolution
of this prototypical model via the dynamics of a set of classical variables. We
interpret these variables as stochastic processes, which allows us to propose
a novel way to numerically simulate the time evolution of the system. We benchmark
our findings by considering analytically solvable limits and providing alternative
derivations of known results.
acknowledgement: 'S. De Nicola acknowledges funding from the Institute of Science
and Technology Austria (ISTA), and from the European Union’s Horizon 2020 research
and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 754411.
S. De Nicola also acknowledges funding from the EPSRC Center for Doctoral Training
in Cross-Disciplinary Approaches to NonEquilibrium Systems (CANES) under Grant EP/L015854/1. '
article_number: '029'
article_processing_charge: No
article_type: original
author:
- first_name: Gennaro
full_name: Tucci, Gennaro
last_name: Tucci
- first_name: Stefano
full_name: De Nicola, Stefano
id: 42832B76-F248-11E8-B48F-1D18A9856A87
last_name: De Nicola
orcid: 0000-0002-4842-6671
- first_name: Sascha
full_name: Wald, Sascha
last_name: Wald
- first_name: Andrea
full_name: Gambassi, Andrea
last_name: Gambassi
citation:
ama: Tucci G, De Nicola S, Wald S, Gambassi A. Stochastic representation of the
quantum quartic oscillator. SciPost Physics Core. 2023;6(2). doi:10.21468/scipostphyscore.6.2.029
apa: Tucci, G., De Nicola, S., Wald, S., & Gambassi, A. (2023). Stochastic representation
of the quantum quartic oscillator. SciPost Physics Core. SciPost Foundation.
https://doi.org/10.21468/scipostphyscore.6.2.029
chicago: Tucci, Gennaro, Stefano De Nicola, Sascha Wald, and Andrea Gambassi. “Stochastic
Representation of the Quantum Quartic Oscillator.” SciPost Physics Core.
SciPost Foundation, 2023. https://doi.org/10.21468/scipostphyscore.6.2.029.
ieee: G. Tucci, S. De Nicola, S. Wald, and A. Gambassi, “Stochastic representation
of the quantum quartic oscillator,” SciPost Physics Core, vol. 6, no. 2.
SciPost Foundation, 2023.
ista: Tucci G, De Nicola S, Wald S, Gambassi A. 2023. Stochastic representation
of the quantum quartic oscillator. SciPost Physics Core. 6(2), 029.
mla: Tucci, Gennaro, et al. “Stochastic Representation of the Quantum Quartic Oscillator.”
SciPost Physics Core, vol. 6, no. 2, 029, SciPost Foundation, 2023, doi:10.21468/scipostphyscore.6.2.029.
short: G. Tucci, S. De Nicola, S. Wald, A. Gambassi, SciPost Physics Core 6 (2023).
date_created: 2023-07-24T10:47:46Z
date_published: 2023-04-14T00:00:00Z
date_updated: 2023-07-31T09:03:28Z
day: '14'
ddc:
- '530'
department:
- _id: MaSe
doi: 10.21468/scipostphyscore.6.2.029
ec_funded: 1
external_id:
arxiv:
- '2211.01923'
file:
- access_level: open_access
checksum: b472bc82108747eda5d52adf9e2ac7f3
content_type: application/pdf
creator: dernst
date_created: 2023-07-31T09:02:27Z
date_updated: 2023-07-31T09:02:27Z
file_id: '13329'
file_name: 2023_SciPostPhysCore_Tucci.pdf
file_size: 523236
relation: main_file
success: 1
file_date_updated: 2023-07-31T09:02:27Z
has_accepted_license: '1'
intvolume: ' 6'
issue: '2'
keyword:
- Statistical and Nonlinear Physics
- Atomic and Molecular Physics
- and Optics
- Nuclear and High Energy Physics
- Condensed Matter Physics
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: SciPost Physics Core
publication_identifier:
issn:
- 2666-9366
publication_status: published
publisher: SciPost Foundation
quality_controlled: '1'
status: public
title: Stochastic representation of the quantum quartic oscillator
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2023'
...
---
_id: '13276'
abstract:
- lang: eng
text: We introduce a generic and accessible implementation of an exact diagonalization
method for studying few-fermion models. Our aim is to provide a testbed for the
newcomers to the field as well as a stepping stone for trying out novel optimizations
and approximations. This userguide consists of a description of the algorithm,
and several examples in varying orders of sophistication. In particular, we exemplify
our routine using an effective-interaction approach that fixes the low-energy
physics. We benchmark this approach against the existing data, and show that it
is able to deliver state-of-the-art numerical results at a significantly reduced
computational cost.
acknowledgement: "We acknowledge fruitful discussions with Hans-Werner Hammer and
thank Gerhard Zürn and\r\nPietro Massignan for sending us their data. We thank Fabian
Brauneis for beta-testing the\r\nprovided code-package, and comments on the manuscript.\r\nL.R.
is supported by FP7/ERC Consolidator Grant QSIMCORR, No.\r\n771891, and the Deutsche
Forschungsgemeinschaft (DFG, German Research Foundation) under\r\nGermany’s Excellence
Strategy –EXC–2111–390814868. A.G.V. acknowledges support\r\nby European Union’s
Horizon 2020 research and innovation programme under the Marie\r\nSkłodowska-Curie
Grant Agreement No. 754411."
article_number: '12'
article_processing_charge: No
article_type: original
author:
- first_name: Lukas
full_name: Rammelmüller, Lukas
last_name: Rammelmüller
- first_name: David
full_name: Huber, David
last_name: Huber
- first_name: Artem
full_name: Volosniev, Artem
id: 37D278BC-F248-11E8-B48F-1D18A9856A87
last_name: Volosniev
orcid: 0000-0003-0393-5525
citation:
ama: Rammelmüller L, Huber D, Volosniev A. A modular implementation of an effective
interaction approach for harmonically trapped fermions in 1D. SciPost Physics
Codebases. 2023. doi:10.21468/scipostphyscodeb.12
apa: Rammelmüller, L., Huber, D., & Volosniev, A. (2023). A modular implementation
of an effective interaction approach for harmonically trapped fermions in 1D.
SciPost Physics Codebases. SciPost Foundation. https://doi.org/10.21468/scipostphyscodeb.12
chicago: Rammelmüller, Lukas, David Huber, and Artem Volosniev. “A Modular Implementation
of an Effective Interaction Approach for Harmonically Trapped Fermions in 1D.”
SciPost Physics Codebases. SciPost Foundation, 2023. https://doi.org/10.21468/scipostphyscodeb.12.
ieee: L. Rammelmüller, D. Huber, and A. Volosniev, “A modular implementation of
an effective interaction approach for harmonically trapped fermions in 1D,” SciPost
Physics Codebases. SciPost Foundation, 2023.
ista: Rammelmüller L, Huber D, Volosniev A. 2023. A modular implementation of an
effective interaction approach for harmonically trapped fermions in 1D. SciPost
Physics Codebases., 12.
mla: Rammelmüller, Lukas, et al. “A Modular Implementation of an Effective Interaction
Approach for Harmonically Trapped Fermions in 1D.” SciPost Physics Codebases,
12, SciPost Foundation, 2023, doi:10.21468/scipostphyscodeb.12.
short: L. Rammelmüller, D. Huber, A. Volosniev, SciPost Physics Codebases (2023).
date_created: 2023-07-24T10:47:15Z
date_published: 2023-04-19T00:00:00Z
date_updated: 2023-07-31T09:16:02Z
day: '19'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.21468/scipostphyscodeb.12
ec_funded: 1
external_id:
arxiv:
- '2202.04603'
file:
- access_level: open_access
checksum: f583a70fe915d2208c803f5afb426daa
content_type: application/pdf
creator: dernst
date_created: 2023-07-31T09:09:23Z
date_updated: 2023-07-31T09:09:23Z
file_id: '13330'
file_name: 2023_SciPostPhysCodebase_Rammelmueller.pdf
file_size: 551418
relation: main_file
success: 1
file_date_updated: 2023-07-31T09:09:23Z
has_accepted_license: '1'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: SciPost Physics Codebases
publication_identifier:
issn:
- 2949-804X
publication_status: published
publisher: SciPost Foundation
quality_controlled: '1'
related_material:
record:
- id: '13275'
relation: research_data
status: public
status: public
title: A modular implementation of an effective interaction approach for harmonically
trapped fermions in 1D
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
year: '2023'
...
---
_id: '13275'
abstract:
- lang: eng
text: We introduce a generic and accessible implementation of an exact diagonalization
method for studying few-fermion models. Our aim is to provide a testbed for the
newcomers to the field as well as a stepping stone for trying out novel optimizations
and approximations. This userguide consists of a description of the algorithm,
and several examples in varying orders of sophistication. In particular, we exemplify
our routine using an effective-interaction approach that fixes the low-energy
physics. We benchmark this approach against the existing data, and show that it
is able to deliver state-of-the-art numerical results at a significantly reduced
computational cost.
article_processing_charge: No
author:
- first_name: Lukas
full_name: Rammelmüller, Lukas
last_name: Rammelmüller
- first_name: David
full_name: Huber, David
last_name: Huber
- first_name: Artem
full_name: Volosniev, Artem
id: 37D278BC-F248-11E8-B48F-1D18A9856A87
last_name: Volosniev
orcid: 0000-0003-0393-5525
citation:
ama: Rammelmüller L, Huber D, Volosniev A. Codebase release 1.0 for FermiFCI. 2023.
doi:10.21468/scipostphyscodeb.12-r1.0
apa: Rammelmüller, L., Huber, D., & Volosniev, A. (2023). Codebase release 1.0
for FermiFCI. SciPost Foundation. https://doi.org/10.21468/scipostphyscodeb.12-r1.0
chicago: Rammelmüller, Lukas, David Huber, and Artem Volosniev. “Codebase Release
1.0 for FermiFCI.” SciPost Foundation, 2023. https://doi.org/10.21468/scipostphyscodeb.12-r1.0.
ieee: L. Rammelmüller, D. Huber, and A. Volosniev, “Codebase release 1.0 for FermiFCI.”
SciPost Foundation, 2023.
ista: Rammelmüller L, Huber D, Volosniev A. 2023. Codebase release 1.0 for FermiFCI,
SciPost Foundation, 10.21468/scipostphyscodeb.12-r1.0.
mla: Rammelmüller, Lukas, et al. Codebase Release 1.0 for FermiFCI. SciPost
Foundation, 2023, doi:10.21468/scipostphyscodeb.12-r1.0.
short: L. Rammelmüller, D. Huber, A. Volosniev, (2023).
date_created: 2023-07-24T10:46:23Z
date_published: 2023-04-19T00:00:00Z
date_updated: 2023-07-31T09:16:02Z
day: '19'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.21468/scipostphyscodeb.12-r1.0
ec_funded: 1
main_file_link:
- open_access: '1'
url: https://doi.org/10.21468/SciPostPhysCodeb.12-r1.0
month: '04'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publisher: SciPost Foundation
related_material:
record:
- id: '13276'
relation: used_in_publication
status: public
status: public
title: Codebase release 1.0 for FermiFCI
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13262'
abstract:
- lang: eng
text: 'Determining the degree of inherent parallelism in classical sequential algorithms
and leveraging it for fast parallel execution is a key topic in parallel computing,
and detailed analyses are known for a wide range of classical algorithms. In this
paper, we perform the first such analysis for the fundamental Union-Find problem,
in which we are given a graph as a sequence of edges, and must maintain its connectivity
structure under edge additions. We prove that classic sequential algorithms for
this problem are well-parallelizable under reasonable assumptions, addressing
a conjecture by [Blelloch, 2017]. More precisely, we show via a new potential
argument that, under uniform random edge ordering, parallel union-find operations
are unlikely to interfere: T concurrent threads processing the graph in parallel
will encounter memory contention O(T2 · log |V| · log |E|) times in expectation,
where |E| and |V| are the number of edges and nodes in the graph, respectively.
We leverage this result to design a new parallel Union-Find algorithm that is
both internally deterministic, i.e., its results are guaranteed to match those
of a sequential execution, but also work-efficient and scalable, as long as the
number of threads T is O(|E|1 over 3 - ε), for an arbitrarily small constant ε
> 0, which holds for most large real-world graphs. We present lower bounds which
show that our analysis is close to optimal, and experimental results suggesting
that the performance cost of internal determinism is limited.'
article_processing_charge: Yes (in subscription journal)
author:
- first_name: Alexander
full_name: Fedorov, Alexander
id: 2e711909-896a-11ed-bdf8-eb0f5a2984c6
last_name: Fedorov
- first_name: Diba
full_name: Hashemi, Diba
id: ed9595ea-2f8f-11ee-ba95-d2b546540783
last_name: Hashemi
- first_name: Giorgi
full_name: Nadiradze, Giorgi
id: 3279A00C-F248-11E8-B48F-1D18A9856A87
last_name: Nadiradze
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
citation:
ama: 'Fedorov A, Hashemi D, Nadiradze G, Alistarh D-A. Provably-efficient and internally-deterministic
parallel Union-Find. In: Proceedings of the 35th ACM Symposium on Parallelism
in Algorithms and Architectures. Association for Computing Machinery; 2023:261-271.
doi:10.1145/3558481.3591082'
apa: 'Fedorov, A., Hashemi, D., Nadiradze, G., & Alistarh, D.-A. (2023). Provably-efficient
and internally-deterministic parallel Union-Find. In Proceedings of the 35th
ACM Symposium on Parallelism in Algorithms and Architectures (pp. 261–271).
Orlando, FL, United States: Association for Computing Machinery. https://doi.org/10.1145/3558481.3591082'
chicago: Fedorov, Alexander, Diba Hashemi, Giorgi Nadiradze, and Dan-Adrian Alistarh.
“Provably-Efficient and Internally-Deterministic Parallel Union-Find.” In Proceedings
of the 35th ACM Symposium on Parallelism in Algorithms and Architectures,
261–71. Association for Computing Machinery, 2023. https://doi.org/10.1145/3558481.3591082.
ieee: A. Fedorov, D. Hashemi, G. Nadiradze, and D.-A. Alistarh, “Provably-efficient
and internally-deterministic parallel Union-Find,” in Proceedings of the 35th
ACM Symposium on Parallelism in Algorithms and Architectures, Orlando, FL,
United States, 2023, pp. 261–271.
ista: 'Fedorov A, Hashemi D, Nadiradze G, Alistarh D-A. 2023. Provably-efficient
and internally-deterministic parallel Union-Find. Proceedings of the 35th ACM
Symposium on Parallelism in Algorithms and Architectures. SPAA: Symposium on Parallelism
in Algorithms and Architectures, 261–271.'
mla: Fedorov, Alexander, et al. “Provably-Efficient and Internally-Deterministic
Parallel Union-Find.” Proceedings of the 35th ACM Symposium on Parallelism
in Algorithms and Architectures, Association for Computing Machinery, 2023,
pp. 261–71, doi:10.1145/3558481.3591082.
short: A. Fedorov, D. Hashemi, G. Nadiradze, D.-A. Alistarh, in:, Proceedings of
the 35th ACM Symposium on Parallelism in Algorithms and Architectures, Association
for Computing Machinery, 2023, pp. 261–271.
conference:
end_date: 2023-06-19
location: Orlando, FL, United States
name: 'SPAA: Symposium on Parallelism in Algorithms and Architectures'
start_date: 2023-06-17
date_created: 2023-07-23T22:01:12Z
date_published: 2023-06-17T00:00:00Z
date_updated: 2023-07-31T10:54:32Z
day: '17'
ddc:
- '000'
department:
- _id: DaAl
- _id: GradSch
doi: 10.1145/3558481.3591082
external_id:
arxiv:
- '2304.09331'
file:
- access_level: open_access
checksum: 72e312aabf0c5248c99b5cd3a88e4c88
content_type: application/pdf
creator: dernst
date_created: 2023-07-31T10:53:08Z
date_updated: 2023-07-31T10:53:08Z
file_id: '13334'
file_name: 2023_SPAA_Fedorov.pdf
file_size: 2087937
relation: main_file
success: 1
file_date_updated: 2023-07-31T10:53:08Z
has_accepted_license: '1'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 261-271
publication: Proceedings of the 35th ACM Symposium on Parallelism in Algorithms and
Architectures
publication_identifier:
isbn:
- '9781450395458'
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
scopus_import: '1'
status: public
title: Provably-efficient and internally-deterministic parallel Union-Find
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '11479'
abstract:
- lang: eng
text: Understanding population divergence that eventually leads to speciation is
essential for evolutionary biology. High species diversity in the sea was regarded
as a paradox when strict allopatry was considered necessary for most speciation
events because geographical barriers seemed largely absent in the sea, and many
marine species have high dispersal capacities. Combining genome-wide data with
demographic modelling to infer the demographic history of divergence has introduced
new ways to address this classical issue. These models assume an ancestral population
that splits into two subpopulations diverging according to different scenarios
that allow tests for periods of gene flow. Models can also test for heterogeneities
in population sizes and migration rates along the genome to account, respectively,
for background selection and selection against introgressed ancestry. To investigate
how barriers to gene flow arise in the sea, we compiled studies modelling the
demographic history of divergence in marine organisms and extracted preferred
demographic scenarios together with estimates of demographic parameters. These
studies show that geographical barriers to gene flow do exist in the sea but that
divergence can also occur without strict isolation. Heterogeneity of gene flow
was detected in most population pairs suggesting the predominance of semipermeable
barriers during divergence. We found a weak positive relationship between the
fraction of the genome experiencing reduced gene flow and levels of genome-wide
differentiation. Furthermore, we found that the upper bound of the ‘grey zone
of speciation’ for our dataset extended beyond that found before, implying that
gene flow between diverging taxa is possible at higher levels of divergence than
previously thought. Finally, we list recommendations for further strengthening
the use of demographic modelling in speciation research. These include a more
balanced representation of taxa, more consistent and comprehensive modelling,
clear reporting of results and simulation studies to rule out nonbiological explanations
for general results.
acknowledgement: 'We greatly thank all the corresponding authors of the studies that
were included in our synthesis for the sharing of additional data: Thomas Broquet,
Dmitry Filatov, Quentin Rougemont, Paolo Momigliano, Pierre-Alexandre Gagnaire,
Carlos Prada, Ahmed Souissi, Michael Møller Hansen, Sylvie Lapègue, Joseph Di Battista,
Michael Hellberg and Carlos Prada. RKB and ADJ were supported by the European Research
Council. MR was supported by the Swedish Research Council Vetenskapsrådet (grant
number 2021-05243; to MR) and Formas (grant number 2019-00882; to KJ and MR), and
by additional grants from the European Research Council (to RKB) and Vetenskapsrådet
(to KJ) through the Centre for Marine Evolutionary Biology (https://www.gu.se/en/cemeb-marine-evolutionary-biology).'
article_processing_charge: No
article_type: original
author:
- first_name: Aurélien
full_name: De Jode, Aurélien
last_name: De Jode
- first_name: Alan
full_name: Le Moan, Alan
last_name: Le Moan
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
- first_name: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
- first_name: Marina
full_name: Rafajlović, Marina
last_name: Rafajlović
- first_name: Christelle
full_name: Fraisse, Christelle
id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
orcid: 0000-0001-8441-5075
citation:
ama: De Jode A, Le Moan A, Johannesson K, et al. Ten years of demographic modelling
of divergence and speciation in the sea. Evolutionary Applications. 2023;16(2):542-559.
doi:10.1111/eva.13428
apa: De Jode, A., Le Moan, A., Johannesson, K., Faria, R., Stankowski, S., Westram,
A. M., … Fraisse, C. (2023). Ten years of demographic modelling of divergence
and speciation in the sea. Evolutionary Applications. Wiley. https://doi.org/10.1111/eva.13428
chicago: De Jode, Aurélien, Alan Le Moan, Kerstin Johannesson, Rui Faria, Sean Stankowski,
Anja M Westram, Roger K. Butlin, Marina Rafajlović, and Christelle Fraisse. “Ten
Years of Demographic Modelling of Divergence and Speciation in the Sea.” Evolutionary
Applications. Wiley, 2023. https://doi.org/10.1111/eva.13428.
ieee: A. De Jode et al., “Ten years of demographic modelling of divergence
and speciation in the sea,” Evolutionary Applications, vol. 16, no. 2.
Wiley, pp. 542–559, 2023.
ista: De Jode A, Le Moan A, Johannesson K, Faria R, Stankowski S, Westram AM, Butlin
RK, Rafajlović M, Fraisse C. 2023. Ten years of demographic modelling of divergence
and speciation in the sea. Evolutionary Applications. 16(2), 542–559.
mla: De Jode, Aurélien, et al. “Ten Years of Demographic Modelling of Divergence
and Speciation in the Sea.” Evolutionary Applications, vol. 16, no. 2,
Wiley, 2023, pp. 542–59, doi:10.1111/eva.13428.
short: A. De Jode, A. Le Moan, K. Johannesson, R. Faria, S. Stankowski, A.M. Westram,
R.K. Butlin, M. Rafajlović, C. Fraisse, Evolutionary Applications 16 (2023) 542–559.
date_created: 2022-07-03T22:01:33Z
date_published: 2023-02-01T00:00:00Z
date_updated: 2023-08-01T12:25:44Z
day: '01'
ddc:
- '576'
department:
- _id: NiBa
- _id: BeVi
doi: 10.1111/eva.13428
external_id:
isi:
- '000815663700001'
file:
- access_level: open_access
checksum: d4d6fa9ddf36643af994a6a757919afb
content_type: application/pdf
creator: dernst
date_created: 2023-02-27T07:10:17Z
date_updated: 2023-02-27T07:10:17Z
file_id: '12685'
file_name: 2023_EvolutionaryApplications_DeJode.pdf
file_size: 2269822
relation: main_file
success: 1
file_date_updated: 2023-02-27T07:10:17Z
has_accepted_license: '1'
intvolume: ' 16'
isi: 1
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 542-559
publication: Evolutionary Applications
publication_identifier:
eissn:
- 1752-4571
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Ten years of demographic modelling of divergence and speciation in the sea
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: 16
year: '2023'
...
---
_id: '12329'
abstract:
- lang: eng
text: In this article, we develop two independent and new approaches to model epidemic
spread in a network. Contrary to the most studied models, those developed here
allow for contacts with different probabilities of transmitting the disease (transmissibilities).
We then examine each of these models using some mean field type approximations.
The first model looks at the late-stage effects of an epidemic outbreak and allows
for the computation of the probability that a given vertex was infected. This
computation is based on a mean field approximation and only depends on the number
of contacts and their transmissibilities. This approach shares many similarities
with percolation models in networks. The second model we develop is a dynamic
model which we analyze using a mean field approximation which highly reduces the
dimensionality of the system. In particular, the original system which individually
analyses each vertex of the network is reduced to one with as many equations as
different transmissibilities. Perhaps the greatest contribution of this article
is the observation that, in both these models, the existence and size of an epidemic
outbreak are linked to the properties of a matrix which we call the R-matrix.
This is a generalization of the basic reproduction number which more precisely
characterizes the main routes of infection.
acknowledgement: Gonçalo Oliveira is supported by the NOMIS Foundation, Fundação Serrapilheira
1812-27395, by CNPq grants 428959/2018-0 and 307475/2018-2, and by FAPERJ through
the grant Jovem Cientista do Nosso Estado E-26/202.793/2019.
article_number: '468'
article_processing_charge: No
article_type: original
author:
- first_name: Arturo
full_name: Gómez, Arturo
last_name: Gómez
- first_name: Goncalo
full_name: Oliveira, Goncalo
id: 58abbde8-f455-11eb-a497-98c8fd71b905
last_name: Oliveira
citation:
ama: Gómez A, Oliveira G. New approaches to epidemic modeling on networks. Scientific
Reports. 2023;13. doi:10.1038/s41598-022-19827-9
apa: Gómez, A., & Oliveira, G. (2023). New approaches to epidemic modeling on
networks. Scientific Reports. Springer Nature. https://doi.org/10.1038/s41598-022-19827-9
chicago: Gómez, Arturo, and Goncalo Oliveira. “New Approaches to Epidemic Modeling
on Networks.” Scientific Reports. Springer Nature, 2023. https://doi.org/10.1038/s41598-022-19827-9.
ieee: A. Gómez and G. Oliveira, “New approaches to epidemic modeling on networks,”
Scientific Reports, vol. 13. Springer Nature, 2023.
ista: Gómez A, Oliveira G. 2023. New approaches to epidemic modeling on networks.
Scientific Reports. 13, 468.
mla: Gómez, Arturo, and Goncalo Oliveira. “New Approaches to Epidemic Modeling on
Networks.” Scientific Reports, vol. 13, 468, Springer Nature, 2023, doi:10.1038/s41598-022-19827-9.
short: A. Gómez, G. Oliveira, Scientific Reports 13 (2023).
date_created: 2023-01-22T23:00:55Z
date_published: 2023-01-10T00:00:00Z
date_updated: 2023-08-01T12:31:40Z
day: '10'
ddc:
- '510'
department:
- _id: TaHa
doi: 10.1038/s41598-022-19827-9
external_id:
isi:
- '001003345000051'
file:
- access_level: open_access
checksum: a8b83739f4a951e83e0b2a778f03b327
content_type: application/pdf
creator: dernst
date_created: 2023-01-23T07:53:23Z
date_updated: 2023-01-23T07:53:23Z
file_id: '12336'
file_name: 2023_ScientificReports_Gomez.pdf
file_size: 2167792
relation: main_file
success: 1
file_date_updated: 2023-01-23T07:53:23Z
has_accepted_license: '1'
intvolume: ' 13'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: Scientific Reports
publication_identifier:
eissn:
- 2045-2322
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: New approaches to epidemic modeling on networks
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 13
year: '2023'
...
---
_id: '9034'
abstract:
- lang: eng
text: We determine an asymptotic formula for the number of integral points of bounded
height on a blow-up of P3 outside certain planes using universal torsors.
acknowledgement: This work was supported by the German Academic Exchange Service.
Parts of this article were prepared at the Institut de Mathémathiques de Jussieu—Paris
Rive Gauche. I wish to thank Antoine Chambert-Loir for his remarks and the institute
for its hospitality, as well as the anonymous referee for several useful remarks
and suggestions for improvements.
article_processing_charge: No
article_type: original
author:
- first_name: Florian Alexander
full_name: Wilsch, Florian Alexander
id: 560601DA-8D36-11E9-A136-7AC1E5697425
last_name: Wilsch
orcid: 0000-0001-7302-8256
citation:
ama: Wilsch FA. Integral points of bounded height on a log Fano threefold. International
Mathematics Research Notices. 2023;2023(8):6780-6808. doi:10.1093/imrn/rnac048
apa: Wilsch, F. A. (2023). Integral points of bounded height on a log Fano threefold.
International Mathematics Research Notices. Oxford Academic. https://doi.org/10.1093/imrn/rnac048
chicago: Wilsch, Florian Alexander. “Integral Points of Bounded Height on a Log
Fano Threefold.” International Mathematics Research Notices. Oxford Academic,
2023. https://doi.org/10.1093/imrn/rnac048.
ieee: F. A. Wilsch, “Integral points of bounded height on a log Fano threefold,”
International Mathematics Research Notices, vol. 2023, no. 8. Oxford Academic,
pp. 6780–6808, 2023.
ista: Wilsch FA. 2023. Integral points of bounded height on a log Fano threefold.
International Mathematics Research Notices. 2023(8), 6780–6808.
mla: Wilsch, Florian Alexander. “Integral Points of Bounded Height on a Log Fano
Threefold.” International Mathematics Research Notices, vol. 2023, no.
8, Oxford Academic, 2023, pp. 6780–808, doi:10.1093/imrn/rnac048.
short: F.A. Wilsch, International Mathematics Research Notices 2023 (2023) 6780–6808.
date_created: 2021-01-22T09:31:09Z
date_published: 2023-04-01T00:00:00Z
date_updated: 2023-08-01T12:23:55Z
day: '01'
department:
- _id: TiBr
doi: 10.1093/imrn/rnac048
external_id:
arxiv:
- '1901.08503'
isi:
- '000773116000001'
intvolume: ' 2023'
isi: 1
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1901.08503
month: '04'
oa: 1
oa_version: Preprint
page: 6780-6808
publication: International Mathematics Research Notices
publication_identifier:
eissn:
- 1687-0247
issn:
- 1073-7928
publication_status: published
publisher: Oxford Academic
quality_controlled: '1'
status: public
title: Integral points of bounded height on a log Fano threefold
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 2023
year: '2023'
...
---
_id: '12469'
abstract:
- lang: eng
text: 'Hosts can carry many viruses in their bodies, but not all of them cause disease.
We studied ants as a social host to determine both their overall viral repertoire
and the subset of actively infecting viruses across natural populations of three
subfamilies: the Argentine ant (Linepithema humile, Dolichoderinae), the invasive
garden ant (Lasius neglectus, Formicinae) and the red ant (Myrmica rubra, Myrmicinae).
We used a dual sequencing strategy to reconstruct complete virus genomes by RNA-seq
and to simultaneously determine the small interfering RNAs (siRNAs) by small RNA
sequencing (sRNA-seq), which constitute the host antiviral RNAi immune response.
This approach led to the discovery of 41 novel viruses in ants and revealed a
host ant-specific RNAi response (21 vs. 22 nt siRNAs) in the different ant species.
The efficiency of the RNAi response (sRNA/RNA read count ratio) depended on the
virus and the respective ant species, but not its population. Overall, we found
the highest virus abundance and diversity per population in Li. humile, followed
by La. neglectus and M. rubra. Argentine ants also shared a high proportion of
viruses between populations, whilst overlap was nearly absent in M. rubra. Only
one of the 59 viruses was found to infect two of the ant species as hosts, revealing
high host-specificity in active infections. In contrast, six viruses actively
infected one ant species, but were found as contaminants only in the others. Disentangling
spillover of disease-causing infection from non-infecting contamination across
species is providing relevant information for disease ecology and ecosystem management.'
acknowledgement: "We thank D.J. Obbard for sharing the details of the dual RNA-seq/sRNA-seq
approach, S.\r\nMetzler and R. Ferrigato for the photographs (Figure 1), M. Konrad,
B. Casillas-Perez, C.D.\r\nPull and X. Espadaler for help with ant collection, and
the Social Immunity Team at IST\r\nAustria, in particular J. Robb, A. Franschitz,
E. Naderlinger, E. Dawson and B. Casillas-Perez\r\nfor support and comments on the
manuscript. The study was funded by the Austrian Science\r\nFund (FWF; M02076-B25
to MAF) and the Academy of Finland (343022 to LV). "
article_number: '1119002'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Lumi
full_name: Viljakainen, Lumi
last_name: Viljakainen
- first_name: Matthias
full_name: Fürst, Matthias
id: 393B1196-F248-11E8-B48F-1D18A9856A87
last_name: Fürst
orcid: 0000-0002-3712-925X
- first_name: Anna V
full_name: Grasse, Anna V
id: 406F989C-F248-11E8-B48F-1D18A9856A87
last_name: Grasse
- first_name: Jaana
full_name: Jurvansuu, Jaana
last_name: Jurvansuu
- first_name: Jinook
full_name: Oh, Jinook
id: 403169A4-080F-11EA-9993-BF3F3DDC885E
last_name: Oh
orcid: 0000-0001-7425-2372
- first_name: Lassi
full_name: Tolonen, Lassi
last_name: Tolonen
- first_name: Thomas
full_name: Eder, Thomas
last_name: Eder
- first_name: Thomas
full_name: Rattei, Thomas
last_name: Rattei
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
citation:
ama: Viljakainen L, Fürst M, Grasse AV, et al. Antiviral immune response reveals
host-specific virus infections in natural ant populations. Frontiers in Microbiology.
2023;14. doi:10.3389/fmicb.2023.1119002
apa: Viljakainen, L., Fürst, M., Grasse, A. V., Jurvansuu, J., Oh, J., Tolonen,
L., … Cremer, S. (2023). Antiviral immune response reveals host-specific virus
infections in natural ant populations. Frontiers in Microbiology. Frontiers.
https://doi.org/10.3389/fmicb.2023.1119002
chicago: Viljakainen, Lumi, Matthias Fürst, Anna V Grasse, Jaana Jurvansuu, Jinook
Oh, Lassi Tolonen, Thomas Eder, Thomas Rattei, and Sylvia Cremer. “Antiviral Immune
Response Reveals Host-Specific Virus Infections in Natural Ant Populations.” Frontiers
in Microbiology. Frontiers, 2023. https://doi.org/10.3389/fmicb.2023.1119002.
ieee: L. Viljakainen et al., “Antiviral immune response reveals host-specific
virus infections in natural ant populations,” Frontiers in Microbiology,
vol. 14. Frontiers, 2023.
ista: Viljakainen L, Fürst M, Grasse AV, Jurvansuu J, Oh J, Tolonen L, Eder T, Rattei
T, Cremer S. 2023. Antiviral immune response reveals host-specific virus infections
in natural ant populations. Frontiers in Microbiology. 14, 1119002.
mla: Viljakainen, Lumi, et al. “Antiviral Immune Response Reveals Host-Specific
Virus Infections in Natural Ant Populations.” Frontiers in Microbiology,
vol. 14, 1119002, Frontiers, 2023, doi:10.3389/fmicb.2023.1119002.
short: L. Viljakainen, M. Fürst, A.V. Grasse, J. Jurvansuu, J. Oh, L. Tolonen, T.
Eder, T. Rattei, S. Cremer, Frontiers in Microbiology 14 (2023).
date_created: 2023-01-31T08:13:40Z
date_published: 2023-03-16T00:00:00Z
date_updated: 2023-08-01T12:39:58Z
day: '16'
ddc:
- '570'
department:
- _id: SyCr
doi: 10.3389/fmicb.2023.1119002
external_id:
isi:
- '000961542100001'
pmid:
- 'PPR559293 '
file:
- access_level: open_access
checksum: cd52292963acce1111634d9fac08c699
content_type: application/pdf
creator: dernst
date_created: 2023-04-17T07:49:09Z
date_updated: 2023-04-17T07:49:09Z
file_id: '12843'
file_name: 2023_FrontMicrobiology_Viljakainen.pdf
file_size: 4866332
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success: 1
file_date_updated: 2023-04-17T07:49:09Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25DF61D8-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02076
name: Viral pathogens and social immunity in ants
publication: Frontiers in Microbiology
publication_identifier:
eissn:
- 1664-302X
publication_status: published
publisher: Frontiers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Antiviral immune response reveals host-specific virus infections in natural
ant populations
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 14
year: '2023'
...
---
_id: '12287'
abstract:
- lang: eng
text: We present criteria for establishing a triangulation of a manifold. Given
a manifold M, a simplicial complex A, and a map H from the underlying space of
A to M, our criteria are presented in local coordinate charts for M, and ensure
that H is a homeomorphism. These criteria do not require a differentiable structure,
or even an explicit metric on M. No Delaunay property of A is assumed. The result
provides a triangulation guarantee for algorithms that construct a simplicial
complex by working in local coordinate patches. Because the criteria are easily
verified in such a setting, they are expected to be of general use.
acknowledgement: "This work has been funded by the European Research Council under
the European Union’s ERC Grant Agreement number 339025 GUDHI (Algorithmic Foundations
of Geometric Understanding in Higher Dimensions). Arijit Ghosh is supported by Ramanujan
Fellowship (No. SB/S2/RJN-064/2015). Part of this work was done when Arijit Ghosh
was a Researcher at Max-Planck-Institute for Informatics, Germany, supported by
the IndoGerman Max Planck Center for Computer Science (IMPECS). Mathijs Wintraecken
also received funding from the European Union’s Horizon 2020 research and innovation
programme under the Marie Skłodowska-Curie grant agreement No. 754411 and the Austrian
Science Fund (FWF): M-3073. A part of the results described in this paper were presented
at SoCG 2018 and in [3]. \r\nOpen access funding provided by the Austrian Science
Fund (FWF)."
article_processing_charge: No
article_type: original
author:
- first_name: Jean-Daniel
full_name: Boissonnat, Jean-Daniel
last_name: Boissonnat
- first_name: Ramsay
full_name: Dyer, Ramsay
last_name: Dyer
- first_name: Arijit
full_name: Ghosh, Arijit
last_name: Ghosh
- first_name: Mathijs
full_name: Wintraecken, Mathijs
id: 307CFBC8-F248-11E8-B48F-1D18A9856A87
last_name: Wintraecken
orcid: 0000-0002-7472-2220
citation:
ama: Boissonnat J-D, Dyer R, Ghosh A, Wintraecken M. Local criteria for triangulating
general manifolds. Discrete & Computational Geometry. 2023;69:156-191.
doi:10.1007/s00454-022-00431-7
apa: Boissonnat, J.-D., Dyer, R., Ghosh, A., & Wintraecken, M. (2023). Local
criteria for triangulating general manifolds. Discrete & Computational
Geometry. Springer Nature. https://doi.org/10.1007/s00454-022-00431-7
chicago: Boissonnat, Jean-Daniel, Ramsay Dyer, Arijit Ghosh, and Mathijs Wintraecken.
“Local Criteria for Triangulating General Manifolds.” Discrete & Computational
Geometry. Springer Nature, 2023. https://doi.org/10.1007/s00454-022-00431-7.
ieee: J.-D. Boissonnat, R. Dyer, A. Ghosh, and M. Wintraecken, “Local criteria for
triangulating general manifolds,” Discrete & Computational Geometry,
vol. 69. Springer Nature, pp. 156–191, 2023.
ista: Boissonnat J-D, Dyer R, Ghosh A, Wintraecken M. 2023. Local criteria for triangulating
general manifolds. Discrete & Computational Geometry. 69, 156–191.
mla: Boissonnat, Jean-Daniel, et al. “Local Criteria for Triangulating General Manifolds.”
Discrete & Computational Geometry, vol. 69, Springer Nature, 2023,
pp. 156–91, doi:10.1007/s00454-022-00431-7.
short: J.-D. Boissonnat, R. Dyer, A. Ghosh, M. Wintraecken, Discrete & Computational
Geometry 69 (2023) 156–191.
date_created: 2023-01-16T10:04:06Z
date_published: 2023-01-01T00:00:00Z
date_updated: 2023-08-01T12:47:32Z
day: '01'
ddc:
- '510'
department:
- _id: HeEd
doi: 10.1007/s00454-022-00431-7
ec_funded: 1
external_id:
isi:
- '000862193600001'
file:
- access_level: open_access
checksum: 46352e0ee71e460848f88685ca852681
content_type: application/pdf
creator: dernst
date_created: 2023-02-02T11:01:10Z
date_updated: 2023-02-02T11:01:10Z
file_id: '12488'
file_name: 2023_DiscreteCompGeometry_Boissonnat.pdf
file_size: 582850
relation: main_file
success: 1
file_date_updated: 2023-02-02T11:01:10Z
has_accepted_license: '1'
intvolume: ' 69'
isi: 1
keyword:
- Computational Theory and Mathematics
- Discrete Mathematics and Combinatorics
- Geometry and Topology
- Theoretical Computer Science
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 156-191
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
- _id: fc390959-9c52-11eb-aca3-afa58bd282b2
grant_number: M03073
name: Learning and triangulating manifolds via collapses
publication: Discrete & Computational Geometry
publication_identifier:
eissn:
- 1432-0444
issn:
- 0179-5376
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Local criteria for triangulating general manifolds
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: 69
year: '2023'
...
---
_id: '12165'
abstract:
- lang: eng
text: It may come as a surprise that a phenomenon as ubiquitous and prominent as
the transition from laminar to turbulent flow has resisted combined efforts by
physicists, engineers and mathematicians, and remained unresolved for almost one
and a half centuries. In recent years, various studies have proposed analogies
to directed percolation, a well-known universality class in statistical mechanics,
which describes a non-equilibrium phase transition from a fluctuating active phase
into an absorbing state. It is this unlikely relation between the multiscale,
high-dimensional dynamics that signify the transition process in virtually all
flows of practical relevance, and the arguably most basic non-equilibrium phase
transition, that so far has mainly been the subject of model studies, which I
review in this Perspective.
article_processing_charge: No
article_type: original
author:
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Hof B. Directed percolation and the transition to turbulence. Nature Reviews
Physics. 2023;5:62-72. doi:10.1038/s42254-022-00539-y
apa: Hof, B. (2023). Directed percolation and the transition to turbulence. Nature
Reviews Physics. Springer Nature. https://doi.org/10.1038/s42254-022-00539-y
chicago: Hof, Björn. “Directed Percolation and the Transition to Turbulence.” Nature
Reviews Physics. Springer Nature, 2023. https://doi.org/10.1038/s42254-022-00539-y.
ieee: B. Hof, “Directed percolation and the transition to turbulence,” Nature
Reviews Physics, vol. 5. Springer Nature, pp. 62–72, 2023.
ista: Hof B. 2023. Directed percolation and the transition to turbulence. Nature
Reviews Physics. 5, 62–72.
mla: Hof, Björn. “Directed Percolation and the Transition to Turbulence.” Nature
Reviews Physics, vol. 5, Springer Nature, 2023, pp. 62–72, doi:10.1038/s42254-022-00539-y.
short: B. Hof, Nature Reviews Physics 5 (2023) 62–72.
date_created: 2023-01-12T12:10:18Z
date_published: 2023-01-01T00:00:00Z
date_updated: 2023-08-01T12:50:48Z
day: '01'
department:
- _id: BjHo
doi: 10.1038/s42254-022-00539-y
external_id:
isi:
- '000890148700002'
intvolume: ' 5'
isi: 1
keyword:
- General Physics and Astronomy
language:
- iso: eng
month: '01'
oa_version: None
page: 62-72
publication: Nature Reviews Physics
publication_identifier:
eissn:
- 2522-5820
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Directed percolation and the transition to turbulence
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 5
year: '2023'
...
---
_id: '12421'
abstract:
- lang: eng
text: The actin cytoskeleton plays a key role in cell migration and cellular morphodynamics
in most eukaryotes. The ability of the actin cytoskeleton to assemble and disassemble
in a spatiotemporally controlled manner allows it to form higher-order structures,
which can generate forces required for a cell to explore and navigate through
its environment. It is regulated not only via a complex synergistic and competitive
interplay between actin-binding proteins (ABP), but also by filament biochemistry
and filament geometry. The lack of structural insights into how geometry and ABPs
regulate the actin cytoskeleton limits our understanding of the molecular mechanisms
that define actin cytoskeleton remodeling and, in turn, impact emerging cell migration
characteristics. With the advent of cryo-electron microscopy (cryo-EM) and advanced
computational methods, it is now possible to define these molecular mechanisms
involving actin and its interactors at both atomic and ultra-structural levels
in vitro and in cellulo. In this review, we will provide an overview of the available
cryo-EM methods, applicable to further our understanding of the actin cytoskeleton,
specifically in the context of cell migration. We will discuss how these methods
have been employed to elucidate ABP- and geometry-defined regulatory mechanisms
in initiating, maintaining, and disassembling cellular actin networks in migratory
protrusions.
acknowledgement: 'We apologize for not being able to mention and cite additional excellent
work that would have fit the scope of this review, due to space restraints. We thank
Jesse Hansen for comments on the manuscript. We acknowledge support from the Austrian
Science Fund (FWF): P33367 and the Institute of Science and Technology Austria.'
article_processing_charge: No
article_type: original
author:
- first_name: Florian
full_name: Fäßler, Florian
id: 404F5528-F248-11E8-B48F-1D18A9856A87
last_name: Fäßler
orcid: 0000-0001-7149-769X
- first_name: Manjunath
full_name: Javoor, Manjunath
id: 305ab18b-dc7d-11ea-9b2f-b58195228ea2
last_name: Javoor
- first_name: Florian KM
full_name: Schur, Florian KM
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
citation:
ama: Fäßler F, Javoor M, Schur FK. Deciphering the molecular mechanisms of actin
cytoskeleton regulation in cell migration using cryo-EM. Biochemical Society
Transactions. 2023;51(1):87-99. doi:10.1042/bst20220221
apa: Fäßler, F., Javoor, M., & Schur, F. K. (2023). Deciphering the molecular
mechanisms of actin cytoskeleton regulation in cell migration using cryo-EM. Biochemical
Society Transactions. Portland Press. https://doi.org/10.1042/bst20220221
chicago: Fäßler, Florian, Manjunath Javoor, and Florian KM Schur. “Deciphering the
Molecular Mechanisms of Actin Cytoskeleton Regulation in Cell Migration Using
Cryo-EM.” Biochemical Society Transactions. Portland Press, 2023. https://doi.org/10.1042/bst20220221.
ieee: F. Fäßler, M. Javoor, and F. K. Schur, “Deciphering the molecular mechanisms
of actin cytoskeleton regulation in cell migration using cryo-EM,” Biochemical
Society Transactions, vol. 51, no. 1. Portland Press, pp. 87–99, 2023.
ista: Fäßler F, Javoor M, Schur FK. 2023. Deciphering the molecular mechanisms of
actin cytoskeleton regulation in cell migration using cryo-EM. Biochemical Society
Transactions. 51(1), 87–99.
mla: Fäßler, Florian, et al. “Deciphering the Molecular Mechanisms of Actin Cytoskeleton
Regulation in Cell Migration Using Cryo-EM.” Biochemical Society Transactions,
vol. 51, no. 1, Portland Press, 2023, pp. 87–99, doi:10.1042/bst20220221.
short: F. Fäßler, M. Javoor, F.K. Schur, Biochemical Society Transactions 51 (2023)
87–99.
date_created: 2023-01-27T10:08:19Z
date_published: 2023-02-01T00:00:00Z
date_updated: 2023-08-01T12:55:32Z
day: '01'
ddc:
- '570'
department:
- _id: FlSc
doi: 10.1042/bst20220221
external_id:
isi:
- '000926043100001'
file:
- access_level: open_access
checksum: 4e7069845e3dad22bb44fb71ec624c60
content_type: application/pdf
creator: dernst
date_created: 2023-03-16T07:58:16Z
date_updated: 2023-03-16T07:58:16Z
file_id: '12728'
file_name: 2023_BioChemicalSocietyTransactions_Faessler.pdf
file_size: 10045006
relation: main_file
success: 1
file_date_updated: 2023-03-16T07:58:16Z
has_accepted_license: '1'
intvolume: ' 51'
isi: 1
issue: '1'
keyword:
- Biochemistry
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 87-99
project:
- _id: 9B954C5C-BA93-11EA-9121-9846C619BF3A
grant_number: P33367
name: Structure and isoform diversity of the Arp2/3 complex
publication: Biochemical Society Transactions
publication_identifier:
eissn:
- 1470-8752
issn:
- 0300-5127
publication_status: published
publisher: Portland Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Deciphering the molecular mechanisms of actin cytoskeleton regulation in cell
migration using cryo-EM
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: 51
year: '2023'
...
---
_id: '12105'
abstract:
- lang: eng
text: Data-driven dimensionality reduction methods such as proper orthogonal decomposition
and dynamic mode decomposition have proven to be useful for exploring complex
phenomena within fluid dynamics and beyond. A well-known challenge for these techniques
is posed by the continuous symmetries, e.g. translations and rotations, of the
system under consideration, as drifts in the data dominate the modal expansions
without providing an insight into the dynamics of the problem. In the present
study, we address this issue for fluid flows in rectangular channels by formulating
a continuous symmetry reduction method that eliminates the translations in the
streamwise and spanwise directions simultaneously. We demonstrate our method by
computing the symmetry-reduced dynamic mode decomposition (SRDMD) of sliding windows
of data obtained from the transitional plane-Couette and turbulent plane-Poiseuille
flow simulations. In the former setting, SRDMD captures the dynamics in the vicinity
of the invariant solutions with translation symmetries, i.e. travelling waves
and relative periodic orbits, whereas in the latter, our calculations reveal episodes
of turbulent time evolution that can be approximated by a low-dimensional linear
expansion.
acknowledgement: "E.M. acknowledges funding from the ISTplus fellowship programme.
G.Y. and B.H. acknowledge\r\na grant from the Simons Foundation (662960, BH)."
article_number: A10
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Elena
full_name: Marensi, Elena
id: 0BE7553A-1004-11EA-B805-18983DDC885E
last_name: Marensi
- first_name: Gökhan
full_name: Yalniz, Gökhan
id: 66E74FA2-D8BF-11E9-8249-8DE2E5697425
last_name: Yalniz
orcid: 0000-0002-8490-9312
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
- first_name: Nazmi B
full_name: Budanur, Nazmi B
id: 3EA1010E-F248-11E8-B48F-1D18A9856A87
last_name: Budanur
orcid: 0000-0003-0423-5010
citation:
ama: Marensi E, Yalniz G, Hof B, Budanur NB. Symmetry-reduced dynamic mode decomposition
of near-wall turbulence. Journal of Fluid Mechanics. 2023;954. doi:10.1017/jfm.2022.1001
apa: Marensi, E., Yalniz, G., Hof, B., & Budanur, N. B. (2023). Symmetry-reduced
dynamic mode decomposition of near-wall turbulence. Journal of Fluid Mechanics.
Cambridge University Press. https://doi.org/10.1017/jfm.2022.1001
chicago: Marensi, Elena, Gökhan Yalniz, Björn Hof, and Nazmi B Budanur. “Symmetry-Reduced
Dynamic Mode Decomposition of near-Wall Turbulence.” Journal of Fluid Mechanics.
Cambridge University Press, 2023. https://doi.org/10.1017/jfm.2022.1001.
ieee: E. Marensi, G. Yalniz, B. Hof, and N. B. Budanur, “Symmetry-reduced dynamic
mode decomposition of near-wall turbulence,” Journal of Fluid Mechanics,
vol. 954. Cambridge University Press, 2023.
ista: Marensi E, Yalniz G, Hof B, Budanur NB. 2023. Symmetry-reduced dynamic mode
decomposition of near-wall turbulence. Journal of Fluid Mechanics. 954, A10.
mla: Marensi, Elena, et al. “Symmetry-Reduced Dynamic Mode Decomposition of near-Wall
Turbulence.” Journal of Fluid Mechanics, vol. 954, A10, Cambridge University
Press, 2023, doi:10.1017/jfm.2022.1001.
short: E. Marensi, G. Yalniz, B. Hof, N.B. Budanur, Journal of Fluid Mechanics 954
(2023).
date_created: 2023-01-08T23:00:53Z
date_published: 2023-01-10T00:00:00Z
date_updated: 2023-08-01T12:53:23Z
day: '10'
ddc:
- '530'
department:
- _id: BjHo
doi: 10.1017/jfm.2022.1001
external_id:
arxiv:
- '2101.07516'
isi:
- '000903336600001'
file:
- access_level: open_access
checksum: 9224f987caefe5dd85a70814d3cce65c
content_type: application/pdf
creator: dernst
date_created: 2023-02-02T12:34:54Z
date_updated: 2023-02-02T12:34:54Z
file_id: '12489'
file_name: 2023_JourFluidMechanics_Marensi.pdf
file_size: 1931647
relation: main_file
success: 1
file_date_updated: 2023-02-02T12:34:54Z
has_accepted_license: '1'
intvolume: ' 954'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 238598C6-32DE-11EA-91FC-C7463DDC885E
grant_number: '662960'
name: 'Revisiting the Turbulence Problem Using Statistical Mechanics: Experimental
Studies on Transitional and Turbulent Flows'
publication: Journal of Fluid Mechanics
publication_identifier:
eissn:
- 1469-7645
issn:
- 0022-1120
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Symmetry-reduced dynamic mode decomposition of near-wall turbulence
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: 954
year: '2023'
...
---
_id: '12514'
abstract:
- lang: eng
text: The concept of a “speciation continuum” has gained popularity in recent decades.
It emphasizes speciation as a continuous process that may be studied by comparing
contemporary population pairs that show differing levels of divergence. In their
recent perspective article in Evolution, Stankowski and Ravinet provided a valuable
service by formally defining the speciation continuum as a continuum of reproductive
isolation, based on opinions gathered from a survey of speciation researchers.
While we agree that the speciation continuum has been a useful concept to advance
the understanding of the speciation process, some intrinsic limitations exist.
Here, we advocate for a multivariate extension, the speciation hypercube, first
proposed by Dieckmann et al. in 2004, but rarely used since. We extend the idea
of the speciation cube and suggest it has strong conceptual and practical advantages
over a one-dimensional model. We illustrate how the speciation hypercube can be
used to visualize and compare different speciation trajectories, providing new
insights into the processes and mechanisms of speciation. A key strength of the
speciation hypercube is that it provides a unifying framework for speciation research,
as it allows questions from apparently disparate subfields to be addressed in
a single conceptual model.
acknowledgement: "The authors of this article were supported by LMU Munich (J.B.W.W.),
a James S. McDonnell Foundation postdoctoral fellowship (A.K.H.). P.N. received
funding from the European Research Council (ERC) under the European Union’s Horizon
2020 research and innovation program (Grant agreement No. 770826 EE-Dynamics).\r\nWe
thank participants in the 2019 Gordon Conference on Speciation for the extensive
conversation on this topic. Thanks to Dan Funk for providing permission to use data
from Funk et al. 2006, and for comments on the manuscript."
article_processing_charge: No
article_type: original
author:
- first_name: Daniel I.
full_name: Bolnick, Daniel I.
last_name: Bolnick
- first_name: Amanda K.
full_name: Hund, Amanda K.
last_name: Hund
- first_name: Patrik
full_name: Nosil, Patrik
last_name: Nosil
- first_name: Foen
full_name: Peng, Foen
last_name: Peng
- first_name: Mark
full_name: Ravinet, Mark
last_name: Ravinet
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Swapna
full_name: Subramanian, Swapna
last_name: Subramanian
- first_name: Jochen B.W.
full_name: Wolf, Jochen B.W.
last_name: Wolf
- first_name: Roman
full_name: Yukilevich, Roman
last_name: Yukilevich
citation:
ama: 'Bolnick DI, Hund AK, Nosil P, et al. A multivariate view of the speciation
continuum. Evolution: International journal of organic evolution. 2023;77(1):318-328.
doi:10.1093/evolut/qpac004'
apa: 'Bolnick, D. I., Hund, A. K., Nosil, P., Peng, F., Ravinet, M., Stankowski,
S., … Yukilevich, R. (2023). A multivariate view of the speciation continuum.
Evolution: International Journal of Organic Evolution. Oxford University
Press. https://doi.org/10.1093/evolut/qpac004'
chicago: 'Bolnick, Daniel I., Amanda K. Hund, Patrik Nosil, Foen Peng, Mark Ravinet,
Sean Stankowski, Swapna Subramanian, Jochen B.W. Wolf, and Roman Yukilevich. “A
Multivariate View of the Speciation Continuum.” Evolution: International Journal
of Organic Evolution. Oxford University Press, 2023. https://doi.org/10.1093/evolut/qpac004.'
ieee: 'D. I. Bolnick et al., “A multivariate view of the speciation continuum,”
Evolution: International journal of organic evolution, vol. 77, no. 1.
Oxford University Press, pp. 318–328, 2023.'
ista: 'Bolnick DI, Hund AK, Nosil P, Peng F, Ravinet M, Stankowski S, Subramanian
S, Wolf JBW, Yukilevich R. 2023. A multivariate view of the speciation continuum.
Evolution: International journal of organic evolution. 77(1), 318–328.'
mla: 'Bolnick, Daniel I., et al. “A Multivariate View of the Speciation Continuum.”
Evolution: International Journal of Organic Evolution, vol. 77, no. 1,
Oxford University Press, 2023, pp. 318–28, doi:10.1093/evolut/qpac004.'
short: 'D.I. Bolnick, A.K. Hund, P. Nosil, F. Peng, M. Ravinet, S. Stankowski, S.
Subramanian, J.B.W. Wolf, R. Yukilevich, Evolution: International Journal of Organic
Evolution 77 (2023) 318–328.'
date_created: 2023-02-05T23:00:59Z
date_published: 2023-01-01T00:00:00Z
date_updated: 2023-08-01T12:58:30Z
day: '01'
department:
- _id: NiBa
doi: 10.1093/evolut/qpac004
external_id:
isi:
- '001021686300024'
pmid:
- '36622661'
intvolume: ' 77'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1093/evolut/qpac004
month: '01'
oa: 1
oa_version: Published Version
page: 318-328
pmid: 1
publication: 'Evolution: International journal of organic evolution'
publication_identifier:
eissn:
- 1558-5646
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: A multivariate view of the speciation continuum
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 77
year: '2023'
...
---
_id: '12548'
abstract:
- lang: eng
text: The limited exchange between human communities is a key factor in preventing
the spread of COVID-19. This paper introduces a digital framework that combines
an integration of real mobility data at the country scale with a series of modeling
techniques and visual capabilities that highlight mobility patterns before and
during the pandemic. The findings not only significantly exhibit mobility trends
and different degrees of similarities at regional and local levels but also provide
potential insight into the emergence of a pandemic on human behavior patterns
and their likely socio-economic impacts.
article_number: '00093'
article_processing_charge: No
author:
- first_name: Mohammad
full_name: Forghani, Mohammad
last_name: Forghani
- first_name: Christophe
full_name: Claramunt, Christophe
last_name: Claramunt
- first_name: Farid
full_name: Karimipour, Farid
id: 2A2BCDC4-CF62-11E9-BE5E-3B1EE6697425
last_name: Karimipour
orcid: 0000-0001-6746-4174
- first_name: Georg
full_name: Heiler, Georg
last_name: Heiler
citation:
ama: 'Forghani M, Claramunt C, Karimipour F, Heiler G. Visual analytics of mobility
network changes observed using mobile phone data during COVID-19 pandemic. In:
2022 IEEE International Conference on Data Mining Workshops. Institute
of Electrical and Electronics Engineers; 2023. doi:10.1109/icdmw58026.2022.00093'
apa: 'Forghani, M., Claramunt, C., Karimipour, F., & Heiler, G. (2023). Visual
analytics of mobility network changes observed using mobile phone data during
COVID-19 pandemic. In 2022 IEEE International Conference on Data Mining Workshops.
Orlando, FL, United States: Institute of Electrical and Electronics Engineers.
https://doi.org/10.1109/icdmw58026.2022.00093'
chicago: Forghani, Mohammad, Christophe Claramunt, Farid Karimipour, and Georg Heiler.
“Visual Analytics of Mobility Network Changes Observed Using Mobile Phone Data
during COVID-19 Pandemic.” In 2022 IEEE International Conference on Data Mining
Workshops. Institute of Electrical and Electronics Engineers, 2023. https://doi.org/10.1109/icdmw58026.2022.00093.
ieee: M. Forghani, C. Claramunt, F. Karimipour, and G. Heiler, “Visual analytics
of mobility network changes observed using mobile phone data during COVID-19 pandemic,”
in 2022 IEEE International Conference on Data Mining Workshops, Orlando,
FL, United States, 2023.
ista: 'Forghani M, Claramunt C, Karimipour F, Heiler G. 2023. Visual analytics of
mobility network changes observed using mobile phone data during COVID-19 pandemic.
2022 IEEE International Conference on Data Mining Workshops. ICDMW: Conference
on Data Mining Workshops, 00093.'
mla: Forghani, Mohammad, et al. “Visual Analytics of Mobility Network Changes Observed
Using Mobile Phone Data during COVID-19 Pandemic.” 2022 IEEE International
Conference on Data Mining Workshops, 00093, Institute of Electrical and Electronics
Engineers, 2023, doi:10.1109/icdmw58026.2022.00093.
short: M. Forghani, C. Claramunt, F. Karimipour, G. Heiler, in:, 2022 IEEE International
Conference on Data Mining Workshops, Institute of Electrical and Electronics Engineers,
2023.
conference:
end_date: 2022-12-01
location: Orlando, FL, United States
name: 'ICDMW: Conference on Data Mining Workshops'
start_date: 2022-11-28
date_created: 2023-02-14T07:56:21Z
date_published: 2023-02-08T00:00:00Z
date_updated: 2023-08-01T13:15:48Z
day: '08'
ddc:
- '600'
department:
- _id: HeEd
doi: 10.1109/icdmw58026.2022.00093
external_id:
isi:
- '000971492200145'
file:
- access_level: open_access
checksum: c253bee25e6dfe484f96662daa119cb6
content_type: application/pdf
creator: fkarimip
date_created: 2023-02-14T07:58:26Z
date_updated: 2023-02-14T07:58:26Z
file_id: '12549'
file_name: Visual Analysis_Mobility_COVID19 - SocDM2022.pdf
file_size: 1183339
relation: main_file
success: 1
file_date_updated: 2023-02-14T07:58:26Z
has_accepted_license: '1'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Submitted Version
publication: 2022 IEEE International Conference on Data Mining Workshops
publication_identifier:
eisbn:
- '9798350346091'
eissn:
- 2375-9259
publication_status: published
publisher: Institute of Electrical and Electronics Engineers
quality_controlled: '1'
status: public
title: Visual analytics of mobility network changes observed using mobile phone data
during COVID-19 pandemic
type: conference
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
year: '2023'
...
---
_id: '12563'
abstract:
- lang: eng
text: 'he approximate graph coloring problem, whose complexity is unresolved in
most cases, concerns finding a c-coloring of a graph that is promised to be k-colorable,
where c≥k. This problem naturally generalizes to promise graph homomorphism problems
and further to promise constraint satisfaction problems. The complexity of these
problems has recently been studied through an algebraic approach. In this paper,
we introduce two new techniques to analyze the complexity of promise CSPs: one
is based on topology and the other on adjunction. We apply these techniques, together
with the previously introduced algebraic approach, to obtain new unconditional
NP-hardness results for a significant class of approximate graph coloring and
promise graph homomorphism problems.'
acknowledgement: "Andrei Krokhin and Jakub Opršal were supported by the UK EPSRC grant
EP/R034516/1. Jakub Opršal has received funding from the European Union’s Horizon
2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement
No 101034413. Stanislav Živný was supported by a Royal Society University Research
Fellowship. This project has received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation programme
(grant agreement No 714532). The paper re\x1Eects only the authors’ views and not
the views of the ERC or the European Commission. "
article_processing_charge: No
article_type: original
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
- first_name: Marcin
full_name: Wrochna, Marcin
last_name: Wrochna
- first_name: Stanislav
full_name: Živný, Stanislav
last_name: Živný
citation:
ama: Krokhin A, Opršal J, Wrochna M, Živný S. Topology and adjunction in promise
constraint satisfaction. SIAM Journal on Computing. 2023;52(1):38-79. doi:10.1137/20m1378223
apa: Krokhin, A., Opršal, J., Wrochna, M., & Živný, S. (2023). Topology and
adjunction in promise constraint satisfaction. SIAM Journal on Computing.
Society for Industrial & Applied Mathematics. https://doi.org/10.1137/20m1378223
chicago: Krokhin, Andrei, Jakub Opršal, Marcin Wrochna, and Stanislav Živný. “Topology
and Adjunction in Promise Constraint Satisfaction.” SIAM Journal on Computing.
Society for Industrial & Applied Mathematics, 2023. https://doi.org/10.1137/20m1378223.
ieee: A. Krokhin, J. Opršal, M. Wrochna, and S. Živný, “Topology and adjunction
in promise constraint satisfaction,” SIAM Journal on Computing, vol. 52,
no. 1. Society for Industrial & Applied Mathematics, pp. 38–79, 2023.
ista: Krokhin A, Opršal J, Wrochna M, Živný S. 2023. Topology and adjunction in
promise constraint satisfaction. SIAM Journal on Computing. 52(1), 38–79.
mla: Krokhin, Andrei, et al. “Topology and Adjunction in Promise Constraint Satisfaction.”
SIAM Journal on Computing, vol. 52, no. 1, Society for Industrial &
Applied Mathematics, 2023, pp. 38–79, doi:10.1137/20m1378223.
short: A. Krokhin, J. Opršal, M. Wrochna, S. Živný, SIAM Journal on Computing 52
(2023) 38–79.
date_created: 2023-02-16T07:03:52Z
date_published: 2023-01-01T00:00:00Z
date_updated: 2023-08-01T13:11:30Z
day: '01'
department:
- _id: UlWa
doi: 10.1137/20m1378223
ec_funded: 1
external_id:
arxiv:
- '2003.11351'
isi:
- '000955000000001'
intvolume: ' 52'
isi: 1
issue: '1'
keyword:
- General Mathematics
- General Computer Science
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2003.11351
month: '01'
oa: 1
oa_version: Preprint
page: 38-79
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: SIAM Journal on Computing
publication_identifier:
eissn:
- 1095-7111
issn:
- 0097-5397
publication_status: published
publisher: Society for Industrial & Applied Mathematics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Topology and adjunction in promise constraint satisfaction
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 52
year: '2023'
...
---
_id: '12545'
abstract:
- lang: eng
text: We study active surface wetting using a minimal model of bacteria that takes
into account the intrinsic motility diversity of living matter. A mixture of “fast”
and “slow” self-propelled Brownian particles is considered in the presence of
a wall. The evolution of the wetting layer thickness shows an overshoot before
stationarity and its composition evolves in two stages, equilibrating after a
slow elimination of excess particles. Nonmonotonic evolutions are shown to arise
from delayed avalanches towards the dilute phase combined with the emergence of
a transient particle front.
acknowledgement: 'MR-V and RS are supported by Fondecyt Grant No. 1220536 and ANID
– Millennium Science Initiative Program – NCN19 170D, Chile. PdC is supported by
grant #2021/10139-2, Sao Paulo Research Foundation (FAPESP), Brazil.'
article_number: '014608'
article_processing_charge: No
article_type: original
author:
- first_name: Mauricio Nicolas
full_name: Rojas Vega, Mauricio Nicolas
id: 441e7207-f91f-11ec-b67c-9e6fe3d8fd6d
last_name: Rojas Vega
- first_name: Pablo
full_name: De Castro, Pablo
last_name: De Castro
- first_name: Rodrigo
full_name: Soto, Rodrigo
last_name: Soto
citation:
ama: Rojas Vega MN, De Castro P, Soto R. Wetting dynamics by mixtures of fast and
slow self-propelled particles. Physical Review E. 2023;107(1). doi:10.1103/PhysRevE.107.014608
apa: Rojas Vega, M. N., De Castro, P., & Soto, R. (2023). Wetting dynamics by
mixtures of fast and slow self-propelled particles. Physical Review E.
American Physical Society. https://doi.org/10.1103/PhysRevE.107.014608
chicago: Rojas Vega, Mauricio Nicolas, Pablo De Castro, and Rodrigo Soto. “Wetting
Dynamics by Mixtures of Fast and Slow Self-Propelled Particles.” Physical Review
E. American Physical Society, 2023. https://doi.org/10.1103/PhysRevE.107.014608.
ieee: M. N. Rojas Vega, P. De Castro, and R. Soto, “Wetting dynamics by mixtures
of fast and slow self-propelled particles,” Physical Review E, vol. 107,
no. 1. American Physical Society, 2023.
ista: Rojas Vega MN, De Castro P, Soto R. 2023. Wetting dynamics by mixtures of
fast and slow self-propelled particles. Physical Review E. 107(1), 014608.
mla: Rojas Vega, Mauricio Nicolas, et al. “Wetting Dynamics by Mixtures of Fast
and Slow Self-Propelled Particles.” Physical Review E, vol. 107, no. 1,
014608, American Physical Society, 2023, doi:10.1103/PhysRevE.107.014608.
short: M.N. Rojas Vega, P. De Castro, R. Soto, Physical Review E 107 (2023).
date_created: 2023-02-12T23:00:59Z
date_published: 2023-01-24T00:00:00Z
date_updated: 2023-08-01T13:09:45Z
day: '24'
department:
- _id: GradSch
doi: 10.1103/PhysRevE.107.014608
external_id:
arxiv:
- '2301.01856'
isi:
- '000963909800006'
intvolume: ' 107'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2301.01856
month: '01'
oa: 1
oa_version: Preprint
publication: Physical Review E
publication_identifier:
eissn:
- 2470-0053
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Wetting dynamics by mixtures of fast and slow self-propelled particles
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 107
year: '2023'
...
---
_id: '12427'
abstract:
- lang: eng
text: 'Let k be a number field and X a smooth, geometrically integral quasi-projective
variety over k. For any linear algebraic group G over k and any G-torsor g : Z
→ X, we observe that if the étale-Brauer obstruction is the only one for strong
approximation off a finite set of places S for all twists of Z by elements in
H^1(k, G), then the étale-Brauer obstruction is the only one for strong approximation
off a finite set of places S for X. As an application, we show that any homogeneous
space of the form G/H with G a connected linear algebraic group over k satisfies
strong approximation off the infinite places with étale-Brauer obstruction, under
some compactness assumptions when k is totally real. We also prove more refined
strong approximation results for homogeneous spaces of the form G/H with G semisimple
simply connected and H finite, using the theory of torsors and descent.'
article_processing_charge: No
article_type: original
author:
- first_name: Francesca
full_name: Balestrieri, Francesca
id: 3ACCD756-F248-11E8-B48F-1D18A9856A87
last_name: Balestrieri
citation:
ama: Balestrieri F. Some remarks on strong approximation and applications to homogeneous
spaces of linear algebraic groups. Proceedings of the American Mathematical
Society. 2023;151(3):907-914. doi:10.1090/proc/15239
apa: Balestrieri, F. (2023). Some remarks on strong approximation and applications
to homogeneous spaces of linear algebraic groups. Proceedings of the American
Mathematical Society. American Mathematical Society. https://doi.org/10.1090/proc/15239
chicago: Balestrieri, Francesca. “Some Remarks on Strong Approximation and Applications
to Homogeneous Spaces of Linear Algebraic Groups.” Proceedings of the American
Mathematical Society. American Mathematical Society, 2023. https://doi.org/10.1090/proc/15239.
ieee: F. Balestrieri, “Some remarks on strong approximation and applications to
homogeneous spaces of linear algebraic groups,” Proceedings of the American
Mathematical Society, vol. 151, no. 3. American Mathematical Society, pp.
907–914, 2023.
ista: Balestrieri F. 2023. Some remarks on strong approximation and applications
to homogeneous spaces of linear algebraic groups. Proceedings of the American
Mathematical Society. 151(3), 907–914.
mla: Balestrieri, Francesca. “Some Remarks on Strong Approximation and Applications
to Homogeneous Spaces of Linear Algebraic Groups.” Proceedings of the American
Mathematical Society, vol. 151, no. 3, American Mathematical Society, 2023,
pp. 907–14, doi:10.1090/proc/15239.
short: F. Balestrieri, Proceedings of the American Mathematical Society 151 (2023)
907–914.
date_created: 2023-01-29T23:00:58Z
date_published: 2023-01-01T00:00:00Z
date_updated: 2023-08-01T13:03:32Z
day: '01'
department:
- _id: TiBr
doi: 10.1090/proc/15239
external_id:
isi:
- '000898440000001'
intvolume: ' 151'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://hal.science/hal-03013498/
month: '01'
oa: 1
oa_version: Preprint
page: 907-914
publication: Proceedings of the American Mathematical Society
publication_identifier:
eissn:
- 1088-6826
issn:
- 0002-9939
publication_status: published
publisher: American Mathematical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Some remarks on strong approximation and applications to homogeneous spaces
of linear algebraic groups
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 151
year: '2023'
...
---
_id: '12542'
abstract:
- lang: eng
text: In this issue of Neuron, Espinosa-Medina et al.1 present the TEMPO (Temporal
Encoding and Manipulation in a Predefined Order) system, which enables the marking
and genetic manipulation of sequentially generated cell lineages in vertebrate
species in vivo.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Ana
full_name: Villalba Requena, Ana
id: 68cb85a0-39f7-11eb-9559-9aaab4f6a247
last_name: Villalba Requena
orcid: 0000-0002-5615-5277
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
citation:
ama: Villalba Requena A, Hippenmeyer S. Going back in time with TEMPO. Neuron.
2023;111(3):291-293. doi:10.1016/j.neuron.2023.01.006
apa: Villalba Requena, A., & Hippenmeyer, S. (2023). Going back in time with
TEMPO. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2023.01.006
chicago: Villalba Requena, Ana, and Simon Hippenmeyer. “Going Back in Time with
TEMPO.” Neuron. Elsevier, 2023. https://doi.org/10.1016/j.neuron.2023.01.006.
ieee: A. Villalba Requena and S. Hippenmeyer, “Going back in time with TEMPO,” Neuron,
vol. 111, no. 3. Elsevier, pp. 291–293, 2023.
ista: Villalba Requena A, Hippenmeyer S. 2023. Going back in time with TEMPO. Neuron.
111(3), 291–293.
mla: Villalba Requena, Ana, and Simon Hippenmeyer. “Going Back in Time with TEMPO.”
Neuron, vol. 111, no. 3, Elsevier, 2023, pp. 291–93, doi:10.1016/j.neuron.2023.01.006.
short: A. Villalba Requena, S. Hippenmeyer, Neuron 111 (2023) 291–293.
date_created: 2023-02-12T23:00:58Z
date_published: 2023-02-01T00:00:00Z
date_updated: 2023-08-01T13:10:27Z
day: '01'
department:
- _id: SiHi
doi: 10.1016/j.neuron.2023.01.006
external_id:
isi:
- '000994473300001'
intvolume: ' 111'
isi: 1
issue: '3'
language:
- iso: eng
month: '02'
oa_version: None
page: 291-293
publication: Neuron
publication_identifier:
eissn:
- 1097-4199
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Going back in time with TEMPO
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 111
year: '2023'
...
---
_id: '12567'
abstract:
- lang: eng
text: Single-molecule localization microscopy (SMLM) greatly advances structural
studies of diverse biological tissues. For example, presynaptic active zone (AZ)
nanotopology is resolved in increasing detail. Immunofluorescence imaging of AZ
proteins usually relies on epitope preservation using aldehyde-based immunocompetent
fixation. Cryofixation techniques, such as high-pressure freezing (HPF) and freeze
substitution (FS), are widely used for ultrastructural studies of presynaptic
architecture in electron microscopy (EM). HPF/FS demonstrated nearer-to-native
preservation of AZ ultrastructure, e.g., by facilitating single filamentous structures.
Here, we present a protocol combining the advantages of HPF/FS and direct stochastic
optical reconstruction microscopy (dSTORM) to quantify nanotopology of the AZ
scaffold protein Bruchpilot (Brp) at neuromuscular junctions (NMJs) of Drosophila
melanogaster. Using this standardized model, we tested for preservation of Brp
clusters in different FS protocols compared to classical aldehyde fixation. In
HPF/FS samples, presynaptic boutons were structurally well preserved with ~22%
smaller Brp clusters that allowed quantification of subcluster topology. In summary,
we established a standardized near-to-native preparation and immunohistochemistry
protocol for SMLM analyses of AZ protein clusters in a defined model synapse.
Our protocol could be adapted to study protein arrangements at single-molecule
resolution in other intact tissue preparations.
acknowledgement: This work has been supported by funding of the German Research Foundation
(Deutsche Forschungsgemeinschaft [DFG], CRC 166, Project B06 to M.H. and A.-L.S.,
FOR 3004 SYNABS P1 to M.H.) and by the Interdisciplinary Clinical Research Center
(IZKF) Würzburg (Z-3/69 to M.M.P., N-229 to M.H. and A.-L.S.). A.M. is funded by
the University of Leipzig Clinician Scientist Program.
article_number: '2128'
article_processing_charge: No
article_type: original
author:
- first_name: Achmed
full_name: Mrestani, Achmed
last_name: Mrestani
- first_name: Katharina
full_name: Lichter, Katharina
id: 39302e62-fcfc-11ec-8196-8b01447dbd3d
last_name: Lichter
- first_name: Anna Leena
full_name: Sirén, Anna Leena
last_name: Sirén
- first_name: Manfred
full_name: Heckmann, Manfred
last_name: Heckmann
- first_name: Mila M.
full_name: Paul, Mila M.
last_name: Paul
- first_name: Martin
full_name: Pauli, Martin
last_name: Pauli
citation:
ama: Mrestani A, Lichter K, Sirén AL, Heckmann M, Paul MM, Pauli M. Single-molecule
localization microscopy of presynaptic active zones in Drosophila melanogaster
after rapid cryofixation. International Journal of Molecular Sciences.
2023;24(3). doi:10.3390/ijms24032128
apa: Mrestani, A., Lichter, K., Sirén, A. L., Heckmann, M., Paul, M. M., & Pauli,
M. (2023). Single-molecule localization microscopy of presynaptic active zones
in Drosophila melanogaster after rapid cryofixation. International Journal
of Molecular Sciences. MDPI. https://doi.org/10.3390/ijms24032128
chicago: Mrestani, Achmed, Katharina Lichter, Anna Leena Sirén, Manfred Heckmann,
Mila M. Paul, and Martin Pauli. “Single-Molecule Localization Microscopy of Presynaptic
Active Zones in Drosophila Melanogaster after Rapid Cryofixation.” International
Journal of Molecular Sciences. MDPI, 2023. https://doi.org/10.3390/ijms24032128.
ieee: A. Mrestani, K. Lichter, A. L. Sirén, M. Heckmann, M. M. Paul, and M. Pauli,
“Single-molecule localization microscopy of presynaptic active zones in Drosophila
melanogaster after rapid cryofixation,” International Journal of Molecular
Sciences, vol. 24, no. 3. MDPI, 2023.
ista: Mrestani A, Lichter K, Sirén AL, Heckmann M, Paul MM, Pauli M. 2023. Single-molecule
localization microscopy of presynaptic active zones in Drosophila melanogaster
after rapid cryofixation. International Journal of Molecular Sciences. 24(3),
2128.
mla: Mrestani, Achmed, et al. “Single-Molecule Localization Microscopy of Presynaptic
Active Zones in Drosophila Melanogaster after Rapid Cryofixation.” International
Journal of Molecular Sciences, vol. 24, no. 3, 2128, MDPI, 2023, doi:10.3390/ijms24032128.
short: A. Mrestani, K. Lichter, A.L. Sirén, M. Heckmann, M.M. Paul, M. Pauli, International
Journal of Molecular Sciences 24 (2023).
date_created: 2023-02-19T23:00:56Z
date_published: 2023-01-21T00:00:00Z
date_updated: 2023-08-01T13:16:36Z
day: '21'
ddc:
- '570'
department:
- _id: PeJo
doi: 10.3390/ijms24032128
external_id:
isi:
- '000930324700001'
file:
- access_level: open_access
checksum: 69a35dcd3e0249f902ab881b06ee2e58
content_type: application/pdf
creator: dernst
date_created: 2023-02-20T07:09:27Z
date_updated: 2023-02-20T07:09:27Z
file_id: '12569'
file_name: 2023_IJMS_Mrestani.pdf
file_size: 2823025
relation: main_file
success: 1
file_date_updated: 2023-02-20T07:09:27Z
has_accepted_license: '1'
intvolume: ' 24'
isi: 1
issue: '3'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: International Journal of Molecular Sciences
publication_identifier:
eissn:
- 1422-0067
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Single-molecule localization microscopy of presynaptic active zones in Drosophila
melanogaster after rapid cryofixation
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: '2023'
...
---
_id: '12566'
abstract:
- lang: eng
text: "Approximate agreement is one of the few variants of consensus that can be
solved in a wait-free manner in asynchronous systems where processes communicate
by reading and writing to shared memory. In this work, we consider a natural generalisation
of approximate agreement on arbitrary undirected connected graphs. Each process
is given a node of the graph as input and, if non-faulty, must output a node such
that\r\n– all the outputs are within distance 1 of one another, and\r\n– each
output value lies on a shortest path between two input values.\r\nFrom prior work,
it is known that there is no wait-free algorithm among processes for this problem
on any cycle of length , by reduction from 2-set agreement (Castañeda et al.,
2018).\r\n\r\nIn this work, we investigate the solvability of this task on general
graphs. We give a new, direct proof of the impossibility of approximate agreement
on cycles of length , via a generalisation of Sperner's Lemma to convex polygons.
We also extend the reduction from 2-set agreement to a larger class of graphs,
showing that approximate agreement on these graphs is unsolvable. On the positive
side, we present a wait-free algorithm for a different class of graphs, which
properly contains the class of chordal graphs."
acknowledgement: This project has received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation programme
(grant agreement No. 805223 ScaleML) and under the Marie Skłodowska-Curie grant
agreement No. 840605 and from the Natural Sciences and Engineering Research Council
of Canada grant RGPIN-2020-04178. Part of this work was done while Faith Ellen was
visiting IST Austria.
article_number: '113733'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
- first_name: Faith
full_name: Ellen, Faith
last_name: Ellen
- first_name: Joel
full_name: Rybicki, Joel
id: 334EFD2E-F248-11E8-B48F-1D18A9856A87
last_name: Rybicki
orcid: 0000-0002-6432-6646
citation:
ama: Alistarh D-A, Ellen F, Rybicki J. Wait-free approximate agreement on graphs.
Theoretical Computer Science. 2023;948(2). doi:10.1016/j.tcs.2023.113733
apa: Alistarh, D.-A., Ellen, F., & Rybicki, J. (2023). Wait-free approximate
agreement on graphs. Theoretical Computer Science. Elsevier. https://doi.org/10.1016/j.tcs.2023.113733
chicago: Alistarh, Dan-Adrian, Faith Ellen, and Joel Rybicki. “Wait-Free Approximate
Agreement on Graphs.” Theoretical Computer Science. Elsevier, 2023. https://doi.org/10.1016/j.tcs.2023.113733.
ieee: D.-A. Alistarh, F. Ellen, and J. Rybicki, “Wait-free approximate agreement
on graphs,” Theoretical Computer Science, vol. 948, no. 2. Elsevier, 2023.
ista: Alistarh D-A, Ellen F, Rybicki J. 2023. Wait-free approximate agreement on
graphs. Theoretical Computer Science. 948(2), 113733.
mla: Alistarh, Dan-Adrian, et al. “Wait-Free Approximate Agreement on Graphs.” Theoretical
Computer Science, vol. 948, no. 2, 113733, Elsevier, 2023, doi:10.1016/j.tcs.2023.113733.
short: D.-A. Alistarh, F. Ellen, J. Rybicki, Theoretical Computer Science 948 (2023).
date_created: 2023-02-19T23:00:55Z
date_published: 2023-02-28T00:00:00Z
date_updated: 2023-08-01T13:17:20Z
day: '28'
ddc:
- '000'
department:
- _id: DaAl
doi: 10.1016/j.tcs.2023.113733
ec_funded: 1
external_id:
isi:
- '000934262700001'
file:
- access_level: open_access
checksum: b27c5290f2f1500c403494364ee39c9f
content_type: application/pdf
creator: dernst
date_created: 2023-02-20T07:30:20Z
date_updated: 2023-02-20T07:30:20Z
file_id: '12570'
file_name: 2023_TheoreticalCompScience_Alistarh.pdf
file_size: 602333
relation: main_file
success: 1
file_date_updated: 2023-02-20T07:30:20Z
has_accepted_license: '1'
intvolume: ' 948'
isi: 1
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 268A44D6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '805223'
name: Elastic Coordination for Scalable Machine Learning
- _id: 26A5D39A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '840605'
name: Coordination in constrained and natural distributed systems
publication: Theoretical Computer Science
publication_identifier:
issn:
- 0304-3975
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Wait-free approximate agreement on graphs
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: 948
year: '2023'
...
---
_id: '12681'
abstract:
- lang: eng
text: The dissolution of minute concentration of polymers in wall-bounded flows
is well-known for its unparalleled ability to reduce turbulent friction drag.
Another phenomenon, elasto-inertial turbulence (EIT), has been far less studied
even though elastic instabilities have already been observed in dilute polymer
solutions before the discovery of polymer drag reduction. EIT is a chaotic state
driven by polymer dynamics that is observed across many orders of magnitude in
Reynolds number. It involves energy transfer from small elastic scales to large
flow scales. The investigation of the mechanisms of EIT offers the possibility
to better understand other complex phenomena such as elastic turbulence and maximum
drag reduction. In this review, we survey recent research efforts that are advancing
the understanding of the dynamics of EIT. We highlight the fundamental differences
between EIT and Newtonian/inertial turbulence from the perspective of experiments,
numerical simulations, instabilities, and coherent structures. Finally, we discuss
the possible links between EIT and elastic turbulence and polymer drag reduction,
as well as the remaining challenges in unraveling the self-sustaining mechanism
of EIT.
acknowledgement: Part of the material presented here is based upon work supported
by the National Science Foundation CBET (Chemical, Bioengineering, Environmental
and Transport Systems) award 1805636 (to Y.D.), the Binational Science Foundation
award 2016145 (to Y.D. and Victor Steinberg), a FRIA (Fund for Research Training
in Industry and Agriculture) grant of the Belgian F.R.S.-FNRS (National Fund for
Scientific Research) (to V.E.T.), the Marie Curie FP7 Career Integration grant PCIG10-GA-2011-304073
(to V.E.T.), and the Fonds spéciaux pour la recherche grant C-13/19 of the University
of Liege (to V.E.T.). Computational resources have been provided by the Consortium
des Équipements de Calcul Intensif (CECI) funded by the Belgian F.R.S.-FNRS, the
Vermont Advanced Computing Center (VACC), the Partnership for Advanced Computing
in Europe (PRACE), and the Tier-1 supercomputer of the Fédération Wallonie-Bruxelles
funded by the Walloon Region (grant agreement 117545).
article_processing_charge: No
article_type: original
author:
- first_name: Yves
full_name: Dubief, Yves
last_name: Dubief
- first_name: Vincent E.
full_name: Terrapon, Vincent E.
last_name: Terrapon
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Dubief Y, Terrapon VE, Hof B. Elasto-inertial turbulence. Annual Review
of Fluid Mechanics. 2023;55(1):675-705. doi:10.1146/annurev-fluid-032822-025933
apa: Dubief, Y., Terrapon, V. E., & Hof, B. (2023). Elasto-inertial turbulence.
Annual Review of Fluid Mechanics. Annual Reviews. https://doi.org/10.1146/annurev-fluid-032822-025933
chicago: Dubief, Yves, Vincent E. Terrapon, and Björn Hof. “Elasto-Inertial Turbulence.”
Annual Review of Fluid Mechanics. Annual Reviews, 2023. https://doi.org/10.1146/annurev-fluid-032822-025933.
ieee: Y. Dubief, V. E. Terrapon, and B. Hof, “Elasto-inertial turbulence,” Annual
Review of Fluid Mechanics, vol. 55, no. 1. Annual Reviews, pp. 675–705, 2023.
ista: Dubief Y, Terrapon VE, Hof B. 2023. Elasto-inertial turbulence. Annual Review
of Fluid Mechanics. 55(1), 675–705.
mla: Dubief, Yves, et al. “Elasto-Inertial Turbulence.” Annual Review of Fluid
Mechanics, vol. 55, no. 1, Annual Reviews, 2023, pp. 675–705, doi:10.1146/annurev-fluid-032822-025933.
short: Y. Dubief, V.E. Terrapon, B. Hof, Annual Review of Fluid Mechanics 55 (2023)
675–705.
date_created: 2023-02-26T23:01:01Z
date_published: 2023-01-19T00:00:00Z
date_updated: 2023-08-01T13:19:47Z
day: '19'
ddc:
- '530'
department:
- _id: BjHo
doi: 10.1146/annurev-fluid-032822-025933
external_id:
isi:
- '000915418100026'
file:
- access_level: open_access
checksum: 2666aa3af2a25252d35eb8681d3edff7
content_type: application/pdf
creator: dernst
date_created: 2023-02-27T09:23:02Z
date_updated: 2023-02-27T09:23:02Z
file_id: '12690'
file_name: 2023_AnnReviewFluidMech_Dubief.pdf
file_size: 4036706
relation: main_file
success: 1
file_date_updated: 2023-02-27T09:23:02Z
has_accepted_license: '1'
intvolume: ' 55'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 675-705
publication: Annual Review of Fluid Mechanics
publication_identifier:
eissn:
- 1545-4479
issn:
- 0066-4189
publication_status: published
publisher: Annual Reviews
quality_controlled: '1'
scopus_import: '1'
status: public
title: Elasto-inertial turbulence
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: 55
year: '2023'
...
---
_id: '12682'
abstract:
- lang: eng
text: 'Since the seminal studies by Osborne Reynolds in the nineteenth century,
pipe flow has served as a primary prototype for investigating the transition to
turbulence in wall-bounded flows. Despite the apparent simplicity of this flow,
various facets of this problem have occupied researchers for more than a century.
Here we review insights from three distinct perspectives: (a) stability and susceptibility
of laminar flow, (b) phase transition and spatiotemporal dynamics, and (c) dynamical
systems analysis of the Navier—Stokes equations. We show how these perspectives
have led to a profound understanding of the onset of turbulence in pipe flow.
Outstanding open points, applications to flows of complex fluids, and similarities
with other wall-bounded flows are discussed.'
acknowledgement: 'The authors are very grateful to Laurette Tuckerman for her helpful
comments. This work was supported by grants from the Simons Foundation (grant numbers
662985, D.B., and 662960, B.H.) and the Priority Programme “SPP 1881: Turbulent
Superstructures” of the Deutsche Forschungsgemeinschaft (grant number AV120/3-2
to M.A.).'
article_processing_charge: No
article_type: original
author:
- first_name: Marc
full_name: Avila, Marc
last_name: Avila
- first_name: Dwight
full_name: Barkley, Dwight
last_name: Barkley
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Avila M, Barkley D, Hof B. Transition to turbulence in pipe flow. Annual
Review of Fluid Mechanics. 2023;55:575-602. doi:10.1146/annurev-fluid-120720-025957
apa: Avila, M., Barkley, D., & Hof, B. (2023). Transition to turbulence in pipe
flow. Annual Review of Fluid Mechanics. Annual Reviews. https://doi.org/10.1146/annurev-fluid-120720-025957
chicago: Avila, Marc, Dwight Barkley, and Björn Hof. “Transition to Turbulence in
Pipe Flow.” Annual Review of Fluid Mechanics. Annual Reviews, 2023. https://doi.org/10.1146/annurev-fluid-120720-025957.
ieee: M. Avila, D. Barkley, and B. Hof, “Transition to turbulence in pipe flow,”
Annual Review of Fluid Mechanics, vol. 55. Annual Reviews, pp. 575–602,
2023.
ista: Avila M, Barkley D, Hof B. 2023. Transition to turbulence in pipe flow. Annual
Review of Fluid Mechanics. 55, 575–602.
mla: Avila, Marc, et al. “Transition to Turbulence in Pipe Flow.” Annual Review
of Fluid Mechanics, vol. 55, Annual Reviews, 2023, pp. 575–602, doi:10.1146/annurev-fluid-120720-025957.
short: M. Avila, D. Barkley, B. Hof, Annual Review of Fluid Mechanics 55 (2023)
575–602.
date_created: 2023-02-26T23:01:01Z
date_published: 2023-01-19T00:00:00Z
date_updated: 2023-08-01T13:20:30Z
day: '19'
ddc:
- '530'
department:
- _id: BjHo
doi: 10.1146/annurev-fluid-120720-025957
external_id:
isi:
- '000915418100023'
file:
- access_level: open_access
checksum: f99ef30f76cabc9e5e1946b380c16db4
content_type: application/pdf
creator: dernst
date_created: 2023-02-27T09:35:52Z
date_updated: 2023-02-27T09:35:52Z
file_id: '12691'
file_name: 2023_AnnReviewFluidMech_Avila.pdf
file_size: 4769537
relation: main_file
success: 1
file_date_updated: 2023-02-27T09:35:52Z
has_accepted_license: '1'
intvolume: ' 55'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 575-602
project:
- _id: 238598C6-32DE-11EA-91FC-C7463DDC885E
grant_number: '662960'
name: 'Revisiting the Turbulence Problem Using Statistical Mechanics: Experimental
Studies on Transitional and Turbulent Flows'
publication: Annual Review of Fluid Mechanics
publication_identifier:
issn:
- 0066-4189
publication_status: published
publisher: Annual Reviews
quality_controlled: '1'
scopus_import: '1'
status: public
title: Transition to turbulence in pipe flow
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: 55
year: '2023'
...
---
_id: '12708'
abstract:
- lang: eng
text: Self-organisation is the spontaneous emergence of spatio-temporal structures
and patterns from the interaction of smaller individual units. Examples are found
across many scales in very different systems and scientific disciplines, from
physics, materials science and robotics to biology, geophysics and astronomy.
Recent research has highlighted how self-organisation can be both mediated and
controlled by confinement. Confinement is an action over a system that limits
its units’ translational and rotational degrees of freedom, thus also influencing
the system's phase space probability density; it can function as either a catalyst
or inhibitor of self-organisation. Confinement can then become a means to actively
steer the emergence or suppression of collective phenomena in space and time.
Here, to provide a common framework and perspective for future research, we examine
the role of confinement in the self-organisation of soft-matter systems and identify
overarching scientific challenges that need to be addressed to harness its full
scientific and technological potential in soft matter and related fields. By drawing
analogies with other disciplines, this framework will accelerate a common deeper
understanding of self-organisation and trigger the development of innovative strategies
to steer it using confinement, with impact on, e.g., the design of smarter materials,
tissue engineering for biomedicine and in guiding active matter.
acknowledgement: 'All authors are grateful to the Lorentz Center for providing a venue
for stimulating scientific discussions and to sponsor a workshop on the topic of
“Self-organisation under confinement” along with the 4TU Federation, the J. M. Burgers
Center for Fluid Dynamics and the MESA+ Institute for Nanotechnology at the University
of Twente. The authors are also grateful to Paolo Malgaretti, Federico Toschi, Twan
Wilting and Jaap den Toonder for valuable feedback. N. A. acknowledges financial
support from the Portuguese Foundation for Science and Technology (FCT) under Contracts
no. PTDC/FIS-MAC/28146/2017 (LISBOA-01-0145-FEDER-028146), UIDB/00618/2020, and
UIDP/00618/2020. L. M. C. J. acknowledges financial support from the Netherlands
Organisation for Scientific Research (NWO) through a START-UP, Physics Projectruimte,
and Vidi grant. I. C. was supported in part by a grant from by the Army Research
Office (ARO W911NF-18-1-0032) and the Cornell Center for Materials Research (DMR-1719875).
O. D. acknowledges funding by the Agence Nationale pour la Recherche under Grant
No ANR-18-CE33-0006 MSR. M. D. acknowledges financial support from the European
Research Council (Grant No. ERC-2019-ADV-H2020 884902 SoftML). W. M. D. acknowledges
funding from a BBSRC New Investigator Grant (BB/R018383/1). S. G. was supported
by DARPA Young Faculty Award # D19AP00046, and NSF IIS grant # 1955210. H. G. acknowledges
financial support from the Netherlands Organisation for Scientific Research (NWO)
through Veni Grant No. 680-47-451. R. G. acknowledges support from the Max Planck
School Matter to Life and the MaxSynBio Consortium, which are jointly funded by
the Federal Ministry of Education and Research (BMBF) of Germany, and the Max Planck
Society. L. I. acknowledges funding from the Horizon Europe ERC Consolidator Grant
ACTIVE_ ADAPTIVE (Grant No. 101001514). G. H. K. gratefully acknowledges the NWO
Talent Programme which is financed by the Dutch Research Council (project number
VI.C.182.004). H. L. and N. V. acknowledge funding from the Deutsche Forschungsgemeinschaft
(DFG) under grant numbers VO 1824/8-1 and LO 418/22-1. R. M. acknowledges funding
from the Deutsche Forschungsgemeinschaft (DFG) under grant number ME 1535/13-1 and
ME 1535/16-1. M. P. acknowledges funding from the Ramón y Cajal Program, grant no.
RYC-2018-02534, and the Leverhulme Trust, grant no. RPG-2018-345. A. Š. acknowledges
financial support from the European Research Council (Grant No. ERC-2018-STG-H2020
802960 NEPA). A. S. acknowledges funding from an ATTRACT Investigator Grant (No.
A17/MS/11572821/MBRACE) from the Luxembourg National Research Fund. C. S. acknowledges
funding from the French Agence Nationale pour la Recherche (ANR), grant ANR-14-CE090006
and ANR-12-BSV5001401, by the Fondation pour la Recherche Médicale (FRM), grant
DEQ20120323737, and from the PIC3I of Institut Curie, France. I. T. acknowledges
funding from grant IED2019-00058I/AEI/10.13039/501100011033. M. P. and I. T. also
acknowledge funding from grant PID2019-104232B-I00/AEI/10.13039/501100011033 and
from the H2020 MSCA ITN PHYMOT (Grant agreement No 95591). I. Z. acknowledges funding
from Project PID2020-114839GB-I00 MINECO/AEI/FEDER, UE. A. M. acknowledges funding
from the European Research Council, Starting Grant No. 678573 NanoPacks. G. V. acknowledges
sponsorship for this work by the US Office of Naval Research Global (Award No. N62909-18-1-2170).'
article_processing_charge: No
article_type: original
author:
- first_name: Nuno A.M.
full_name: Araújo, Nuno A.M.
last_name: Araújo
- first_name: Liesbeth M.C.
full_name: Janssen, Liesbeth M.C.
last_name: Janssen
- first_name: Thomas
full_name: Barois, Thomas
last_name: Barois
- first_name: Guido
full_name: Boffetta, Guido
last_name: Boffetta
- first_name: Itai
full_name: Cohen, Itai
last_name: Cohen
- first_name: Alessandro
full_name: Corbetta, Alessandro
last_name: Corbetta
- first_name: Olivier
full_name: Dauchot, Olivier
last_name: Dauchot
- first_name: Marjolein
full_name: Dijkstra, Marjolein
last_name: Dijkstra
- first_name: William M.
full_name: Durham, William M.
last_name: Durham
- first_name: Audrey
full_name: Dussutour, Audrey
last_name: Dussutour
- first_name: Simon
full_name: Garnier, Simon
last_name: Garnier
- first_name: Hanneke
full_name: Gelderblom, Hanneke
last_name: Gelderblom
- first_name: Ramin
full_name: Golestanian, Ramin
last_name: Golestanian
- first_name: Lucio
full_name: Isa, Lucio
last_name: Isa
- first_name: Gijsje H.
full_name: Koenderink, Gijsje H.
last_name: Koenderink
- first_name: Hartmut
full_name: Löwen, Hartmut
last_name: Löwen
- first_name: Ralf
full_name: Metzler, Ralf
last_name: Metzler
- first_name: Marco
full_name: Polin, Marco
last_name: Polin
- first_name: C. Patrick
full_name: Royall, C. Patrick
last_name: Royall
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
- first_name: Anupam
full_name: Sengupta, Anupam
last_name: Sengupta
- first_name: Cécile
full_name: Sykes, Cécile
last_name: Sykes
- first_name: Vito
full_name: Trianni, Vito
last_name: Trianni
- first_name: Idan
full_name: Tuval, Idan
last_name: Tuval
- first_name: Nicolas
full_name: Vogel, Nicolas
last_name: Vogel
- first_name: Julia M.
full_name: Yeomans, Julia M.
last_name: Yeomans
- first_name: Iker
full_name: Zuriguel, Iker
last_name: Zuriguel
- first_name: Alvaro
full_name: Marin, Alvaro
last_name: Marin
- first_name: Giorgio
full_name: Volpe, Giorgio
last_name: Volpe
citation:
ama: Araújo NAM, Janssen LMC, Barois T, et al. Steering self-organisation through
confinement. Soft Matter. 2023;19:1695-1704. doi:10.1039/d2sm01562e
apa: Araújo, N. A. M., Janssen, L. M. C., Barois, T., Boffetta, G., Cohen, I., Corbetta,
A., … Volpe, G. (2023). Steering self-organisation through confinement. Soft
Matter. Royal Society of Chemistry. https://doi.org/10.1039/d2sm01562e
chicago: Araújo, Nuno A.M., Liesbeth M.C. Janssen, Thomas Barois, Guido Boffetta,
Itai Cohen, Alessandro Corbetta, Olivier Dauchot, et al. “Steering Self-Organisation
through Confinement.” Soft Matter. Royal Society of Chemistry, 2023. https://doi.org/10.1039/d2sm01562e.
ieee: N. A. M. Araújo et al., “Steering self-organisation through confinement,”
Soft Matter, vol. 19. Royal Society of Chemistry, pp. 1695–1704, 2023.
ista: Araújo NAM, Janssen LMC, Barois T, Boffetta G, Cohen I, Corbetta A, Dauchot
O, Dijkstra M, Durham WM, Dussutour A, Garnier S, Gelderblom H, Golestanian R,
Isa L, Koenderink GH, Löwen H, Metzler R, Polin M, Royall CP, Šarić A, Sengupta
A, Sykes C, Trianni V, Tuval I, Vogel N, Yeomans JM, Zuriguel I, Marin A, Volpe
G. 2023. Steering self-organisation through confinement. Soft Matter. 19, 1695–1704.
mla: Araújo, Nuno A. M., et al. “Steering Self-Organisation through Confinement.”
Soft Matter, vol. 19, Royal Society of Chemistry, 2023, pp. 1695–704, doi:10.1039/d2sm01562e.
short: N.A.M. Araújo, L.M.C. Janssen, T. Barois, G. Boffetta, I. Cohen, A. Corbetta,
O. Dauchot, M. Dijkstra, W.M. Durham, A. Dussutour, S. Garnier, H. Gelderblom,
R. Golestanian, L. Isa, G.H. Koenderink, H. Löwen, R. Metzler, M. Polin, C.P.
Royall, A. Šarić, A. Sengupta, C. Sykes, V. Trianni, I. Tuval, N. Vogel, J.M.
Yeomans, I. Zuriguel, A. Marin, G. Volpe, Soft Matter 19 (2023) 1695–1704.
date_created: 2023-03-05T23:01:06Z
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title: Steering self-organisation through confinement
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