---
_id: '9240'
abstract:
- lang: eng
text: A stochastic PDE, describing mesoscopic fluctuations in systems of weakly
interacting inertial particles of finite volume, is proposed and analysed in any
finite dimension . It is a regularised and inertial version of the Dean–Kawasaki
model. A high-probability well-posedness theory for this model is developed. This
theory improves significantly on the spatial scaling restrictions imposed in an
earlier work of the same authors, which applied only to significantly larger particles
in one dimension. The well-posedness theory now applies in d-dimensions when the
particle-width ϵ is proportional to for and N is the number of particles. This
scaling is optimal in a certain Sobolev norm. Key tools of the analysis are fractional
Sobolev spaces, sharp bounds on Bessel functions, separability of the regularisation
in the d-spatial dimensions, and use of the Faà di Bruno's formula.
acknowledgement: All authors thank the anonymous referee for his/her careful reading
of the manuscript and valuable suggestions. This paper was motivated by stimulating
discussions at the First Berlin–Leipzig Workshop on Fluctuating Hydrodynamics in
August 2019 with Ana Djurdjevac, Rupert Klein and Ralf Kornhuber. JZ gratefully
acknowledges funding by a Royal Society Wolfson Research Merit Award. FC gratefully
acknowledges funding from the European Union’s Horizon 2020 research and innovation
programme under the Marie Skłodowska-Curie grant agreement No. 754411.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Federico
full_name: Cornalba, Federico
id: 2CEB641C-A400-11E9-A717-D712E6697425
last_name: Cornalba
orcid: 0000-0002-6269-5149
- first_name: Tony
full_name: Shardlow, Tony
last_name: Shardlow
- first_name: Johannes
full_name: Zimmer, Johannes
last_name: Zimmer
citation:
ama: Cornalba F, Shardlow T, Zimmer J. Well-posedness for a regularised inertial
Dean–Kawasaki model for slender particles in several space dimensions. Journal
of Differential Equations. 2021;284(5):253-283. doi:10.1016/j.jde.2021.02.048
apa: Cornalba, F., Shardlow, T., & Zimmer, J. (2021). Well-posedness for a regularised
inertial Dean–Kawasaki model for slender particles in several space dimensions.
Journal of Differential Equations. Elsevier. https://doi.org/10.1016/j.jde.2021.02.048
chicago: Cornalba, Federico, Tony Shardlow, and Johannes Zimmer. “Well-Posedness
for a Regularised Inertial Dean–Kawasaki Model for Slender Particles in Several
Space Dimensions.” Journal of Differential Equations. Elsevier, 2021. https://doi.org/10.1016/j.jde.2021.02.048.
ieee: F. Cornalba, T. Shardlow, and J. Zimmer, “Well-posedness for a regularised
inertial Dean–Kawasaki model for slender particles in several space dimensions,”
Journal of Differential Equations, vol. 284, no. 5. Elsevier, pp. 253–283,
2021.
ista: Cornalba F, Shardlow T, Zimmer J. 2021. Well-posedness for a regularised inertial
Dean–Kawasaki model for slender particles in several space dimensions. Journal
of Differential Equations. 284(5), 253–283.
mla: Cornalba, Federico, et al. “Well-Posedness for a Regularised Inertial Dean–Kawasaki
Model for Slender Particles in Several Space Dimensions.” Journal of Differential
Equations, vol. 284, no. 5, Elsevier, 2021, pp. 253–83, doi:10.1016/j.jde.2021.02.048.
short: F. Cornalba, T. Shardlow, J. Zimmer, Journal of Differential Equations 284
(2021) 253–283.
date_created: 2021-03-14T23:01:32Z
date_published: 2021-05-25T00:00:00Z
date_updated: 2025-04-14T07:43:51Z
day: '25'
ddc:
- '510'
department:
- _id: JuFi
doi: 10.1016/j.jde.2021.02.048
ec_funded: 1
external_id:
isi:
- '000634823300010'
file:
- access_level: open_access
checksum: c630b691fb9e716b02aa6103a9794ec8
content_type: application/pdf
creator: dernst
date_created: 2021-03-22T07:18:01Z
date_updated: 2021-03-22T07:18:01Z
file_id: '9267'
file_name: 2021_JourDiffEquations_Cornalba.pdf
file_size: 473310
relation: main_file
success: 1
file_date_updated: 2021-03-22T07:18:01Z
has_accepted_license: '1'
intvolume: ' 284'
isi: 1
issue: '5'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '05'
oa: 1
oa_version: Published Version
page: 253-283
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Journal of Differential Equations
publication_identifier:
eissn:
- 1090-2732
issn:
- 0022-0396
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Well-posedness for a regularised inertial Dean–Kawasaki model for slender particles
in several space dimensions
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: 284
year: '2021'
...
---
_id: '9241'
abstract:
- lang: eng
text: 'Volumetric light transport is a pervasive physical phenomenon, and therefore
its accurate simulation is important for a broad array of disciplines. While suitable
mathematical models for computing the transport are now available, obtaining the
necessary material parameters needed to drive such simulations is a challenging
task: direct measurements of these parameters from material samples are seldom
possible. Building on the inverse scattering paradigm, we present a novel measurement
approach which indirectly infers the transport parameters from extrinsic observations
of multiple-scattered radiance. The novelty of the proposed approach lies in replacing
structured illumination with a structured reflector bonded to the sample, and
a robust fitting procedure that largely compensates for potential systematic errors
in the calibration of the setup. We show the feasibility of our approach by validating
simulations of complex 3D compositions of the measured materials against physical
prints, using photo-polymer resins. As presented in this paper, our technique
yields colorspace data suitable for accurate appearance reproduction in the area
of 3D printing. Beyond that, and without fundamental changes to the basic measurement
methodology, it could equally well be used to obtain spectral measurements that
are useful for other application areas.'
acknowledgement: "H2020 Marie Skłodowska-Curie Actions (642841); European Research
Council (715767); Grantová Agentura České Republiky (16-08111S, 16-18964S); Univerzita
Karlova v Praze (SVV-2017-260452); Engineering and Physical Sciences Research Council
(EP/K023578/1).\r\nWe are grateful to Stratasys Ltd. for access to the voxel-level
print interface of the J750\r\nmachine."
article_processing_charge: No
article_type: original
author:
- first_name: Oskar
full_name: Elek, Oskar
last_name: Elek
- first_name: Ran
full_name: Zhang, Ran
id: 4DDBCEB0-F248-11E8-B48F-1D18A9856A87
last_name: Zhang
orcid: 0000-0002-3808-281X
- first_name: Denis
full_name: Sumin, Denis
last_name: Sumin
- first_name: Karol
full_name: Myszkowski, Karol
last_name: Myszkowski
- first_name: Bernd
full_name: Bickel, Bernd
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Alexander
full_name: Wilkie, Alexander
last_name: Wilkie
- first_name: Jaroslav
full_name: Křivánek, Jaroslav
last_name: Křivánek
- first_name: Tim
full_name: Weyrich, Tim
last_name: Weyrich
citation:
ama: Elek O, Zhang R, Sumin D, et al. Robust and practical measurement of volume
transport parameters in solid photo-polymer materials for 3D printing. Optics
Express. 2021;29(5):7568-7588. doi:10.1364/OE.406095
apa: Elek, O., Zhang, R., Sumin, D., Myszkowski, K., Bickel, B., Wilkie, A., … Weyrich,
T. (2021). Robust and practical measurement of volume transport parameters in
solid photo-polymer materials for 3D printing. Optics Express. The Optical
Society. https://doi.org/10.1364/OE.406095
chicago: Elek, Oskar, Ran Zhang, Denis Sumin, Karol Myszkowski, Bernd Bickel, Alexander
Wilkie, Jaroslav Křivánek, and Tim Weyrich. “Robust and Practical Measurement
of Volume Transport Parameters in Solid Photo-Polymer Materials for 3D Printing.”
Optics Express. The Optical Society, 2021. https://doi.org/10.1364/OE.406095.
ieee: O. Elek et al., “Robust and practical measurement of volume transport
parameters in solid photo-polymer materials for 3D printing,” Optics Express,
vol. 29, no. 5. The Optical Society, pp. 7568–7588, 2021.
ista: Elek O, Zhang R, Sumin D, Myszkowski K, Bickel B, Wilkie A, Křivánek J, Weyrich
T. 2021. Robust and practical measurement of volume transport parameters in solid
photo-polymer materials for 3D printing. Optics Express. 29(5), 7568–7588.
mla: Elek, Oskar, et al. “Robust and Practical Measurement of Volume Transport Parameters
in Solid Photo-Polymer Materials for 3D Printing.” Optics Express, vol.
29, no. 5, The Optical Society, 2021, pp. 7568–88, doi:10.1364/OE.406095.
short: O. Elek, R. Zhang, D. Sumin, K. Myszkowski, B. Bickel, A. Wilkie, J. Křivánek,
T. Weyrich, Optics Express 29 (2021) 7568–7588.
date_created: 2021-03-14T23:01:33Z
date_published: 2021-03-01T00:00:00Z
date_updated: 2025-03-31T15:58:16Z
day: '01'
ddc:
- '000'
department:
- _id: BeBi
doi: 10.1364/OE.406095
ec_funded: 1
external_id:
isi:
- '000624968100103'
file:
- access_level: open_access
checksum: a9697ad83136c19ad87e46aa2db63cfd
content_type: application/pdf
creator: dernst
date_created: 2021-03-22T08:15:28Z
date_updated: 2021-03-22T08:15:28Z
file_id: '9269'
file_name: 2021_OpticsExpress_Elek.pdf
file_size: 10873700
relation: main_file
success: 1
file_date_updated: 2021-03-22T08:15:28Z
has_accepted_license: '1'
intvolume: ' 29'
isi: 1
issue: '5'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 7568-7588
project:
- _id: 2508E324-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '642841'
name: Distributed 3D Object Design
- _id: 24F9549A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715767'
name: 'MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and
Modeling'
publication: Optics Express
publication_identifier:
eissn:
- 1094-4087
publication_status: published
publisher: The Optical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Robust and practical measurement of volume transport parameters in solid photo-polymer
materials for 3D printing
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: 29
year: '2021'
...
---
_id: '9242'
abstract:
- lang: eng
text: In the recent years important experimental advances in resonant electro-optic
modulators as high-efficiency sources for coherent frequency combs and as devices
for quantum information transfer have been realized, where strong optical and
microwave mode coupling were achieved. These features suggest electro-optic-based
devices as candidates for entangled optical frequency comb sources. In the present
work, I study the generation of entangled optical frequency combs in millimeter-sized
resonant electro-optic modulators. These devices profit from the experimentally
proven advantages such as nearly constant optical free spectral ranges over several
gigahertz, and high optical and microwave quality factors. The generation of frequency
multiplexed quantum channels with spectral bandwidth in the MHz range for conservative
parameter values paves the way towards novel uses in long-distance hybrid quantum
networks, quantum key distribution, enhanced optical metrology, and quantum computing.
acknowledgement: "I thank Prof. Shabir Barzanjeh and Dr. Ulrich Vogl for the fruitful
discussions.\r\n"
article_number: '023708'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Alfredo R
full_name: Rueda Sanchez, Alfredo R
id: 3B82B0F8-F248-11E8-B48F-1D18A9856A87
last_name: Rueda Sanchez
orcid: 0000-0001-6249-5860
citation:
ama: Rueda Sanchez AR. Frequency-multiplexed hybrid optical entangled source based
on the Pockels effect. Physical Review A. 2021;103(2). doi:10.1103/PhysRevA.103.023708
apa: Rueda Sanchez, A. R. (2021). Frequency-multiplexed hybrid optical entangled
source based on the Pockels effect. Physical Review A. American Physical
Society. https://doi.org/10.1103/PhysRevA.103.023708
chicago: Rueda Sanchez, Alfredo R. “Frequency-Multiplexed Hybrid Optical Entangled
Source Based on the Pockels Effect.” Physical Review A. American Physical
Society, 2021. https://doi.org/10.1103/PhysRevA.103.023708.
ieee: A. R. Rueda Sanchez, “Frequency-multiplexed hybrid optical entangled source
based on the Pockels effect,” Physical Review A, vol. 103, no. 2. American
Physical Society, 2021.
ista: Rueda Sanchez AR. 2021. Frequency-multiplexed hybrid optical entangled source
based on the Pockels effect. Physical Review A. 103(2), 023708.
mla: Rueda Sanchez, Alfredo R. “Frequency-Multiplexed Hybrid Optical Entangled Source
Based on the Pockels Effect.” Physical Review A, vol. 103, no. 2, 023708,
American Physical Society, 2021, doi:10.1103/PhysRevA.103.023708.
short: A.R. Rueda Sanchez, Physical Review A 103 (2021).
date_created: 2021-03-14T23:01:33Z
date_published: 2021-02-11T00:00:00Z
date_updated: 2023-08-07T14:11:18Z
day: '11'
department:
- _id: JoFi
doi: 10.1103/PhysRevA.103.023708
external_id:
arxiv:
- '2010.05356'
isi:
- '000617037900013'
intvolume: ' 103'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2010.05356
month: '02'
oa: 1
oa_version: Preprint
publication: Physical Review A
publication_identifier:
eissn:
- 2469-9934
issn:
- 2469-9926
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Frequency-multiplexed hybrid optical entangled source based on the Pockels
effect
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 103
year: '2021'
...
---
_id: '9243'
abstract:
- lang: eng
text: Peptidoglycan is an essential component of the bacterial cell envelope that
surrounds the cytoplasmic membrane to protect the cell from osmotic lysis. Important
antibiotics such as β-lactams and glycopeptides target peptidoglycan biosynthesis.
Class A penicillin-binding proteins (PBPs) are bifunctional membrane-bound peptidoglycan
synthases that polymerize glycan chains and connect adjacent stem peptides by
transpeptidation. How these enzymes work in their physiological membrane environment
is poorly understood. Here, we developed a novel Förster resonance energy transfer-based
assay to follow in real time both reactions of class A PBPs reconstituted in liposomes
or supported lipid bilayers and applied this assay with PBP1B homologues from
Escherichia coli, Pseudomonas aeruginosa, and Acinetobacter baumannii in the presence
or absence of their cognate lipoprotein activator. Our assay will allow unravelling
the mechanisms of peptidoglycan synthesis in a lipid-bilayer environment and can
be further developed to be used for high-throughput screening for new antimicrobials.
acknowledgement: 'We thank Alexander Egan (Newcastle University) for purified proteins
LpoB(sol) and LpoPPa(sol), Federico Corona (Newcastle University) for purified MepM,
and Oliver Birkholz and Jacob Piehler (Department of Biology and Center of Cellular
Nanoanalytics, University of Osnabru¨ ck) for their help with PBP1B reconstitution
into polymer-SLBs and initial guidance on single particle tracking. We also acknowledge
Christian P Richter and Changjiang You (Department of Biology and Center of Cellular
Nanoanalytics, University of Osnabru¨ ck) for providing SLIMfast software and tris-DODA-NTA
reagent, respectively. This work was funded by the BBSRC grant BB/R017409/1 (to
WV), the European Research Council through grant ERC-2015-StG-679239 (to ML), and
long-term fellowships HFSP LT 000824/2016-L4 and EMBO ALTF 1163–2015 (to NB). '
article_number: 1-32
article_processing_charge: No
article_type: original
author:
- first_name: Víctor M.
full_name: Hernández-Rocamora, Víctor M.
last_name: Hernández-Rocamora
- first_name: Natalia S.
full_name: Baranova, Natalia S.
id: 38661662-F248-11E8-B48F-1D18A9856A87
last_name: Baranova
orcid: 0000-0002-3086-9124
- first_name: Katharina
full_name: Peters, Katharina
last_name: Peters
- first_name: Eefjan
full_name: Breukink, Eefjan
last_name: Breukink
- first_name: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
- first_name: Waldemar
full_name: Vollmer, Waldemar
last_name: Vollmer
citation:
ama: Hernández-Rocamora VM, Baranova NS, Peters K, Breukink E, Loose M, Vollmer
W. Real time monitoring of peptidoglycan synthesis by membrane-reconstituted penicillin
binding proteins. eLife. 2021;10. doi:10.7554/eLife.61525
apa: Hernández-Rocamora, V. M., Baranova, N. S., Peters, K., Breukink, E., Loose,
M., & Vollmer, W. (2021). Real time monitoring of peptidoglycan synthesis
by membrane-reconstituted penicillin binding proteins. ELife. eLife Sciences
Publications. https://doi.org/10.7554/eLife.61525
chicago: Hernández-Rocamora, Víctor M., Natalia S. Baranova, Katharina Peters, Eefjan
Breukink, Martin Loose, and Waldemar Vollmer. “Real Time Monitoring of Peptidoglycan
Synthesis by Membrane-Reconstituted Penicillin Binding Proteins.” ELife.
eLife Sciences Publications, 2021. https://doi.org/10.7554/eLife.61525.
ieee: V. M. Hernández-Rocamora, N. S. Baranova, K. Peters, E. Breukink, M. Loose,
and W. Vollmer, “Real time monitoring of peptidoglycan synthesis by membrane-reconstituted
penicillin binding proteins,” eLife, vol. 10. eLife Sciences Publications,
2021.
ista: Hernández-Rocamora VM, Baranova NS, Peters K, Breukink E, Loose M, Vollmer
W. 2021. Real time monitoring of peptidoglycan synthesis by membrane-reconstituted
penicillin binding proteins. eLife. 10, 1–32.
mla: Hernández-Rocamora, Víctor M., et al. “Real Time Monitoring of Peptidoglycan
Synthesis by Membrane-Reconstituted Penicillin Binding Proteins.” ELife,
vol. 10, 1–32, eLife Sciences Publications, 2021, doi:10.7554/eLife.61525.
short: V.M. Hernández-Rocamora, N.S. Baranova, K. Peters, E. Breukink, M. Loose,
W. Vollmer, ELife 10 (2021).
date_created: 2021-03-14T23:01:33Z
date_published: 2021-02-24T00:00:00Z
date_updated: 2024-10-22T10:04:21Z
day: '24'
ddc:
- '570'
department:
- _id: MaLo
doi: 10.7554/eLife.61525
ec_funded: 1
external_id:
isi:
- '000627596400001'
file:
- access_level: open_access
checksum: 79897a09bfecd9914d39c4aea2841855
content_type: application/pdf
creator: dernst
date_created: 2021-03-22T07:36:08Z
date_updated: 2021-03-22T07:36:08Z
file_id: '9268'
file_name: 2021_eLife_HernandezRocamora.pdf
file_size: 2314698
relation: main_file
success: 1
file_date_updated: 2021-03-22T07:36:08Z
has_accepted_license: '1'
intvolume: ' 10'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 2595697A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '679239'
name: Self-Organization of the Bacterial Cell
- _id: 2596EAB6-B435-11E9-9278-68D0E5697425
grant_number: ALTF 2015-1163
name: Synthesis of bacterial cell wall
- _id: 259B655A-B435-11E9-9278-68D0E5697425
grant_number: LT000824/2016
name: Reconstitution of bacterial cell wall synthesis
publication: eLife
publication_identifier:
eissn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: Real time monitoring of peptidoglycan synthesis by membrane-reconstituted penicillin
binding proteins
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: 10
year: '2021'
...
---
_id: '9245'
abstract:
- lang: eng
text: Tissue morphogenesis is driven by mechanical forces triggering cell movements
and shape changes. Quantitatively measuring tension within tissues is of great
importance for understanding the role of mechanical signals acting on the cell
and tissue level during morphogenesis. Here we introduce laser ablation as a useful
tool to probe tissue tension within the granulosa layer, an epithelial monolayer
of somatic cells that surround the zebrafish female gamete during folliculogenesis.
We describe in detail how to isolate follicles, mount samples, perform laser surgery,
and analyze the data.
acknowledged_ssus:
- _id: Bio
- _id: PreCl
acknowledgement: We thank Prof. Masazumi Tada and Roland Dosch for providing transgenic
zebrafish lines, the Heisenberg lab for technical assistance and feedback on the
manuscript, and the Bioimaging and Fish facilities of IST Austria for continuous
support. This work was funded by an ERC advanced grant (MECSPEC to C.-P.H.).
alternative_title:
- Methods in Molecular Biology
article_processing_charge: No
author:
- first_name: Peng
full_name: Xia, Peng
id: 4AB6C7D0-F248-11E8-B48F-1D18A9856A87
last_name: Xia
orcid: 0000-0002-5419-7756
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: 'Xia P, Heisenberg C-PJ. Quantifying tissue tension in the granulosa layer
after laser surgery. In: Dosch R, ed. Germline Development in the Zebrafish.
Vol 2218. Humana; 2021:117-128. doi:10.1007/978-1-0716-0970-5_10'
apa: Xia, P., & Heisenberg, C.-P. J. (2021). Quantifying tissue tension in the
granulosa layer after laser surgery. In R. Dosch (Ed.), Germline Development
in the Zebrafish (Vol. 2218, pp. 117–128). Humana. https://doi.org/10.1007/978-1-0716-0970-5_10
chicago: Xia, Peng, and Carl-Philipp J Heisenberg. “Quantifying Tissue Tension in
the Granulosa Layer after Laser Surgery.” In Germline Development in the Zebrafish,
edited by Roland Dosch, 2218:117–28. Humana, 2021. https://doi.org/10.1007/978-1-0716-0970-5_10.
ieee: P. Xia and C.-P. J. Heisenberg, “Quantifying tissue tension in the granulosa
layer after laser surgery,” in Germline Development in the Zebrafish, vol.
2218, R. Dosch, Ed. Humana, 2021, pp. 117–128.
ista: 'Xia P, Heisenberg C-PJ. 2021.Quantifying tissue tension in the granulosa
layer after laser surgery. In: Germline Development in the Zebrafish. Methods
in Molecular Biology, vol. 2218, 117–128.'
mla: Xia, Peng, and Carl-Philipp J. Heisenberg. “Quantifying Tissue Tension in the
Granulosa Layer after Laser Surgery.” Germline Development in the Zebrafish,
edited by Roland Dosch, vol. 2218, Humana, 2021, pp. 117–28, doi:10.1007/978-1-0716-0970-5_10.
short: P. Xia, C.-P.J. Heisenberg, in:, R. Dosch (Ed.), Germline Development in
the Zebrafish, Humana, 2021, pp. 117–128.
corr_author: '1'
date_created: 2021-03-14T23:01:34Z
date_published: 2021-02-20T00:00:00Z
date_updated: 2025-04-14T07:46:58Z
day: '20'
department:
- _id: CaHe
doi: 10.1007/978-1-0716-0970-5_10
ec_funded: 1
editor:
- first_name: Roland
full_name: Dosch, Roland
last_name: Dosch
external_id:
pmid:
- '33606227'
intvolume: ' 2218'
keyword:
- Tissue tension
- Morphogenesis
- Laser ablation
- Zebrafish folliculogenesis
- Granulosa cells
language:
- iso: eng
month: '02'
oa_version: None
page: 117-128
pmid: 1
project:
- _id: 260F1432-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742573'
name: Interaction and feedback between cell mechanics and fate specification in
vertebrate gastrulation
publication: Germline Development in the Zebrafish
publication_identifier:
eisbn:
- 978-1-0716-0970-5
eissn:
- 1940-6029
isbn:
- 978-1-0716-0969-9
issn:
- 1064-3745
publication_status: published
publisher: Humana
quality_controlled: '1'
scopus_import: '1'
status: public
title: Quantifying tissue tension in the granulosa layer after laser surgery
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2218
year: '2021'
...
---
_id: '9246'
abstract:
- lang: eng
text: We consider the Fröhlich Hamiltonian in a mean-field limit where many bosonic
particles weakly couple to the quantized phonon field. For large particle numbers
and a suitably small coupling, we show that the dynamics of the system is approximately
described by the Landau–Pekar equations. These describe a Bose–Einstein condensate
interacting with a classical polarization field, whose dynamics is effected by
the condensate, i.e., the back-reaction of the phonons that are created by the
particles during the time evolution is of leading order.
acknowledgement: "Financial support by the European Research Council (ERC) under the\r\nEuropean
Union’s Horizon 2020 research and innovation programme (Grant Agreement\r\nNo 694227;
N.L and R.S.), the SNSF Eccellenza Project PCEFP2 181153 (N.L) and the\r\nDeutsche
Forschungsgemeinschaft (DFG) through the Research TrainingGroup 1838: Spectral\r\nTheory
and Dynamics of Quantum Systems (D.M.) is gratefully acknowledged. N.L.\r\ngratefully
acknowledges support from the NCCRSwissMAP and would like to thank Simone\r\nRademacher
and Benjamin Schlein for interesting discussions about the time-evolution of\r\nthe
polaron at strong coupling. D.M. thanks Marcel Griesemer and Andreas Wünsch for\r\nextensive
discussions about the Fröhlich polaron."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Nikolai K
full_name: Leopold, Nikolai K
id: 4BC40BEC-F248-11E8-B48F-1D18A9856A87
last_name: Leopold
orcid: 0000-0002-0495-6822
- first_name: David Johannes
full_name: Mitrouskas, David Johannes
id: cbddacee-2b11-11eb-a02e-a2e14d04e52d
last_name: Mitrouskas
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Leopold NK, Mitrouskas DJ, Seiringer R. Derivation of the Landau–Pekar equations
in a many-body mean-field limit. Archive for Rational Mechanics and Analysis.
2021;240:383-417. doi:10.1007/s00205-021-01616-9
apa: Leopold, N. K., Mitrouskas, D. J., & Seiringer, R. (2021). Derivation of
the Landau–Pekar equations in a many-body mean-field limit. Archive for Rational
Mechanics and Analysis. Springer Nature. https://doi.org/10.1007/s00205-021-01616-9
chicago: Leopold, Nikolai K, David Johannes Mitrouskas, and Robert Seiringer. “Derivation
of the Landau–Pekar Equations in a Many-Body Mean-Field Limit.” Archive for
Rational Mechanics and Analysis. Springer Nature, 2021. https://doi.org/10.1007/s00205-021-01616-9.
ieee: N. K. Leopold, D. J. Mitrouskas, and R. Seiringer, “Derivation of the Landau–Pekar
equations in a many-body mean-field limit,” Archive for Rational Mechanics
and Analysis, vol. 240. Springer Nature, pp. 383–417, 2021.
ista: Leopold NK, Mitrouskas DJ, Seiringer R. 2021. Derivation of the Landau–Pekar
equations in a many-body mean-field limit. Archive for Rational Mechanics and
Analysis. 240, 383–417.
mla: Leopold, Nikolai K., et al. “Derivation of the Landau–Pekar Equations in a
Many-Body Mean-Field Limit.” Archive for Rational Mechanics and Analysis,
vol. 240, Springer Nature, 2021, pp. 383–417, doi:10.1007/s00205-021-01616-9.
short: N.K. Leopold, D.J. Mitrouskas, R. Seiringer, Archive for Rational Mechanics
and Analysis 240 (2021) 383–417.
date_created: 2021-03-14T23:01:34Z
date_published: 2021-02-26T00:00:00Z
date_updated: 2025-06-12T06:35:22Z
day: '26'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1007/s00205-021-01616-9
ec_funded: 1
external_id:
arxiv:
- '2001.03993'
isi:
- '000622226200001'
pmid:
- '33785964'
file:
- access_level: open_access
checksum: 23449e44dc5132501a5c86e70638800f
content_type: application/pdf
creator: dernst
date_created: 2021-03-22T08:31:29Z
date_updated: 2021-03-22T08:31:29Z
file_id: '9270'
file_name: 2021_ArchRationalMechAnal_Leopold.pdf
file_size: 558006
relation: main_file
success: 1
file_date_updated: 2021-03-22T08:31:29Z
has_accepted_license: '1'
intvolume: ' 240'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 383-417
pmid: 1
project:
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
publication: Archive for Rational Mechanics and Analysis
publication_identifier:
eissn:
- 1432-0673
issn:
- 0003-9527
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Derivation of the Landau–Pekar equations in a many-body mean-field limit
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: 240
year: '2021'
...
---
_id: '9252'
abstract:
- lang: eng
text: 'This paper analyses the conditions for local adaptation in a metapopulation
with infinitely many islands under a model of hard selection, where population
size depends on local fitness. Each island belongs to one of two distinct ecological
niches or habitats. Fitness is influenced by an additive trait which is under
habitat‐dependent directional selection. Our analysis is based on the diffusion
approximation and accounts for both genetic drift and demographic stochasticity.
By neglecting linkage disequilibria, it yields the joint distribution of allele
frequencies and population size on each island. We find that under hard selection,
the conditions for local adaptation in a rare habitat are more restrictive for
more polygenic traits: even moderate migration load per locus at very many loci
is sufficient for population sizes to decline. This further reduces the efficacy
of selection at individual loci due to increased drift and because smaller populations
are more prone to swamping due to migration, causing a positive feedback between
increasing maladaptation and declining population sizes. Our analysis also highlights
the importance of demographic stochasticity, which exacerbates the decline in
numbers of maladapted populations, leading to population collapse in the rare
habitat at significantly lower migration than predicted by deterministic arguments.'
acknowledgement: We thank the reviewers for their helpful comments, and also our colleagues,
for illuminating discussions over the long gestation of this paper.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Eniko
full_name: Szep, Eniko
id: 485BB5A4-F248-11E8-B48F-1D18A9856A87
last_name: Szep
- first_name: Himani
full_name: Sachdeva, Himani
id: 42377A0A-F248-11E8-B48F-1D18A9856A87
last_name: Sachdeva
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: 'Szep E, Sachdeva H, Barton NH. Polygenic local adaptation in metapopulations:
A stochastic eco‐evolutionary model. Evolution. 2021;75(5):1030-1045. doi:10.1111/evo.14210'
apa: 'Szep, E., Sachdeva, H., & Barton, N. H. (2021). Polygenic local adaptation
in metapopulations: A stochastic eco‐evolutionary model. Evolution. Wiley.
https://doi.org/10.1111/evo.14210'
chicago: 'Szep, Eniko, Himani Sachdeva, and Nicholas H Barton. “Polygenic Local
Adaptation in Metapopulations: A Stochastic Eco‐evolutionary Model.” Evolution.
Wiley, 2021. https://doi.org/10.1111/evo.14210.'
ieee: 'E. Szep, H. Sachdeva, and N. H. Barton, “Polygenic local adaptation in metapopulations:
A stochastic eco‐evolutionary model,” Evolution, vol. 75, no. 5. Wiley,
pp. 1030–1045, 2021.'
ista: 'Szep E, Sachdeva H, Barton NH. 2021. Polygenic local adaptation in metapopulations:
A stochastic eco‐evolutionary model. Evolution. 75(5), 1030–1045.'
mla: 'Szep, Eniko, et al. “Polygenic Local Adaptation in Metapopulations: A Stochastic
Eco‐evolutionary Model.” Evolution, vol. 75, no. 5, Wiley, 2021, pp. 1030–45,
doi:10.1111/evo.14210.'
short: E. Szep, H. Sachdeva, N.H. Barton, Evolution 75 (2021) 1030–1045.
corr_author: '1'
date_created: 2021-03-20T08:22:10Z
date_published: 2021-05-01T00:00:00Z
date_updated: 2025-06-12T06:35:39Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/evo.14210
external_id:
isi:
- '000636966300001'
pmid:
- '33742441'
file:
- access_level: open_access
checksum: b90fb5767d623602046fed03725e16ca
content_type: application/pdf
creator: kschuh
date_created: 2021-08-11T13:39:19Z
date_updated: 2021-08-11T13:39:19Z
file_id: '9886'
file_name: 2021_Evolution_Szep.pdf
file_size: 734102
relation: main_file
success: 1
file_date_updated: 2021-08-11T13:39:19Z
has_accepted_license: '1'
intvolume: ' 75'
isi: 1
issue: '5'
keyword:
- Genetics
- Ecology
- Evolution
- Behavior and Systematics
- General Agricultural and Biological Sciences
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '05'
oa: 1
oa_version: Published Version
page: 1030-1045
pmid: 1
publication: Evolution
publication_identifier:
eissn:
- 1558-5646
issn:
- 0014-3820
publication_status: published
publisher: Wiley
quality_controlled: '1'
related_material:
record:
- id: '13062'
relation: research_data
status: public
scopus_import: '1'
status: public
title: 'Polygenic local adaptation in metapopulations: A stochastic eco‐evolutionary
model'
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 75
year: '2021'
...
---
_id: '9253'
abstract:
- lang: eng
text: In March 2020, the Austrian government introduced a widespread lock-down in
response to the COVID-19 pandemic. Based on subjective impressions and anecdotal
evidence, Austrian public and private life came to a sudden halt. Here we assess
the effect of the lock-down quantitatively for all regions in Austria and present
an analysis of daily changes of human mobility throughout Austria using near-real-time
anonymized mobile phone data. We describe an efficient data aggregation pipeline
and analyze the mobility by quantifying mobile-phone traffic at specific point
of interests (POIs), analyzing individual trajectories and investigating the cluster
structure of the origin-destination graph. We found a reduction of commuters at
Viennese metro stations of over 80% and the number of devices with a radius of
gyration of less than 500 m almost doubled. The results of studying crowd-movement
behavior highlight considerable changes in the structure of mobility networks,
revealed by a higher modularity and an increase from 12 to 20 detected communities.
We demonstrate the relevance of mobility data for epidemiological studies by showing
a significant correlation of the outflow from the town of Ischgl (an early COVID-19
hotspot) and the reported COVID-19 cases with an 8-day time lag. This research
indicates that mobile phone usage data permits the moment-by-moment quantification
of mobility behavior for a whole country. We emphasize the need to improve the
availability of such data in anonymized form to empower rapid response to combat
COVID-19 and future pandemics.
article_processing_charge: No
arxiv: 1
author:
- first_name: Georg
full_name: Heiler, Georg
last_name: Heiler
- first_name: Tobias
full_name: Reisch, Tobias
last_name: Reisch
- first_name: Jan
full_name: Hurt, Jan
last_name: Hurt
- first_name: Mohammad
full_name: Forghani, Mohammad
last_name: Forghani
- first_name: Aida
full_name: Omani, Aida
last_name: Omani
- first_name: Allan
full_name: Hanbury, Allan
last_name: Hanbury
- first_name: Farid
full_name: Karimipour, Farid
id: 2A2BCDC4-CF62-11E9-BE5E-3B1EE6697425
last_name: Karimipour
orcid: 0000-0001-6746-4174
citation:
ama: 'Heiler G, Reisch T, Hurt J, et al. Country-wide mobility changes observed
using mobile phone data during COVID-19 pandemic. In: 2020 IEEE International
Conference on Big Data. IEEE; 2021:3123-3132. doi:10.1109/bigdata50022.2020.9378374'
apa: 'Heiler, G., Reisch, T., Hurt, J., Forghani, M., Omani, A., Hanbury, A., &
Karimipour, F. (2021). Country-wide mobility changes observed using mobile phone
data during COVID-19 pandemic. In 2020 IEEE International Conference on Big
Data (pp. 3123–3132). Atlanta, GA, United States: IEEE. https://doi.org/10.1109/bigdata50022.2020.9378374'
chicago: Heiler, Georg, Tobias Reisch, Jan Hurt, Mohammad Forghani, Aida Omani,
Allan Hanbury, and Farid Karimipour. “Country-Wide Mobility Changes Observed Using
Mobile Phone Data during COVID-19 Pandemic.” In 2020 IEEE International Conference
on Big Data, 3123–32. IEEE, 2021. https://doi.org/10.1109/bigdata50022.2020.9378374.
ieee: G. Heiler et al., “Country-wide mobility changes observed using mobile
phone data during COVID-19 pandemic,” in 2020 IEEE International Conference
on Big Data, Atlanta, GA, United States, 2021, pp. 3123–3132.
ista: 'Heiler G, Reisch T, Hurt J, Forghani M, Omani A, Hanbury A, Karimipour F.
2021. Country-wide mobility changes observed using mobile phone data during COVID-19
pandemic. 2020 IEEE International Conference on Big Data. Big Data: International
Conference on Big Data, 3123–3132.'
mla: Heiler, Georg, et al. “Country-Wide Mobility Changes Observed Using Mobile
Phone Data during COVID-19 Pandemic.” 2020 IEEE International Conference on
Big Data, IEEE, 2021, pp. 3123–32, doi:10.1109/bigdata50022.2020.9378374.
short: G. Heiler, T. Reisch, J. Hurt, M. Forghani, A. Omani, A. Hanbury, F. Karimipour,
in:, 2020 IEEE International Conference on Big Data, IEEE, 2021, pp. 3123–3132.
conference:
end_date: 2020-12-13
location: Atlanta, GA, United States
name: 'Big Data: International Conference on Big Data'
start_date: 2020-12-10
date_created: 2021-03-21T11:34:07Z
date_published: 2021-03-19T00:00:00Z
date_updated: 2023-08-07T14:00:13Z
day: '19'
department:
- _id: HeEd
doi: 10.1109/bigdata50022.2020.9378374
external_id:
arxiv:
- '2008.10064'
isi:
- '000662554703032'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2008.10064
month: '03'
oa: 1
oa_version: Preprint
page: 3123-3132
publication: 2020 IEEE International Conference on Big Data
publication_identifier:
isbn:
- '9781728162515'
publication_status: published
publisher: IEEE
quality_controlled: '1'
scopus_import: '1'
status: public
title: Country-wide mobility changes observed using mobile phone data during COVID-19
pandemic
type: conference
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
year: '2021'
...
---
_id: '9255'
abstract:
- lang: eng
text: Our ability to trust that a random number is truly random is essential for
fields as diverse as cryptography and fundamental tests of quantum mechanics.
Existing solutions both come with drawbacks—device-independent quantum random
number generators (QRNGs) are highly impractical and standard semi-device-independent
QRNGs are limited to a specific physical implementation and level of trust. Here
we propose a framework for semi-device-independent randomness certification, using
a source of trusted vacuum in the form of a signal shutter. It employs a flexible
set of assumptions and levels of trust, allowing it to be applied in a wide range
of physical scenarios involving both quantum and classical entropy sources. We
experimentally demonstrate our protocol with a photonic setup and generate secure
random bits under three different assumptions with varying degrees of security
and resulting data rates.
acknowledgement: We would like to thank Robert Fickler for discussions about the experimental
realization and Marek Sýs for running the NIST randomness test on the data we acquired
in the experiment. We would like to thank Ugo Zanforlin, Gerald Buller, Daniel White,
and Cristian Bonato for their help with the experiment. M. Pivoluska, M. Plesch,
and M.M. acknowledge Czech-Austrian project MultiQUEST (I3053-N27 and GF17-33780L).
M. Pivoluska and M. Plesch additionally acknowledge the support of VEGA project
2/0136/19. M.F. acknowledges support from the Polish NCN grant Sonata UMO-2014/14/E/ST2/00020,
the European Research Council (ERC) under the European Union’s Horizon 2020 research
and innovation program ERC AdG CERQUTE (grant agreement No 834266), the State Research
Agency (AEI) TRANQI (PID2019-106888GB-I00/10.13039/501100011033), the Government
of Spain (FIS2020-TRANQI; Severo Ochoa CEX2019-000910-S), Fundació Cellex, Fundació
Mir-Puig, and Generalitat de Catalunya (CERCA, AGAUR). M.M., W.M., N.H.V., and C.F.
acknowledge support from the QuantERA ERA-NET Co-fund (FWF Project I3773-N36) and
the UK Engineering and Physical Sciences Research Council (EPSRC) (EP/P024114/1).
article_number: '50'
article_processing_charge: No
article_type: original
author:
- first_name: Matej
full_name: Pivoluska, Matej
last_name: Pivoluska
- first_name: Martin
full_name: Plesch, Martin
last_name: Plesch
- first_name: Máté
full_name: Farkas, Máté
last_name: Farkas
- first_name: Natalia
full_name: Ruzickova, Natalia
id: D2761128-D73D-11E9-A1BF-BA0DE6697425
last_name: Ruzickova
- first_name: Clara
full_name: Flegel, Clara
last_name: Flegel
- first_name: Natalia Herrera
full_name: Valencia, Natalia Herrera
last_name: Valencia
- first_name: Will
full_name: Mccutcheon, Will
last_name: Mccutcheon
- first_name: Mehul
full_name: Malik, Mehul
last_name: Malik
- first_name: Edgar A.
full_name: Aguilar, Edgar A.
last_name: Aguilar
citation:
ama: Pivoluska M, Plesch M, Farkas M, et al. Semi-device-independent random number
generation with flexible assumptions. npj Quantum Information. 2021;7.
doi:10.1038/s41534-021-00387-1
apa: Pivoluska, M., Plesch, M., Farkas, M., Ruzickova, N., Flegel, C., Valencia,
N. H., … Aguilar, E. A. (2021). Semi-device-independent random number generation
with flexible assumptions. Npj Quantum Information. Springer Nature. https://doi.org/10.1038/s41534-021-00387-1
chicago: Pivoluska, Matej, Martin Plesch, Máté Farkas, Natalia Ruzickova, Clara
Flegel, Natalia Herrera Valencia, Will Mccutcheon, Mehul Malik, and Edgar A. Aguilar.
“Semi-Device-Independent Random Number Generation with Flexible Assumptions.”
Npj Quantum Information. Springer Nature, 2021. https://doi.org/10.1038/s41534-021-00387-1.
ieee: M. Pivoluska et al., “Semi-device-independent random number generation
with flexible assumptions,” npj Quantum Information, vol. 7. Springer Nature,
2021.
ista: Pivoluska M, Plesch M, Farkas M, Ruzickova N, Flegel C, Valencia NH, Mccutcheon
W, Malik M, Aguilar EA. 2021. Semi-device-independent random number generation
with flexible assumptions. npj Quantum Information. 7, 50.
mla: Pivoluska, Matej, et al. “Semi-Device-Independent Random Number Generation
with Flexible Assumptions.” Npj Quantum Information, vol. 7, 50, Springer
Nature, 2021, doi:10.1038/s41534-021-00387-1.
short: M. Pivoluska, M. Plesch, M. Farkas, N. Ruzickova, C. Flegel, N.H. Valencia,
W. Mccutcheon, M. Malik, E.A. Aguilar, Npj Quantum Information 7 (2021).
date_created: 2021-03-21T23:01:19Z
date_published: 2021-03-15T00:00:00Z
date_updated: 2023-08-07T14:17:26Z
day: '15'
ddc:
- '530'
department:
- _id: FyKo
doi: 10.1038/s41534-021-00387-1
external_id:
isi:
- '000629173100001'
file:
- access_level: open_access
checksum: 26d3f2a2c8c8fa8c1002028326b45f64
content_type: application/pdf
creator: dernst
date_created: 2021-03-22T11:09:34Z
date_updated: 2021-03-22T11:09:34Z
file_id: '9274'
file_name: 2021_NPJQuantumInformation_Pivoluska.pdf
file_size: 1360271
relation: main_file
success: 1
file_date_updated: 2021-03-22T11:09:34Z
has_accepted_license: '1'
intvolume: ' 7'
isi: 1
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
publication: npj Quantum Information
publication_identifier:
eissn:
- 2056-6387
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Semi-device-independent random number generation with flexible assumptions
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: 7
year: '2021'
...
---
_id: '9257'
abstract:
- lang: eng
text: 'The inverse problem of designing component interactions to target emergent
structure is fundamental to numerous applications in biotechnology, materials
science, and statistical physics. Equally important is the inverse problem of
designing emergent kinetics, but this has received considerably less attention.
Using recent advances in automatic differentiation, we show how kinetic pathways
can be precisely designed by directly differentiating through statistical physics
models, namely free energy calculations and molecular dynamics simulations. We
consider two systems that are crucial to our understanding of structural self-assembly:
bulk crystallization and small nanoclusters. In each case, we are able to assemble
precise dynamical features. Using gradient information, we manipulate interactions
among constituent particles to tune the rate at which these systems yield specific
structures of interest. Moreover, we use this approach to learn nontrivial features
about the high-dimensional design space, allowing us to accurately predict when
multiple kinetic features can be simultaneously and independently controlled.
These results provide a concrete and generalizable foundation for studying nonstructural
self-assembly, including kinetic properties as well as other complex emergent
properties, in a vast array of systems.'
acknowledgement: We thank Agnese Curatolo, Megan Engel, Ofer Kimchi, Seong Ho Pahng,
and Roy Frostig for helpful discussions. This material is based on work supported
by NSF Graduate Research Fellowship Grant DGE1745303. This research was funded by
NSF Grant DMS-1715477, Materials Research Science and Engineering Centers Grant
DMR-1420570, and Office of Naval Research Grant N00014-17-1-3029. M.P.B. is an investigator
of the Simons Foundation.
article_number: e2024083118
article_processing_charge: No
article_type: original
author:
- first_name: Carl Peter
full_name: Goodrich, Carl Peter
id: EB352CD2-F68A-11E9-89C5-A432E6697425
last_name: Goodrich
orcid: 0000-0002-1307-5074
- first_name: Ella M.
full_name: King, Ella M.
last_name: King
- first_name: Samuel S.
full_name: Schoenholz, Samuel S.
last_name: Schoenholz
- first_name: Ekin D.
full_name: Cubuk, Ekin D.
last_name: Cubuk
- first_name: Michael P.
full_name: Brenner, Michael P.
last_name: Brenner
citation:
ama: Goodrich CP, King EM, Schoenholz SS, Cubuk ED, Brenner MP. Designing self-assembling
kinetics with differentiable statistical physics models. Proceedings of the
National Academy of Sciences of the United States of America. 2021;118(10).
doi:10.1073/pnas.2024083118
apa: Goodrich, C. P., King, E. M., Schoenholz, S. S., Cubuk, E. D., & Brenner,
M. P. (2021). Designing self-assembling kinetics with differentiable statistical
physics models. Proceedings of the National Academy of Sciences of the United
States of America. National Academy of Sciences. https://doi.org/10.1073/pnas.2024083118
chicago: Goodrich, Carl Peter, Ella M. King, Samuel S. Schoenholz, Ekin D. Cubuk,
and Michael P. Brenner. “Designing Self-Assembling Kinetics with Differentiable
Statistical Physics Models.” Proceedings of the National Academy of Sciences
of the United States of America. National Academy of Sciences, 2021. https://doi.org/10.1073/pnas.2024083118.
ieee: C. P. Goodrich, E. M. King, S. S. Schoenholz, E. D. Cubuk, and M. P. Brenner,
“Designing self-assembling kinetics with differentiable statistical physics models,”
Proceedings of the National Academy of Sciences of the United States of America,
vol. 118, no. 10. National Academy of Sciences, 2021.
ista: Goodrich CP, King EM, Schoenholz SS, Cubuk ED, Brenner MP. 2021. Designing
self-assembling kinetics with differentiable statistical physics models. Proceedings
of the National Academy of Sciences of the United States of America. 118(10),
e2024083118.
mla: Goodrich, Carl Peter, et al. “Designing Self-Assembling Kinetics with Differentiable
Statistical Physics Models.” Proceedings of the National Academy of Sciences
of the United States of America, vol. 118, no. 10, e2024083118, National Academy
of Sciences, 2021, doi:10.1073/pnas.2024083118.
short: C.P. Goodrich, E.M. King, S.S. Schoenholz, E.D. Cubuk, M.P. Brenner, Proceedings
of the National Academy of Sciences of the United States of America 118 (2021).
date_created: 2021-03-21T23:01:20Z
date_published: 2021-03-09T00:00:00Z
date_updated: 2025-05-14T10:58:42Z
day: '09'
ddc:
- '530'
department:
- _id: CaGo
doi: 10.1073/pnas.2024083118
external_id:
isi:
- '000627429100097'
pmid:
- '33653960'
file:
- access_level: open_access
checksum: 5be8da2b1c0757feb1057f1a515cf9e0
content_type: application/pdf
creator: dernst
date_created: 2021-03-22T12:23:54Z
date_updated: 2021-03-22T12:23:54Z
file_id: '9278'
file_name: 2021_PNAS_Goodrich.pdf
file_size: 1047954
relation: main_file
success: 1
file_date_updated: 2021-03-22T12:23:54Z
has_accepted_license: '1'
intvolume: ' 118'
isi: 1
issue: '10'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
publication: Proceedings of the National Academy of Sciences of the United States
of America
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: Designing self-assembling kinetics with differentiable statistical physics
models
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 118
year: '2021'
...
---
_id: '9259'
abstract:
- lang: eng
text: Gradients of chemokines and growth factors guide migrating cells and morphogenetic
processes. Migration of antigen-presenting dendritic cells from the interstitium
into the lymphatic system is dependent on chemokine CCL21, which is secreted by
endothelial cells of the lymphatic capillary, binds heparan sulfates and forms
gradients decaying into the interstitium. Despite the importance of CCL21 gradients,
and chemokine gradients in general, the mechanisms of gradient formation are unclear.
Studies on fibroblast growth factors have shown that limited diffusion is crucial
for gradient formation. Here, we used the mouse dermis as a model tissue to address
the necessity of CCL21 anchoring to lymphatic capillary heparan sulfates in the
formation of interstitial CCL21 gradients. Surprisingly, the absence of lymphatic
endothelial heparan sulfates resulted only in a modest decrease of CCL21 levels
at the lymphatic capillaries and did neither affect interstitial CCL21 gradient
shape nor dendritic cell migration toward lymphatic capillaries. Thus, heparan
sulfates at the level of the lymphatic endothelium are dispensable for the formation
of a functional CCL21 gradient.
acknowledgement: "This work was supported by Sigrid Juselius fellowship (KV), University
of Helsinki 3-year research grant (KV), Academy of Finland Research fellow funding
(315710, to KV), the European Research Council (ERC CoG 724373 to MS), and by the
Austrian Science foundation (FWF) (Y564-B12 START award to MS).\r\nTaija Mäkinen
is acknowledged for providing Prox1CreERT2 transgenic mice and Yu Yamaguchi for
providing the conditional Ext1 mouse strain."
article_number: '630002'
article_processing_charge: No
article_type: original
author:
- first_name: Kari
full_name: Vaahtomeri, Kari
id: 368EE576-F248-11E8-B48F-1D18A9856A87
last_name: Vaahtomeri
orcid: 0000-0001-7829-3518
- first_name: Christine
full_name: Moussion, Christine
id: 3356F664-F248-11E8-B48F-1D18A9856A87
last_name: Moussion
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
citation:
ama: Vaahtomeri K, Moussion C, Hauschild R, Sixt MK. Shape and function of interstitial
chemokine CCL21 gradients are independent of heparan sulfates produced by lymphatic
endothelium. Frontiers in Immunology. 2021;12. doi:10.3389/fimmu.2021.630002
apa: Vaahtomeri, K., Moussion, C., Hauschild, R., & Sixt, M. K. (2021). Shape
and function of interstitial chemokine CCL21 gradients are independent of heparan
sulfates produced by lymphatic endothelium. Frontiers in Immunology. Frontiers.
https://doi.org/10.3389/fimmu.2021.630002
chicago: Vaahtomeri, Kari, Christine Moussion, Robert Hauschild, and Michael K Sixt.
“Shape and Function of Interstitial Chemokine CCL21 Gradients Are Independent
of Heparan Sulfates Produced by Lymphatic Endothelium.” Frontiers in Immunology.
Frontiers, 2021. https://doi.org/10.3389/fimmu.2021.630002.
ieee: K. Vaahtomeri, C. Moussion, R. Hauschild, and M. K. Sixt, “Shape and function
of interstitial chemokine CCL21 gradients are independent of heparan sulfates
produced by lymphatic endothelium,” Frontiers in Immunology, vol. 12. Frontiers,
2021.
ista: Vaahtomeri K, Moussion C, Hauschild R, Sixt MK. 2021. Shape and function of
interstitial chemokine CCL21 gradients are independent of heparan sulfates produced
by lymphatic endothelium. Frontiers in Immunology. 12, 630002.
mla: Vaahtomeri, Kari, et al. “Shape and Function of Interstitial Chemokine CCL21
Gradients Are Independent of Heparan Sulfates Produced by Lymphatic Endothelium.”
Frontiers in Immunology, vol. 12, 630002, Frontiers, 2021, doi:10.3389/fimmu.2021.630002.
short: K. Vaahtomeri, C. Moussion, R. Hauschild, M.K. Sixt, Frontiers in Immunology
12 (2021).
corr_author: '1'
date_created: 2021-03-21T23:01:20Z
date_published: 2021-02-25T00:00:00Z
date_updated: 2025-04-14T07:42:07Z
day: '25'
ddc:
- '570'
department:
- _id: MiSi
- _id: Bio
doi: 10.3389/fimmu.2021.630002
ec_funded: 1
external_id:
isi:
- '000627134400001'
pmid:
- '33717158'
file:
- access_level: open_access
checksum: 663f5a48375e42afa4bfef58d42ec186
content_type: application/pdf
creator: dernst
date_created: 2021-03-22T12:08:26Z
date_updated: 2021-03-22T12:08:26Z
file_id: '9277'
file_name: 2021_FrontiersImmumo_Vaahtomeri.pdf
file_size: 3740146
relation: main_file
success: 1
file_date_updated: 2021-03-22T12:08:26Z
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25FE9508-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '724373'
name: Cellular Navigation Along Spatial Gradients
- _id: 25A8E5EA-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Y 564-B12
name: Cytoskeletal force generation and force transduction of migrating leukocytes
publication: Frontiers in Immunology
publication_identifier:
eissn:
- 1664-3224
publication_status: published
publisher: Frontiers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Shape and function of interstitial chemokine CCL21 gradients are independent
of heparan sulfates produced by lymphatic endothelium
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: 12
year: '2021'
...
---
_id: '9260'
abstract:
- lang: eng
text: We study the density of rational points on a higher-dimensional orbifold (Pn−1,Δ)
when Δ is a Q-divisor involving hyperplanes. This allows us to address a question
of Tanimoto about whether the set of rational points on such an orbifold constitutes
a thin set. Our approach relies on the Hardy–Littlewood circle method to first
study an asymptotic version of Waring’s problem for mixed powers. In doing so
we make crucial use of the recent resolution of the main conjecture in Vinogradov’s
mean value theorem, due to Bourgain–Demeter–Guth and Wooley.
acknowledgement: While working on this paper the authors were both supported by EPSRC
grant EP/P026710/1, and the second author received additional support from the NWO
Veni Grant 016.Veni.192.047. Thanks are due to Marta Pieropan, Arne Smeets and Sho
Tanimoto for useful conversations related to this topic, and to the anonymous referee
for numerous helpful suggestions.
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: Shuntaro
full_name: Yamagishi, Shuntaro
last_name: Yamagishi
citation:
ama: Browning TD, Yamagishi S. Arithmetic of higher-dimensional orbifolds and a
mixed Waring problem. Mathematische Zeitschrift. 2021;299:1071–1101. doi:10.1007/s00209-021-02695-w
apa: Browning, T. D., & Yamagishi, S. (2021). Arithmetic of higher-dimensional
orbifolds and a mixed Waring problem. Mathematische Zeitschrift. Springer
Nature. https://doi.org/10.1007/s00209-021-02695-w
chicago: Browning, Timothy D, and Shuntaro Yamagishi. “Arithmetic of Higher-Dimensional
Orbifolds and a Mixed Waring Problem.” Mathematische Zeitschrift. Springer
Nature, 2021. https://doi.org/10.1007/s00209-021-02695-w.
ieee: T. D. Browning and S. Yamagishi, “Arithmetic of higher-dimensional orbifolds
and a mixed Waring problem,” Mathematische Zeitschrift, vol. 299. Springer
Nature, pp. 1071–1101, 2021.
ista: Browning TD, Yamagishi S. 2021. Arithmetic of higher-dimensional orbifolds
and a mixed Waring problem. Mathematische Zeitschrift. 299, 1071–1101.
mla: Browning, Timothy D., and Shuntaro Yamagishi. “Arithmetic of Higher-Dimensional
Orbifolds and a Mixed Waring Problem.” Mathematische Zeitschrift, vol.
299, Springer Nature, 2021, pp. 1071–1101, doi:10.1007/s00209-021-02695-w.
short: T.D. Browning, S. Yamagishi, Mathematische Zeitschrift 299 (2021) 1071–1101.
date_created: 2021-03-21T23:01:21Z
date_published: 2021-03-05T00:00:00Z
date_updated: 2025-04-14T09:25:44Z
day: '05'
ddc:
- '510'
department:
- _id: TiBr
doi: 10.1007/s00209-021-02695-w
external_id:
isi:
- '000625573800002'
file:
- access_level: open_access
checksum: 8ed9f49568806894744096dbbca0ad7b
content_type: application/pdf
creator: dernst
date_created: 2021-03-22T12:41:26Z
date_updated: 2021-03-22T12:41:26Z
file_id: '9279'
file_name: 2021_MathZeitschrift_Browning.pdf
file_size: 492685
relation: main_file
success: 1
file_date_updated: 2021-03-22T12:41:26Z
has_accepted_license: '1'
intvolume: ' 299'
isi: 1
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 1071–1101
project:
- _id: 26A8D266-B435-11E9-9278-68D0E5697425
grant_number: EP-P026710-2
name: Between rational and integral points
publication: Mathematische Zeitschrift
publication_identifier:
eissn:
- 1432-1823
issn:
- 0025-5874
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Arithmetic of higher-dimensional orbifolds and a mixed Waring problem
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: 299
year: '2021'
...
---
_id: '9281'
abstract:
- lang: eng
text: We comment on two formal proofs of Fermat's sum of two squares theorem, written
using the Mathematical Components libraries of the Coq proof assistant. The first
one follows Zagier's celebrated one-sentence proof; the second follows David Christopher's
recent new proof relying on partition-theoretic arguments. Both formal proofs
rely on a general property of involutions of finite sets, of independent interest.
The proof technique consists for the most part of automating recurrent tasks (such
as case distinctions and computations on natural numbers) via ad hoc tactics.
article_number: '2103.11389'
article_processing_charge: No
arxiv: 1
author:
- first_name: Guillaume
full_name: Dubach, Guillaume
id: D5C6A458-10C4-11EA-ABF4-A4B43DDC885E
last_name: Dubach
orcid: 0000-0001-6892-8137
- first_name: Fabian
full_name: Mühlböck, Fabian
id: 6395C5F6-89DF-11E9-9C97-6BDFE5697425
last_name: Mühlböck
orcid: 0000-0003-1548-0177
citation:
ama: Dubach G, Mühlböck F. Formal verification of Zagier’s one-sentence proof. arXiv.
doi:10.48550/arXiv.2103.11389
apa: Dubach, G., & Mühlböck, F. (n.d.). Formal verification of Zagier’s one-sentence
proof. arXiv. https://doi.org/10.48550/arXiv.2103.11389
chicago: Dubach, Guillaume, and Fabian Mühlböck. “Formal Verification of Zagier’s
One-Sentence Proof.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2103.11389.
ieee: G. Dubach and F. Mühlböck, “Formal verification of Zagier’s one-sentence proof,”
arXiv. .
ista: Dubach G, Mühlböck F. Formal verification of Zagier’s one-sentence proof.
arXiv, 2103.11389.
mla: Dubach, Guillaume, and Fabian Mühlböck. “Formal Verification of Zagier’s One-Sentence
Proof.” ArXiv, 2103.11389, doi:10.48550/arXiv.2103.11389.
short: G. Dubach, F. Mühlböck, ArXiv (n.d.).
corr_author: '1'
date_created: 2021-03-23T05:38:48Z
date_published: 2021-03-21T00:00:00Z
date_updated: 2025-04-15T06:26:12Z
day: '21'
department:
- _id: LaEr
- _id: ToHe
doi: 10.48550/arXiv.2103.11389
ec_funded: 1
external_id:
arxiv:
- '2103.11389'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2103.11389
month: '03'
oa: 1
oa_version: Preprint
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: arXiv
publication_status: submitted
related_material:
record:
- id: '9946'
relation: other
status: public
status: public
title: Formal verification of Zagier's one-sentence proof
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '9282'
abstract:
- lang: eng
text: Several Ising-type magnetic van der Waals (vdW) materials exhibit stable magnetic
ground states. Despite these clear experimental demonstrations, a complete theoretical
and microscopic understanding of their magnetic anisotropy is still lacking. In
particular, the validity limit of identifying their one-dimensional (1-D) Ising
nature has remained uninvestigated in a quantitative way. Here we performed the
complete mapping of magnetic anisotropy for a prototypical Ising vdW magnet FePS3
for the first time. Combining torque magnetometry measurements with their magnetostatic
model analysis and the relativistic density functional total energy calculations,
we successfully constructed the three-dimensional (3-D) mappings of the magnetic
anisotropy in terms of magnetic torque and energy. The results not only quantitatively
confirm that the easy axis is perpendicular to the ab plane, but also reveal the
anisotropies within the ab, ac, and bc planes. Our approach can be applied to
the detailed quantitative study of magnetism in vdW materials.
article_number: '035011'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Muhammad
full_name: Nauman, Muhammad
id: 32c21954-2022-11eb-9d5f-af9f93c24e71
last_name: Nauman
orcid: 0000-0002-2111-4846
- first_name: Do Hoon
full_name: Kiem, Do Hoon
last_name: Kiem
- first_name: Sungmin
full_name: Lee, Sungmin
last_name: Lee
- first_name: Suhan
full_name: Son, Suhan
last_name: Son
- first_name: J-G
full_name: Park, J-G
last_name: Park
- first_name: Woun
full_name: Kang, Woun
last_name: Kang
- first_name: Myung Joon
full_name: Han, Myung Joon
last_name: Han
- first_name: Youn Jung
full_name: Jo, Youn Jung
last_name: Jo
citation:
ama: Nauman M, Kiem DH, Lee S, et al. Complete mapping of magnetic anisotropy for
prototype Ising van der Waals FePS3. 2D Materials. 2021;8(3). doi:10.1088/2053-1583/abeed3
apa: Nauman, M., Kiem, D. H., Lee, S., Son, S., Park, J.-G., Kang, W., … Jo, Y.
J. (2021). Complete mapping of magnetic anisotropy for prototype Ising van der
Waals FePS3. 2D Materials. IOP Publishing. https://doi.org/10.1088/2053-1583/abeed3
chicago: Nauman, Muhammad, Do Hoon Kiem, Sungmin Lee, Suhan Son, J-G Park, Woun
Kang, Myung Joon Han, and Youn Jung Jo. “Complete Mapping of Magnetic Anisotropy
for Prototype Ising van Der Waals FePS3.” 2D Materials. IOP Publishing,
2021. https://doi.org/10.1088/2053-1583/abeed3.
ieee: M. Nauman et al., “Complete mapping of magnetic anisotropy for prototype
Ising van der Waals FePS3,” 2D Materials, vol. 8, no. 3. IOP Publishing,
2021.
ista: Nauman M, Kiem DH, Lee S, Son S, Park J-G, Kang W, Han MJ, Jo YJ. 2021. Complete
mapping of magnetic anisotropy for prototype Ising van der Waals FePS3. 2D Materials.
8(3), 035011.
mla: Nauman, Muhammad, et al. “Complete Mapping of Magnetic Anisotropy for Prototype
Ising van Der Waals FePS3.” 2D Materials, vol. 8, no. 3, 035011, IOP Publishing,
2021, doi:10.1088/2053-1583/abeed3.
short: M. Nauman, D.H. Kiem, S. Lee, S. Son, J.-G. Park, W. Kang, M.J. Han, Y.J.
Jo, 2D Materials 8 (2021).
date_created: 2021-03-23T07:10:17Z
date_published: 2021-04-06T00:00:00Z
date_updated: 2021-12-01T10:36:56Z
day: '06'
department:
- _id: KiMo
doi: 10.1088/2053-1583/abeed3
extern: '1'
external_id:
arxiv:
- '2103.09029'
intvolume: ' 8'
issue: '3'
keyword:
- Mechanical Engineering
- General Materials Science
- Mechanics of Materials
- General Chemistry
- Condensed Matter Physics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2103.09029
month: '04'
oa: 1
oa_version: Preprint
publication: 2D Materials
publication_identifier:
issn:
- 2053-1583
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
status: public
title: Complete mapping of magnetic anisotropy for prototype Ising van der Waals FePS3
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 8
year: '2021'
...
---
_id: '9283'
abstract:
- lang: eng
text: Gene expression levels are influenced by multiple coexisting molecular mechanisms.
Some of these interactions such as those of transcription factors and promoters
have been studied extensively. However, predicting phenotypes of gene regulatory
networks (GRNs) remains a major challenge. Here, we use a well-defined synthetic
GRN to study in Escherichia coli how network phenotypes depend on local genetic
context, i.e. the genetic neighborhood of a transcription factor and its relative
position. We show that one GRN with fixed topology can display not only quantitatively
but also qualitatively different phenotypes, depending solely on the local genetic
context of its components. Transcriptional read-through is the main molecular
mechanism that places one transcriptional unit (TU) within two separate regulons
without the need for complex regulatory sequences. We propose that relative order
of individual TUs, with its potential for combinatorial complexity, plays an important
role in shaping phenotypes of GRNs.
acknowledgement: "We thank J Bollback, L Hurst, M Lagator, C Nizak, O Rivoire, M Savageau,
G Tkacik, and B Vicozo\r\nfor helpful discussions; A Dolinar and A Greshnova for
technical assistance; T Bollenbach for supplying the strain JW0336; C Rusnac, and
members of the Guet lab for comments. The research leading to these results has
received funding from the People Programme (Marie Curie Actions) of the European
Union’s Seventh Framework Programme (FP7/2007-2013) under REA grant agreement n˚\r\n628377
(ANS) and an Austrian Science Fund (FWF) grant n˚ I 3901-B32 (CCG)."
article_number: e65993
article_processing_charge: Yes
article_type: original
author:
- first_name: Anna A
full_name: Nagy-Staron, Anna A
id: 3ABC5BA6-F248-11E8-B48F-1D18A9856A87
last_name: Nagy-Staron
orcid: 0000-0002-1391-8377
- first_name: Kathrin
full_name: Tomasek, Kathrin
id: 3AEC8556-F248-11E8-B48F-1D18A9856A87
last_name: Tomasek
orcid: 0000-0003-3768-877X
- first_name: Caroline
full_name: Caruso Carter, Caroline
last_name: Caruso Carter
- first_name: Elisabeth
full_name: Sonnleitner, Elisabeth
last_name: Sonnleitner
- first_name: Bor
full_name: Kavcic, Bor
id: 350F91D2-F248-11E8-B48F-1D18A9856A87
last_name: Kavcic
orcid: 0000-0001-6041-254X
- first_name: Tiago
full_name: Paixão, Tiago
last_name: Paixão
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
citation:
ama: Nagy-Staron AA, Tomasek K, Caruso Carter C, et al. Local genetic context shapes
the function of a gene regulatory network. eLife. 2021;10. doi:10.7554/elife.65993
apa: Nagy-Staron, A. A., Tomasek, K., Caruso Carter, C., Sonnleitner, E., Kavcic,
B., Paixão, T., & Guet, C. C. (2021). Local genetic context shapes the function
of a gene regulatory network. ELife. eLife Sciences Publications. https://doi.org/10.7554/elife.65993
chicago: Nagy-Staron, Anna A, Kathrin Tomasek, Caroline Caruso Carter, Elisabeth
Sonnleitner, Bor Kavcic, Tiago Paixão, and Calin C Guet. “Local Genetic Context
Shapes the Function of a Gene Regulatory Network.” ELife. eLife Sciences
Publications, 2021. https://doi.org/10.7554/elife.65993.
ieee: A. A. Nagy-Staron et al., “Local genetic context shapes the function
of a gene regulatory network,” eLife, vol. 10. eLife Sciences Publications,
2021.
ista: Nagy-Staron AA, Tomasek K, Caruso Carter C, Sonnleitner E, Kavcic B, Paixão
T, Guet CC. 2021. Local genetic context shapes the function of a gene regulatory
network. eLife. 10, e65993.
mla: Nagy-Staron, Anna A., et al. “Local Genetic Context Shapes the Function of
a Gene Regulatory Network.” ELife, vol. 10, e65993, eLife Sciences Publications,
2021, doi:10.7554/elife.65993.
short: A.A. Nagy-Staron, K. Tomasek, C. Caruso Carter, E. Sonnleitner, B. Kavcic,
T. Paixão, C.C. Guet, ELife 10 (2021).
corr_author: '1'
date_created: 2021-03-23T10:11:46Z
date_published: 2021-03-08T00:00:00Z
date_updated: 2025-06-12T06:36:17Z
day: '08'
ddc:
- '570'
department:
- _id: GaTk
- _id: CaGu
doi: 10.7554/elife.65993
ec_funded: 1
external_id:
isi:
- '000631050900001'
pmid:
- '33683203'
file:
- access_level: open_access
checksum: 3c2f44058c2dd45a5a1027f09d263f8e
content_type: application/pdf
creator: bkavcic
date_created: 2021-03-23T10:12:58Z
date_updated: 2021-03-23T10:12:58Z
file_id: '9284'
file_name: elife-65993-v2.pdf
file_size: 1390469
relation: main_file
success: 1
file_date_updated: 2021-03-23T10:12:58Z
has_accepted_license: '1'
intvolume: ' 10'
isi: 1
keyword:
- Genetics and Molecular Biology
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 2517526A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '628377'
name: 'The Systems Biology of Transcriptional Read-Through in Bacteria: from Synthetic
Networks to Genomic Studies'
- _id: 268BFA92-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03901
name: Cybergenetic circuits to test composability of gene networks
publication: eLife
publication_identifier:
issn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
related_material:
record:
- id: '8951'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Local genetic context shapes the function of a gene regulatory network
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: 10
year: '2021'
...
---
_id: '9290'
abstract:
- lang: eng
text: Polar subcellular localization of the PIN exporters of the phytohormone auxin
is a key determinant of directional, intercellular auxin transport and thus a
central topic of both plant cell and developmental biology. Arabidopsis mutants
lacking PID, a kinase that phosphorylates PINs, or the MAB4/MEL proteins of unknown
molecular function display PIN polarity defects and phenocopy pin mutants, but
mechanistic insights into how these factors convey PIN polarity are missing. Here,
by combining protein biochemistry with quantitative live-cell imaging, we demonstrate
that PINs, MAB4/MELs, and AGC kinases interact in the same complex at the plasma
membrane. MAB4/MELs are recruited to the plasma membrane by the PINs and in concert
with the AGC kinases maintain PIN polarity through limiting lateral diffusion-based
escape of PINs from the polar domain. The PIN-MAB4/MEL-PID protein complex has
self-reinforcing properties thanks to positive feedback between AGC kinase-mediated
PIN phosphorylation and MAB4/MEL recruitment. We thus uncover the molecular mechanism
by which AGC kinases and MAB4/MEL proteins regulate PIN localization and plant
development.
acknowledged_ssus:
- _id: Bio
acknowledgement: We acknowledge Ben Scheres, Christian Luschnig, and Claus Schwechheimer
for sharing published material. We thank Monika Hrtyan and Dorota Jaworska at IST
Austria and Gerda Lamers and Ward de Winter at IBL Netherlands for technical assistance;
Corinna Hartinger, Jakub Hajný, Lesia Rodriguez, Mingyue Li, and Lindy Abas for
experimental support; and the Bioimaging Facility at IST Austria and the Bioimaging
Core at VIB for imaging support. We are grateful to Christian Luschnig, Lindy Abas,
and Roman Pleskot for valuable discussions. We also acknowledge the EMBO for supporting
M.G. with a long-term fellowship ( ALTF 1005-2019 ) during the finalization and
revision of this manuscript in the laboratory of B.D.R., and we thank R. Pierik
for allowing K.V.G. to work on this manuscript during a postdoc in his laboratory
at Utrecht University. This work was supported by grants from the European Research
Council under the European Union’s Seventh Framework Programme (ERC grant agreements
742985 to J.F., 714055 to B.D.R., and 803048 to M.F.), the Austrian Science Fund
(FWF; I 3630-B25 to J.F.), Chemical Sciences (partly) financed by the Dutch Research
Council (NWO-CW TOP 700.58.301 to R.O.), the Dutch Research Council (NWO-VICI 865.17.002
to R. Pierik), Grants-in-Aid from the Ministry of Education, Culture, Sports, Science
and Technology, Japan (KAKENHI grant 17K17595 to S.N.), the Ministry of Education,
Youth and Sports of the Czech Republic (MŠMT project NPUI-LO1417 ), and a China
Scholarship Council (to X.W.).
article_processing_charge: No
article_type: original
author:
- first_name: Matous
full_name: Glanc, Matous
id: 1AE1EA24-02D0-11E9-9BAA-DAF4881429F2
last_name: Glanc
orcid: 0000-0003-0619-7783
- first_name: K
full_name: Van Gelderen, K
last_name: Van Gelderen
- first_name: Lukas
full_name: Hörmayer, Lukas
id: 2EEE7A2A-F248-11E8-B48F-1D18A9856A87
last_name: Hörmayer
orcid: 0000-0001-8295-2926
- first_name: Shutang
full_name: Tan, Shutang
id: 2DE75584-F248-11E8-B48F-1D18A9856A87
last_name: Tan
orcid: 0000-0002-0471-8285
- first_name: S
full_name: Naramoto, S
last_name: Naramoto
- first_name: Xixi
full_name: Zhang, Xixi
id: 61A66458-47E9-11EA-85BA-8AEAAF14E49A
last_name: Zhang
orcid: 0000-0001-7048-4627
- first_name: David
full_name: Domjan, David
id: C684CD7A-257E-11EA-9B6F-D8588B4F947F
last_name: Domjan
orcid: 0000-0003-2267-106X
- first_name: L
full_name: Vcelarova, L
last_name: Vcelarova
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Alexander J
full_name: Johnson, Alexander J
id: 46A62C3A-F248-11E8-B48F-1D18A9856A87
last_name: Johnson
orcid: 0000-0002-2739-8843
- first_name: E
full_name: de Koning, E
last_name: de Koning
- first_name: M
full_name: van Dop, M
last_name: van Dop
- first_name: E
full_name: Rademacher, E
last_name: Rademacher
- first_name: S
full_name: Janson, S
last_name: Janson
- first_name: X
full_name: Wei, X
last_name: Wei
- first_name: Gergely
full_name: Molnar, Gergely
id: 34F1AF46-F248-11E8-B48F-1D18A9856A87
last_name: Molnar
- first_name: Matyas
full_name: Fendrych, Matyas
id: 43905548-F248-11E8-B48F-1D18A9856A87
last_name: Fendrych
orcid: 0000-0002-9767-8699
- first_name: B
full_name: De Rybel, B
last_name: De Rybel
- first_name: R
full_name: Offringa, R
last_name: Offringa
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Glanc M, Van Gelderen K, Hörmayer L, et al. AGC kinases and MAB4/MEL proteins
maintain PIN polarity by limiting lateral diffusion in plant cells. Current
Biology. 2021;31(9):1918-1930. doi:10.1016/j.cub.2021.02.028
apa: Glanc, M., Van Gelderen, K., Hörmayer, L., Tan, S., Naramoto, S., Zhang, X.,
… Friml, J. (2021). AGC kinases and MAB4/MEL proteins maintain PIN polarity by
limiting lateral diffusion in plant cells. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2021.02.028
chicago: Glanc, Matous, K Van Gelderen, Lukas Hörmayer, Shutang Tan, S Naramoto,
Xixi Zhang, David Domjan, et al. “AGC Kinases and MAB4/MEL Proteins Maintain PIN
Polarity by Limiting Lateral Diffusion in Plant Cells.” Current Biology.
Elsevier, 2021. https://doi.org/10.1016/j.cub.2021.02.028.
ieee: M. Glanc et al., “AGC kinases and MAB4/MEL proteins maintain PIN polarity
by limiting lateral diffusion in plant cells,” Current Biology, vol. 31,
no. 9. Elsevier, pp. 1918–1930, 2021.
ista: Glanc M, Van Gelderen K, Hörmayer L, Tan S, Naramoto S, Zhang X, Domjan D,
Vcelarova L, Hauschild R, Johnson AJ, de Koning E, van Dop M, Rademacher E, Janson
S, Wei X, Molnar G, Fendrych M, De Rybel B, Offringa R, Friml J. 2021. AGC kinases
and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant
cells. Current Biology. 31(9), 1918–1930.
mla: Glanc, Matous, et al. “AGC Kinases and MAB4/MEL Proteins Maintain PIN Polarity
by Limiting Lateral Diffusion in Plant Cells.” Current Biology, vol. 31,
no. 9, Elsevier, 2021, pp. 1918–30, doi:10.1016/j.cub.2021.02.028.
short: M. Glanc, K. Van Gelderen, L. Hörmayer, S. Tan, S. Naramoto, X. Zhang, D.
Domjan, L. Vcelarova, R. Hauschild, A.J. Johnson, E. de Koning, M. van Dop, E.
Rademacher, S. Janson, X. Wei, G. Molnar, M. Fendrych, B. De Rybel, R. Offringa,
J. Friml, Current Biology 31 (2021) 1918–1930.
corr_author: '1'
date_created: 2021-03-26T12:09:33Z
date_published: 2021-03-10T00:00:00Z
date_updated: 2025-04-14T07:45:00Z
day: '10'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1016/j.cub.2021.02.028
ec_funded: 1
external_id:
isi:
- '000653077800004'
pmid:
- '33705718'
file:
- access_level: open_access
checksum: b1723040ecfd8c81194185472eb62546
content_type: application/pdf
creator: dernst
date_created: 2021-04-01T10:53:42Z
date_updated: 2021-04-01T10:53:42Z
file_id: '9303'
file_name: 2021_CurrentBiology_Glanc.pdf
file_size: 4324371
relation: main_file
success: 1
file_date_updated: 2021-04-01T10:53:42Z
has_accepted_license: '1'
intvolume: ' 31'
isi: 1
issue: '9'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 1918-1930
pmid: 1
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
- _id: 26538374-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03630
name: Molecular mechanisms of endocytic cargo recognition in plants
publication: Current Biology
publication_identifier:
eissn:
- 1879-0445
issn:
- 0960-9822
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral
diffusion in plant cells
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 31
year: '2021'
...
---
_id: '9291'
abstract:
- lang: eng
text: "This .zip File contains the transport data for figures presented in the main
text and supplementary material of \"Enhancement of Proximity Induced Superconductivity
in Planar Germanium\" by K. Aggarwal, et. al. \r\nThe measurements were done using
Labber Software and the data is stored in the hdf5 file format. The files can
be opened using either the Labber Log Browser (https://labber.org/overview/) or
Labber Python API (http://labber.org/online-doc/api/LogFile.html)."
article_processing_charge: No
author:
- first_name: Georgios
full_name: Katsaros, Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
orcid: 0000-0001-8342-202X
citation:
ama: 'Katsaros G. Raw transport data for: Enhancement of proximity induced superconductivity
in planar germanium. 2021. doi:10.15479/AT:ISTA:9291'
apa: 'Katsaros, G. (2021). Raw transport data for: Enhancement of proximity induced
superconductivity in planar germanium. Institute of Science and Technology Austria.
https://doi.org/10.15479/AT:ISTA:9291'
chicago: 'Katsaros, Georgios. “Raw Transport Data for: Enhancement of Proximity
Induced Superconductivity in Planar Germanium.” Institute of Science and Technology
Austria, 2021. https://doi.org/10.15479/AT:ISTA:9291.'
ieee: 'G. Katsaros, “Raw transport data for: Enhancement of proximity induced superconductivity
in planar germanium.” Institute of Science and Technology Austria, 2021.'
ista: 'Katsaros G. 2021. Raw transport data for: Enhancement of proximity induced
superconductivity in planar germanium, Institute of Science and Technology Austria,
10.15479/AT:ISTA:9291.'
mla: 'Katsaros, Georgios. Raw Transport Data for: Enhancement of Proximity Induced
Superconductivity in Planar Germanium. Institute of Science and Technology
Austria, 2021, doi:10.15479/AT:ISTA:9291.'
short: G. Katsaros, (2021).
date_created: 2021-03-27T13:47:49Z
date_published: 2021-03-29T00:00:00Z
date_updated: 2024-02-21T12:37:14Z
day: '29'
ddc:
- '530'
department:
- _id: GeKa
doi: 10.15479/AT:ISTA:9291
file:
- access_level: open_access
checksum: 635df3c08fc13c3dac008cd421aefbe4
content_type: application/x-zip-compressed
creator: gkatsaro
date_created: 2021-03-27T13:46:17Z
date_updated: 2021-03-27T13:46:17Z
file_id: '9292'
file_name: Raw Data- Enhancement of Superconductivity in a Planar Ge hole gas.zip
file_size: 10616071
relation: main_file
success: 1
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checksum: 12b3ca69ae7509a346711baae0b02a75
content_type: text/plain
creator: dernst
date_created: 2021-04-01T07:52:56Z
date_updated: 2021-04-01T07:52:56Z
file_id: '9302'
file_name: README.txt
file_size: 470
relation: main_file
success: 1
file_date_updated: 2021-04-01T07:52:56Z
has_accepted_license: '1'
license: https://creativecommons.org/publicdomain/zero/1.0/
month: '03'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: 'Raw transport data for: Enhancement of proximity induced superconductivity
in planar germanium'
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '9293'
abstract:
- lang: eng
text: 'We consider planning problems for graphs, Markov Decision Processes (MDPs),
and games on graphs in an explicit state space. While graphs represent the most
basic planning model, MDPs represent interaction with nature and games on graphs
represent interaction with an adversarial environment. We consider two planning
problems with k different target sets: (a) the coverage problem asks whether there
is a plan for each individual target set; and (b) the sequential target reachability
problem asks whether the targets can be reached in a given sequence. For the coverage
problem, we present a linear-time algorithm for graphs, and quadratic conditional
lower bound for MDPs and games on graphs. For the sequential target problem, we
present a linear-time algorithm for graphs, a sub-quadratic algorithm for MDPs,
and a quadratic conditional lower bound for games on graphs. Our results with
conditional lower bounds, based on the boolean matrix multiplication (BMM) conjecture
and strong exponential time hypothesis (SETH), establish (i) model-separation
results showing that for the coverage problem MDPs and games on graphs are harder
than graphs, and for the sequential reachability problem games on graphs are harder
than MDPs and graphs; and (ii) problem-separation results showing that for MDPs
the coverage problem is harder than the sequential target problem.'
article_number: '103499'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Wolfgang
full_name: Dvořák, Wolfgang
last_name: Dvořák
- first_name: Monika H
full_name: Henzinger, Monika H
id: 540c9bbd-f2de-11ec-812d-d04a5be85630
last_name: Henzinger
orcid: 0000-0002-5008-6530
- first_name: Alexander
full_name: Svozil, Alexander
last_name: Svozil
citation:
ama: Chatterjee K, Dvořák W, Henzinger M, Svozil A. Algorithms and conditional lower
bounds for planning problems. Artificial Intelligence. 2021;297(8). doi:10.1016/j.artint.2021.103499
apa: Chatterjee, K., Dvořák, W., Henzinger, M., & Svozil, A. (2021). Algorithms
and conditional lower bounds for planning problems. Artificial Intelligence.
Elsevier. https://doi.org/10.1016/j.artint.2021.103499
chicago: Chatterjee, Krishnendu, Wolfgang Dvořák, Monika Henzinger, and Alexander
Svozil. “Algorithms and Conditional Lower Bounds for Planning Problems.” Artificial
Intelligence. Elsevier, 2021. https://doi.org/10.1016/j.artint.2021.103499.
ieee: K. Chatterjee, W. Dvořák, M. Henzinger, and A. Svozil, “Algorithms and conditional
lower bounds for planning problems,” Artificial Intelligence, vol. 297,
no. 8. Elsevier, 2021.
ista: Chatterjee K, Dvořák W, Henzinger M, Svozil A. 2021. Algorithms and conditional
lower bounds for planning problems. Artificial Intelligence. 297(8), 103499.
mla: Chatterjee, Krishnendu, et al. “Algorithms and Conditional Lower Bounds for
Planning Problems.” Artificial Intelligence, vol. 297, no. 8, 103499, Elsevier,
2021, doi:10.1016/j.artint.2021.103499.
short: K. Chatterjee, W. Dvořák, M. Henzinger, A. Svozil, Artificial Intelligence
297 (2021).
corr_author: '1'
date_created: 2021-03-28T22:01:40Z
date_published: 2021-03-16T00:00:00Z
date_updated: 2025-07-10T11:52:31Z
day: '16'
department:
- _id: KrCh
doi: 10.1016/j.artint.2021.103499
external_id:
arxiv:
- '1804.07031'
isi:
- '000657537500003'
intvolume: ' 297'
isi: 1
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1804.07031
month: '03'
oa: 1
oa_version: Preprint
publication: Artificial Intelligence
publication_identifier:
issn:
- 0004-3702
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '35'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Algorithms and conditional lower bounds for planning problems
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 297
year: '2021'
...
---
_id: '9295'
abstract:
- lang: eng
text: "Hill's Conjecture states that the crossing number cr(\U0001D43E\U0001D45B)
\ of the complete graph \U0001D43E\U0001D45B in the plane (equivalently, the
sphere) is 14⌊\U0001D45B2⌋⌊\U0001D45B−12⌋⌊\U0001D45B−22⌋⌊\U0001D45B−32⌋=\U0001D45B4/64+\U0001D442(\U0001D45B3)
. Moon proved that the expected number of crossings in a spherical drawing in
which the points are randomly distributed and joined by geodesics is precisely
\ \U0001D45B4/64+\U0001D442(\U0001D45B3) , thus matching asymptotically the conjectured
value of cr(\U0001D43E\U0001D45B) . Let cr\U0001D443(\U0001D43A) denote the
crossing number of a graph \U0001D43A in the projective plane. Recently, Elkies
proved that the expected number of crossings in a naturally defined random projective
plane drawing of \U0001D43E\U0001D45B is (\U0001D45B4/8\U0001D70B2)+\U0001D442(\U0001D45B3)
. In analogy with the relation of Moon's result to Hill's conjecture, Elkies asked
if lim\U0001D45B→∞ cr\U0001D443(\U0001D43E\U0001D45B)/\U0001D45B4=1/8\U0001D70B2
. We construct drawings of \U0001D43E\U0001D45B in the projective plane that
disprove this."
acknowledgement: "We thank two reviewers for their corrections and suggestions on
the original version of this\r\npaper. This project has received funding from NSERC
Grant 50503-10940-500 and from the European Union’s Horizon 2020 research and innovation
programme under the Marie SkłodowskaCurie grant agreement No 754411, IST, Klosterneuburg,
Austria."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Alan M
full_name: Arroyo Guevara, Alan M
id: 3207FDC6-F248-11E8-B48F-1D18A9856A87
last_name: Arroyo Guevara
orcid: 0000-0003-2401-8670
- first_name: Dan
full_name: Mcquillan, Dan
last_name: Mcquillan
- first_name: R. Bruce
full_name: Richter, R. Bruce
last_name: Richter
- first_name: Gelasio
full_name: Salazar, Gelasio
last_name: Salazar
- first_name: Matthew
full_name: Sullivan, Matthew
last_name: Sullivan
citation:
ama: Arroyo Guevara AM, Mcquillan D, Richter RB, Salazar G, Sullivan M. Drawings
of complete graphs in the projective plane. Journal of Graph Theory. 2021;97(3):426-440.
doi:10.1002/jgt.22665
apa: Arroyo Guevara, A. M., Mcquillan, D., Richter, R. B., Salazar, G., & Sullivan,
M. (2021). Drawings of complete graphs in the projective plane. Journal of
Graph Theory. Wiley. https://doi.org/10.1002/jgt.22665
chicago: Arroyo Guevara, Alan M, Dan Mcquillan, R. Bruce Richter, Gelasio Salazar,
and Matthew Sullivan. “Drawings of Complete Graphs in the Projective Plane.” Journal
of Graph Theory. Wiley, 2021. https://doi.org/10.1002/jgt.22665.
ieee: A. M. Arroyo Guevara, D. Mcquillan, R. B. Richter, G. Salazar, and M. Sullivan,
“Drawings of complete graphs in the projective plane,” Journal of Graph Theory,
vol. 97, no. 3. Wiley, pp. 426–440, 2021.
ista: Arroyo Guevara AM, Mcquillan D, Richter RB, Salazar G, Sullivan M. 2021. Drawings
of complete graphs in the projective plane. Journal of Graph Theory. 97(3), 426–440.
mla: Arroyo Guevara, Alan M., et al. “Drawings of Complete Graphs in the Projective
Plane.” Journal of Graph Theory, vol. 97, no. 3, Wiley, 2021, pp. 426–40,
doi:10.1002/jgt.22665.
short: A.M. Arroyo Guevara, D. Mcquillan, R.B. Richter, G. Salazar, M. Sullivan,
Journal of Graph Theory 97 (2021) 426–440.
date_created: 2021-03-28T22:01:41Z
date_published: 2021-03-23T00:00:00Z
date_updated: 2025-04-14T07:43:51Z
day: '23'
department:
- _id: UlWa
doi: 10.1002/jgt.22665
ec_funded: 1
external_id:
arxiv:
- '2002.02287'
isi:
- '000631693200001'
intvolume: ' 97'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2002.02287
month: '03'
oa: 1
oa_version: Preprint
page: 426-440
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Journal of Graph Theory
publication_identifier:
eissn:
- 1097-0118
issn:
- 0364-9024
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Drawings of complete graphs in the projective plane
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 97
year: '2021'
...
---
_id: '9297'
abstract:
- lang: eng
text: 'We report the results of an experimental investigation into the decay of
turbulence in plane Couette–Poiseuille flow using ‘quench’ experiments where the
flow laminarises after a sudden reduction in Reynolds number Re. Specifically,
we study the velocity field in the streamwise–spanwise plane. We show that the
spanwise velocity containing rolls decays faster than the streamwise velocity,
which displays elongated regions of higher or lower velocity called streaks. At
final Reynolds numbers above 425, the decay of streaks displays two stages: first
a slow decay when rolls are present and secondly a more rapid decay of streaks
alone. The difference in behaviour results from the regeneration of streaks by
rolls, called the lift-up effect. We define the turbulent fraction as the portion
of the flow containing turbulence and this is estimated by thresholding the spanwise
velocity component. It decreases linearly with time in the whole range of final
Re. The corresponding decay slope increases linearly with final Re. The extrapolated
value at which this decay slope vanishes is Reaz≈656±10, close to Reg≈670 at which
turbulence is self-sustained. The decay of the energy computed from the spanwise
velocity component is found to be exponential. The corresponding decay rate increases
linearly with Re, with an extrapolated vanishing value at ReAz≈688±10. This value
is also close to the value at which the turbulence is self-sustained, showing
that valuable information on the transition can be obtained over a wide range
of Re.'
acknowledgement: "We gratefully acknowledge Joran Rolland, Yohann Duguet, Romain Monchaux,
S´ebastien Gom´e, Laurette Tuckerman, Dwight Barkley, Olivier Dauchot and Sabine
Bottin for fruitful discussions. We thank Xavier Benoit-Gonin, Amaury Fourgeaud,
Thierry Darnige, Olivier Brouard and Justine Laurent for technical help. This work
has benefited from the ANR TransFlow, and by starting grants obtained by B.S. from
CNRS (INSIS) and ESPCI. T.M. was\r\nsupported by a Joliot visiting professorship
grant from ESPCI."
article_number: A65
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: T.
full_name: Liu, T.
last_name: Liu
- first_name: B.
full_name: Semin, B.
last_name: Semin
- first_name: Lukasz
full_name: Klotz, Lukasz
id: 2C9AF1C2-F248-11E8-B48F-1D18A9856A87
last_name: Klotz
orcid: 0000-0003-1740-7635
- first_name: R.
full_name: Godoy-Diana, R.
last_name: Godoy-Diana
- first_name: J. E.
full_name: Wesfreid, J. E.
last_name: Wesfreid
- first_name: T.
full_name: Mullin, T.
last_name: Mullin
citation:
ama: Liu T, Semin B, Klotz L, Godoy-Diana R, Wesfreid JE, Mullin T. Decay of streaks
and rolls in plane Couette-Poiseuille flow. Journal of Fluid Mechanics.
2021;915. doi:10.1017/jfm.2021.89
apa: Liu, T., Semin, B., Klotz, L., Godoy-Diana, R., Wesfreid, J. E., & Mullin,
T. (2021). Decay of streaks and rolls in plane Couette-Poiseuille flow. Journal
of Fluid Mechanics. Cambridge University Press. https://doi.org/10.1017/jfm.2021.89
chicago: Liu, T., B. Semin, Lukasz Klotz, R. Godoy-Diana, J. E. Wesfreid, and T.
Mullin. “Decay of Streaks and Rolls in Plane Couette-Poiseuille Flow.” Journal
of Fluid Mechanics. Cambridge University Press, 2021. https://doi.org/10.1017/jfm.2021.89.
ieee: T. Liu, B. Semin, L. Klotz, R. Godoy-Diana, J. E. Wesfreid, and T. Mullin,
“Decay of streaks and rolls in plane Couette-Poiseuille flow,” Journal of Fluid
Mechanics, vol. 915. Cambridge University Press, 2021.
ista: Liu T, Semin B, Klotz L, Godoy-Diana R, Wesfreid JE, Mullin T. 2021. Decay
of streaks and rolls in plane Couette-Poiseuille flow. Journal of Fluid Mechanics.
915, A65.
mla: Liu, T., et al. “Decay of Streaks and Rolls in Plane Couette-Poiseuille Flow.”
Journal of Fluid Mechanics, vol. 915, A65, Cambridge University Press,
2021, doi:10.1017/jfm.2021.89.
short: T. Liu, B. Semin, L. Klotz, R. Godoy-Diana, J.E. Wesfreid, T. Mullin, Journal
of Fluid Mechanics 915 (2021).
date_created: 2021-03-28T22:01:42Z
date_published: 2021-03-17T00:00:00Z
date_updated: 2023-08-07T14:30:11Z
day: '17'
department:
- _id: BjHo
doi: 10.1017/jfm.2021.89
external_id:
arxiv:
- '2008.08851'
isi:
- '000629677500001'
intvolume: ' 915'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2008.08851
month: '03'
oa: 1
oa_version: Preprint
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: Decay of streaks and rolls in plane Couette-Poiseuille flow
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 915
year: '2021'
...