---
_id: '11592'
abstract:
- lang: eng
text: 'We compare recent experimental results [Science 375, 528 (2022)] of the superfluid
unitary Fermi gas near the critical temperature with a thermodynamic model based
on the elementary excitations of the system. We find good agreement between experimental
data and our theory for several quantities such as first sound, second sound,
and superfluid fraction. We also show that mode mixing between first and second
sound occurs. Finally, we characterize the response amplitude to a density perturbation:
Close to the critical temperature both first and second sound can be excited through
a density perturbation, whereas at lower temperatures only the first sound mode
exhibits a significant response.'
acknowledgement: The authors gratefully acknowledge stimulating discussions with T.
Enss, and thank an anonymous referee for suggestions and remarks that allowed us
to improve the original manuscript. This work is supported by the Deutsche Forschungsgemeinschaft
(DFG, German Research Foundation) under Germany’s Excellence Strategy EXC2181/1-390900948
(the Heidelberg STRUCTURES Excellence Cluster).
article_number: '063329'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Giacomo
full_name: Bighin, Giacomo
id: 4CA96FD4-F248-11E8-B48F-1D18A9856A87
last_name: Bighin
orcid: 0000-0001-8823-9777
- first_name: Alberto
full_name: Cappellaro, Alberto
id: 9d13b3cb-30a2-11eb-80dc-f772505e8660
last_name: Cappellaro
orcid: 0000-0001-6110-2359
- first_name: L.
full_name: Salasnich, L.
last_name: Salasnich
citation:
ama: 'Bighin G, Cappellaro A, Salasnich L. Unitary Fermi superfluid near the critical
temperature: Thermodynamics and sound modes from elementary excitations. Physical
Review A. 2022;105(6). doi:10.1103/PhysRevA.105.063329'
apa: 'Bighin, G., Cappellaro, A., & Salasnich, L. (2022). Unitary Fermi superfluid
near the critical temperature: Thermodynamics and sound modes from elementary
excitations. Physical Review A. American Physical Society. https://doi.org/10.1103/PhysRevA.105.063329'
chicago: 'Bighin, Giacomo, Alberto Cappellaro, and L. Salasnich. “Unitary Fermi
Superfluid near the Critical Temperature: Thermodynamics and Sound Modes from
Elementary Excitations.” Physical Review A. American Physical Society,
2022. https://doi.org/10.1103/PhysRevA.105.063329.'
ieee: 'G. Bighin, A. Cappellaro, and L. Salasnich, “Unitary Fermi superfluid near
the critical temperature: Thermodynamics and sound modes from elementary excitations,”
Physical Review A, vol. 105, no. 6. American Physical Society, 2022.'
ista: 'Bighin G, Cappellaro A, Salasnich L. 2022. Unitary Fermi superfluid near
the critical temperature: Thermodynamics and sound modes from elementary excitations.
Physical Review A. 105(6), 063329.'
mla: 'Bighin, Giacomo, et al. “Unitary Fermi Superfluid near the Critical Temperature:
Thermodynamics and Sound Modes from Elementary Excitations.” Physical Review
A, vol. 105, no. 6, 063329, American Physical Society, 2022, doi:10.1103/PhysRevA.105.063329.'
short: G. Bighin, A. Cappellaro, L. Salasnich, Physical Review A 105 (2022).
date_created: 2022-07-17T22:01:55Z
date_published: 2022-06-30T00:00:00Z
date_updated: 2023-08-03T12:00:11Z
day: '30'
department:
- _id: MiLe
doi: 10.1103/PhysRevA.105.063329
external_id:
arxiv:
- '2206.03924'
isi:
- '000829758500010'
intvolume: ' 105'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.48550/arXiv.2206.03924'
month: '06'
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: 'Unitary Fermi superfluid near the critical temperature: Thermodynamics and
sound modes from elementary excitations'
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 105
year: '2022'
...
---
_id: '11593'
abstract:
- lang: eng
text: 'A drawing of a graph on a surface is independently even if every pair of
nonadjacent edges in the drawing crosses an even number of times. The Z2 -genus
of a graph G is the minimum g such that G has an independently even drawing on
the orientable surface of genus g. An unpublished result by Robertson and Seymour
implies that for every t, every graph of sufficiently large genus contains as
a minor a projective t×t grid or one of the following so-called t -Kuratowski
graphs: K3,t, or t copies of K5 or K3,3 sharing at most two common vertices. We
show that the Z2-genus of graphs in these families is unbounded in t; in fact,
equal to their genus. Together, this implies that the genus of a graph is bounded
from above by a function of its Z2-genus, solving a problem posed by Schaefer
and Štefankovič, and giving an approximate version of the Hanani–Tutte theorem
on orientable surfaces. We also obtain an analogous result for Euler genus and
Euler Z2-genus of graphs.'
acknowledgement: "We thank Zdeněk Dvořák, Xavier Goaoc, and Pavel Paták for helpful
discussions. We also thank Bojan Mohar, Paul Seymour, Gelasio Salazar, Jim Geelen,
and John Maharry for information about their unpublished results related to Conjecture
3.1. Finally we thank the reviewers for corrections and suggestions for improving
the presentation.\r\nSupported by Austrian Science Fund (FWF): M2281-N35. Supported
by project 19-04113Y of the Czech Science Foundation (GAČR), by the Czech-French
collaboration project EMBEDS II (CZ: 7AMB17FR029, FR: 38087RM), and by Charles University
project UNCE/SCI/004."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Radoslav
full_name: Fulek, Radoslav
id: 39F3FFE4-F248-11E8-B48F-1D18A9856A87
last_name: Fulek
orcid: 0000-0001-8485-1774
- first_name: Jan
full_name: Kynčl, Jan
last_name: Kynčl
citation:
ama: Fulek R, Kynčl J. The Z2-Genus of Kuratowski minors. Discrete and Computational
Geometry. 2022;68:425-447. doi:10.1007/s00454-022-00412-w
apa: Fulek, R., & Kynčl, J. (2022). The Z2-Genus of Kuratowski minors. Discrete
and Computational Geometry. Springer Nature. https://doi.org/10.1007/s00454-022-00412-w
chicago: Fulek, Radoslav, and Jan Kynčl. “The Z2-Genus of Kuratowski Minors.” Discrete
and Computational Geometry. Springer Nature, 2022. https://doi.org/10.1007/s00454-022-00412-w.
ieee: R. Fulek and J. Kynčl, “The Z2-Genus of Kuratowski minors,” Discrete and
Computational Geometry, vol. 68. Springer Nature, pp. 425–447, 2022.
ista: Fulek R, Kynčl J. 2022. The Z2-Genus of Kuratowski minors. Discrete and Computational
Geometry. 68, 425–447.
mla: Fulek, Radoslav, and Jan Kynčl. “The Z2-Genus of Kuratowski Minors.” Discrete
and Computational Geometry, vol. 68, Springer Nature, 2022, pp. 425–47, doi:10.1007/s00454-022-00412-w.
short: R. Fulek, J. Kynčl, Discrete and Computational Geometry 68 (2022) 425–447.
date_created: 2022-07-17T22:01:56Z
date_published: 2022-09-01T00:00:00Z
date_updated: 2023-08-14T12:43:52Z
day: '01'
department:
- _id: UlWa
doi: 10.1007/s00454-022-00412-w
external_id:
arxiv:
- '1803.05085'
isi:
- '000825014500001'
intvolume: ' 68'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1803.05085
month: '09'
oa: 1
oa_version: Preprint
page: 425-447
project:
- _id: 261FA626-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02281
name: Eliminating intersections in drawings of graphs
publication: Discrete and Computational Geometry
publication_identifier:
eissn:
- 1432-0444
issn:
- 0179-5376
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '186'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: The Z2-Genus of Kuratowski minors
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 68
year: '2022'
...
---
_id: '11601'
abstract:
- lang: eng
text: We present the third and final data release of the K2 Galactic Archaeology
Program (K2 GAP) for Campaigns C1–C8 and C10–C18. We provide asteroseismic radius
and mass coefficients, κR and κM, for ∼19,000 red giant stars, which translate
directly to radius and mass given a temperature. As such, K2 GAP DR3 represents
the largest asteroseismic sample in the literature to date. K2 GAP DR3 stellar
parameters are calibrated to be on an absolute parallactic scale based on Gaia
DR2, with red giant branch and red clump evolutionary state classifications provided
via a machine-learning approach. Combining these stellar parameters with GALAH
DR3 spectroscopy, we determine asteroseismic ages with precisions of ∼20%–30%
and compare age-abundance relations to Galactic chemical evolution models among
both low- and high-α populations for α, light, iron-peak, and neutron-capture
elements. We confirm recent indications in the literature of both increased Ba
production at late Galactic times as well as significant contributions to r-process
enrichment from prompt sources associated with, e.g., core-collapse supernovae.
With an eye toward other Galactic archeology applications, we characterize K2
GAP DR3 uncertainties and completeness using injection tests, suggesting that
K2 GAP DR3 is largely unbiased in mass/age, with uncertainties of 2.9% (stat.)
± 0.1% (syst.) and 6.7% (stat.) ± 0.3% (syst.) in κR and κM for red giant branch
stars and 4.7% (stat.) ± 0.3% (syst.) and 11% (stat.) ± 0.9% (syst.) for red clump
stars. We also identify percent-level asteroseismic systematics, which are likely
related to the time baseline of the underlying data, and which therefore should
be considered in TESS asteroseismic analysis.
acknowledgement: "We would like to thank the anonymous referee whose comments significantly
improved the manuscript. J.C.Z. is supported by an NSF Astronomy and Astrophysics
Postdoctoral Fellowship under award AST-2001869. J.C.Z. and M.H.P. acknowledge support
from NASA grants 80NSSC18K0391 and NNX17AJ40G. Y.E. and C.J. acknowledge the support
of the UK Science and Technology Facilities Council (STFC). S.M. acknowledges support
from the Spanish Ministry of Science and Innovation with the Ramon y Cajal fellowship
number RYC-2015-17697 and the grant number PID2019-107187GB-I00. R.A.G. acknowledges
funding received from the PLATO CNES grant. C.K. acknowledges funding from the UK
Science and Technology Facilities Council (STFC) through grants ST/M000958/1, ST/R000905/1,
and ST/V000632/1.\r\n\r\nFunding for the Stellar Astrophysics Centre (SAC) is provided
by the Danish National Research Foundation (grant agreement No. DNRF106).\r\n\r\nThe
K2 Galactic Archaeology Program is supported by the National Aeronautics and Space
Administration under grant NNX16AJ17G issued through the K2 Guest Observer Program.
This publication makes use of data products from the Two Micron All Sky Survey,
which is a joint project of the University of Massachusetts and the Infrared Processing
and Analysis Center/California Institute of Technology, funded by the National Aeronautics
and Space Administration and the National Science Foundation.\r\n\r\nThis paper
includes data collected by the Kepler mission. Funding for the Kepler mission is
provided by the NASA Science Mission directorate.\r\n\r\nParts of this research
were supported by the Australian Research Council Centre of Excellence for All Sky
Astrophysics in 3 Dimensions (ASTRO 3D), through project number CE170100013.\r\n\r\nThis
research was partially conducted during the Exostar19 program at the Kavli Institute
for Theoretical Physics at UC Santa Barbara, which was supported in part by the
National Science Foundation under grant No. NSF PHY-1748958.\r\n\r\nBased in part
on data obtained at Siding Spring Observatory via GALAH. We acknowledge the traditional
owners of the land on which the AAT stands, the Gamilaraay people, and pay our respects
to elders past and present.\r\n\r\nThis work has made use of data from the European
Space Agency (ESA) mission Gaia (https://www.cosmos.esa.int/gaia), processed by
the Gaia Data Processing and Analysis Consortium (DPAC, https://www.cosmos.esa.int/web/gaia/dpac/consortium).
Funding for DPAC has been provided by national institutions, in particular the institutions
participating in the Gaia Multilateral Agreement.\r\n\r\nFunding for the Sloan Digital
Sky Survey IV has been provided by the Alfred P. Sloan Foundation, the U.S. Department
of Energy Office of Science, and the Participating Institutions. SDSS-IV acknowledges
support and resources from the Center for High-Performance Computing at the University
of Utah (www.sdss.org).\r\n\r\nSoftware: asfgrid (Sharma & Stello 2016), corner
(Foreman-Mackey 2016), emcee (Foreman-Mackey et al. 2013), NumPy (Walt 2011), pandas
(McKinney 2010), Matplotlib (Hunter 2007), IPython (Pérez & Granger 2007), SciPy
(Virtanen et al.2020)."
article_number: '191'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Joel C.
full_name: Zinn, Joel C.
last_name: Zinn
- first_name: Dennis
full_name: Stello, Dennis
last_name: Stello
- first_name: Yvonne
full_name: Elsworth, Yvonne
last_name: Elsworth
- first_name: Rafael A.
full_name: García, Rafael A.
last_name: García
- first_name: Thomas
full_name: Kallinger, Thomas
last_name: Kallinger
- first_name: Savita
full_name: Mathur, Savita
last_name: Mathur
- first_name: Benoît
full_name: Mosser, Benoît
last_name: Mosser
- first_name: Marc
full_name: Hon, Marc
last_name: Hon
- first_name: Lisa Annabelle
full_name: Bugnet, Lisa Annabelle
id: d9edb345-f866-11ec-9b37-d119b5234501
last_name: Bugnet
orcid: 0000-0003-0142-4000
- first_name: Caitlin
full_name: Jones, Caitlin
last_name: Jones
- first_name: Claudia
full_name: Reyes, Claudia
last_name: Reyes
- first_name: Sanjib
full_name: Sharma, Sanjib
last_name: Sharma
- first_name: Ralph
full_name: Schönrich, Ralph
last_name: Schönrich
- first_name: Jack T.
full_name: Warfield, Jack T.
last_name: Warfield
- first_name: Rodrigo
full_name: Luger, Rodrigo
last_name: Luger
- first_name: Andrew
full_name: Vanderburg, Andrew
last_name: Vanderburg
- first_name: Chiaki
full_name: Kobayashi, Chiaki
last_name: Kobayashi
- first_name: Marc H.
full_name: Pinsonneault, Marc H.
last_name: Pinsonneault
- first_name: Jennifer A.
full_name: Johnson, Jennifer A.
last_name: Johnson
- first_name: Daniel
full_name: Huber, Daniel
last_name: Huber
- first_name: Sven
full_name: Buder, Sven
last_name: Buder
- first_name: Meridith
full_name: Joyce, Meridith
last_name: Joyce
- first_name: Joss
full_name: Bland-Hawthorn, Joss
last_name: Bland-Hawthorn
- first_name: Luca
full_name: Casagrande, Luca
last_name: Casagrande
- first_name: Geraint F.
full_name: Lewis, Geraint F.
last_name: Lewis
- first_name: Andrea
full_name: Miglio, Andrea
last_name: Miglio
- first_name: Thomas
full_name: Nordlander, Thomas
last_name: Nordlander
- first_name: Guy R.
full_name: Davies, Guy R.
last_name: Davies
- first_name: Gayandhi De
full_name: Silva, Gayandhi De
last_name: Silva
- first_name: William J.
full_name: Chaplin, William J.
last_name: Chaplin
- first_name: Victor
full_name: Silva Aguirre, Victor
last_name: Silva Aguirre
citation:
ama: 'Zinn JC, Stello D, Elsworth Y, et al. The K2 Galactic Archaeology Program
data release 3: Age-abundance patterns in C1–C8 and C10–C18. The Astrophysical
Journal. 2022;926(2). doi:10.3847/1538-4357/ac2c83'
apa: 'Zinn, J. C., Stello, D., Elsworth, Y., García, R. A., Kallinger, T., Mathur,
S., … Silva Aguirre, V. (2022). The K2 Galactic Archaeology Program data release
3: Age-abundance patterns in C1–C8 and C10–C18. The Astrophysical Journal.
IOP Publishing. https://doi.org/10.3847/1538-4357/ac2c83'
chicago: 'Zinn, Joel C., Dennis Stello, Yvonne Elsworth, Rafael A. García, Thomas
Kallinger, Savita Mathur, Benoît Mosser, et al. “The K2 Galactic Archaeology Program
Data Release 3: Age-Abundance Patterns in C1–C8 and C10–C18.” The Astrophysical
Journal. IOP Publishing, 2022. https://doi.org/10.3847/1538-4357/ac2c83.'
ieee: 'J. C. Zinn et al., “The K2 Galactic Archaeology Program data release
3: Age-abundance patterns in C1–C8 and C10–C18,” The Astrophysical Journal,
vol. 926, no. 2. IOP Publishing, 2022.'
ista: 'Zinn JC, Stello D, Elsworth Y, García RA, Kallinger T, Mathur S, Mosser B,
Hon M, Bugnet LA, Jones C, Reyes C, Sharma S, Schönrich R, Warfield JT, Luger
R, Vanderburg A, Kobayashi C, Pinsonneault MH, Johnson JA, Huber D, Buder S, Joyce
M, Bland-Hawthorn J, Casagrande L, Lewis GF, Miglio A, Nordlander T, Davies GR,
Silva GD, Chaplin WJ, Silva Aguirre V. 2022. The K2 Galactic Archaeology Program
data release 3: Age-abundance patterns in C1–C8 and C10–C18. The Astrophysical
Journal. 926(2), 191.'
mla: 'Zinn, Joel C., et al. “The K2 Galactic Archaeology Program Data Release 3:
Age-Abundance Patterns in C1–C8 and C10–C18.” The Astrophysical Journal,
vol. 926, no. 2, 191, IOP Publishing, 2022, doi:10.3847/1538-4357/ac2c83.'
short: J.C. Zinn, D. Stello, Y. Elsworth, R.A. García, T. Kallinger, S. Mathur,
B. Mosser, M. Hon, L.A. Bugnet, C. Jones, C. Reyes, S. Sharma, R. Schönrich, J.T.
Warfield, R. Luger, A. Vanderburg, C. Kobayashi, M.H. Pinsonneault, J.A. Johnson,
D. Huber, S. Buder, M. Joyce, J. Bland-Hawthorn, L. Casagrande, G.F. Lewis, A.
Miglio, T. Nordlander, G.R. Davies, G.D. Silva, W.J. Chaplin, V. Silva Aguirre,
The Astrophysical Journal 926 (2022).
date_created: 2022-07-18T10:57:30Z
date_published: 2022-02-24T00:00:00Z
date_updated: 2022-08-19T09:52:08Z
day: '24'
doi: 10.3847/1538-4357/ac2c83
extern: '1'
external_id:
arxiv:
- '2108.05455'
intvolume: ' 926'
issue: '2'
keyword:
- Space and Planetary Science
- Astronomy and Astrophysics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2108.05455
month: '02'
oa: 1
oa_version: Preprint
publication: The Astrophysical Journal
publication_identifier:
eissn:
- 1538-4357
issn:
- 0004-637X
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'The K2 Galactic Archaeology Program data release 3: Age-abundance patterns
in C1–C8 and C10–C18'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 926
year: '2022'
...
---
_id: '11602'
abstract:
- lang: eng
text: During the survey phase of the Kepler mission, several thousand stars were
observed in short cadence, allowing for the detection of solar-like oscillations
in more than 500 main-sequence and subgiant stars. These detections showed the
power of asteroseismology in determining fundamental stellar parameters. However,
the Kepler Science Office discovered an issue in the calibration that affected
half of the store of short-cadence data, leading to a new data release (DR25)
with corrections on the light curves. In this work, we re-analyzed the one-month
time series of the Kepler survey phase to search for solar-like oscillations that
might have been missed when using the previous data release. We studied the seismic
parameters of 99 stars, among which there are 46 targets with new reported solar-like
oscillations, increasing, by around 8%, the known sample of solar-like stars with
an asteroseismic analysis of the short-cadence data from this mission. The majority
of these stars have mid- to high-resolution spectroscopy publicly available with
the LAMOST and APOGEE surveys, respectively, as well as precise Gaia parallaxes.
We computed the masses and radii using seismic scaling relations and we find that
this new sample features massive stars (above 1.2 M⊙ and up to 2 M⊙) and subgiants.
We determined the granulation parameters and amplitude of the modes, which agree
with the scaling relations derived for dwarfs and subgiants. The stars studied
here are slightly fainter than the previously known sample of main-sequence and
subgiants with asteroseismic detections. We also studied the surface rotation
and magnetic activity levels of those stars. Our sample of 99 stars has similar
levels of activity compared to the previously known sample and is in the same
range as the Sun between the minimum and maximum of its activity cycle. We find
that for seven stars, a possible blend could be the reason for the non-detection
with the early data release. Finally, we compared the radii obtained from the
scaling relations with the Gaia ones and we find that the Gaia radii are overestimated
by 4.4%, on average, compared to the seismic radii, with a scatter of 12.3% and
a decreasing trend according to the evolutionary stage. In addition, for homogeneity
purposes, we re-analyzed the DR25 of the main-sequence and subgiant stars with
solar-like oscillations that were previously detected and, as a result, we provide
the global seismic parameters for a total of 525 stars.
acknowledgement: 'This paper includes data collected by the Kepler mission. Funding
for the Kepler mission is provided by the NASA Science Mission directorate. Some
of the data presented in this paper were obtained from the Mikulski Archive for
Space Telescopes (MAST). STScI is operated by the Association of Universities for
Research in Astronomy, Inc., under NASA contract NAS5-26555. S. M. acknowledges
support by the Spanish Ministry of Science and Innovation with the Ramon y Cajal
fellowship number RYC-2015-17697 and the grant number PID2019-107187GB-I00. R. A.
G. and S. N. B acknowledge the support from PLATO and GOLF CNES grants. A. R. G.
S. acknowledges the support from National Aeronautics and Space Administration under
Grant NNX17AF27G and STFC consolidated grant ST/T000252/1. D.H. acknowledges support
from the Alfred P. Sloan Foundation, the National Aeronautics and Space Administration
(80NSSC19K0597), and the National Science Foundation (AST-1717000). M.S. is supported
by the Research Corporation for Science Advancement through Scialog award #26080.
Guoshoujing Telescope (the Large Sky Area Multi-Object Fiber Spectroscopic Telescope
LAMOST) is a National Major Scientific Project built by the Chinese Academy of Sciences.
Funding for the project has been provided by the National Development and Reform
Commission. LAMOST is operated and managed by the National Astronomical Observatories,
Chinese Academy of Sciences.'
article_number: A31
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: S.
full_name: Mathur, S.
last_name: Mathur
- first_name: R. A.
full_name: García, R. A.
last_name: García
- first_name: S.
full_name: Breton, S.
last_name: Breton
- first_name: A. R. G.
full_name: Santos, A. R. G.
last_name: Santos
- first_name: B.
full_name: Mosser, B.
last_name: Mosser
- first_name: D.
full_name: Huber, D.
last_name: Huber
- first_name: M.
full_name: Sayeed, M.
last_name: Sayeed
- first_name: Lisa Annabelle
full_name: Bugnet, Lisa Annabelle
id: d9edb345-f866-11ec-9b37-d119b5234501
last_name: Bugnet
orcid: 0000-0003-0142-4000
- first_name: A.
full_name: Chontos, A.
last_name: Chontos
citation:
ama: Mathur S, García RA, Breton S, et al. Detections of solar-like oscillations
in dwarfs and subgiants with Kepler DR25 short-cadence data. Astronomy &
Astrophysics. 2022;657. doi:10.1051/0004-6361/202141168
apa: Mathur, S., García, R. A., Breton, S., Santos, A. R. G., Mosser, B., Huber,
D., … Chontos, A. (2022). Detections of solar-like oscillations in dwarfs and
subgiants with Kepler DR25 short-cadence data. Astronomy & Astrophysics.
EDP Sciences. https://doi.org/10.1051/0004-6361/202141168
chicago: Mathur, S., R. A. García, S. Breton, A. R. G. Santos, B. Mosser, D. Huber,
M. Sayeed, Lisa Annabelle Bugnet, and A. Chontos. “Detections of Solar-like Oscillations
in Dwarfs and Subgiants with Kepler DR25 Short-Cadence Data.” Astronomy &
Astrophysics. EDP Sciences, 2022. https://doi.org/10.1051/0004-6361/202141168.
ieee: S. Mathur et al., “Detections of solar-like oscillations in dwarfs
and subgiants with Kepler DR25 short-cadence data,” Astronomy & Astrophysics,
vol. 657. EDP Sciences, 2022.
ista: Mathur S, García RA, Breton S, Santos ARG, Mosser B, Huber D, Sayeed M, Bugnet
LA, Chontos A. 2022. Detections of solar-like oscillations in dwarfs and subgiants
with Kepler DR25 short-cadence data. Astronomy & Astrophysics. 657, A31.
mla: Mathur, S., et al. “Detections of Solar-like Oscillations in Dwarfs and Subgiants
with Kepler DR25 Short-Cadence Data.” Astronomy & Astrophysics, vol.
657, A31, EDP Sciences, 2022, doi:10.1051/0004-6361/202141168.
short: S. Mathur, R.A. García, S. Breton, A.R.G. Santos, B. Mosser, D. Huber, M.
Sayeed, L.A. Bugnet, A. Chontos, Astronomy & Astrophysics 657 (2022).
date_created: 2022-07-18T11:41:59Z
date_published: 2022-01-01T00:00:00Z
date_updated: 2022-08-19T09:56:58Z
day: '01'
doi: 10.1051/0004-6361/202141168
extern: '1'
external_id:
arxiv:
- '2109.14058'
intvolume: ' 657'
keyword:
- Space and Planetary Science
- Astronomy and Astrophysics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2109.14058
month: '01'
oa: 1
oa_version: Preprint
publication: Astronomy & Astrophysics
publication_identifier:
eissn:
- 1432-0746
issn:
- 0004-6361
publication_status: published
publisher: EDP Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: Detections of solar-like oscillations in dwarfs and subgiants with Kepler DR25
short-cadence data
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 657
year: '2022'
...
---
_id: '11621'
abstract:
- lang: eng
text: "Context. Asteroseismology has revealed small core-to-surface rotation contrasts
in stars in the whole Hertzsprung–Russell diagram. This is the signature of strong
transport of angular momentum (AM) in stellar interiors. One of the plausible
candidates to efficiently carry AM is magnetic fields with various topologies
that could be present in stellar radiative zones. Among them, strong axisymmetric
azimuthal (toroidal) magnetic fields have received a lot of interest. Indeed,
if they are subject to the so-called Tayler instability, the accompanying triggered
Maxwell stresses can transport AM efficiently. In addition, the electromotive
force induced by the fluctuations of magnetic and velocity fields could potentially
sustain a dynamo action that leads to the regeneration of the initial strong axisymmetric
azimuthal magnetic field.\r\n\r\nAims. The key question we aim to answer is whether
we can detect signatures of these deep strong azimuthal magnetic fields. The only
way to answer this question is asteroseismology, and the best laboratories of
study are intermediate-mass and massive stars with external radiative envelopes.
Most of these are rapid rotators during their main sequence. Therefore, we have
to study stellar pulsations propagating in stably stratified, rotating, and potentially
strongly magnetised radiative zones, namely magneto-gravito-inertial (MGI) waves.\r\n\r\nMethods.
We generalise the traditional approximation of rotation (TAR) by simultaneously
taking general axisymmetric differential rotation and azimuthal magnetic fields
into account. Both the Coriolis acceleration and the Lorentz force are therefore
treated in a non-perturbative way. Using this new formalism, we derive the asymptotic
properties of MGI waves and their period spacings.\r\n\r\nResults. We find that
toroidal magnetic fields induce a shift in the period spacings of gravity (g)
and Rossby (r) modes. An equatorial azimuthal magnetic field with an amplitude
of the order of 105 G leads to signatures that are detectable in period spacings
for high-radial-order g and r modes in γ Doradus (γ Dor) and slowly pulsating
B (SPB) stars. More complex hemispheric configurations are more difficult to observe,
particularly when they are localised out of the propagation region of MGI modes,
which can be localised in an equatorial belt.\r\n\r\nConclusions. The magnetic
TAR, which takes into account toroidal magnetic fields in a non-perturbative way,
is derived. This new formalism allows us to assess the effects of the magnetic
field in γ Dor and SPB stars on g and r modes. We find that these effects should
be detectable for equatorial fields thanks to modern space photometry using observations
from Kepler, TESS CVZ, and PLATO."
acknowledgement: 'We thank the referee for her/his positive and constructive report,
which has allowed us to improve the quality of our article. H.D. and S.M. acknowledge
support from the CNES PLATO grant at CEA/DAp. T.V.R. gratefully acknowledges support
from the Research Foundation Flanders (FWO) under grant agreement No. 12ZB620N and
V414021N. This research was supported in part by the National Science Foundation
under Grant No. NSF PHY-1748958. C.A. is supported by the KU Leuven Research Council
(grant C16/18/005: PARADISE) as well as from the BELgian federal Science Policy
Office (BELSPO) through a PLATO PRODEX grant.'
article_number: A133
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: H.
full_name: Dhouib, H.
last_name: Dhouib
- first_name: S.
full_name: Mathis, S.
last_name: Mathis
- first_name: Lisa Annabelle
full_name: Bugnet, Lisa Annabelle
id: d9edb345-f866-11ec-9b37-d119b5234501
last_name: Bugnet
orcid: 0000-0003-0142-4000
- first_name: T.
full_name: Van Reeth, T.
last_name: Van Reeth
- first_name: C.
full_name: Aerts, C.
last_name: Aerts
citation:
ama: 'Dhouib H, Mathis S, Bugnet LA, Van Reeth T, Aerts C. Detecting deep axisymmetric
toroidal magnetic fields in stars: The traditional approximation of rotation for
differentially rotating deep spherical shells with a general azimuthal magnetic
field. Astronomy & Astrophysics. 2022;661. doi:10.1051/0004-6361/202142956'
apa: 'Dhouib, H., Mathis, S., Bugnet, L. A., Van Reeth, T., & Aerts, C. (2022).
Detecting deep axisymmetric toroidal magnetic fields in stars: The traditional
approximation of rotation for differentially rotating deep spherical shells with
a general azimuthal magnetic field. Astronomy & Astrophysics. EDP Sciences.
https://doi.org/10.1051/0004-6361/202142956'
chicago: 'Dhouib, H., S. Mathis, Lisa Annabelle Bugnet, T. Van Reeth, and C. Aerts.
“Detecting Deep Axisymmetric Toroidal Magnetic Fields in Stars: The Traditional
Approximation of Rotation for Differentially Rotating Deep Spherical Shells with
a General Azimuthal Magnetic Field.” Astronomy & Astrophysics. EDP
Sciences, 2022. https://doi.org/10.1051/0004-6361/202142956.'
ieee: 'H. Dhouib, S. Mathis, L. A. Bugnet, T. Van Reeth, and C. Aerts, “Detecting
deep axisymmetric toroidal magnetic fields in stars: The traditional approximation
of rotation for differentially rotating deep spherical shells with a general azimuthal
magnetic field,” Astronomy & Astrophysics, vol. 661. EDP Sciences,
2022.'
ista: 'Dhouib H, Mathis S, Bugnet LA, Van Reeth T, Aerts C. 2022. Detecting deep
axisymmetric toroidal magnetic fields in stars: The traditional approximation
of rotation for differentially rotating deep spherical shells with a general azimuthal
magnetic field. Astronomy & Astrophysics. 661, A133.'
mla: 'Dhouib, H., et al. “Detecting Deep Axisymmetric Toroidal Magnetic Fields in
Stars: The Traditional Approximation of Rotation for Differentially Rotating Deep
Spherical Shells with a General Azimuthal Magnetic Field.” Astronomy &
Astrophysics, vol. 661, A133, EDP Sciences, 2022, doi:10.1051/0004-6361/202142956.'
short: H. Dhouib, S. Mathis, L.A. Bugnet, T. Van Reeth, C. Aerts, Astronomy &
Astrophysics 661 (2022).
date_created: 2022-07-19T08:04:15Z
date_published: 2022-05-19T00:00:00Z
date_updated: 2022-08-22T07:58:54Z
day: '19'
doi: 10.1051/0004-6361/202142956
extern: '1'
external_id:
arxiv:
- '2202.10026'
intvolume: ' 661'
keyword:
- Space and Planetary Science
- Astronomy and Astrophysics
- magnetohydrodynamics (MHD) / waves / stars
- 'rotation / stars: magnetic field / stars'
- oscillations / methods
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2202.10026
month: '05'
oa: 1
oa_version: Preprint
publication: Astronomy & Astrophysics
publication_identifier:
eissn:
- 1432-0746
issn:
- 0004-6361
publication_status: published
publisher: EDP Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Detecting deep axisymmetric toroidal magnetic fields in stars: The traditional
approximation of rotation for differentially rotating deep spherical shells with
a general azimuthal magnetic field'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 661
year: '2022'
...
---
_id: '11626'
abstract:
- lang: eng
text: Plant growth and development is well known to be both, flexible and dynamic.
The high capacity for post-embryonic organ formation and tissue regeneration requires
tightly regulated intercellular communication and coordinated tissue polarization.
One of the most important drivers for patterning and polarity in plant development
is the phytohormone auxin. Auxin has the unique characteristic to establish polarized
channels for its own active directional cell to cell transport. This fascinating
phenomenon is called auxin canalization. Those auxin transport channels are characterized
by the expression and polar, subcellular localization of PIN auxin efflux carriers.
PIN proteins have the ability to dynamically change their localization and auxin
itself can affect this by interfering with trafficking. Most of the underlying
molecular mechanisms of canalization still remain enigmatic. What is known so
far is that canonical auxin signaling is indispensable but also other non-canonical
signaling components are thought to play a role. In order to shed light into the
mysteries auf auxin canalization this study revisits the branches of auxin signaling
in detail. Further a new auxin analogue, PISA, is developed which triggers auxin-like
responses but does not directly activate canonical transcriptional auxin signaling.
We revisit the direct auxin effect on PIN trafficking where we found that, contradictory
to previous observations, auxin is very specifically promoting endocytosis of
PIN2 but has no overall effect on endocytosis. Further, we evaluate which cellular
processes related to PIN subcellular dynamics are involved in the establishment
of auxin conducting channels and the formation of vascular tissue. We are re-evaluating
the function of AUXIN BINDING PROTEIN 1 (ABP1) and provide a comprehensive picture
about its developmental phneotypes and involvement in auxin signaling and canalization.
Lastly, we are focusing on the crosstalk between the hormone strigolactone (SL)
and auxin and found that SL is interfering with essentially all processes involved
in auxin canalization in a non-transcriptional manner. Lastly we identify a new
way of SL perception and signaling which is emanating from mitochondria, is independent
of canonical SL signaling and is modulating primary root growth.
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Michelle C
full_name: Gallei, Michelle C
id: 35A03822-F248-11E8-B48F-1D18A9856A87
last_name: Gallei
orcid: 0000-0003-1286-7368
citation:
ama: Gallei MC. Auxin and strigolactone non-canonical signaling regulating development
in Arabidopsis thaliana. 2022. doi:10.15479/at:ista:11626
apa: Gallei, M. C. (2022). Auxin and strigolactone non-canonical signaling regulating
development in Arabidopsis thaliana. Institute of Science and Technology Austria.
https://doi.org/10.15479/at:ista:11626
chicago: Gallei, Michelle C. “Auxin and Strigolactone Non-Canonical Signaling Regulating
Development in Arabidopsis Thaliana.” Institute of Science and Technology Austria,
2022. https://doi.org/10.15479/at:ista:11626.
ieee: M. C. Gallei, “Auxin and strigolactone non-canonical signaling regulating
development in Arabidopsis thaliana,” Institute of Science and Technology Austria,
2022.
ista: Gallei MC. 2022. Auxin and strigolactone non-canonical signaling regulating
development in Arabidopsis thaliana. Institute of Science and Technology Austria.
mla: Gallei, Michelle C. Auxin and Strigolactone Non-Canonical Signaling Regulating
Development in Arabidopsis Thaliana. Institute of Science and Technology Austria,
2022, doi:10.15479/at:ista:11626.
short: M.C. Gallei, Auxin and Strigolactone Non-Canonical Signaling Regulating Development
in Arabidopsis Thaliana, Institute of Science and Technology Austria, 2022.
date_created: 2022-07-20T11:21:53Z
date_published: 2022-07-20T00:00:00Z
date_updated: 2024-10-29T10:22:45Z
day: '20'
ddc:
- '575'
degree_awarded: PhD
department:
- _id: GradSch
- _id: JiFr
doi: 10.15479/at:ista:11626
ec_funded: 1
file:
- access_level: open_access
checksum: bd7ac35403cf5b4b2607287d2a104b3a
content_type: application/pdf
creator: mgallei
date_created: 2022-07-25T09:08:47Z
date_updated: 2022-07-25T09:08:47Z
file_id: '11645'
file_name: Thesis_Gallei.pdf
file_size: 9730864
relation: main_file
- access_level: closed
checksum: a9e54fe5471ba25dc13c2150c1b8ccbb
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: mgallei
date_created: 2022-07-25T09:09:09Z
date_updated: 2022-07-25T09:39:58Z
file_id: '11646'
file_name: Thesis_Gallei_source.docx
file_size: 19560720
relation: source_file
- access_level: closed
checksum: 3994f7f20058941b5bb8a16886b21e71
content_type: application/pdf
creator: mgallei
date_created: 2022-07-25T09:09:32Z
date_updated: 2022-07-25T09:39:58Z
description: This is the print version of the thesis including the full appendix
file_id: '11647'
file_name: Thesis_Gallei_to_print.pdf
file_size: 24542837
relation: source_file
- access_level: open_access
checksum: f24acd3c0d864f4c6676e8b0d7bfa76b
content_type: application/pdf
creator: mgallei
date_created: 2022-07-25T11:48:45Z
date_updated: 2022-07-25T11:48:45Z
file_id: '11650'
file_name: Thesis_Gallei_Appendix.pdf
file_size: 15435966
relation: main_file
file_date_updated: 2022-07-25T11:48:45Z
has_accepted_license: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: '248'
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
publication_identifier:
isbn:
- 978-3-99078-019-0
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '9287'
relation: part_of_dissertation
status: public
- id: '7142'
relation: part_of_dissertation
status: public
- id: '7465'
relation: part_of_dissertation
status: public
- id: '8138'
relation: part_of_dissertation
status: public
- id: '6260'
relation: part_of_dissertation
status: public
- id: '8931'
relation: part_of_dissertation
status: public
- id: '10411'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
- first_name: Eilon
full_name: Shani, Eilon
last_name: Shani
title: Auxin and strigolactone non-canonical signaling regulating development in Arabidopsis
thaliana
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2022'
...
---
_id: '11636'
abstract:
- lang: eng
text: In [3], Poonen and Slavov recently developed a novel approach to Bertini irreducibility
theorems over an arbitrary field, based on random hyperplane slicing. In this
paper, we extend their work by proving an analogous bound for the dimension of
the exceptional locus in the setting of linear subspaces of higher codimensions.
article_number: '102085'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Philip
full_name: Kmentt, Philip
id: c90670c9-0bf0-11ed-86f5-ed522ece2fac
last_name: Kmentt
- first_name: Alec L
full_name: Shute, Alec L
id: 440EB050-F248-11E8-B48F-1D18A9856A87
last_name: Shute
orcid: 0000-0002-1812-2810
citation:
ama: Kmentt P, Shute AL. The Bertini irreducibility theorem for higher codimensional
slices. Finite Fields and their Applications. 2022;83(10). doi:10.1016/j.ffa.2022.102085
apa: Kmentt, P., & Shute, A. L. (2022). The Bertini irreducibility theorem for
higher codimensional slices. Finite Fields and Their Applications. Elsevier.
https://doi.org/10.1016/j.ffa.2022.102085
chicago: Kmentt, Philip, and Alec L Shute. “The Bertini Irreducibility Theorem for
Higher Codimensional Slices.” Finite Fields and Their Applications. Elsevier,
2022. https://doi.org/10.1016/j.ffa.2022.102085.
ieee: P. Kmentt and A. L. Shute, “The Bertini irreducibility theorem for higher
codimensional slices,” Finite Fields and their Applications, vol. 83, no.
10. Elsevier, 2022.
ista: Kmentt P, Shute AL. 2022. The Bertini irreducibility theorem for higher codimensional
slices. Finite Fields and their Applications. 83(10), 102085.
mla: Kmentt, Philip, and Alec L. Shute. “The Bertini Irreducibility Theorem for
Higher Codimensional Slices.” Finite Fields and Their Applications, vol.
83, no. 10, 102085, Elsevier, 2022, doi:10.1016/j.ffa.2022.102085.
short: P. Kmentt, A.L. Shute, Finite Fields and Their Applications 83 (2022).
date_created: 2022-07-24T22:01:41Z
date_published: 2022-10-01T00:00:00Z
date_updated: 2023-08-03T12:12:57Z
day: '01'
ddc:
- '510'
department:
- _id: TiBr
doi: 10.1016/j.ffa.2022.102085
external_id:
arxiv:
- '2111.06697'
isi:
- '000835490600001'
file:
- access_level: open_access
checksum: 3ca88decb1011180dc6de7e0862153e1
content_type: application/pdf
creator: dernst
date_created: 2023-02-02T07:56:34Z
date_updated: 2023-02-02T07:56:34Z
file_id: '12475'
file_name: 2022_FiniteFields_Kmentt.pdf
file_size: 247615
relation: main_file
success: 1
file_date_updated: 2023-02-02T07:56:34Z
has_accepted_license: '1'
intvolume: ' 83'
isi: 1
issue: '10'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '10'
oa: 1
oa_version: Published Version
publication: Finite Fields and their Applications
publication_identifier:
eissn:
- '10902465'
issn:
- '10715797'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: The Bertini irreducibility theorem for higher codimensional slices
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: 83
year: '2022'
...
---
_id: '11637'
abstract:
- lang: eng
text: The ability to detect and respond to acute oxygen (O2) shortages is indispensable
to aerobic life. The molecular mechanisms and circuits underlying this capacity
are poorly understood. Here, we characterize the behavioral responses of feeding
Caenorhabditis elegans to approximately 1% O2. Acute hypoxia triggers a bout of
turning maneuvers followed by a persistent switch to rapid forward movement as
animals seek to avoid and escape hypoxia. While the behavioral responses to 1%
O2 closely resemble those evoked by 21% O2, they have distinct molecular and circuit
underpinnings. Disrupting phosphodiesterases (PDEs), specific G proteins, or BBSome
function inhibits escape from 1% O2 due to increased cGMP signaling. A primary
source of cGMP is GCY-28, the ortholog of the atrial natriuretic peptide (ANP)
receptor. cGMP activates the protein kinase G EGL-4 and enhances neuroendocrine
secretion to inhibit acute responses to 1% O2. Triggering a rise in cGMP optogenetically
in multiple neurons, including AIA interneurons, rapidly and reversibly inhibits
escape from 1% O2. Ca2+ imaging reveals that a 7% to 1% O2 stimulus evokes a Ca2+
decrease in several neurons. Defects in mitochondrial complex I (MCI) and mitochondrial
complex I (MCIII), which lead to persistently high reactive oxygen species (ROS),
abrogate acute hypoxia responses. In particular, repressing the expression of
isp-1, which encodes the iron sulfur protein of MCIII, inhibits escape from 1%
O2 without affecting responses to 21% O2. Both genetic and pharmacological up-regulation
of mitochondrial ROS increase cGMP levels, which contribute to the reduced hypoxia
responses. Our results implicate ROS and precise regulation of intracellular cGMP
in the modulation of acute responses to hypoxia by C. elegans.
acknowledgement: ' This work was funded by H2020 European Research Council (ERC Advanced
grant, 269058 ACMO, https://erc.europa.eu/funding/advanced-grants) and Wellcome
Trust UK (Wellcome Investigator Award, 209504/Z/17/Z, https://wellcome.org/grant-funding/people-and-projects/grants-awarded/molecular-mechanisms-neural-circuit-function-0)
to M.d.B, and by H2020 European Research Council (ERC starting grant, 802653 OXYGEN
SENSING, https://erc.europa.eu/funding/starting-grants) and Vetenskapsrådet (VR
starting grant, 2018-02216, https://www.vr.se/english.html) to C.C. The funders
had no role in study design, data collection and analysis, decision to publish,
or preparation of the manuscript.'
article_number: e3001684
article_processing_charge: No
article_type: original
author:
- first_name: Lina
full_name: Zhao, Lina
last_name: Zhao
- first_name: Lorenz A.
full_name: Fenk, Lorenz A.
last_name: Fenk
- first_name: Lars
full_name: Nilsson, Lars
last_name: Nilsson
- first_name: Niko Paresh
full_name: Amin-Wetzel, Niko Paresh
id: E95D3014-9D8C-11E9-9C80-D2F8E5697425
last_name: Amin-Wetzel
- first_name: Nelson
full_name: Ramirez, Nelson
id: 39831956-E4FE-11E9-85DE-0DC7E5697425
last_name: Ramirez
- first_name: Mario
full_name: De Bono, Mario
id: 4E3FF80E-F248-11E8-B48F-1D18A9856A87
last_name: De Bono
orcid: 0000-0001-8347-0443
- first_name: Changchun
full_name: Chen, Changchun
last_name: Chen
citation:
ama: Zhao L, Fenk LA, Nilsson L, et al. ROS and cGMP signaling modulate persistent
escape from hypoxia in Caenorhabditis elegans. PLoS Biology. 2022;20(6).
doi:10.1371/journal.pbio.3001684
apa: Zhao, L., Fenk, L. A., Nilsson, L., Amin-Wetzel, N. P., Ramirez, N., de Bono,
M., & Chen, C. (2022). ROS and cGMP signaling modulate persistent escape from
hypoxia in Caenorhabditis elegans. PLoS Biology. Public Library of Science.
https://doi.org/10.1371/journal.pbio.3001684
chicago: Zhao, Lina, Lorenz A. Fenk, Lars Nilsson, Niko Paresh Amin-Wetzel, Nelson
Ramirez, Mario de Bono, and Changchun Chen. “ROS and CGMP Signaling Modulate Persistent
Escape from Hypoxia in Caenorhabditis Elegans.” PLoS Biology. Public Library
of Science, 2022. https://doi.org/10.1371/journal.pbio.3001684.
ieee: L. Zhao et al., “ROS and cGMP signaling modulate persistent escape
from hypoxia in Caenorhabditis elegans,” PLoS Biology, vol. 20, no. 6.
Public Library of Science, 2022.
ista: Zhao L, Fenk LA, Nilsson L, Amin-Wetzel NP, Ramirez N, de Bono M, Chen C.
2022. ROS and cGMP signaling modulate persistent escape from hypoxia in Caenorhabditis
elegans. PLoS Biology. 20(6), e3001684.
mla: Zhao, Lina, et al. “ROS and CGMP Signaling Modulate Persistent Escape from
Hypoxia in Caenorhabditis Elegans.” PLoS Biology, vol. 20, no. 6, e3001684,
Public Library of Science, 2022, doi:10.1371/journal.pbio.3001684.
short: L. Zhao, L.A. Fenk, L. Nilsson, N.P. Amin-Wetzel, N. Ramirez, M. de Bono,
C. Chen, PLoS Biology 20 (2022).
date_created: 2022-07-24T22:01:42Z
date_published: 2022-06-21T00:00:00Z
date_updated: 2023-08-03T12:11:44Z
day: '21'
ddc:
- '570'
department:
- _id: MaDe
doi: 10.1371/journal.pbio.3001684
external_id:
isi:
- '000828679600001'
pmid:
- '35727855'
file:
- access_level: open_access
checksum: df4902f854ad76769d3203bfdc69f16c
content_type: application/pdf
creator: dernst
date_created: 2022-07-25T07:38:49Z
date_updated: 2022-07-25T07:38:49Z
file_id: '11643'
file_name: 2022_PLoSBiology_Zhao.pdf
file_size: 3721585
relation: main_file
success: 1
file_date_updated: 2022-07-25T07:38:49Z
has_accepted_license: '1'
intvolume: ' 20'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 23870BE8-32DE-11EA-91FC-C7463DDC885E
grant_number: 209504/A/17/Z
name: Molecular mechanisms of neural circuit function
publication: PLoS Biology
publication_identifier:
eissn:
- 1545-7885
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: ROS and cGMP signaling modulate persistent escape from hypoxia in Caenorhabditis
elegans
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: 20
year: '2022'
...
---
_id: '11638'
abstract:
- lang: eng
text: 'Statistical inference is central to many scientific endeavors, yet how it
works remains unresolved. Answering this requires a quantitative understanding
of the intrinsic interplay between statistical models, inference methods, and
the structure in the data. To this end, we characterize the efficacy of direct
coupling analysis (DCA)—a highly successful method for analyzing amino acid sequence
data—in inferring pairwise interactions from samples of ferromagnetic Ising models
on random graphs. Our approach allows for physically motivated exploration of
qualitatively distinct data regimes separated by phase transitions. We show that
inference quality depends strongly on the nature of data-generating distributions:
optimal accuracy occurs at an intermediate temperature where the detrimental effects
from macroscopic order and thermal noise are minimal. Importantly our results
indicate that DCA does not always outperform its local-statistics-based predecessors;
while DCA excels at low temperatures, it becomes inferior to simple correlation
thresholding at virtually all temperatures when data are limited. Our findings
offer insights into the regime in which DCA operates so successfully, and more
broadly, how inference interacts with the structure in the data.'
acknowledgement: This work was supported in part by the Alfred P. Sloan Foundation,
the Simons Foundation, the National Institutes of Health under Award No. R01EB026943,
and the National Science Foundation, through the Center for the Physics of Biological
Function (PHY-1734030).
article_number: '023240'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Vudtiwat
full_name: Ngampruetikorn, Vudtiwat
last_name: Ngampruetikorn
- first_name: Vedant
full_name: Sachdeva, Vedant
last_name: Sachdeva
- first_name: Johanna
full_name: Torrence, Johanna
last_name: Torrence
- first_name: Jan
full_name: Humplik, Jan
id: 2E9627A8-F248-11E8-B48F-1D18A9856A87
last_name: Humplik
- first_name: David J.
full_name: Schwab, David J.
last_name: Schwab
- first_name: Stephanie E.
full_name: Palmer, Stephanie E.
last_name: Palmer
citation:
ama: Ngampruetikorn V, Sachdeva V, Torrence J, Humplik J, Schwab DJ, Palmer SE.
Inferring couplings in networks across order-disorder phase transitions. Physical
Review Research. 2022;4(2). doi:10.1103/PhysRevResearch.4.023240
apa: Ngampruetikorn, V., Sachdeva, V., Torrence, J., Humplik, J., Schwab, D. J.,
& Palmer, S. E. (2022). Inferring couplings in networks across order-disorder
phase transitions. Physical Review Research. American Physical Society.
https://doi.org/10.1103/PhysRevResearch.4.023240
chicago: Ngampruetikorn, Vudtiwat, Vedant Sachdeva, Johanna Torrence, Jan Humplik,
David J. Schwab, and Stephanie E. Palmer. “Inferring Couplings in Networks across
Order-Disorder Phase Transitions.” Physical Review Research. American Physical
Society, 2022. https://doi.org/10.1103/PhysRevResearch.4.023240.
ieee: V. Ngampruetikorn, V. Sachdeva, J. Torrence, J. Humplik, D. J. Schwab, and
S. E. Palmer, “Inferring couplings in networks across order-disorder phase transitions,”
Physical Review Research, vol. 4, no. 2. American Physical Society, 2022.
ista: Ngampruetikorn V, Sachdeva V, Torrence J, Humplik J, Schwab DJ, Palmer SE.
2022. Inferring couplings in networks across order-disorder phase transitions.
Physical Review Research. 4(2), 023240.
mla: Ngampruetikorn, Vudtiwat, et al. “Inferring Couplings in Networks across Order-Disorder
Phase Transitions.” Physical Review Research, vol. 4, no. 2, 023240, American
Physical Society, 2022, doi:10.1103/PhysRevResearch.4.023240.
short: V. Ngampruetikorn, V. Sachdeva, J. Torrence, J. Humplik, D.J. Schwab, S.E.
Palmer, Physical Review Research 4 (2022).
date_created: 2022-07-24T22:01:42Z
date_published: 2022-06-24T00:00:00Z
date_updated: 2022-07-25T07:52:35Z
day: '24'
ddc:
- '530'
department:
- _id: GaTk
doi: 10.1103/PhysRevResearch.4.023240
external_id:
arxiv:
- '2106.02349'
file:
- access_level: open_access
checksum: ed6fdc2a3a096df785fa5f7b17b716c6
content_type: application/pdf
creator: dernst
date_created: 2022-07-25T07:47:23Z
date_updated: 2022-07-25T07:47:23Z
file_id: '11644'
file_name: 2022_PhysicalReviewResearch_Ngampruetikorn.pdf
file_size: 1379683
relation: main_file
success: 1
file_date_updated: 2022-07-25T07:47:23Z
funded_apc: '1'
has_accepted_license: '1'
intvolume: ' 4'
issue: '2'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: Physical Review Research
publication_identifier:
issn:
- 2643-1564
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Inferring couplings in networks across order-disorder phase transitions
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: 4
year: '2022'
...
---
_id: '11639'
abstract:
- lang: eng
text: We study the list decodability of different ensembles of codes over the real
alphabet under the assumption of an omniscient adversary. It is a well-known result
that when the source and the adversary have power constraints P and N respectively,
the list decoding capacity is equal to 1/2logP/N. Random spherical codes achieve
constant list sizes, and the goal of the present paper is to obtain a better understanding
of the smallest achievable list size as a function of the gap to capacity. We
show a reduction from arbitrary codes to spherical codes, and derive a lower bound
on the list size of typical random spherical codes. We also give an upper bound
on the list size achievable using nested Construction-A lattices and infinite
Construction-A lattices. We then define and study a class of infinite constellations
that generalize Construction-A lattices and prove upper and lower bounds for the
same. Other goodness properties such as packing goodness and AWGN goodness of
infinite constellations are proved along the way. Finally, we consider random
lattices sampled from the Haar distribution and show that if a certain conjecture
that originates in analytic number theory is true, then the list size grows as
a polynomial function of the gap-to-capacity.
acknowledgement: "This work was done when Shashank Vatedka was at the Chinese University
of Hong Kong, where he was supported in part by CUHK Direct Grants 4055039 and 4055077.
He would like to acknowledge funding from a seed grant offered by IIT Hyderabad
and the Start-up Research Grant (SRG/2020/000910) from the Science and Engineering
Board, India. Yihan Zhang has received funding from the European Union’s Horizon
2020 research and innovation programme\r\nunder grant agreement No 682203-ERC-[Inf-Speed-Tradeoff]."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Yihan
full_name: Zhang, Yihan
id: 2ce5da42-b2ea-11eb-bba5-9f264e9d002c
last_name: Zhang
- first_name: Shashank
full_name: Vatedka, Shashank
last_name: Vatedka
citation:
ama: Zhang Y, Vatedka S. List decoding random Euclidean codes and Infinite constellations.
IEEE Transactions on Information Theory. 2022;68(12):7753-7786. doi:10.1109/TIT.2022.3189542
apa: Zhang, Y., & Vatedka, S. (2022). List decoding random Euclidean codes and
Infinite constellations. IEEE Transactions on Information Theory. IEEE.
https://doi.org/10.1109/TIT.2022.3189542
chicago: Zhang, Yihan, and Shashank Vatedka. “List Decoding Random Euclidean Codes
and Infinite Constellations.” IEEE Transactions on Information Theory.
IEEE, 2022. https://doi.org/10.1109/TIT.2022.3189542.
ieee: Y. Zhang and S. Vatedka, “List decoding random Euclidean codes and Infinite
constellations,” IEEE Transactions on Information Theory, vol. 68, no.
12. IEEE, pp. 7753–7786, 2022.
ista: Zhang Y, Vatedka S. 2022. List decoding random Euclidean codes and Infinite
constellations. IEEE Transactions on Information Theory. 68(12), 7753–7786.
mla: Zhang, Yihan, and Shashank Vatedka. “List Decoding Random Euclidean Codes and
Infinite Constellations.” IEEE Transactions on Information Theory, vol.
68, no. 12, IEEE, 2022, pp. 7753–86, doi:10.1109/TIT.2022.3189542.
short: Y. Zhang, S. Vatedka, IEEE Transactions on Information Theory 68 (2022) 7753–7786.
date_created: 2022-07-24T22:01:42Z
date_published: 2022-12-01T00:00:00Z
date_updated: 2023-08-03T12:12:19Z
day: '01'
department:
- _id: MaMo
doi: 10.1109/TIT.2022.3189542
external_id:
arxiv:
- '1901.03790'
isi:
- '000891796100007'
intvolume: ' 68'
isi: 1
issue: '12'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1901.03790
month: '12'
oa: 1
oa_version: Preprint
page: 7753-7786
publication: IEEE Transactions on Information Theory
publication_identifier:
eissn:
- 1557-9654
issn:
- 0018-9448
publication_status: published
publisher: IEEE
quality_controlled: '1'
scopus_import: '1'
status: public
title: List decoding random Euclidean codes and Infinite constellations
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 68
year: '2022'
...
---
_id: '11640'
abstract:
- lang: eng
text: Spatially explicit population genetic models have long been developed, yet
have rarely been used to test hypotheses about the spatial distribution of genetic
diversity or the genetic divergence between populations. Here, we use spatially
explicit coalescence simulations to explore the properties of the island and the
two-dimensional stepping stone models under a wide range of scenarios with spatio-temporal
variation in deme size. We avoid the simulation of genetic data, using the fact
that under the studied models, summary statistics of genetic diversity and divergence
can be approximated from coalescence times. We perform the simulations using gridCoal,
a flexible spatial wrapper for the software msprime (Kelleher et al., 2016, Theoretical
Population Biology, 95, 13) developed herein. In gridCoal, deme sizes can change
arbitrarily across space and time, as well as migration rates between individual
demes. We identify different factors that can cause a deviation from theoretical
expectations, such as the simulation time in comparison to the effective deme
size and the spatio-temporal autocorrelation across the grid. Our results highlight
that FST, a measure of the strength of population structure, principally depends
on recent demography, which makes it robust to temporal variation in deme size.
In contrast, the amount of genetic diversity is dependent on the distant past
when Ne is large, therefore longer run times are needed to estimate Ne than FST.
Finally, we illustrate the use of gridCoal on a real-world example, the range
expansion of silver fir (Abies alba Mill.) since the last glacial maximum, using
different degrees of spatio-temporal variation in deme size.
acknowledgement: ES was supported by an IST studentship provided by IST Austria. BT
was funded by the European Union's Horizon 2020 research and innovation programme
under the Marie Sklodowska-Curie Independent Fellowship (704172, RACE). This project
received further funding awarded to KC from the Swiss National Science Foundation
(SNSF CRSK-3_190288) and the Swiss Federal Research Institute WSL. We thank Nick
Barton for many invaluable discussions and his comments on the thesis chapter and
this manuscript. We thank Peter Ralph and Jerome Kelleher for useful discussions
and Bisschop Gertjan for comments on this manuscript. We thank Fortunat Joos for
providing us with the raw data from the LPX-Bern model for silver fir, and Willy
Tinner for helpful insights about the demographic history of silver fir. We also
thank the editor Alana Alexander for useful comments and advice on the manuscript.
Open access funding provided by Eidgenossische Technische Hochschule Zurich.
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: Barbora
full_name: Trubenova, Barbora
id: 42302D54-F248-11E8-B48F-1D18A9856A87
last_name: Trubenova
orcid: 0000-0002-6873-2967
- first_name: Katalin
full_name: Csilléry, Katalin
last_name: Csilléry
citation:
ama: Szep E, Trubenova B, Csilléry K. Using gridCoal to assess whether standard
population genetic theory holds in the presence of spatio-temporal heterogeneity
in population size. Molecular Ecology Resources. 2022;22(8):2941-2955.
doi:10.1111/1755-0998.13676
apa: Szep, E., Trubenova, B., & Csilléry, K. (2022). Using gridCoal to assess
whether standard population genetic theory holds in the presence of spatio-temporal
heterogeneity in population size. Molecular Ecology Resources. Wiley. https://doi.org/10.1111/1755-0998.13676
chicago: Szep, Eniko, Barbora Trubenova, and Katalin Csilléry. “Using GridCoal to
Assess Whether Standard Population Genetic Theory Holds in the Presence of Spatio-Temporal
Heterogeneity in Population Size.” Molecular Ecology Resources. Wiley,
2022. https://doi.org/10.1111/1755-0998.13676.
ieee: E. Szep, B. Trubenova, and K. Csilléry, “Using gridCoal to assess whether
standard population genetic theory holds in the presence of spatio-temporal heterogeneity
in population size,” Molecular Ecology Resources, vol. 22, no. 8. Wiley,
pp. 2941–2955, 2022.
ista: Szep E, Trubenova B, Csilléry K. 2022. Using gridCoal to assess whether standard
population genetic theory holds in the presence of spatio-temporal heterogeneity
in population size. Molecular Ecology Resources. 22(8), 2941–2955.
mla: Szep, Eniko, et al. “Using GridCoal to Assess Whether Standard Population Genetic
Theory Holds in the Presence of Spatio-Temporal Heterogeneity in Population Size.”
Molecular Ecology Resources, vol. 22, no. 8, Wiley, 2022, pp. 2941–55,
doi:10.1111/1755-0998.13676.
short: E. Szep, B. Trubenova, K. Csilléry, Molecular Ecology Resources 22 (2022)
2941–2955.
date_created: 2022-07-24T22:01:43Z
date_published: 2022-11-01T00:00:00Z
date_updated: 2023-08-03T12:11:01Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/1755-0998.13676
ec_funded: 1
external_id:
isi:
- '000825873600001'
file:
- access_level: open_access
checksum: 3102e203e77b884bffffdbe8e548da88
content_type: application/pdf
creator: dernst
date_created: 2023-02-02T08:11:23Z
date_updated: 2023-02-02T08:11:23Z
file_id: '12477'
file_name: 2022_MolecularEcologyRes_Szep.pdf
file_size: 6431779
relation: main_file
success: 1
file_date_updated: 2023-02-02T08:11:23Z
has_accepted_license: '1'
intvolume: ' 22'
isi: 1
issue: '8'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '11'
oa: 1
oa_version: Published Version
page: 2941-2955
project:
- _id: 25AEDD42-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '704172'
name: Rate of Adaptation in Changing Environment
publication: Molecular Ecology Resources
publication_identifier:
eissn:
- 1755-0998
issn:
- 1755-098X
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Using gridCoal to assess whether standard population genetic theory holds in
the presence of spatio-temporal heterogeneity in population size
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 22
year: '2022'
...
---
_id: '11648'
abstract:
- lang: eng
text: 'Progress in structural membrane biology has been significantly accelerated
by the ongoing ''Resolution Revolution'' in cryo electron microscopy (cryo-EM).
In particular, structure determination by single particle analysis has evolved
into the most powerful method for atomic model building of multisubunit membrane
protein complexes. This has created an ever increasing demand in cryo-EM machine
time, which to satisfy is in need of new and affordable cryo electron microscopes.
Here, we review our experience in using the JEOL CRYO ARM 200 prototype for the
structure determination by single particle analysis of three different multisubunit
membrane complexes: the Thermus thermophilus V-type ATPase VO complex, the Thermosynechococcus
elongatus photosystem I monomer and the flagellar motor LP-ring from Salmonella
enterica.'
acknowledgement: "Cyclic Innovation for Clinical Empowerment (JP17pc0101020 from Japan
Agency for Medical Research and Development (AMED) to K.N. and G.K.); Platform Project
for Supporting Drug Discovery and Life Science Research (Basis for Supporting Innovative
Drug Discovery and Life Science Research) from AMED (JP20am0101117 to K.N., JP16K07266
to Atsunori Oshima and C.G., JP22ama121001j0001 to Masaki Yamamoto, G.K., T.K. and
C.G.); a JSPS KAHKENHI\r\ngrant (20K06514 to J.K.) and a Grant-in-aid for JSPS fellows
(20J00162 to A.N.).\r\nWe are grateful for initiation and scientific support from
Matthias Rogner, Marc M. Nowaczyk, Anna Frank and ̈Yuko Misumi for the PSI monomer
project and also would like to thank Hideki Shigematsu for critical reading of the
manuscript. And we are indebted to the two anonymous reviewers who helped us to
improve our manuscript."
article_processing_charge: No
article_type: original
author:
- first_name: Christoph
full_name: Gerle, Christoph
last_name: Gerle
- first_name: Jun-ichi
full_name: Kishikawa, Jun-ichi
last_name: Kishikawa
- first_name: Tomoko
full_name: Yamaguchi, Tomoko
last_name: Yamaguchi
- first_name: Atsuko
full_name: Nakanishi, Atsuko
last_name: Nakanishi
- first_name: Mehmet Orkun
full_name: Çoruh, Mehmet Orkun
id: d25163e5-8d53-11eb-a251-e6dd8ea1b8ef
last_name: Çoruh
orcid: 0000-0002-3219-2022
- first_name: Fumiaki
full_name: Makino, Fumiaki
last_name: Makino
- first_name: Tomoko
full_name: Miyata, Tomoko
last_name: Miyata
- first_name: Akihiro
full_name: Kawamoto, Akihiro
last_name: Kawamoto
- first_name: Ken
full_name: Yokoyama, Ken
last_name: Yokoyama
- first_name: Keiichi
full_name: Namba, Keiichi
last_name: Namba
- first_name: Genji
full_name: Kurisu, Genji
last_name: Kurisu
- first_name: Takayuki
full_name: Kato, Takayuki
last_name: Kato
citation:
ama: Gerle C, Kishikawa J, Yamaguchi T, et al. Structures of multisubunit membrane
complexes with the CRYO ARM 200. Microscopy. 2022;71(5):249-261. doi:10.1093/jmicro/dfac037
apa: Gerle, C., Kishikawa, J., Yamaguchi, T., Nakanishi, A., Çoruh, M. O., Makino,
F., … Kato, T. (2022). Structures of multisubunit membrane complexes with the
CRYO ARM 200. Microscopy. Oxford University Press. https://doi.org/10.1093/jmicro/dfac037
chicago: Gerle, Christoph, Jun-ichi Kishikawa, Tomoko Yamaguchi, Atsuko Nakanishi,
Mehmet Orkun Çoruh, Fumiaki Makino, Tomoko Miyata, et al. “Structures of Multisubunit
Membrane Complexes with the CRYO ARM 200.” Microscopy. Oxford University
Press, 2022. https://doi.org/10.1093/jmicro/dfac037.
ieee: C. Gerle et al., “Structures of multisubunit membrane complexes with
the CRYO ARM 200,” Microscopy, vol. 71, no. 5. Oxford University Press,
pp. 249–261, 2022.
ista: Gerle C, Kishikawa J, Yamaguchi T, Nakanishi A, Çoruh MO, Makino F, Miyata
T, Kawamoto A, Yokoyama K, Namba K, Kurisu G, Kato T. 2022. Structures of multisubunit
membrane complexes with the CRYO ARM 200. Microscopy. 71(5), 249–261.
mla: Gerle, Christoph, et al. “Structures of Multisubunit Membrane Complexes with
the CRYO ARM 200.” Microscopy, vol. 71, no. 5, Oxford University Press,
2022, pp. 249–61, doi:10.1093/jmicro/dfac037.
short: C. Gerle, J. Kishikawa, T. Yamaguchi, A. Nakanishi, M.O. Çoruh, F. Makino,
T. Miyata, A. Kawamoto, K. Yokoyama, K. Namba, G. Kurisu, T. Kato, Microscopy
71 (2022) 249–261.
date_created: 2022-07-25T10:04:58Z
date_published: 2022-10-01T00:00:00Z
date_updated: 2023-08-03T12:13:37Z
day: '01'
ddc:
- '570'
department:
- _id: LeSa
doi: 10.1093/jmicro/dfac037
external_id:
isi:
- '000837950900001'
pmid:
- '35861182'
file:
- access_level: open_access
checksum: 23b51c163636bf9313f7f0818312e67e
content_type: application/pdf
creator: dernst
date_created: 2023-02-03T08:34:48Z
date_updated: 2023-02-03T08:34:48Z
file_id: '12498'
file_name: 2022_Microscopy_Gerle.pdf
file_size: 7812696
relation: main_file
success: 1
file_date_updated: 2023-02-03T08:34:48Z
has_accepted_license: '1'
intvolume: ' 71'
isi: 1
issue: '5'
keyword:
- Radiology
- Nuclear Medicine and imaging
- Instrumentation
- Structural Biology
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 249-261
pmid: 1
publication: Microscopy
publication_identifier:
eissn:
- 2050-5701
issn:
- 2050-5698
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Structures of multisubunit membrane complexes with the CRYO ARM 200
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: 71
year: '2022'
...
---
_id: '11653'
abstract:
- lang: eng
text: Eurasian brine shrimp (genus Artemia) have closely related sexual and asexual
lineages of parthenogenetic females, which produce rare males at low frequencies.
Although they are known to have ZW chromosomes, these are not well characterized,
and it is unclear whether they are shared across the clade. Furthermore, the underlying
genetic architecture of the transmission of asexuality, which can occur when rare
males mate with closely related sexual females, is not well understood. We produced
a chromosome-level assembly for the sexual Eurasian species A. sinica and characterized
in detail the pair of sex chromosomes of this species. We combined this new assembly
with short-read genomic data for the sexual species A. sp. Kazakhstan and several
asexual lineages of A. parthenogenetica, allowing us to perform an in-depth characterization
of sex-chromosome evolution across the genus. We identified a small differentiated
region of the ZW pair that is shared by all sexual and asexual lineages, supporting
the shared ancestry of the sex chromosomes. We also inferred that recombination
suppression has spread to larger sections of the chromosome independently in the
American and Eurasian lineages. Finally, we took advantage of a rare male, which
we backcrossed to sexual females, to explore the genetic basis of asexuality.
Our results suggest that parthenogenesis is likely partly controlled by a locus
on the Z chromosome, highlighting the interplay between sex determination and
asexuality.
article_processing_charge: No
author:
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
citation:
ama: Elkrewi MN. Data from Elkrewi, Khauratovich, Toups et al. 2022, “ZW sex-chromosome
evolution and contagious parthenogenesis in Artemia brine shrimp.” 2022. doi:10.15479/AT:ISTA:11653
apa: Elkrewi, M. N. (2022). Data from Elkrewi, Khauratovich, Toups et al. 2022,
“ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp.”
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:11653
chicago: Elkrewi, Marwan N. “Data from Elkrewi, Khauratovich, Toups et Al. 2022,
‘ZW Sex-Chromosome Evolution and Contagious Parthenogenesis in Artemia Brine Shrimp.’”
Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/AT:ISTA:11653.
ieee: M. N. Elkrewi, “Data from Elkrewi, Khauratovich, Toups et al. 2022, ‘ZW sex-chromosome
evolution and contagious parthenogenesis in Artemia brine shrimp.’” Institute
of Science and Technology Austria, 2022.
ista: Elkrewi MN. 2022. Data from Elkrewi, Khauratovich, Toups et al. 2022, ‘ZW
sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp’,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:11653.
mla: Elkrewi, Marwan N. Data from Elkrewi, Khauratovich, Toups et Al. 2022, “ZW
Sex-Chromosome Evolution and Contagious Parthenogenesis in Artemia Brine Shrimp.”
Institute of Science and Technology Austria, 2022, doi:10.15479/AT:ISTA:11653.
short: M.N. Elkrewi, (2022).
contributor:
- first_name: Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
- first_name: Uladzislava
last_name: Khauratovich
- first_name: Melissa A
id: 4E099E4E-F248-11E8-B48F-1D18A9856A87
last_name: Toups
- first_name: Vincent K
id: 57854184-AAE0-11E9-8D04-98D6E5697425
last_name: Bett
- first_name: Andrea
id: 353FAC84-AE61-11E9-8BFC-00D3E5697425
last_name: Mrnjavac
- first_name: Ariana
id: 2A0848E2-F248-11E8-B48F-1D18A9856A87
last_name: Macon
- first_name: Christelle
id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
orcid: 0000-0001-8441-5075
- first_name: Luca
last_name: Sax
- first_name: Ann K
id: 4C0A3874-F248-11E8-B48F-1D18A9856A87
last_name: Huylmans
- first_name: Francisco
last_name: 'Hontoria '
- first_name: Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
date_created: 2022-07-26T11:01:47Z
date_published: 2022-08-05T00:00:00Z
date_updated: 2024-02-21T12:35:53Z
day: '05'
ddc:
- '570'
department:
- _id: GradSch
- _id: BeVi
doi: 10.15479/AT:ISTA:11653
file:
- access_level: open_access
checksum: 5f1d7c6d7ab5375ed2564521432bed0c
content_type: application/x-zip-compressed
creator: melkrewi
date_created: 2022-07-26T12:37:52Z
date_updated: 2022-08-08T22:30:04Z
description: |
The folder contains the following datasets (fasta files, and text files):
Sup. Dataset 1: Genome assemblies: A. sinica male high quality assembly, A. sp. Kazakhstan
male draft assembly
Sup. Dataset 2: Male transcriptome assemblies for A. sinica and A. franciscana
Sup. Dataset 3: Male and female coverage for A. sinica, A. sp. Kazakhstan, A. urmiana, and
A. parthenogenetica females and rare male.
Sup. Dataset 4: Artemia sinica Male:female FST per 1Kb window
Sup. Dataset 5: FASTA file with candidate W scaffolds
Sup. Dataset 6: Candidate W-derived transcripts and alignments
Sup. Dataset 7: Gene expression with genomic location
Sup. Dataset 8: VCF for asexual female and rare male
Sup. Dataset 9: FST between backcrossed asexual and control females (pooled analysis)
Sup. Dataset 10: VCF of backcrossed asexual and control females (individual analysis using
A. sp. Kazakhstan as the reference), and inferred ancestry
Sup. Dataset 11: GO and DE annotations of all the Artemia sinica transcripts and their
locations in the Artemia sinica male genome.
embargo: 2022-08-07
file_id: '11655'
file_name: Data.zip
file_size: 2209382998
relation: main_file
title: Supplementary Datasets
file_date_updated: 2022-08-08T22:30:04Z
has_accepted_license: '1'
month: '08'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '12248'
relation: used_in_publication
status: public
status: public
title: Data from Elkrewi, Khauratovich, Toups et al. 2022, "ZW sex-chromosome evolution
and contagious parthenogenesis in Artemia brine shrimp"
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '11658'
abstract:
- lang: eng
text: The depth of a cell in an arrangement of n (non-vertical) great-spheres in
Sd is the number of great-spheres that pass above the cell. We prove Euler-type
relations, which imply extensions of the classic Dehn–Sommerville relations for
convex polytopes to sublevel sets of the depth function, and we use the relations
to extend the expressions for the number of faces of neighborly polytopes to the
number of cells of levels in neighborly arrangements.
acknowledgement: This project has received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation programme,
grant no. 788183, from the Wittgenstein Prize, Austrian Science Fund (FWF), grant
no. Z 342-N31, and from the DFG Collaborative Research Center TRR 109, ‘Discretization
in Geometry and Dynamics’, Austrian Science Fund (FWF), grant no. I 02979-N35.
article_processing_charge: No
author:
- first_name: Ranita
full_name: Biswas, Ranita
id: 3C2B033E-F248-11E8-B48F-1D18A9856A87
last_name: Biswas
orcid: 0000-0002-5372-7890
- first_name: Sebastiano
full_name: Cultrera di Montesano, Sebastiano
id: 34D2A09C-F248-11E8-B48F-1D18A9856A87
last_name: Cultrera di Montesano
orcid: 0000-0001-6249-0832
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Morteza
full_name: Saghafian, Morteza
id: f86f7148-b140-11ec-9577-95435b8df824
last_name: Saghafian
citation:
ama: 'Biswas R, Cultrera di Montesano S, Edelsbrunner H, Saghafian M. Depth in arrangements:
Dehn–Sommerville–Euler relations with applications. Leibniz International Proceedings
on Mathematics.'
apa: 'Biswas, R., Cultrera di Montesano, S., Edelsbrunner, H., & Saghafian,
M. (n.d.). Depth in arrangements: Dehn–Sommerville–Euler relations with applications.
Leibniz International Proceedings on Mathematics. Schloss Dagstuhl - Leibniz
Zentrum für Informatik.'
chicago: 'Biswas, Ranita, Sebastiano Cultrera di Montesano, Herbert Edelsbrunner,
and Morteza Saghafian. “Depth in Arrangements: Dehn–Sommerville–Euler Relations
with Applications.” Leibniz International Proceedings on Mathematics. Schloss
Dagstuhl - Leibniz Zentrum für Informatik, n.d.'
ieee: 'R. Biswas, S. Cultrera di Montesano, H. Edelsbrunner, and M. Saghafian, “Depth
in arrangements: Dehn–Sommerville–Euler relations with applications,” Leibniz
International Proceedings on Mathematics. Schloss Dagstuhl - Leibniz Zentrum
für Informatik.'
ista: 'Biswas R, Cultrera di Montesano S, Edelsbrunner H, Saghafian M. Depth in
arrangements: Dehn–Sommerville–Euler relations with applications. Leibniz International
Proceedings on Mathematics.'
mla: 'Biswas, Ranita, et al. “Depth in Arrangements: Dehn–Sommerville–Euler Relations
with Applications.” Leibniz International Proceedings on Mathematics, Schloss
Dagstuhl - Leibniz Zentrum für Informatik.'
short: R. Biswas, S. Cultrera di Montesano, H. Edelsbrunner, M. Saghafian, Leibniz
International Proceedings on Mathematics (n.d.).
date_created: 2022-07-27T09:27:34Z
date_published: 2022-07-27T00:00:00Z
date_updated: 2022-07-28T07:57:48Z
day: '27'
ddc:
- '510'
department:
- _id: GradSch
- _id: HeEd
ec_funded: 1
file:
- access_level: open_access
checksum: b2f511e8b1cae5f1892b0cdec341acac
content_type: application/pdf
creator: scultrer
date_created: 2022-07-27T09:25:53Z
date_updated: 2022-07-27T09:25:53Z
file_id: '11659'
file_name: D-S-E.pdf
file_size: 639266
relation: main_file
file_date_updated: 2022-07-27T09:25:53Z
has_accepted_license: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Submitted Version
project:
- _id: 266A2E9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '788183'
name: Alpha Shape Theory Extended
- _id: 268116B8-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00342
name: The Wittgenstein Prize
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I02979-N35
name: Persistence and stability of geometric complexes
publication: Leibniz International Proceedings on Mathematics
publication_status: submitted
publisher: Schloss Dagstuhl - Leibniz Zentrum für Informatik
quality_controlled: '1'
status: public
title: 'Depth in arrangements: Dehn–Sommerville–Euler relations with applications'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '11660'
abstract:
- lang: eng
text: 'We characterize critical points of 1-dimensional maps paired in persistent
homology geometrically and this way get elementary proofs of theorems about the
symmetry of persistence diagrams and the variation of such maps. In particular,
we identify branching points and endpoints of networks as the sole source of asymmetry
and relate the cycle basis in persistent homology with a version of the stable
marriage problem. Our analysis provides the foundations of fast algorithms for
maintaining collections of interrelated sorted lists together with their persistence
diagrams. '
acknowledgement: 'This project has received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation programme,
grant no. 788183, from the Wittgenstein Prize, Austrian Science Fund (FWF), grant
no. Z 342-N31, and from the DFG Collaborative Research Center TRR 109, ‘Discretization
in Geometry and Dynamics’, Austrian Science Fund (FWF), grant no. I 02979-N35. '
alternative_title:
- LIPIcs
article_processing_charge: No
author:
- first_name: Ranita
full_name: Biswas, Ranita
id: 3C2B033E-F248-11E8-B48F-1D18A9856A87
last_name: Biswas
orcid: 0000-0002-5372-7890
- first_name: Sebastiano
full_name: Cultrera di Montesano, Sebastiano
id: 34D2A09C-F248-11E8-B48F-1D18A9856A87
last_name: Cultrera di Montesano
orcid: 0000-0001-6249-0832
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Morteza
full_name: Saghafian, Morteza
last_name: Saghafian
citation:
ama: 'Biswas R, Cultrera di Montesano S, Edelsbrunner H, Saghafian M. A window to
the persistence of 1D maps. I: Geometric characterization of critical point pairs.
LIPIcs.'
apa: 'Biswas, R., Cultrera di Montesano, S., Edelsbrunner, H., & Saghafian,
M. (n.d.). A window to the persistence of 1D maps. I: Geometric characterization
of critical point pairs. LIPIcs. Schloss Dagstuhl - Leibniz-Zentrum für
Informatik.'
chicago: 'Biswas, Ranita, Sebastiano Cultrera di Montesano, Herbert Edelsbrunner,
and Morteza Saghafian. “A Window to the Persistence of 1D Maps. I: Geometric Characterization
of Critical Point Pairs.” LIPIcs. Schloss Dagstuhl - Leibniz-Zentrum für
Informatik, n.d.'
ieee: 'R. Biswas, S. Cultrera di Montesano, H. Edelsbrunner, and M. Saghafian, “A
window to the persistence of 1D maps. I: Geometric characterization of critical
point pairs,” LIPIcs. Schloss Dagstuhl - Leibniz-Zentrum für Informatik.'
ista: 'Biswas R, Cultrera di Montesano S, Edelsbrunner H, Saghafian M. A window
to the persistence of 1D maps. I: Geometric characterization of critical point
pairs. LIPIcs.'
mla: 'Biswas, Ranita, et al. “A Window to the Persistence of 1D Maps. I: Geometric
Characterization of Critical Point Pairs.” LIPIcs, Schloss Dagstuhl - Leibniz-Zentrum
für Informatik.'
short: R. Biswas, S. Cultrera di Montesano, H. Edelsbrunner, M. Saghafian, LIPIcs
(n.d.).
date_created: 2022-07-27T09:31:15Z
date_published: 2022-07-25T00:00:00Z
date_updated: 2022-07-28T08:05:34Z
day: '25'
ddc:
- '510'
department:
- _id: GradSch
- _id: HeEd
ec_funded: 1
file:
- access_level: open_access
checksum: 95903f9d1649e8e437a967b6f2f64730
content_type: application/pdf
creator: scultrer
date_created: 2022-07-27T09:30:30Z
date_updated: 2022-07-27T09:30:30Z
file_id: '11661'
file_name: window 1.pdf
file_size: 564836
relation: main_file
file_date_updated: 2022-07-27T09:30:30Z
has_accepted_license: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Submitted Version
project:
- _id: 266A2E9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '788183'
name: Alpha Shape Theory Extended
- _id: 268116B8-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00342
name: The Wittgenstein Prize
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I02979-N35
name: Persistence and stability of geometric complexes
publication: LIPIcs
publication_status: submitted
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
status: public
title: 'A window to the persistence of 1D maps. I: Geometric characterization of critical
point pairs'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '11686'
abstract:
- lang: eng
text: Maternally inherited Wolbachia transinfections are being introduced into natural
mosquito populations to reduce the transmission of dengue, Zika and other arboviruses.
Wolbachia-induced cytoplasmic incompatibility provides a frequency-dependent reproductive
advantage to infected females that can spread transinfections within and among
populations. However, because transinfections generally reduce host fitness, they
tend to spread within populations only after their frequency exceeds a critical
threshold. This produces bistability with stable equilibrium frequencies at both
0 and 1, analogous to the bistability produced by underdominance between alleles
or karyotypes and by population dynamics under Allee effects. Here, we analyze
how stochastic frequency variation produced by finite population size can facilitate
the local spread of variants with bistable dynamics into areas where invasion
is unexpected from deterministic models. Our exemplar is the establishment of
wMel Wolbachia in the Aedes aegypti population of Pyramid Estates (PE), a small
community in far north Queensland, Australia. In 2011, wMel was stably introduced
into Gordonvale, separated from PE by barriers to Ae. aegypti dispersal. After
nearly six years during which wMel was observed only at low frequencies in PE,
corresponding to an apparent equilibrium between immigration and selection, wMel
rose to fixation by 2018. Using analytic approximations and statistical analyses,
we demonstrate that the observed fixation of wMel at PE is consistent with both
stochastic transition past an unstable threshold frequency and deterministic transformation
produced by steady immigration at a rate just above the threshold required for
deterministic invasion. The indeterminacy results from a delicate balance of parameters
needed to produce the delayed transition observed. Our analyses suggest that once
Wolbachia transinfections are established locally through systematic introductions,
stochastic “threshold crossing” is likely to only minimally enhance spatial spread,
providing a local ratchet that slightly – but systematically – aids area-wide
transformation of disease-vector populations in heterogeneous landscapes.
acknowledgement: 'Bill and Melinda Gates Foundation, Award: OPP1180815'
article_processing_charge: No
author:
- first_name: Michael
full_name: Turelli, Michael
last_name: Turelli
- 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: 'Turelli M, Barton NH. Wolbachia frequency data from: Why did the Wolbachia
transinfection cross the road? Drift, deterministic dynamics and disease control.
2022. doi:10.25338/B81931'
apa: 'Turelli, M., & Barton, N. H. (2022). Wolbachia frequency data from: Why
did the Wolbachia transinfection cross the road? Drift, deterministic dynamics
and disease control. Dryad. https://doi.org/10.25338/B81931'
chicago: 'Turelli, Michael, and Nicholas H Barton. “Wolbachia Frequency Data from:
Why Did the Wolbachia Transinfection Cross the Road? Drift, Deterministic Dynamics
and Disease Control.” Dryad, 2022. https://doi.org/10.25338/B81931.'
ieee: 'M. Turelli and N. H. Barton, “Wolbachia frequency data from: Why did the
Wolbachia transinfection cross the road? Drift, deterministic dynamics and disease
control.” Dryad, 2022.'
ista: 'Turelli M, Barton NH. 2022. Wolbachia frequency data from: Why did the Wolbachia
transinfection cross the road? Drift, deterministic dynamics and disease control,
Dryad, 10.25338/B81931.'
mla: 'Turelli, Michael, and Nicholas H. Barton. Wolbachia Frequency Data from:
Why Did the Wolbachia Transinfection Cross the Road? Drift, Deterministic Dynamics
and Disease Control. Dryad, 2022, doi:10.25338/B81931.'
short: M. Turelli, N.H. Barton, (2022).
date_created: 2022-07-29T06:45:41Z
date_published: 2022-01-06T00:00:00Z
date_updated: 2023-08-02T13:50:08Z
day: '06'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.25338/B81931
keyword:
- Biological sciences
license: https://creativecommons.org/publicdomain/zero/1.0/
main_file_link:
- open_access: '1'
url: https://doi.org/10.25338/B81931
month: '01'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '10604'
relation: used_in_publication
status: public
status: public
title: 'Wolbachia frequency data from: Why did the Wolbachia transinfection cross
the road? Drift, deterministic dynamics and disease control'
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_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2022'
...
---
_id: '11695'
abstract:
- lang: eng
text: 'Data underlying the figures in the publication "The chemistry of Cu3N and
Cu3PdN nanocrystals" '
article_processing_charge: No
author:
- first_name: Mahsa
full_name: Parvizian, Mahsa
last_name: Parvizian
- first_name: Alejandra
full_name: Duran Balsa, Alejandra
last_name: Duran Balsa
- first_name: Rohan
full_name: Pokratath, Rohan
last_name: Pokratath
- first_name: Curran
full_name: Kalha, Curran
last_name: Kalha
- first_name: Seungho
full_name: Lee, Seungho
last_name: Lee
- first_name: Dietger
full_name: Van den Eynden, Dietger
last_name: Van den Eynden
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
- first_name: Anna
full_name: Regoutz, Anna
last_name: Regoutz
- first_name: Jonathan
full_name: De Roo, Jonathan
last_name: De Roo
citation:
ama: Parvizian M, Duran Balsa A, Pokratath R, et al. Data for “The chemistry of
Cu3N and Cu3PdN nanocrystals.” 2022. doi:10.5281/ZENODO.6542908
apa: Parvizian, M., Duran Balsa, A., Pokratath, R., Kalha, C., Lee, S., Van den
Eynden, D., … De Roo, J. (2022). Data for “The chemistry of Cu3N and Cu3PdN nanocrystals.”
Zenodo. https://doi.org/10.5281/ZENODO.6542908
chicago: Parvizian, Mahsa, Alejandra Duran Balsa, Rohan Pokratath, Curran Kalha,
Seungho Lee, Dietger Van den Eynden, Maria Ibáñez, Anna Regoutz, and Jonathan
De Roo. “Data for ‘The Chemistry of Cu3N and Cu3PdN Nanocrystals.’” Zenodo, 2022.
https://doi.org/10.5281/ZENODO.6542908.
ieee: M. Parvizian et al., “Data for ‘The chemistry of Cu3N and Cu3PdN nanocrystals.’”
Zenodo, 2022.
ista: Parvizian M, Duran Balsa A, Pokratath R, Kalha C, Lee S, Van den Eynden D,
Ibáñez M, Regoutz A, De Roo J. 2022. Data for ‘The chemistry of Cu3N and Cu3PdN
nanocrystals’, Zenodo, 10.5281/ZENODO.6542908.
mla: Parvizian, Mahsa, et al. Data for “The Chemistry of Cu3N and Cu3PdN Nanocrystals.”
Zenodo, 2022, doi:10.5281/ZENODO.6542908.
short: M. Parvizian, A. Duran Balsa, R. Pokratath, C. Kalha, S. Lee, D. Van den
Eynden, M. Ibáñez, A. Regoutz, J. De Roo, (2022).
date_created: 2022-07-29T09:31:13Z
date_published: 2022-05-12T00:00:00Z
date_updated: 2023-08-03T07:19:12Z
day: '12'
ddc:
- '540'
department:
- _id: MaIb
doi: 10.5281/ZENODO.6542908
main_file_link:
- open_access: '1'
url: https://doi.org/10.5281/ZENODO.6542908
month: '05'
oa: 1
oa_version: Published Version
publisher: Zenodo
related_material:
record:
- id: '11451'
relation: used_in_publication
status: public
status: public
title: Data for "The chemistry of Cu3N and Cu3PdN nanocrystals"
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: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2022'
...
---
_id: '11700'
abstract:
- lang: eng
text: This paper contains two contributions in the study of optimal transport on
metric graphs. Firstly, we prove a Benamou–Brenier formula for the Wasserstein
distance, which establishes the equivalence of static and dynamical optimal transport.
Secondly, in the spirit of Jordan–Kinderlehrer–Otto, we show that McKean–Vlasov
equations can be formulated as gradient flow of the free energy in the Wasserstein
space of probability measures. The proofs of these results are based on careful
regularisation arguments to circumvent some of the difficulties arising in metric
graphs, namely, branching of geodesics and the failure of semi-convexity of entropy
functionals in the Wasserstein space.
acknowledgement: "ME acknowledges funding by the Deutsche Forschungsgemeinschaft (DFG),
Grant SFB 1283/2 2021 – 317210226. DF and JM were supported by the European Research
Council (ERC) under the European Union’s Horizon 2020 research and innovation programme
(grant agreement No 716117). JM also acknowledges support by the Austrian Science
Fund (FWF), Project SFB F65. The work of DM was partially supported by the Deutsche
Forschungsgemeinschaft\r\n(DFG), Grant 397230547. This article is based upon work
from COST Action\r\n18232 MAT-DYN-NET, supported by COST (European Cooperation in
Science\r\nand Technology), www.cost.eu. We wish to thank Martin Burger and Jan-Frederik\r\nPietschmann
for useful discussions. We are grateful to the anonymous referees for\r\ntheir careful
reading and useful suggestions."
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author:
- first_name: Matthias
full_name: Erbar, Matthias
last_name: Erbar
- first_name: Dominik L
full_name: Forkert, Dominik L
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last_name: Forkert
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full_name: Maas, Jan
id: 4C5696CE-F248-11E8-B48F-1D18A9856A87
last_name: Maas
orcid: 0000-0002-0845-1338
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full_name: Mugnolo, Delio
last_name: Mugnolo
citation:
ama: Erbar M, Forkert DL, Maas J, Mugnolo D. Gradient flow formulation of diffusion
equations in the Wasserstein space over a metric graph. Networks and Heterogeneous
Media. 2022;17(5):687-717. doi:10.3934/nhm.2022023
apa: Erbar, M., Forkert, D. L., Maas, J., & Mugnolo, D. (2022). Gradient flow
formulation of diffusion equations in the Wasserstein space over a metric graph.
Networks and Heterogeneous Media. American Institute of Mathematical Sciences.
https://doi.org/10.3934/nhm.2022023
chicago: Erbar, Matthias, Dominik L Forkert, Jan Maas, and Delio Mugnolo. “Gradient
Flow Formulation of Diffusion Equations in the Wasserstein Space over a Metric
Graph.” Networks and Heterogeneous Media. American Institute of Mathematical
Sciences, 2022. https://doi.org/10.3934/nhm.2022023.
ieee: M. Erbar, D. L. Forkert, J. Maas, and D. Mugnolo, “Gradient flow formulation
of diffusion equations in the Wasserstein space over a metric graph,” Networks
and Heterogeneous Media, vol. 17, no. 5. American Institute of Mathematical
Sciences, pp. 687–717, 2022.
ista: Erbar M, Forkert DL, Maas J, Mugnolo D. 2022. Gradient flow formulation of
diffusion equations in the Wasserstein space over a metric graph. Networks and
Heterogeneous Media. 17(5), 687–717.
mla: Erbar, Matthias, et al. “Gradient Flow Formulation of Diffusion Equations in
the Wasserstein Space over a Metric Graph.” Networks and Heterogeneous Media,
vol. 17, no. 5, American Institute of Mathematical Sciences, 2022, pp. 687–717,
doi:10.3934/nhm.2022023.
short: M. Erbar, D.L. Forkert, J. Maas, D. Mugnolo, Networks and Heterogeneous Media
17 (2022) 687–717.
date_created: 2022-07-31T22:01:46Z
date_published: 2022-10-01T00:00:00Z
date_updated: 2023-08-03T12:25:49Z
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department:
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doi: 10.3934/nhm.2022023
ec_funded: 1
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page: 687-717
project:
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name: Optimal Transport and Stochastic Dynamics
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title: Gradient flow formulation of diffusion equations in the Wasserstein space over
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---
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abstract:
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text: In this paper we develop a new approach to nonlinear stochastic partial differential
equations with Gaussian noise. Our aim is to provide an abstract framework which
is applicable to a large class of SPDEs and includes many important cases of nonlinear
parabolic problems which are of quasi- or semilinear type. This first part is
on local existence and well-posedness. A second part in preparation is on blow-up
criteria and regularization. Our theory is formulated in an Lp-setting, and because
of this we can deal with nonlinearities in a very efficient way. Applications
to several concrete problems and their quasilinear variants are given. This includes
Burgers' equation, the Allen–Cahn equation, the Cahn–Hilliard equation, reaction–diffusion
equations, and the porous media equation. The interplay of the nonlinearities
and the critical spaces of initial data leads to new results and insights for
these SPDEs. The proofs are based on recent developments in maximal regularity
theory for the linearized problem for deterministic and stochastic evolution equations.
In particular, our theory can be seen as a stochastic version of the theory of
critical spaces due to Prüss–Simonett–Wilke (2018). Sharp weighted time-regularity
allow us to deal with rough initial values and obtain instantaneous regularization
results. The abstract well-posedness results are obtained by a combination of
several sophisticated splitting and truncation arguments.
acknowledgement: The second author is supported by the VIDI subsidy 639.032.427 of
the Netherlands Organisation for Scientific Research (NWO).
article_processing_charge: No
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author:
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full_name: Agresti, Antonio
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last_name: Agresti
orcid: 0000-0002-9573-2962
- first_name: Mark
full_name: Veraar, Mark
last_name: Veraar
citation:
ama: Agresti A, Veraar M. Nonlinear parabolic stochastic evolution equations in
critical spaces Part I. Stochastic maximal regularity and local existence. Nonlinearity.
2022;35(8):4100-4210. doi:10.1088/1361-6544/abd613
apa: Agresti, A., & Veraar, M. (2022). Nonlinear parabolic stochastic evolution
equations in critical spaces Part I. Stochastic maximal regularity and local existence.
Nonlinearity. IOP Publishing. https://doi.org/10.1088/1361-6544/abd613
chicago: Agresti, Antonio, and Mark Veraar. “Nonlinear Parabolic Stochastic Evolution
Equations in Critical Spaces Part I. Stochastic Maximal Regularity and Local Existence.”
Nonlinearity. IOP Publishing, 2022. https://doi.org/10.1088/1361-6544/abd613.
ieee: A. Agresti and M. Veraar, “Nonlinear parabolic stochastic evolution equations
in critical spaces Part I. Stochastic maximal regularity and local existence,”
Nonlinearity, vol. 35, no. 8. IOP Publishing, pp. 4100–4210, 2022.
ista: Agresti A, Veraar M. 2022. Nonlinear parabolic stochastic evolution equations
in critical spaces Part I. Stochastic maximal regularity and local existence.
Nonlinearity. 35(8), 4100–4210.
mla: Agresti, Antonio, and Mark Veraar. “Nonlinear Parabolic Stochastic Evolution
Equations in Critical Spaces Part I. Stochastic Maximal Regularity and Local Existence.”
Nonlinearity, vol. 35, no. 8, IOP Publishing, 2022, pp. 4100–210, doi:10.1088/1361-6544/abd613.
short: A. Agresti, M. Veraar, Nonlinearity 35 (2022) 4100–4210.
date_created: 2022-07-31T22:01:47Z
date_published: 2022-08-04T00:00:00Z
date_updated: 2023-08-03T12:25:08Z
day: '04'
ddc:
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department:
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doi: 10.1088/1361-6544/abd613
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---
_id: '11702'
abstract:
- lang: eng
text: When Mendel’s work was rediscovered in 1900, and extended to establish classical
genetics, it was initially seen in opposition to Darwin’s theory of evolution
by natural selection on continuous variation, as represented by the biometric
research program that was the foundation of quantitative genetics. As Fisher,
Haldane, and Wright established a century ago, Mendelian inheritance is exactly
what is needed for natural selection to work efficiently. Yet, the synthesis remains
unfinished. We do not understand why sexual reproduction and a fair meiosis predominate
in eukaryotes, or how far these are responsible for their diversity and complexity.
Moreover, although quantitative geneticists have long known that adaptive variation
is highly polygenic, and that this is essential for efficient selection, this
is only now becoming appreciated by molecular biologists—and we still do not have
a good framework for understanding polygenic variation or diffuse function.
acknowledgement: I thank Laura Hayward, Jitka Polechova, and Anja Westram for discussions
and comments.
article_number: e2122147119
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orcid: 0000-0002-8548-5240
citation:
ama: Barton NH. The “New Synthesis.” Proceedings of the National Academy of Sciences
of the United States of America. 2022;119(30). doi:10.1073/pnas.2122147119
apa: Barton, N. H. (2022). The “New Synthesis.” Proceedings of the National Academy
of Sciences of the United States of America. Proceedings of the National Academy
of Sciences. https://doi.org/10.1073/pnas.2122147119
chicago: Barton, Nicholas H. “The ‘New Synthesis.’” Proceedings of the National
Academy of Sciences of the United States of America. Proceedings of the National
Academy of Sciences, 2022. https://doi.org/10.1073/pnas.2122147119.
ieee: N. H. Barton, “The ‘New Synthesis,’” Proceedings of the National Academy
of Sciences of the United States of America, vol. 119, no. 30. Proceedings
of the National Academy of Sciences, 2022.
ista: Barton NH. 2022. The ‘New Synthesis’. Proceedings of the National Academy
of Sciences of the United States of America. 119(30), e2122147119.
mla: Barton, Nicholas H. “The ‘New Synthesis.’” Proceedings of the National Academy
of Sciences of the United States of America, vol. 119, no. 30, e2122147119,
Proceedings of the National Academy of Sciences, 2022, doi:10.1073/pnas.2122147119.
short: N.H. Barton, Proceedings of the National Academy of Sciences of the United
States of America 119 (2022).
date_created: 2022-07-31T22:01:47Z
date_published: 2022-07-18T00:00:00Z
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