---
_id: '9006'
abstract:
- lang: eng
text: Cytoplasm is a gel-like crowded environment composed of various macromolecules,
organelles, cytoskeletal networks, and cytosol. The structure of the cytoplasm
is highly organized and heterogeneous due to the crowding of its constituents
and their effective compartmentalization. In such an environment, the diffusive
dynamics of the molecules are restricted, an effect that is further amplified
by clustering and anchoring of molecules. Despite the crowded nature of the cytoplasm
at the microscopic scale, large-scale reorganization of the cytoplasm is essential
for important cellular functions, such as cell division and polarization. How
such mesoscale reorganization of the cytoplasm is achieved, especially for large
cells such as oocytes or syncytial tissues that can span hundreds of micrometers
in size, is only beginning to be understood. In this review, we will discuss recent
advances in elucidating the molecular, cellular, and biophysical mechanisms by
which the cytoskeleton drives cytoplasmic reorganization across different scales,
structures, and species.
acknowledgement: We would like to thank Justine Renno for illustrations and Edouard
Hannezo and members of the Heisenberg group for their comments on previous versions
of the manuscript.
article_processing_charge: No
article_type: original
author:
- first_name: Shayan
full_name: Shamipour, Shayan
id: 40B34FE2-F248-11E8-B48F-1D18A9856A87
last_name: Shamipour
- first_name: Silvia
full_name: Caballero Mancebo, Silvia
id: 2F1E1758-F248-11E8-B48F-1D18A9856A87
last_name: Caballero Mancebo
orcid: 0000-0002-5223-3346
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Shamipour S, Caballero Mancebo S, Heisenberg C-PJ. Cytoplasm’s got moves. Developmental
Cell. 2021;56(2):P213-226. doi:10.1016/j.devcel.2020.12.002
apa: Shamipour, S., Caballero Mancebo, S., & Heisenberg, C.-P. J. (2021). Cytoplasm’s
got moves. Developmental Cell. Elsevier. https://doi.org/10.1016/j.devcel.2020.12.002
chicago: Shamipour, Shayan, Silvia Caballero Mancebo, and Carl-Philipp J Heisenberg.
“Cytoplasm’s Got Moves.” Developmental Cell. Elsevier, 2021. https://doi.org/10.1016/j.devcel.2020.12.002.
ieee: S. Shamipour, S. Caballero Mancebo, and C.-P. J. Heisenberg, “Cytoplasm’s
got moves,” Developmental Cell, vol. 56, no. 2. Elsevier, pp. P213-226,
2021.
ista: Shamipour S, Caballero Mancebo S, Heisenberg C-PJ. 2021. Cytoplasm’s got moves.
Developmental Cell. 56(2), P213-226.
mla: Shamipour, Shayan, et al. “Cytoplasm’s Got Moves.” Developmental Cell,
vol. 56, no. 2, Elsevier, 2021, pp. P213-226, doi:10.1016/j.devcel.2020.12.002.
short: S. Shamipour, S. Caballero Mancebo, C.-P.J. Heisenberg, Developmental Cell
56 (2021) P213-226.
date_created: 2021-01-17T23:01:10Z
date_published: 2021-01-25T00:00:00Z
date_updated: 2024-03-25T23:30:10Z
day: '25'
department:
- _id: CaHe
doi: 10.1016/j.devcel.2020.12.002
external_id:
isi:
- '000613273900009'
pmid:
- '33321104'
intvolume: ' 56'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.devcel.2020.12.002
month: '01'
oa: 1
oa_version: Published Version
page: P213-226
pmid: 1
publication: Developmental Cell
publication_identifier:
eissn:
- '18781551'
issn:
- '15345807'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '9623'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Cytoplasm's got moves
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 56
year: '2021'
...
---
_id: '9009'
abstract:
- lang: eng
text: Recent advancements in live cell imaging technologies have identified the
phenomenon of intracellular propagation of late apoptotic events, such as cytochrome
c release and caspase activation. The mechanism, prevalence, and speed of apoptosis
propagation remain unclear. Additionally, no studies have demonstrated propagation
of the pro-apoptotic protein, BAX. To evaluate the role of BAX in intracellular
apoptotic propagation, we used high speed live-cell imaging to visualize fluorescently
tagged-BAX recruitment to mitochondria in four immortalized cell lines. We show
that propagation of mitochondrial BAX recruitment occurs in parallel to cytochrome
c and SMAC/Diablo release and is affected by cellular morphology, such that cells
with processes are more likely to exhibit propagation. The initiation of propagation
events is most prevalent in the distal tips of processes, while the rate of propagation
is influenced by the 2-dimensional width of the process. Propagation was rarely
observed in the cell soma, which exhibited near synchronous recruitment of BAX.
Propagation velocity is not affected by mitochondrial volume in segments of processes,
but is negatively affected by mitochondrial density. There was no evidence of
a propagating wave of increased levels of intracellular calcium ions. Alternatively,
we did observe a uniform increase in superoxide build-up in cellular mitochondria,
which was released as a propagating wave simultaneously with the propagating recruitment
of BAX to the mitochondrial outer membrane.
acknowledgement: This work was supported by National Institute of Health grants R01
EY030123, P30 EY016665, and T32 GM081061, an unrestricted research grant from Research
to Prevent Blindness, Inc., and the Frederick A. Davis Endowment from the Department
of Ophthalmology and Visual Sciences at the University of Wisconsin-Madison.
article_processing_charge: No
article_type: original
author:
- first_name: Joshua A.
full_name: Grosser, Joshua A.
last_name: Grosser
- first_name: Margaret E
full_name: Maes, Margaret E
id: 3838F452-F248-11E8-B48F-1D18A9856A87
last_name: Maes
orcid: 0000-0001-9642-1085
- first_name: Robert W.
full_name: Nickells, Robert W.
last_name: Nickells
citation:
ama: Grosser JA, Maes ME, Nickells RW. Characteristics of intracellular propagation
of mitochondrial BAX recruitment during apoptosis. Apoptosis. 2021;26(2):132-145.
doi:10.1007/s10495-020-01654-w
apa: Grosser, J. A., Maes, M. E., & Nickells, R. W. (2021). Characteristics
of intracellular propagation of mitochondrial BAX recruitment during apoptosis.
Apoptosis. Springer Nature. https://doi.org/10.1007/s10495-020-01654-w
chicago: Grosser, Joshua A., Margaret E Maes, and Robert W. Nickells. “Characteristics
of Intracellular Propagation of Mitochondrial BAX Recruitment during Apoptosis.”
Apoptosis. Springer Nature, 2021. https://doi.org/10.1007/s10495-020-01654-w.
ieee: J. A. Grosser, M. E. Maes, and R. W. Nickells, “Characteristics of intracellular
propagation of mitochondrial BAX recruitment during apoptosis,” Apoptosis,
vol. 26, no. 2. Springer Nature, pp. 132–145, 2021.
ista: Grosser JA, Maes ME, Nickells RW. 2021. Characteristics of intracellular propagation
of mitochondrial BAX recruitment during apoptosis. Apoptosis. 26(2), 132–145.
mla: Grosser, Joshua A., et al. “Characteristics of Intracellular Propagation of
Mitochondrial BAX Recruitment during Apoptosis.” Apoptosis, vol. 26, no.
2, Springer Nature, 2021, pp. 132–45, doi:10.1007/s10495-020-01654-w.
short: J.A. Grosser, M.E. Maes, R.W. Nickells, Apoptosis 26 (2021) 132–145.
date_created: 2021-01-17T23:01:11Z
date_published: 2021-02-01T00:00:00Z
date_updated: 2023-08-07T13:32:40Z
day: '01'
department:
- _id: SaSi
doi: 10.1007/s10495-020-01654-w
external_id:
isi:
- '000606722600001'
pmid:
- '33426618'
intvolume: ' 26'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8082518/
month: '02'
oa: 1
oa_version: Submitted Version
page: 132-145
pmid: 1
publication: Apoptosis
publication_identifier:
eissn:
- 1573-675X
issn:
- 1360-8185
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Characteristics of intracellular propagation of mitochondrial BAX recruitment
during apoptosis
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 26
year: '2021'
...
---
_id: '9010'
abstract:
- lang: eng
text: Availability of the essential macronutrient nitrogen in soil plays a critical
role in plant growth, development, and impacts agricultural productivity. Plants
have evolved different strategies for sensing and responding to heterogeneous
nitrogen distribution. Modulation of root system architecture, including primary
root growth and branching, is among the most essential plant adaptions to ensure
adequate nitrogen acquisition. However, the immediate molecular pathways coordinating
the adjustment of root growth in response to distinct nitrogen sources, such as
nitrate or ammonium, are poorly understood. Here, we show that growth as manifested
by cell division and elongation is synchronized by coordinated auxin flux between
two adjacent outer tissue layers of the root. This coordination is achieved by
nitrate‐dependent dephosphorylation of the PIN2 auxin efflux carrier at a previously
uncharacterized phosphorylation site, leading to subsequent PIN2 lateralization
and thereby regulating auxin flow between adjacent tissues. A dynamic computer
model based on our experimental data successfully recapitulates experimental observations.
Our study provides mechanistic insights broadening our understanding of root growth
mechanisms in dynamic environments.
acknowledged_ssus:
- _id: Bio
acknowledgement: 'We acknowledge Gergely Molnar for critical reading of the manuscript,
Alexander Johnson for language editing and Yulija Salanenka for technical assistance.
Work in the Benkova laboratory was supported by the Austrian Science Fund (FWF01_I1774S)
to KO, RA and EB. Work in the Benkova laboratory was supported by the Austrian Science
Fund (FWF01_I1774S) to KO, RA and EB and by the DOC Fellowship Programme of the
AustrianAcademy of Sciences (25008) to C.A. Work in the Wabnik laboratory was supported
by the Programa de Atraccion de Talento 2017 (Comunidad deMadrid, 2017-T1/BIO-5654
to K.W.), Severo Ochoa Programme for Centres of Excellence in R&D from the Agencia
Estatal de Investigacion of Spain (grantSEV-2016-0672 (2017-2021) to K.W. via the
CBGP) and Programa Estatal de Generacion del Conocimiento y Fortalecimiento Científico
y Tecnologico del Sistema de I+D+I 2019 (PGC2018-093387-A-I00) from MICIU (to K.W.).
M.M.was supported by a postdoctoral contract associated to SEV-2016-0672.We acknowledge
the Bioimaging Facility in IST-Austria and the Advanced Microscopy Facility of the
Vienna Bio Center Core Facilities, member of the Vienna Bio Center Austria, for
use of the OMX v43D SIM microscope. AJ was supported by the Austrian Science Fund
(FWF): I03630 to J.F'
article_number: e106862
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Krisztina
full_name: Ötvös, Krisztina
id: 29B901B0-F248-11E8-B48F-1D18A9856A87
last_name: Ötvös
orcid: 0000-0002-5503-4983
- first_name: Marco
full_name: Marconi, Marco
last_name: Marconi
- first_name: Andrea
full_name: Vega, Andrea
last_name: Vega
- first_name: Jose
full_name: O’Brien, Jose
last_name: O’Brien
- first_name: Alexander J
full_name: Johnson, Alexander J
id: 46A62C3A-F248-11E8-B48F-1D18A9856A87
last_name: Johnson
orcid: 0000-0002-2739-8843
- first_name: Rashed
full_name: Abualia, Rashed
id: 4827E134-F248-11E8-B48F-1D18A9856A87
last_name: Abualia
orcid: 0000-0002-9357-9415
- first_name: Livio
full_name: Antonielli, Livio
last_name: Antonielli
- first_name: Juan C
full_name: Montesinos López, Juan C
id: 310A8E3E-F248-11E8-B48F-1D18A9856A87
last_name: Montesinos López
orcid: 0000-0001-9179-6099
- first_name: Yuzhou
full_name: Zhang, Yuzhou
id: 3B6137F2-F248-11E8-B48F-1D18A9856A87
last_name: Zhang
orcid: 0000-0003-2627-6956
- first_name: Shutang
full_name: Tan, Shutang
id: 2DE75584-F248-11E8-B48F-1D18A9856A87
last_name: Tan
orcid: 0000-0002-0471-8285
- first_name: Candela
full_name: Cuesta, Candela
id: 33A3C818-F248-11E8-B48F-1D18A9856A87
last_name: Cuesta
orcid: 0000-0003-1923-2410
- first_name: Christina
full_name: Artner, Christina
id: 45DF286A-F248-11E8-B48F-1D18A9856A87
last_name: Artner
- first_name: Eleonore
full_name: Bouguyon, Eleonore
last_name: Bouguyon
- first_name: Alain
full_name: Gojon, Alain
last_name: Gojon
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Rodrigo A.
full_name: Gutiérrez, Rodrigo A.
last_name: Gutiérrez
- first_name: Krzysztof T
full_name: Wabnik, Krzysztof T
id: 4DE369A4-F248-11E8-B48F-1D18A9856A87
last_name: Wabnik
orcid: 0000-0001-7263-0560
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
citation:
ama: Ötvös K, Marconi M, Vega A, et al. Modulation of plant root growth by nitrogen
source-defined regulation of polar auxin transport. EMBO Journal. 2021;40(3).
doi:10.15252/embj.2020106862
apa: Ötvös, K., Marconi, M., Vega, A., O’Brien, J., Johnson, A. J., Abualia, R.,
… Benková, E. (2021). Modulation of plant root growth by nitrogen source-defined
regulation of polar auxin transport. EMBO Journal. Embo Press. https://doi.org/10.15252/embj.2020106862
chicago: Ötvös, Krisztina, Marco Marconi, Andrea Vega, Jose O’Brien, Alexander J
Johnson, Rashed Abualia, Livio Antonielli, et al. “Modulation of Plant Root Growth
by Nitrogen Source-Defined Regulation of Polar Auxin Transport.” EMBO Journal.
Embo Press, 2021. https://doi.org/10.15252/embj.2020106862.
ieee: K. Ötvös et al., “Modulation of plant root growth by nitrogen source-defined
regulation of polar auxin transport,” EMBO Journal, vol. 40, no. 3. Embo
Press, 2021.
ista: Ötvös K, Marconi M, Vega A, O’Brien J, Johnson AJ, Abualia R, Antonielli L,
Montesinos López JC, Zhang Y, Tan S, Cuesta C, Artner C, Bouguyon E, Gojon A,
Friml J, Gutiérrez RA, Wabnik KT, Benková E. 2021. Modulation of plant root growth
by nitrogen source-defined regulation of polar auxin transport. EMBO Journal.
40(3), e106862.
mla: Ötvös, Krisztina, et al. “Modulation of Plant Root Growth by Nitrogen Source-Defined
Regulation of Polar Auxin Transport.” EMBO Journal, vol. 40, no. 3, e106862,
Embo Press, 2021, doi:10.15252/embj.2020106862.
short: K. Ötvös, M. Marconi, A. Vega, J. O’Brien, A.J. Johnson, R. Abualia, L. Antonielli,
J.C. Montesinos López, Y. Zhang, S. Tan, C. Cuesta, C. Artner, E. Bouguyon, A.
Gojon, J. Friml, R.A. Gutiérrez, K.T. Wabnik, E. Benková, EMBO Journal 40 (2021).
date_created: 2021-01-17T23:01:12Z
date_published: 2021-02-01T00:00:00Z
date_updated: 2024-03-25T23:30:22Z
day: '01'
ddc:
- '580'
department:
- _id: JiFr
- _id: EvBe
doi: 10.15252/embj.2020106862
external_id:
isi:
- '000604645600001'
pmid:
- ' 33399250'
file:
- access_level: open_access
checksum: dc55c900f3b061d6c2790b8813d759a3
content_type: application/pdf
creator: dernst
date_created: 2021-02-11T12:28:29Z
date_updated: 2021-02-11T12:28:29Z
file_id: '9110'
file_name: 2021_Embo_Otvos.pdf
file_size: 2358617
relation: main_file
success: 1
file_date_updated: 2021-02-11T12:28:29Z
has_accepted_license: '1'
intvolume: ' 40'
isi: 1
issue: '3'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 2542D156-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I 1774-B16
name: Hormone cross-talk drives nutrient dependent plant development
- _id: 2685A872-B435-11E9-9278-68D0E5697425
name: Hormonal regulation of plant adaptive responses to environmental signals
- _id: 26538374-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03630
name: Molecular mechanisms of endocytic cargo recognition in plants
publication: EMBO Journal
publication_identifier:
eissn:
- '14602075'
issn:
- '02614189'
publication_status: published
publisher: Embo Press
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/a-plants-way-to-its-favorite-food/
record:
- id: '10303'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Modulation of plant root growth by nitrogen source-defined regulation of polar
auxin transport
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 40
year: '2021'
...
---
_id: '9020'
abstract:
- lang: eng
text: 'We study dynamics and thermodynamics of ion transport in narrow, water-filled
channels, considered as effective 1D Coulomb systems. The long range nature of
the inter-ion interactions comes about due to the dielectric constants mismatch
between the water and the surrounding medium, confining the electric filed to
stay mostly within the water-filled channel. Statistical mechanics of such Coulomb
systems is dominated by entropic effects which may be accurately accounted for
by mapping onto an effective quantum mechanics. In presence of multivalent ions
the corresponding quantum mechanics appears to be non-Hermitian. In this review
we discuss a framework for semiclassical calculations for the effective non-Hermitian
Hamiltonians. Non-Hermiticity elevates WKB action integrals from the real line
to closed cycles on a complex Riemann surfaces where direct calculations are not
attainable. We circumvent this issue by applying tools from algebraic topology,
such as the Picard-Fuchs equation. We discuss how its solutions relate to the
thermodynamics and correlation functions of multivalent solutions within narrow,
water-filled channels. '
acknowledgement: "A.K. was supported by NSF grants DMR-2037654. T.G. acknowledges
funding from the Institute of Science and Technology (IST) Austria, and from the
European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie
Grant Agreement No. 754411.\r\nWe are indebted to Boris Shklovskii for introducing
us to the problem, and Alexander Gorsky and Peter Koroteev for introducing us to
the Picard-Fuchs methods. A very special thanks goes to Michael Janas for several
years of excellent collaboration on these topics. TG thanks Michael Kreshchuk for
introduction to the exact WKB method and great collaboration on related projects.
Figure 3 and Figure 4 are reproduced from Reference [25] with friendly permission
by the Russian Academy of Sciences. Figure 2, Figure 4, Figure 5, Figure 6, and
Figure 8 are reproduced from Reference [26] with friendly permission by IOP Publishing."
article_number: e23010125
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: Tobias
full_name: Gulden, Tobias
id: 1083E038-9F73-11E9-A4B5-532AE6697425
last_name: Gulden
orcid: 0000-0001-6814-7541
- first_name: Alex
full_name: Kamenev, Alex
last_name: Kamenev
citation:
ama: Gulden T, Kamenev A. Dynamics of ion channels via non-hermitian quantum mechanics.
Entropy. 2021;23(1). doi:10.3390/e23010125
apa: Gulden, T., & Kamenev, A. (2021). Dynamics of ion channels via non-hermitian
quantum mechanics. Entropy. MDPI. https://doi.org/10.3390/e23010125
chicago: Gulden, Tobias, and Alex Kamenev. “Dynamics of Ion Channels via Non-Hermitian
Quantum Mechanics.” Entropy. MDPI, 2021. https://doi.org/10.3390/e23010125.
ieee: T. Gulden and A. Kamenev, “Dynamics of ion channels via non-hermitian quantum
mechanics,” Entropy, vol. 23, no. 1. MDPI, 2021.
ista: Gulden T, Kamenev A. 2021. Dynamics of ion channels via non-hermitian quantum
mechanics. Entropy. 23(1), e23010125.
mla: Gulden, Tobias, and Alex Kamenev. “Dynamics of Ion Channels via Non-Hermitian
Quantum Mechanics.” Entropy, vol. 23, no. 1, e23010125, MDPI, 2021, doi:10.3390/e23010125.
short: T. Gulden, A. Kamenev, Entropy 23 (2021).
date_created: 2021-01-19T11:12:06Z
date_published: 2021-01-19T00:00:00Z
date_updated: 2023-08-07T13:34:18Z
day: '19'
ddc:
- '530'
department:
- _id: MaSe
doi: 10.3390/e23010125
ec_funded: 1
external_id:
arxiv:
- '2012.01390'
isi:
- '000610122000001'
file:
- access_level: open_access
checksum: 6cd0e706156827c45c740534bd32c179
content_type: application/pdf
creator: tgulden
date_created: 2021-01-19T11:11:14Z
date_updated: 2021-01-19T11:11:14Z
file_id: '9021'
file_name: Final published paper.pdf
file_size: 981285
relation: main_file
file_date_updated: 2021-01-19T11:11:14Z
has_accepted_license: '1'
intvolume: ' 23'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Entropy
publication_identifier:
eissn:
- 1099-4300
publication_status: published
publisher: MDPI
quality_controlled: '1'
status: public
title: Dynamics of ion channels via non-hermitian quantum mechanics
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: 23
year: '2021'
...
---
_id: '9022'
abstract:
- lang: eng
text: "In the first part of the thesis we consider Hermitian random matrices. Firstly,
we consider sample covariance matrices XX∗ with X having independent identically
distributed (i.i.d.) centred entries. We prove a Central Limit Theorem for differences
of linear statistics of XX∗ and its minor after removing the first column of X.
Secondly, we consider Wigner-type matrices and prove that the eigenvalue statistics
near cusp singularities of the limiting density of states are universal and that
they form a Pearcey process. Since the limiting eigenvalue distribution admits
only square root (edge) and cubic root (cusp) singularities, this concludes the
third and last remaining case of the Wigner-Dyson-Mehta universality conjecture.
The main technical ingredients are an optimal local law at the cusp, and the proof
of the fast relaxation to equilibrium of the Dyson Brownian motion in the cusp
regime.\r\nIn the second part we consider non-Hermitian matrices X with centred
i.i.d. entries. We normalise the entries of X to have variance N −1. It is well
known that the empirical eigenvalue density converges to the uniform distribution
on the unit disk (circular law). In the first project, we prove universality of
the local eigenvalue statistics close to the edge of the spectrum. This is the
non-Hermitian analogue of the TracyWidom universality at the Hermitian edge. Technically
we analyse the evolution of the spectral distribution of X along the Ornstein-Uhlenbeck
flow for very long time\r\n(up to t = +∞). In the second project, we consider
linear statistics of eigenvalues for macroscopic test functions f in the Sobolev
space H2+ϵ and prove their convergence to the projection of the Gaussian Free
Field on the unit disk. We prove this result for non-Hermitian matrices with real
or complex entries. The main technical ingredients are: (i) local law for products
of two resolvents at different spectral parameters, (ii) analysis of correlated
Dyson Brownian motions.\r\nIn the third and final part we discuss the mathematically
rigorous application of supersymmetric techniques (SUSY ) to give a lower tail
estimate of the lowest singular value of X − z, with z ∈ C. More precisely, we
use superbosonisation formula to give an integral representation of the resolvent
of (X − z)(X − z)∗ which reduces to two and three contour integrals in the complex
and real case, respectively. The rigorous analysis of these integrals is quite
challenging since simple saddle point analysis cannot be applied (the main contribution
comes from a non-trivial manifold). Our result\r\nimproves classical smoothing
inequalities in the regime |z| ≈ 1; this result is essential to prove edge universality
for i.i.d. non-Hermitian matrices."
acknowledgement: I gratefully acknowledge the financial support from the European
Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie
Grant Agreement No. 665385 and my advisor’s ERC Advanced Grant No. 338804.
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Giorgio
full_name: Cipolloni, Giorgio
id: 42198EFA-F248-11E8-B48F-1D18A9856A87
last_name: Cipolloni
orcid: 0000-0002-4901-7992
citation:
ama: Cipolloni G. Fluctuations in the spectrum of random matrices. 2021. doi:10.15479/AT:ISTA:9022
apa: Cipolloni, G. (2021). Fluctuations in the spectrum of random matrices.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:9022
chicago: Cipolloni, Giorgio. “Fluctuations in the Spectrum of Random Matrices.”
Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9022.
ieee: G. Cipolloni, “Fluctuations in the spectrum of random matrices,” Institute
of Science and Technology Austria, 2021.
ista: Cipolloni G. 2021. Fluctuations in the spectrum of random matrices. Institute
of Science and Technology Austria.
mla: Cipolloni, Giorgio. Fluctuations in the Spectrum of Random Matrices.
Institute of Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9022.
short: G. Cipolloni, Fluctuations in the Spectrum of Random Matrices, Institute
of Science and Technology Austria, 2021.
date_created: 2021-01-21T18:16:54Z
date_published: 2021-01-25T00:00:00Z
date_updated: 2023-09-07T13:29:32Z
day: '25'
ddc:
- '510'
degree_awarded: PhD
department:
- _id: GradSch
- _id: LaEr
doi: 10.15479/AT:ISTA:9022
ec_funded: 1
file:
- access_level: open_access
checksum: 5a93658a5f19478372523ee232887e2b
content_type: application/pdf
creator: gcipollo
date_created: 2021-01-25T14:19:03Z
date_updated: 2021-01-25T14:19:03Z
file_id: '9043'
file_name: thesis.pdf
file_size: 4127796
relation: main_file
success: 1
- access_level: closed
checksum: e8270eddfe6a988e92a53c88d1d19b8c
content_type: application/zip
creator: gcipollo
date_created: 2021-01-25T14:19:10Z
date_updated: 2021-01-25T14:19:10Z
file_id: '9044'
file_name: Thesis_files.zip
file_size: 12775206
relation: source_file
file_date_updated: 2021-01-25T14:19:10Z
has_accepted_license: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: '380'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
status: public
supervisor:
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
title: Fluctuations in the spectrum of random matrices
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2021'
...
---
_id: '9036'
abstract:
- lang: eng
text: In this short note, we prove that the square root of the quantum Jensen-Shannon
divergence is a true metric on the cone of positive matrices, and hence in particular
on the quantum state space.
acknowledgement: D. Virosztek was supported by the European Union's Horizon 2020 research
and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 846294,
and partially supported by the Hungarian National Research, Development and Innovation
Office (NKFIH) via grants no. K124152, and no. KH129601.
article_number: '107595'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Daniel
full_name: Virosztek, Daniel
id: 48DB45DA-F248-11E8-B48F-1D18A9856A87
last_name: Virosztek
orcid: 0000-0003-1109-5511
citation:
ama: Virosztek D. The metric property of the quantum Jensen-Shannon divergence.
Advances in Mathematics. 2021;380(3). doi:10.1016/j.aim.2021.107595
apa: Virosztek, D. (2021). The metric property of the quantum Jensen-Shannon divergence.
Advances in Mathematics. Elsevier. https://doi.org/10.1016/j.aim.2021.107595
chicago: Virosztek, Daniel. “The Metric Property of the Quantum Jensen-Shannon Divergence.”
Advances in Mathematics. Elsevier, 2021. https://doi.org/10.1016/j.aim.2021.107595.
ieee: D. Virosztek, “The metric property of the quantum Jensen-Shannon divergence,”
Advances in Mathematics, vol. 380, no. 3. Elsevier, 2021.
ista: Virosztek D. 2021. The metric property of the quantum Jensen-Shannon divergence.
Advances in Mathematics. 380(3), 107595.
mla: Virosztek, Daniel. “The Metric Property of the Quantum Jensen-Shannon Divergence.”
Advances in Mathematics, vol. 380, no. 3, 107595, Elsevier, 2021, doi:10.1016/j.aim.2021.107595.
short: D. Virosztek, Advances in Mathematics 380 (2021).
date_created: 2021-01-22T17:55:17Z
date_published: 2021-03-26T00:00:00Z
date_updated: 2023-08-07T13:34:48Z
day: '26'
department:
- _id: LaEr
doi: 10.1016/j.aim.2021.107595
ec_funded: 1
external_id:
arxiv:
- '1910.10447'
isi:
- '000619676100035'
intvolume: ' 380'
isi: 1
issue: '3'
keyword:
- General Mathematics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1910.10447
month: '03'
oa: 1
oa_version: Preprint
project:
- _id: 26A455A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '846294'
name: Geometric study of Wasserstein spaces and free probability
publication: Advances in Mathematics
publication_identifier:
issn:
- 0001-8708
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: The metric property of the quantum Jensen-Shannon divergence
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 380
year: '2021'
...
---
_id: '9037'
abstract:
- lang: eng
text: "We continue our study of ‘no‐dimension’ analogues of basic theorems in combinatorial
and convex geometry in Banach spaces. We generalize some results of the paper
(Adiprasito, Bárány and Mustafa, ‘Theorems of Carathéodory, Helly, and Tverberg
without dimension’, Proceedings of the Thirtieth Annual ACM‐SIAM Symposium on
Discrete Algorithms (Society for Industrial and Applied Mathematics, San Diego,
California, 2019) 2350–2360) and prove no‐dimension versions of the colored Tverberg
theorem, the selection lemma and the weak \U0001D700 ‐net theorem in Banach spaces
of type \U0001D45D>1 . To prove these results, we use the original ideas of Adiprasito,
Bárány and Mustafa for the Euclidean case, our no‐dimension version of the Radon
theorem and slightly modified version of the celebrated Maurey lemma."
acknowledgement: "I wish to thank Imre Bárány for bringing the problem to my attention.
I am grateful to Marton Naszódi and Igor Tsiutsiurupa for useful remarks and help
with the text.\r\nThe author acknowledges the financial support from the Ministry
of Educational and Science of the Russian Federation in the framework of MegaGrant
no 075‐15‐2019‐1926."
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Grigory
full_name: Ivanov, Grigory
id: 87744F66-5C6F-11EA-AFE0-D16B3DDC885E
last_name: Ivanov
citation:
ama: Ivanov G. No-dimension Tverberg’s theorem and its corollaries in Banach spaces
of type p. Bulletin of the London Mathematical Society. 2021;53(2):631-641.
doi:10.1112/blms.12449
apa: Ivanov, G. (2021). No-dimension Tverberg’s theorem and its corollaries in Banach
spaces of type p. Bulletin of the London Mathematical Society. London Mathematical
Society. https://doi.org/10.1112/blms.12449
chicago: Ivanov, Grigory. “No-Dimension Tverberg’s Theorem and Its Corollaries in
Banach Spaces of Type P.” Bulletin of the London Mathematical Society.
London Mathematical Society, 2021. https://doi.org/10.1112/blms.12449.
ieee: G. Ivanov, “No-dimension Tverberg’s theorem and its corollaries in Banach
spaces of type p,” Bulletin of the London Mathematical Society, vol. 53,
no. 2. London Mathematical Society, pp. 631–641, 2021.
ista: Ivanov G. 2021. No-dimension Tverberg’s theorem and its corollaries in Banach
spaces of type p. Bulletin of the London Mathematical Society. 53(2), 631–641.
mla: Ivanov, Grigory. “No-Dimension Tverberg’s Theorem and Its Corollaries in Banach
Spaces of Type P.” Bulletin of the London Mathematical Society, vol. 53,
no. 2, London Mathematical Society, 2021, pp. 631–41, doi:10.1112/blms.12449.
short: G. Ivanov, Bulletin of the London Mathematical Society 53 (2021) 631–641.
date_created: 2021-01-24T23:01:08Z
date_published: 2021-04-01T00:00:00Z
date_updated: 2023-08-07T13:35:20Z
day: '01'
ddc:
- '510'
department:
- _id: UlWa
doi: 10.1112/blms.12449
external_id:
arxiv:
- '1912.08561'
isi:
- '000607265100001'
file:
- access_level: open_access
checksum: e6ceaa6470d835eb4c211cbdd38fdfd1
content_type: application/pdf
creator: kschuh
date_created: 2021-08-06T09:59:45Z
date_updated: 2021-08-06T09:59:45Z
file_id: '9796'
file_name: 2021_BLMS_Ivanov.pdf
file_size: 194550
relation: main_file
success: 1
file_date_updated: 2021-08-06T09:59:45Z
has_accepted_license: '1'
intvolume: ' 53'
isi: 1
issue: '2'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 631-641
publication: Bulletin of the London Mathematical Society
publication_identifier:
eissn:
- '14692120'
issn:
- '00246093'
publication_status: published
publisher: London Mathematical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: No-dimension Tverberg's theorem and its corollaries in Banach spaces of type
p
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 53
year: '2021'
...
---
_id: '9038'
abstract:
- lang: eng
text: 'Layered materials in which individual atomic layers are bonded by weak van
der Waals forces (vdW materials) constitute one of the most prominent platforms
for materials research. Particularly, polar vdW crystals, such as hexagonal boron
nitride (h-BN), alpha-molybdenum trioxide (α-MoO3) or alpha-vanadium pentoxide
(α-V2O5), have received significant attention in nano-optics, since they support
phonon polaritons (PhPs)―light coupled to lattice vibrations― with strong electromagnetic
confinement and low optical losses. Recently, correlative far- and near-field
studies of α-MoO3 have been demonstrated as an effective strategy to accurately
extract the permittivity of this material. Here, we use this accurately characterized
and low-loss polaritonic material to sense its local dielectric environment, namely
silica (SiO2), one of the most widespread substrates in nanotechnology. By studying
the propagation of PhPs on α-MoO3 flakes with different thicknesses laying on
SiO2 substrates via near-field microscopy (s-SNOM), we extract locally the infrared
permittivity of SiO2. Our work reveals PhPs nanoimaging as a versatile method
for the quantitative characterization of the local optical properties of dielectric
substrates, crucial for understanding and predicting the response of nanomaterials
and for the future scalability of integrated nanophotonic devices. '
acknowledgement: "P.A.-M. acknowledges financial support through JAE Intro program
from the Superior\r\nCouncil of Scientific Investigations and the Spanish Ministry
of Science and Innovation (grant number JAEINT_20_00589). G.Á.-P. and J.T.-G. acknowledge
financial support through the Severo Ochoa Program from the Government of the Principality
of Asturias (grant numbers PA-20-PF-BP19-053 and PA-18-PF-BP17-126, respectively).
J.M.-S. acknowledges financial support from the Ramón y Cajal Program of the Government
of Spain (RYC2018-026196-I) and the Spanish Ministry of Science and Innovation (State
Plan for Scientific and Technical Research and Innovation grant number PID2019-110308GA-I00).
P.A.-G. acknowledges support from the European Research Council under starting grant
no. 715496, 2DNANOPTICA and the Spanish Ministry of Science and Innovation (State
Plan for Scientific and Technical Research and Innovation grant number PID2019-111156GB-I00)."
article_number: '120'
article_processing_charge: No
article_type: original
author:
- first_name: Patricia
full_name: Aguilar-Merino, Patricia
last_name: Aguilar-Merino
- first_name: Gonzalo
full_name: Álvarez-Pérez, Gonzalo
last_name: Álvarez-Pérez
- first_name: Javier
full_name: Taboada-Gutiérrez, Javier
last_name: Taboada-Gutiérrez
- first_name: Jiahua
full_name: Duan, Jiahua
last_name: Duan
- first_name: Ivan
full_name: Prieto Gonzalez, Ivan
id: 2A307FE2-F248-11E8-B48F-1D18A9856A87
last_name: Prieto Gonzalez
orcid: 0000-0002-7370-5357
- first_name: Luis Manuel
full_name: Álvarez-Prado, Luis Manuel
last_name: Álvarez-Prado
- first_name: Alexey Y.
full_name: Nikitin, Alexey Y.
last_name: Nikitin
- first_name: Javier
full_name: Martín-Sánchez, Javier
last_name: Martín-Sánchez
- first_name: Pablo
full_name: Alonso-González, Pablo
last_name: Alonso-González
citation:
ama: Aguilar-Merino P, Álvarez-Pérez G, Taboada-Gutiérrez J, et al. Extracting the
infrared permittivity of SiO2 substrates locally by near-field imaging of phonon
polaritons in a van der Waals crystal. Nanomaterials. 2021;11(1). doi:10.3390/nano11010120
apa: Aguilar-Merino, P., Álvarez-Pérez, G., Taboada-Gutiérrez, J., Duan, J., Prieto
Gonzalez, I., Álvarez-Prado, L. M., … Alonso-González, P. (2021). Extracting the
infrared permittivity of SiO2 substrates locally by near-field imaging of phonon
polaritons in a van der Waals crystal. Nanomaterials. MDPI. https://doi.org/10.3390/nano11010120
chicago: Aguilar-Merino, Patricia, Gonzalo Álvarez-Pérez, Javier Taboada-Gutiérrez,
Jiahua Duan, Ivan Prieto Gonzalez, Luis Manuel Álvarez-Prado, Alexey Y. Nikitin,
Javier Martín-Sánchez, and Pablo Alonso-González. “Extracting the Infrared Permittivity
of SiO2 Substrates Locally by Near-Field Imaging of Phonon Polaritons in a van
Der Waals Crystal.” Nanomaterials. MDPI, 2021. https://doi.org/10.3390/nano11010120.
ieee: P. Aguilar-Merino et al., “Extracting the infrared permittivity of
SiO2 substrates locally by near-field imaging of phonon polaritons in a van der
Waals crystal,” Nanomaterials, vol. 11, no. 1. MDPI, 2021.
ista: Aguilar-Merino P, Álvarez-Pérez G, Taboada-Gutiérrez J, Duan J, Prieto Gonzalez
I, Álvarez-Prado LM, Nikitin AY, Martín-Sánchez J, Alonso-González P. 2021. Extracting
the infrared permittivity of SiO2 substrates locally by near-field imaging of
phonon polaritons in a van der Waals crystal. Nanomaterials. 11(1), 120.
mla: Aguilar-Merino, Patricia, et al. “Extracting the Infrared Permittivity of SiO2
Substrates Locally by Near-Field Imaging of Phonon Polaritons in a van Der Waals
Crystal.” Nanomaterials, vol. 11, no. 1, 120, MDPI, 2021, doi:10.3390/nano11010120.
short: P. Aguilar-Merino, G. Álvarez-Pérez, J. Taboada-Gutiérrez, J. Duan, I. Prieto
Gonzalez, L.M. Álvarez-Prado, A.Y. Nikitin, J. Martín-Sánchez, P. Alonso-González,
Nanomaterials 11 (2021).
date_created: 2021-01-24T23:01:09Z
date_published: 2021-01-07T00:00:00Z
date_updated: 2023-08-07T13:35:50Z
day: '07'
ddc:
- '620'
department:
- _id: NanoFab
doi: 10.3390/nano11010120
external_id:
isi:
- '000610636600001'
pmid:
- '33430225'
file:
- access_level: open_access
checksum: 1edc13eeda83df5cd9fff9504727b1f5
content_type: application/pdf
creator: dernst
date_created: 2021-01-25T08:02:32Z
date_updated: 2021-01-25T08:02:32Z
file_id: '9042'
file_name: 2020_Nanomaterials_Aguilar_Merino.pdf
file_size: 2730267
relation: main_file
success: 1
file_date_updated: 2021-01-25T08:02:32Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: Nanomaterials
publication_identifier:
eissn:
- '20794991'
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Extracting the infrared permittivity of SiO2 substrates locally by near-field
imaging of phonon polaritons in a van der Waals crystal
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: 11
year: '2021'
...
---
_id: '9046'
acknowledgement: Our work was supported by the Swedish Research Council (grant 2017-01527)
to DIA
article_number: e1009172
article_processing_charge: No
article_type: original
author:
- first_name: Roderich
full_name: Römhild, Roderich
id: 68E56E44-62B0-11EA-B963-444F3DDC885E
last_name: Römhild
orcid: 0000-0001-9480-5261
- first_name: Dan I.
full_name: Andersson, Dan I.
last_name: Andersson
citation:
ama: Römhild R, Andersson DI. Mechanisms and therapeutic potential of collateral
sensitivity to antibiotics. PLoS Pathogens. 2021;17(1). doi:10.1371/journal.ppat.1009172
apa: Römhild, R., & Andersson, D. I. (2021). Mechanisms and therapeutic potential
of collateral sensitivity to antibiotics. PLoS Pathogens. Public Library
of Science. https://doi.org/10.1371/journal.ppat.1009172
chicago: Römhild, Roderich, and Dan I. Andersson. “Mechanisms and Therapeutic Potential
of Collateral Sensitivity to Antibiotics.” PLoS Pathogens. Public Library
of Science, 2021. https://doi.org/10.1371/journal.ppat.1009172.
ieee: R. Römhild and D. I. Andersson, “Mechanisms and therapeutic potential of collateral
sensitivity to antibiotics,” PLoS Pathogens, vol. 17, no. 1. Public Library
of Science, 2021.
ista: Römhild R, Andersson DI. 2021. Mechanisms and therapeutic potential of collateral
sensitivity to antibiotics. PLoS Pathogens. 17(1), e1009172.
mla: Römhild, Roderich, and Dan I. Andersson. “Mechanisms and Therapeutic Potential
of Collateral Sensitivity to Antibiotics.” PLoS Pathogens, vol. 17, no.
1, e1009172, Public Library of Science, 2021, doi:10.1371/journal.ppat.1009172.
short: R. Römhild, D.I. Andersson, PLoS Pathogens 17 (2021).
date_created: 2021-01-31T23:01:21Z
date_published: 2021-01-14T00:00:00Z
date_updated: 2023-08-07T13:36:55Z
day: '14'
ddc:
- '570'
department:
- _id: CaGu
doi: 10.1371/journal.ppat.1009172
external_id:
isi:
- '000610190400007'
pmid:
- '33444399'
file:
- access_level: open_access
checksum: d745d7f8fcbb9b95fea16a36f94dee31
content_type: application/pdf
creator: dernst
date_created: 2021-02-03T12:13:03Z
date_updated: 2021-02-03T12:13:03Z
file_id: '9070'
file_name: 2021_PlosPathogens_Roemhild.pdf
file_size: 570066
relation: main_file
success: 1
file_date_updated: 2021-02-03T12:13:03Z
has_accepted_license: '1'
intvolume: ' 17'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: PLoS Pathogens
publication_identifier:
eissn:
- '15537374'
issn:
- '15537366'
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: Mechanisms and therapeutic potential of collateral sensitivity to antibiotics
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: 17
year: '2021'
...
---
_id: '9047'
abstract:
- lang: eng
text: This work analyzes the latency of the simplified successive cancellation (SSC)
decoding scheme for polar codes proposed by Alamdar-Yazdi and Kschischang. It
is shown that, unlike conventional successive cancellation decoding, where latency
is linear in the block length, the latency of SSC decoding is sublinear. More
specifically, the latency of SSC decoding is O(N1−1/μ) , where N is the block
length and μ is the scaling exponent of the channel, which captures the speed
of convergence of the rate to capacity. Numerical results demonstrate the tightness
of the bound and show that most of the latency reduction arises from the parallel
decoding of subcodes of rate 0 or 1.
acknowledgement: M. Mondelli was partially supported by grants NSF DMS-1613091, CCF-1714305,
IIS-1741162, and ONR N00014-18-1-2729. S. A. Hashemi is supported by a Postdoctoral
Fellowship from the Natural Sciences and Engineering Research Council of Canada
(NSERC) and by Huawei. The authors would like to thank the anonymous reviewers for
their comments that helped improving the quality of the manuscript.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: Seyyed Ali
full_name: Hashemi, Seyyed Ali
last_name: Hashemi
- first_name: John M.
full_name: Cioffi, John M.
last_name: Cioffi
- first_name: Andrea
full_name: Goldsmith, Andrea
last_name: Goldsmith
citation:
ama: Mondelli M, Hashemi SA, Cioffi JM, Goldsmith A. Sublinear latency for simplified
successive cancellation decoding of polar codes. IEEE Transactions on Wireless
Communications. 2021;20(1):18-27. doi:10.1109/TWC.2020.3022922
apa: Mondelli, M., Hashemi, S. A., Cioffi, J. M., & Goldsmith, A. (2021). Sublinear
latency for simplified successive cancellation decoding of polar codes. IEEE
Transactions on Wireless Communications. IEEE. https://doi.org/10.1109/TWC.2020.3022922
chicago: Mondelli, Marco, Seyyed Ali Hashemi, John M. Cioffi, and Andrea Goldsmith.
“Sublinear Latency for Simplified Successive Cancellation Decoding of Polar Codes.”
IEEE Transactions on Wireless Communications. IEEE, 2021. https://doi.org/10.1109/TWC.2020.3022922.
ieee: M. Mondelli, S. A. Hashemi, J. M. Cioffi, and A. Goldsmith, “Sublinear latency
for simplified successive cancellation decoding of polar codes,” IEEE Transactions
on Wireless Communications, vol. 20, no. 1. IEEE, pp. 18–27, 2021.
ista: Mondelli M, Hashemi SA, Cioffi JM, Goldsmith A. 2021. Sublinear latency for
simplified successive cancellation decoding of polar codes. IEEE Transactions
on Wireless Communications. 20(1), 18–27.
mla: Mondelli, Marco, et al. “Sublinear Latency for Simplified Successive Cancellation
Decoding of Polar Codes.” IEEE Transactions on Wireless Communications,
vol. 20, no. 1, IEEE, 2021, pp. 18–27, doi:10.1109/TWC.2020.3022922.
short: M. Mondelli, S.A. Hashemi, J.M. Cioffi, A. Goldsmith, IEEE Transactions on
Wireless Communications 20 (2021) 18–27.
date_created: 2021-01-31T23:01:21Z
date_published: 2021-01-01T00:00:00Z
date_updated: 2023-08-07T13:36:25Z
day: '01'
department:
- _id: MaMo
doi: 10.1109/TWC.2020.3022922
external_id:
arxiv:
- '1909.04892'
isi:
- '000607808800002'
intvolume: ' 20'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1909.04892
month: '01'
oa: 1
oa_version: Preprint
page: 18-27
publication: IEEE Transactions on Wireless Communications
publication_identifier:
eissn:
- '15582248'
issn:
- '15361276'
publication_status: published
publisher: IEEE
quality_controlled: '1'
related_material:
record:
- id: '8536'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Sublinear latency for simplified successive cancellation decoding of polar
codes
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 20
year: '2021'
...
---
_id: '9048'
abstract:
- lang: eng
text: The analogy between an equilibrium partition function and the return probability
in many-body unitary dynamics has led to the concept of dynamical quantum phase
transition (DQPT). DQPTs are defined by nonanalyticities in the return amplitude
and are present in many models. In some cases, DQPTs can be related to equilibrium
concepts, such as order parameters, yet their universal description is an open
question. In this Letter, we provide first steps toward a classification of DQPTs
by using a matrix product state description of unitary dynamics in the thermodynamic
limit. This allows us to distinguish the two limiting cases of “precession” and
“entanglement” DQPTs, which are illustrated using an analytical description in
the quantum Ising model. While precession DQPTs are characterized by a large entanglement
gap and are semiclassical in their nature, entanglement DQPTs occur near avoided
crossings in the entanglement spectrum and can be distinguished by a complex pattern
of nonlocal correlations. We demonstrate the existence of precession and entanglement
DQPTs beyond Ising models, discuss observables that can distinguish them, and
relate their interplay to complex DQPT phenomenology.
acknowledgement: "S. D. N. acknowledges funding from the Institute of Science and
Technology (IST) Austria and from the European Union’s Horizon 2020 Research and
Innovation Programme under the Marie Skłodowska-Curie Grant Agreement No. 754411.
A. M. and M. S. were supported by the European Research Council (ERC) under the
European Union’s Horizon 2020 Research and\r\nInnovation Programme (Grant Agreement
No. 850899)."
article_number: '040602'
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: Stefano
full_name: De Nicola, Stefano
id: 42832B76-F248-11E8-B48F-1D18A9856A87
last_name: De Nicola
orcid: 0000-0002-4842-6671
- first_name: Alexios
full_name: Michailidis, Alexios
id: 36EBAD38-F248-11E8-B48F-1D18A9856A87
last_name: Michailidis
orcid: 0000-0002-8443-1064
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
citation:
ama: De Nicola S, Michailidis A, Serbyn M. Entanglement view of dynamical quantum
phase transitions. Physical Review Letters. 2021;126(4). doi:10.1103/physrevlett.126.040602
apa: De Nicola, S., Michailidis, A., & Serbyn, M. (2021). Entanglement view
of dynamical quantum phase transitions. Physical Review Letters. American
Physical Society. https://doi.org/10.1103/physrevlett.126.040602
chicago: De Nicola, Stefano, Alexios Michailidis, and Maksym Serbyn. “Entanglement
View of Dynamical Quantum Phase Transitions.” Physical Review Letters.
American Physical Society, 2021. https://doi.org/10.1103/physrevlett.126.040602.
ieee: S. De Nicola, A. Michailidis, and M. Serbyn, “Entanglement view of dynamical
quantum phase transitions,” Physical Review Letters, vol. 126, no. 4. American
Physical Society, 2021.
ista: De Nicola S, Michailidis A, Serbyn M. 2021. Entanglement view of dynamical
quantum phase transitions. Physical Review Letters. 126(4), 040602.
mla: De Nicola, Stefano, et al. “Entanglement View of Dynamical Quantum Phase Transitions.”
Physical Review Letters, vol. 126, no. 4, 040602, American Physical Society,
2021, doi:10.1103/physrevlett.126.040602.
short: S. De Nicola, A. Michailidis, M. Serbyn, Physical Review Letters 126 (2021).
date_created: 2021-02-01T09:20:00Z
date_published: 2021-01-29T00:00:00Z
date_updated: 2023-09-05T12:08:58Z
day: '29'
ddc:
- '530'
department:
- _id: MaSe
doi: 10.1103/physrevlett.126.040602
ec_funded: 1
external_id:
arxiv:
- '2008.04894'
isi:
- '000613148200001'
file:
- access_level: open_access
checksum: d9acbc502390ed7a97e631d23ae19ecd
content_type: application/pdf
creator: dernst
date_created: 2021-02-03T12:47:04Z
date_updated: 2021-02-03T12:47:04Z
file_id: '9074'
file_name: 2021_PhysicalRevLett_DeNicola.pdf
file_size: 398075
relation: main_file
success: 1
file_date_updated: 2021-02-03T12:47:04Z
has_accepted_license: '1'
intvolume: ' 126'
isi: 1
issue: '4'
keyword:
- General Physics and Astronomy
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
- _id: 23841C26-32DE-11EA-91FC-C7463DDC885E
call_identifier: H2020
grant_number: '850899'
name: 'Non-Ergodic Quantum Matter: Universality, Dynamics and Control'
publication: Physical Review Letters
publication_identifier:
eissn:
- 1079-7114
issn:
- 0031-9007
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
status: public
title: Entanglement view of dynamical quantum 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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 126
year: '2021'
...
---
_id: '9056'
abstract:
- lang: eng
text: "In this thesis we study persistence of multi-covers of Euclidean balls and
the geometric structures underlying their computation, in particular Delaunay
mosaics and Voronoi tessellations. The k-fold cover for some discrete input point
set consists of the space where at least k balls of radius r around the input
points overlap. Persistence is a notion that captures, in some sense, the topology
of the shape underlying the input. While persistence is usually computed for the
union of balls, the k-fold cover is of interest as it captures local density,\r\nand
thus might approximate the shape of the input better if the input data is noisy.
To compute persistence of these k-fold covers, we need a discretization that is
provided by higher-order Delaunay mosaics. We present and implement a simple and
efficient algorithm for the computation of higher-order Delaunay mosaics, and
use it to give experimental results for their combinatorial properties. The algorithm
makes use of a new geometric structure, the rhomboid tiling. It contains the higher-order
Delaunay mosaics as slices, and by introducing a filtration\r\nfunction on the
tiling, we also obtain higher-order α-shapes as slices. These allow us to compute
persistence of the multi-covers for varying radius r; the computation for varying
k is less straight-foward and involves the rhomboid tiling directly. We apply
our algorithms to experimental sphere packings to shed light on their structural
properties. Finally, inspired by periodic structures in packings and materials,
we propose and implement an algorithm for periodic Delaunay triangulations to
be integrated into the Computational Geometry Algorithms Library (CGAL), and discuss
the implications on persistence for periodic data sets."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Georg F
full_name: Osang, Georg F
id: 464B40D6-F248-11E8-B48F-1D18A9856A87
last_name: Osang
orcid: 0000-0002-8882-5116
citation:
ama: Osang GF. Multi-cover persistence and Delaunay mosaics. 2021. doi:10.15479/AT:ISTA:9056
apa: Osang, G. F. (2021). Multi-cover persistence and Delaunay mosaics. Institute
of Science and Technology Austria, Klosterneuburg. https://doi.org/10.15479/AT:ISTA:9056
chicago: Osang, Georg F. “Multi-Cover Persistence and Delaunay Mosaics.” Institute
of Science and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9056.
ieee: G. F. Osang, “Multi-cover persistence and Delaunay mosaics,” Institute of
Science and Technology Austria, Klosterneuburg, 2021.
ista: 'Osang GF. 2021. Multi-cover persistence and Delaunay mosaics. Klosterneuburg:
Institute of Science and Technology Austria.'
mla: Osang, Georg F. Multi-Cover Persistence and Delaunay Mosaics. Institute
of Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9056.
short: G.F. Osang, Multi-Cover Persistence and Delaunay Mosaics, Institute of Science
and Technology Austria, 2021.
date_created: 2021-02-02T14:11:06Z
date_published: 2021-02-01T00:00:00Z
date_updated: 2023-09-07T13:29:01Z
day: '01'
ddc:
- '006'
- '514'
- '516'
degree_awarded: PhD
department:
- _id: HeEd
- _id: GradSch
doi: 10.15479/AT:ISTA:9056
file:
- access_level: closed
checksum: bcf27986147cab0533b6abadd74e7629
content_type: application/zip
creator: patrickd
date_created: 2021-02-02T14:09:25Z
date_updated: 2021-02-03T10:37:28Z
file_id: '9063'
file_name: thesis_source.zip
file_size: 13446994
relation: source_file
- access_level: open_access
checksum: 9cc8af266579a464385bbe2aff6af606
content_type: application/pdf
creator: patrickd
date_created: 2021-02-02T14:09:18Z
date_updated: 2021-02-02T14:09:18Z
file_id: '9064'
file_name: thesis_pdfA2b.pdf
file_size: 5210329
relation: main_file
success: 1
file_date_updated: 2021-02-03T10:37:28Z
has_accepted_license: '1'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: '134'
place: Klosterneuburg
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '187'
relation: part_of_dissertation
status: public
- id: '8703'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
title: Multi-cover persistence and Delaunay mosaics
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2021'
...
---
_id: '9073'
abstract:
- lang: eng
text: The sensory and cognitive abilities of the mammalian neocortex are underpinned
by intricate columnar and laminar circuits formed from an array of diverse neuronal
populations. One approach to determining how interactions between these circuit
components give rise to complex behavior is to investigate the rules by which
cortical circuits are formed and acquire functionality during development. This
review summarizes recent research on the development of the neocortex, from genetic
determination in neural stem cells through to the dynamic role that specific neuronal
populations play in the earliest circuits of neocortex, and how they contribute
to emergent function and cognition. While many of these endeavors take advantage
of model systems, consideration will also be given to advances in our understanding
of activity in nascent human circuits. Such cross-species perspective is imperative
when investigating the mechanisms underlying the dysfunction of early neocortical
circuits in neurodevelopmental disorders, so that one can identify targets amenable
to therapeutic intervention.
acknowledgement: Work in the I.L.H.-O. laboratory was supported by European Research
Council Grant ERC-2015-CoG 681577 and German Research Foundation Ha 4466/10-1, Ha4466/11-1,
Ha4466/12-1, SPP 1665, and SFB 936B5. Work in the S.J.B.B. laboratory was supported
by Biotechnology and Biological Sciences Research Council BB/P003796/1, Medical
Research Council MR/K004387/1 and MR/T033320/1, Wellcome Trust 215199/Z/19/Z and
102386/Z/13/Z, and John Fell Fund. Work in the S.H. laboratory was supported by
European Research Council Grants ERC-2016-CoG 725780 LinPro and FWF SFB F78. This
work was supported by National Institutes of Health Grant NIMH 1R01MH110553 to N.V.D.M.G.
Work in the J.A.C. laboratory was supported by the Ludwig Family Foundation, Simons
Foundation SFARI Research Award, and National Institutes of Health/National Institute
of Mental Health R01 MH102365 and R01MH113852. The B.V. laboratory was supported
by Whitehall Foundation 2017-12-73, National Science Foundation 1736028, National
Institutes of Health, National Institute of General Medical Sciences R01GM134363-01,
and Halıcıoğlu Data Science Institute Fellowship. This work was supported by the
University of California San Diego School of Medicine.
article_processing_charge: No
article_type: original
author:
- first_name: Ileana L.
full_name: Hanganu-Opatz, Ileana L.
last_name: Hanganu-Opatz
- first_name: Simon J. B.
full_name: Butt, Simon J. B.
last_name: Butt
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: Natalia V.
full_name: De Marco García, Natalia V.
last_name: De Marco García
- first_name: Jessica A.
full_name: Cardin, Jessica A.
last_name: Cardin
- first_name: Bradley
full_name: Voytek, Bradley
last_name: Voytek
- first_name: Alysson R.
full_name: Muotri, Alysson R.
last_name: Muotri
citation:
ama: Hanganu-Opatz IL, Butt SJB, Hippenmeyer S, et al. The logic of developing neocortical
circuits in health and disease. The Journal of Neuroscience. 2021;41(5):813-822.
doi:10.1523/jneurosci.1655-20.2020
apa: Hanganu-Opatz, I. L., Butt, S. J. B., Hippenmeyer, S., De Marco García, N.
V., Cardin, J. A., Voytek, B., & Muotri, A. R. (2021). The logic of developing
neocortical circuits in health and disease. The Journal of Neuroscience.
Society for Neuroscience. https://doi.org/10.1523/jneurosci.1655-20.2020
chicago: Hanganu-Opatz, Ileana L., Simon J. B. Butt, Simon Hippenmeyer, Natalia
V. De Marco García, Jessica A. Cardin, Bradley Voytek, and Alysson R. Muotri.
“The Logic of Developing Neocortical Circuits in Health and Disease.” The Journal
of Neuroscience. Society for Neuroscience, 2021. https://doi.org/10.1523/jneurosci.1655-20.2020.
ieee: I. L. Hanganu-Opatz et al., “The logic of developing neocortical circuits
in health and disease,” The Journal of Neuroscience, vol. 41, no. 5. Society
for Neuroscience, pp. 813–822, 2021.
ista: Hanganu-Opatz IL, Butt SJB, Hippenmeyer S, De Marco García NV, Cardin JA,
Voytek B, Muotri AR. 2021. The logic of developing neocortical circuits in health
and disease. The Journal of Neuroscience. 41(5), 813–822.
mla: Hanganu-Opatz, Ileana L., et al. “The Logic of Developing Neocortical Circuits
in Health and Disease.” The Journal of Neuroscience, vol. 41, no. 5, Society
for Neuroscience, 2021, pp. 813–22, doi:10.1523/jneurosci.1655-20.2020.
short: I.L. Hanganu-Opatz, S.J.B. Butt, S. Hippenmeyer, N.V. De Marco García, J.A.
Cardin, B. Voytek, A.R. Muotri, The Journal of Neuroscience 41 (2021) 813–822.
date_created: 2021-02-03T12:23:51Z
date_published: 2021-02-03T00:00:00Z
date_updated: 2023-09-05T14:03:17Z
day: '03'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.1523/jneurosci.1655-20.2020
ec_funded: 1
external_id:
isi:
- '000616763400002'
pmid:
- '33431633'
file:
- access_level: open_access
checksum: 578fd7ed1a0aef74bce61bea2d987b33
content_type: application/pdf
creator: dernst
date_created: 2022-05-27T06:59:55Z
date_updated: 2022-05-27T06:59:55Z
file_id: '11414'
file_name: 2021_JourNeuroscience_Hanganu.pdf
file_size: 1031150
relation: main_file
success: 1
file_date_updated: 2022-05-27T06:59:55Z
has_accepted_license: '1'
intvolume: ' 41'
isi: 1
issue: '5'
keyword:
- General Neuroscience
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 813-822
pmid: 1
project:
- _id: 260018B0-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '725780'
name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
- _id: 059F6AB4-7A3F-11EA-A408-12923DDC885E
grant_number: F07805
name: Molecular Mechanisms of Neural Stem Cell Lineage Progression
publication: The Journal of Neuroscience
publication_identifier:
eissn:
- 1529-2401
issn:
- 0270-6474
publication_status: published
publisher: Society for Neuroscience
quality_controlled: '1'
scopus_import: '1'
status: public
title: The logic of developing neocortical circuits in health and disease
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 41
year: '2021'
...
---
_id: '9082'
abstract:
- lang: eng
text: Acquired mutations are sufficiently frequent such that the genome of a single
cell offers a record of its history of cell divisions. Among more common somatic
genomic alterations are loss of heterozygosity (LOH). Large LOH events are potentially
detectable in single cell RNA sequencing (scRNA-seq) datasets as tracts of monoallelic
expression for constitutionally heterozygous single nucleotide variants (SNVs)
located among contiguous genes. We identified runs of monoallelic expression,
consistent with LOH, uniquely distributed throughout the genome in single cell
brain cortex transcriptomes of F1 hybrids involving different inbred mouse strains.
We then phylogenetically reconstructed single cell lineages and simultaneously
identified cell types by corresponding gene expression patterns. Our results are
consistent with progenitor cells giving rise to multiple cortical cell types through
stereotyped expansion and distinct waves of neurogenesis. Compared to engineered
recording systems, LOH events accumulate throughout the genome and across the
lifetime of an organism, affording tremendous capacity for encoding lineage information
and increasing resolution for later cell divisions. This approach can conceivably
be computationally incorporated into scRNA-seq analysis and may be useful for
organisms where genetic engineering is prohibitive, such as humans.
acknowledgement: "We thank Bill Bolosky, Microsoft Research, for earlier work showing
proof of concept in TCGA\r\nbulk RNA-seq data. Supported by the Paul G. Allen Frontiers
Group (University of Washington);\r\nNIH R00HG010152 (Dartmouth); and NÖ Forschung
und Bildung n[f+b] life science call grant\r\n(C13-002) to SH, and the European
Research Council (ERC) under the European Union’s\r\nHorizon 2020 research and innovation
program 725780 LinPro to SH."
article_processing_charge: No
author:
- first_name: Donovan J.
full_name: Anderson, Donovan J.
last_name: Anderson
- first_name: Florian
full_name: Pauler, Florian
id: 48EA0138-F248-11E8-B48F-1D18A9856A87
last_name: Pauler
- first_name: Aaron
full_name: McKenna, Aaron
last_name: McKenna
- first_name: Jay
full_name: Shendure, Jay
last_name: Shendure
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: Marshall S.
full_name: Horwitz, Marshall S.
last_name: Horwitz
citation:
ama: Anderson DJ, Pauler F, McKenna A, Shendure J, Hippenmeyer S, Horwitz MS. Simultaneous
identification of brain cell type and lineage via single cell RNA sequencing.
bioRxiv. doi:10.1101/2020.12.31.425016
apa: Anderson, D. J., Pauler, F., McKenna, A., Shendure, J., Hippenmeyer, S., &
Horwitz, M. S. (n.d.). Simultaneous identification of brain cell type and lineage
via single cell RNA sequencing. bioRxiv. Cold Spring Harbor Laboratory.
https://doi.org/10.1101/2020.12.31.425016
chicago: Anderson, Donovan J., Florian Pauler, Aaron McKenna, Jay Shendure, Simon
Hippenmeyer, and Marshall S. Horwitz. “Simultaneous Identification of Brain Cell
Type and Lineage via Single Cell RNA Sequencing.” BioRxiv. Cold Spring
Harbor Laboratory, n.d. https://doi.org/10.1101/2020.12.31.425016.
ieee: D. J. Anderson, F. Pauler, A. McKenna, J. Shendure, S. Hippenmeyer, and M.
S. Horwitz, “Simultaneous identification of brain cell type and lineage via single
cell RNA sequencing,” bioRxiv. Cold Spring Harbor Laboratory.
ista: Anderson DJ, Pauler F, McKenna A, Shendure J, Hippenmeyer S, Horwitz MS. Simultaneous
identification of brain cell type and lineage via single cell RNA sequencing.
bioRxiv, 10.1101/2020.12.31.425016.
mla: Anderson, Donovan J., et al. “Simultaneous Identification of Brain Cell Type
and Lineage via Single Cell RNA Sequencing.” BioRxiv, Cold Spring Harbor
Laboratory, doi:10.1101/2020.12.31.425016.
short: D.J. Anderson, F. Pauler, A. McKenna, J. Shendure, S. Hippenmeyer, M.S. Horwitz,
BioRxiv (n.d.).
date_created: 2021-02-04T07:23:23Z
date_published: 2021-01-01T00:00:00Z
date_updated: 2021-02-04T07:29:53Z
day: '01'
department:
- _id: SiHi
doi: 10.1101/2020.12.31.425016
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2020.12.31.425016
month: '01'
oa: 1
oa_version: Preprint
project:
- _id: 260018B0-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '725780'
name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
publication: bioRxiv
publication_status: submitted
publisher: Cold Spring Harbor Laboratory
status: public
title: Simultaneous identification of brain cell type and lineage via single cell
RNA sequencing
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '9093'
abstract:
- lang: eng
text: We employ the Gross-Pitaevskii equation to study acoustic emission generated
in a uniform Bose gas by a static impurity. The impurity excites a sound-wave
packet, which propagates through the gas. We calculate the shape of this wave
packet in the limit of long wave lengths, and argue that it is possible to extract
properties of the impurity by observing this shape. We illustrate here this possibility
for a Bose gas with a trapped impurity atom -- an example of a relevant experimental
setup. Presented results are general for all one-dimensional systems described
by the nonlinear Schrödinger equation and can also be used in nonatomic systems,
e.g., to analyze light propagation in nonlinear optical media. Finally, we calculate
the shape of the sound-wave packet for a three-dimensional Bose gas assuming a
spherically symmetric perturbation.
acknowledgement: "We acknowledge fruitful discussions with Dr. Simos Mistakidis regarding
beyond mean-field\r\neffects in our system. We also thank Prof. Maxim Olshanii for
valuable suggestions to improve\r\nthe manuscript.O.V.M acknowledges the support
from the National Science Foundation\r\nthrough grants No. PHY-1402249, No. PHY-1607221,
and No. PHY-1912542 and the\r\nBinational (US-Israel) Science Foundation through
grant No. 2015616, as well as by the Israel\r\nScience Foundation (grant No. 1287/17)
and from the German Aeronautics and Space Administration\r\n(DLR) through Grant
No. 50WM1957. This work has also received funding from\r\nthe DFG Project No.413495248
[VO 2437/1-1] and European Union’s Horizon 2020 research\r\nand innovation programme
under the Marie Skłodowska-Curie Grant Agreement No. 754411\r\n(A. G. V.)"
article_number: '025'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Oleksandr
full_name: Marchukov, Oleksandr
last_name: Marchukov
- first_name: Artem
full_name: Volosniev, Artem
id: 37D278BC-F248-11E8-B48F-1D18A9856A87
last_name: Volosniev
orcid: 0000-0003-0393-5525
citation:
ama: Marchukov O, Volosniev A. Shape of a sound wave in a weakly-perturbed Bose
gas. SciPost Physics. 2021;10(2). doi:10.21468/scipostphys.10.2.025
apa: Marchukov, O., & Volosniev, A. (2021). Shape of a sound wave in a weakly-perturbed
Bose gas. SciPost Physics. SciPost Foundation. https://doi.org/10.21468/scipostphys.10.2.025
chicago: Marchukov, Oleksandr, and Artem Volosniev. “Shape of a Sound Wave in a
Weakly-Perturbed Bose Gas.” SciPost Physics. SciPost Foundation, 2021.
https://doi.org/10.21468/scipostphys.10.2.025.
ieee: O. Marchukov and A. Volosniev, “Shape of a sound wave in a weakly-perturbed
Bose gas,” SciPost Physics, vol. 10, no. 2. SciPost Foundation, 2021.
ista: Marchukov O, Volosniev A. 2021. Shape of a sound wave in a weakly-perturbed
Bose gas. SciPost Physics. 10(2), 025.
mla: Marchukov, Oleksandr, and Artem Volosniev. “Shape of a Sound Wave in a Weakly-Perturbed
Bose Gas.” SciPost Physics, vol. 10, no. 2, 025, SciPost Foundation, 2021,
doi:10.21468/scipostphys.10.2.025.
short: O. Marchukov, A. Volosniev, SciPost Physics 10 (2021).
date_created: 2021-02-04T12:39:24Z
date_published: 2021-02-03T00:00:00Z
date_updated: 2023-08-07T13:39:37Z
day: '03'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.21468/scipostphys.10.2.025
ec_funded: 1
external_id:
arxiv:
- '2004.08075'
isi:
- '000646783100027'
file:
- access_level: open_access
checksum: 9fd614b7ab49999e7267874df2582f7e
content_type: application/pdf
creator: dernst
date_created: 2021-02-09T07:06:22Z
date_updated: 2021-02-09T07:06:22Z
file_id: '9105'
file_name: 2021_SciPostPhysics_Marchukov.pdf
file_size: 666512
relation: main_file
success: 1
file_date_updated: 2021-02-09T07:06:22Z
has_accepted_license: '1'
intvolume: ' 10'
isi: 1
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: SciPost Physics
publication_identifier:
issn:
- 2542-4653
publication_status: published
publisher: SciPost Foundation
quality_controlled: '1'
status: public
title: Shape of a sound wave in a weakly-perturbed Bose gas
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 10
year: '2021'
...
---
_id: '9094'
abstract:
- lang: eng
text: Dendritic cells (DCs) are crucial for the priming of naive T cells and the
initiation of adaptive immunity. Priming is initiated at a heterologous cell–cell
contact, the immunological synapse (IS). While it is established that F-actin
dynamics regulates signaling at the T cell side of the contact, little is known
about the cytoskeletal contribution on the DC side. Here, we show that the DC
actin cytoskeleton is decisive for the formation of a multifocal synaptic structure,
which correlates with T cell priming efficiency. DC actin at the IS appears in
transient foci that are dynamized by the WAVE regulatory complex (WRC). The absence
of the WRC in DCs leads to stabilized contacts with T cells, caused by an increase
in ICAM1-integrin–mediated cell–cell adhesion. This results in lower numbers of
activated and proliferating T cells, demonstrating an important role for DC actin
in the regulation of immune synapse functionality.
article_number: e202006081
article_processing_charge: No
article_type: original
author:
- first_name: Alexander F
full_name: Leithner, Alexander F
id: 3B1B77E4-F248-11E8-B48F-1D18A9856A87
last_name: Leithner
orcid: 0000-0002-1073-744X
- first_name: LM
full_name: Altenburger, LM
last_name: Altenburger
- first_name: R
full_name: Hauschild, R
last_name: Hauschild
- first_name: Frank P
full_name: Assen, Frank P
id: 3A8E7F24-F248-11E8-B48F-1D18A9856A87
last_name: Assen
orcid: 0000-0003-3470-6119
- first_name: K
full_name: Rottner, K
last_name: Rottner
- first_name: Stradal
full_name: TEB, Stradal
last_name: TEB
- first_name: A
full_name: Diz-Muñoz, A
last_name: Diz-Muñoz
- first_name: JV
full_name: Stein, JV
last_name: Stein
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
citation:
ama: Leithner AF, Altenburger L, Hauschild R, et al. Dendritic cell actin dynamics
control contact duration and priming efficiency at the immunological synapse.
Journal of Cell Biology. 2021;220(4). doi:10.1083/jcb.202006081
apa: Leithner, A. F., Altenburger, L., Hauschild, R., Assen, F. P., Rottner, K.,
TEB, S., … Sixt, M. K. (2021). Dendritic cell actin dynamics control contact duration
and priming efficiency at the immunological synapse. Journal of Cell Biology.
Rockefeller University Press. https://doi.org/10.1083/jcb.202006081
chicago: Leithner, Alexander F, LM Altenburger, R Hauschild, Frank P Assen, K Rottner,
Stradal TEB, A Diz-Muñoz, JV Stein, and Michael K Sixt. “Dendritic Cell Actin
Dynamics Control Contact Duration and Priming Efficiency at the Immunological
Synapse.” Journal of Cell Biology. Rockefeller University Press, 2021.
https://doi.org/10.1083/jcb.202006081.
ieee: A. F. Leithner et al., “Dendritic cell actin dynamics control contact
duration and priming efficiency at the immunological synapse,” Journal of Cell
Biology, vol. 220, no. 4. Rockefeller University Press, 2021.
ista: Leithner AF, Altenburger L, Hauschild R, Assen FP, Rottner K, TEB S, Diz-Muñoz
A, Stein J, Sixt MK. 2021. Dendritic cell actin dynamics control contact duration
and priming efficiency at the immunological synapse. Journal of Cell Biology.
220(4), e202006081.
mla: Leithner, Alexander F., et al. “Dendritic Cell Actin Dynamics Control Contact
Duration and Priming Efficiency at the Immunological Synapse.” Journal of Cell
Biology, vol. 220, no. 4, e202006081, Rockefeller University Press, 2021,
doi:10.1083/jcb.202006081.
short: A.F. Leithner, L. Altenburger, R. Hauschild, F.P. Assen, K. Rottner, S. TEB,
A. Diz-Muñoz, J. Stein, M.K. Sixt, Journal of Cell Biology 220 (2021).
date_created: 2021-02-05T10:08:04Z
date_published: 2021-04-05T00:00:00Z
date_updated: 2023-09-05T13:57:53Z
day: '05'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.1083/jcb.202006081
external_id:
isi:
- '000626365700001'
pmid:
- '33533935'
file:
- access_level: open_access
checksum: 843ebc153847c8626e13c9c5ce71d533
content_type: application/pdf
creator: dernst
date_created: 2022-05-12T14:16:21Z
date_updated: 2022-05-12T14:16:21Z
file_id: '11367'
file_name: 2021_JournCellBiology_Leithner.pdf
file_size: 5102328
relation: main_file
success: 1
file_date_updated: 2022-05-12T14:16:21Z
has_accepted_license: '1'
intvolume: ' 220'
isi: 1
issue: '4'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
publication: Journal of Cell Biology
publication_identifier:
eissn:
- 1540-8140
issn:
- 0021-9525
publication_status: published
publisher: Rockefeller University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Dendritic cell actin dynamics control contact duration and priming efficiency
at the immunological synapse
tmp:
image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 220
year: '2021'
...
---
_id: '9097'
abstract:
- lang: eng
text: Psoriasis is a chronic inflammatory skin disease clinically characterized
by the appearance of red colored, well-demarcated plaques with thickened skin
and with silvery scales. Recent studies have established the involvement of a
complex signalling network of interactions between cytokines, immune cells and
skin cells called keratinocytes. Keratinocytes form the cells of the outermost
layer of the skin (epidermis). Visible plaques in psoriasis are developed due
to the fast proliferation and unusual differentiation of keratinocyte cells. Despite
that, the exact mechanism of the appearance of these plaques in the cytokine-immune
cell network is not clear. A mathematical model embodying interactions between
key immune cells believed to be involved in psoriasis, keratinocytes and relevant
cytokines has been developed. The complex network formed of these interactions
poses several challenges. Here, we choose to study subnetworks of this complex
network and initially focus on interactions involving TNFα, IL-23/IL-17, and IL-15.
These are chosen based on known evidence of their therapeutic efficacy. In addition,
we explore the role of IL-15 in the pathogenesis of psoriasis and its potential
as a future drug target for a novel treatment option. We perform steady state
analyses for these subnetworks and demonstrate that the interactions between cells,
driven by cytokines could cause the emergence of a psoriasis state (hyper-proliferation
of keratinocytes) when levels of TNFα, IL-23/IL-17 or IL-15 are increased. The
model results explain and support the clinical potentiality of anti-cytokine treatments.
Interestingly, our results suggest different dynamic scenarios underpin the pathogenesis
of psoriasis, depending upon the dominant cytokines of subnetworks. We observed
that the increase in the level of IL-23/IL-17 and IL-15 could lead to psoriasis
via a bistable route, whereas an increase in the level of TNFα would lead to a
monotonic and gradual disease progression. Further, we demonstrate how this insight,
bistability, could be exploited to improve the current therapies and develop novel
treatment strategies for psoriasis.
acknowledgement: RP acknowledges the Department of Science and Technology, India for
the support through the DST-INSPIRE Faculty Award (DST/INSPIRE/04/2015/001939).
This work was supported by the Engineering and Physical Sciences Research Council
(EPSRC), United Kingdom (Grant numbers EP/J018295/1, EP/J018392/1, EP/N014391/1).
The contribution of RP was also supported by the later Grant. This work was generously
supported by the Welcome Trust Institutional Strategic Support Award (204909/Z/16/Z)
too. The contribution of MG was supported by the EPSRC via EP/N014391/1 and a Wellcome
Trust Institutional Strategic Support Award (WT105618MA). The contribution of YA
was generously supported by the Wellcome Trust Institutional Strategic Support Award
(WT105618MA).
article_number: '2204'
article_processing_charge: No
article_type: original
author:
- first_name: Rakesh
full_name: Pandey, Rakesh
last_name: Pandey
- first_name: Yusur
full_name: Al-Nuaimi, Yusur
last_name: Al-Nuaimi
- first_name: Rajiv Kumar
full_name: Mishra, Rajiv Kumar
id: 46CB58F2-F248-11E8-B48F-1D18A9856A87
last_name: Mishra
- first_name: Sarah K.
full_name: Spurgeon, Sarah K.
last_name: Spurgeon
- first_name: Marc
full_name: Goodfellow, Marc
last_name: Goodfellow
citation:
ama: Pandey R, Al-Nuaimi Y, Mishra RK, Spurgeon SK, Goodfellow M. Role of subnetworks
mediated by TNF α, IL-23/IL-17 and IL-15 in a network involved in the pathogenesis
of psoriasis. Scientific Reports. 2021;11. doi:10.1038/s41598-020-80507-7
apa: Pandey, R., Al-Nuaimi, Y., Mishra, R. K., Spurgeon, S. K., & Goodfellow,
M. (2021). Role of subnetworks mediated by TNF α, IL-23/IL-17 and IL-15 in a network
involved in the pathogenesis of psoriasis. Scientific Reports. Springer
Nature. https://doi.org/10.1038/s41598-020-80507-7
chicago: Pandey, Rakesh, Yusur Al-Nuaimi, Rajiv Kumar Mishra, Sarah K. Spurgeon,
and Marc Goodfellow. “Role of Subnetworks Mediated by TNF α, IL-23/IL-17 and IL-15
in a Network Involved in the Pathogenesis of Psoriasis.” Scientific Reports.
Springer Nature, 2021. https://doi.org/10.1038/s41598-020-80507-7.
ieee: R. Pandey, Y. Al-Nuaimi, R. K. Mishra, S. K. Spurgeon, and M. Goodfellow,
“Role of subnetworks mediated by TNF α, IL-23/IL-17 and IL-15 in a network involved
in the pathogenesis of psoriasis,” Scientific Reports, vol. 11. Springer
Nature, 2021.
ista: Pandey R, Al-Nuaimi Y, Mishra RK, Spurgeon SK, Goodfellow M. 2021. Role of
subnetworks mediated by TNF α, IL-23/IL-17 and IL-15 in a network involved in
the pathogenesis of psoriasis. Scientific Reports. 11, 2204.
mla: Pandey, Rakesh, et al. “Role of Subnetworks Mediated by TNF α, IL-23/IL-17
and IL-15 in a Network Involved in the Pathogenesis of Psoriasis.” Scientific
Reports, vol. 11, 2204, Springer Nature, 2021, doi:10.1038/s41598-020-80507-7.
short: R. Pandey, Y. Al-Nuaimi, R.K. Mishra, S.K. Spurgeon, M. Goodfellow, Scientific
Reports 11 (2021).
date_created: 2021-02-07T23:01:12Z
date_published: 2021-01-26T00:00:00Z
date_updated: 2022-08-19T07:22:23Z
day: '26'
ddc:
- '570'
department:
- _id: PeJo
doi: 10.1038/s41598-020-80507-7
file:
- access_level: open_access
checksum: e8a68df48750712671f5c47b0228e531
content_type: application/pdf
creator: dernst
date_created: 2021-02-09T07:33:23Z
date_updated: 2021-02-09T07:33:23Z
file_id: '9106'
file_name: 2021_ScientificReports_Pandey.pdf
file_size: 2885056
relation: main_file
success: 1
file_date_updated: 2021-02-09T07:33:23Z
has_accepted_license: '1'
intvolume: ' 11'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: Scientific Reports
publication_identifier:
eissn:
- '20452322'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Role of subnetworks mediated by TNF α, IL-23/IL-17 and IL-15 in a network involved
in the pathogenesis of psoriasis
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: 11
year: '2021'
...
---
_id: '9098'
abstract:
- lang: eng
text: "We study properties of the volume of projections of the n-dimensional\r\ncross-polytope
$\\crosp^n = \\{ x \\in \\R^n \\mid |x_1| + \\dots + |x_n| \\leqslant 1\\}.$ We
prove that the projection of $\\crosp^n$ onto a k-dimensional coordinate subspace
has the maximum possible volume for k=2 and for k=3.\r\nWe obtain the exact lower
bound on the volume of such a projection onto a two-dimensional plane. Also, we
show that there exist local maxima which are not global ones for the volume of
a projection of $\\crosp^n$ onto a k-dimensional subspace for any n>k⩾2."
acknowledgement: Research was supported by the Russian Foundation for Basic Research,
project 18-01-00036A (Theorems 1.5 and 5.3) and by the Ministry of Education and
Science of the Russian Federation in the framework of MegaGrant no 075-15-2019-1926
(Theorems 1.2 and 7.3).
article_number: '112312'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Grigory
full_name: Ivanov, Grigory
id: 87744F66-5C6F-11EA-AFE0-D16B3DDC885E
last_name: Ivanov
citation:
ama: Ivanov G. On the volume of projections of the cross-polytope. Discrete Mathematics.
2021;344(5). doi:10.1016/j.disc.2021.112312
apa: Ivanov, G. (2021). On the volume of projections of the cross-polytope. Discrete
Mathematics. Elsevier. https://doi.org/10.1016/j.disc.2021.112312
chicago: Ivanov, Grigory. “On the Volume of Projections of the Cross-Polytope.”
Discrete Mathematics. Elsevier, 2021. https://doi.org/10.1016/j.disc.2021.112312.
ieee: G. Ivanov, “On the volume of projections of the cross-polytope,” Discrete
Mathematics, vol. 344, no. 5. Elsevier, 2021.
ista: Ivanov G. 2021. On the volume of projections of the cross-polytope. Discrete
Mathematics. 344(5), 112312.
mla: Ivanov, Grigory. “On the Volume of Projections of the Cross-Polytope.” Discrete
Mathematics, vol. 344, no. 5, 112312, Elsevier, 2021, doi:10.1016/j.disc.2021.112312.
short: G. Ivanov, Discrete Mathematics 344 (2021).
date_created: 2021-02-07T23:01:12Z
date_published: 2021-05-01T00:00:00Z
date_updated: 2023-08-07T13:40:37Z
day: '01'
department:
- _id: UlWa
doi: 10.1016/j.disc.2021.112312
external_id:
arxiv:
- '1808.09165'
isi:
- '000633365200001'
intvolume: ' 344'
isi: 1
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1808.09165
month: '05'
oa: 1
oa_version: Preprint
publication: Discrete Mathematics
publication_identifier:
issn:
- 0012365X
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the volume of projections of the cross-polytope
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 344
year: '2021'
...
---
_id: '9099'
abstract:
- lang: eng
text: We show that on an Abelian variety over an algebraically closed field of positive
characteristic, the obstruction to lifting an automorphism to a field of characteristic
zero as a morphism vanishes if and only if it vanishes for lifting it as a derived
autoequivalence. We also compare the deformation space of these two types of deformations.
acknowledgement: I would like to thank Piotr Achinger, Daniel Huybrechts, Katrina
Honigs, Marcin Lara, and Maciek Zdanowicz for the mathematical discussions, Tamas
Hausel for hosting me in his research group at IST Austria, and the referees for
their valuable suggestions. This research has received funding from the European
Union’s Horizon 2020 research and innovation programme under Marie Sklodowska-Curie
Grant Agreement No. 754411.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Tanya K
full_name: Srivastava, Tanya K
id: 4D046628-F248-11E8-B48F-1D18A9856A87
last_name: Srivastava
citation:
ama: Srivastava TK. Lifting automorphisms on Abelian varieties as derived autoequivalences.
Archiv der Mathematik. 2021;116(5):515-527. doi:10.1007/s00013-020-01564-y
apa: Srivastava, T. K. (2021). Lifting automorphisms on Abelian varieties as derived
autoequivalences. Archiv Der Mathematik. Springer Nature. https://doi.org/10.1007/s00013-020-01564-y
chicago: Srivastava, Tanya K. “Lifting Automorphisms on Abelian Varieties as Derived
Autoequivalences.” Archiv Der Mathematik. Springer Nature, 2021. https://doi.org/10.1007/s00013-020-01564-y.
ieee: T. K. Srivastava, “Lifting automorphisms on Abelian varieties as derived autoequivalences,”
Archiv der Mathematik, vol. 116, no. 5. Springer Nature, pp. 515–527, 2021.
ista: Srivastava TK. 2021. Lifting automorphisms on Abelian varieties as derived
autoequivalences. Archiv der Mathematik. 116(5), 515–527.
mla: Srivastava, Tanya K. “Lifting Automorphisms on Abelian Varieties as Derived
Autoequivalences.” Archiv Der Mathematik, vol. 116, no. 5, Springer Nature,
2021, pp. 515–27, doi:10.1007/s00013-020-01564-y.
short: T.K. Srivastava, Archiv Der Mathematik 116 (2021) 515–527.
date_created: 2021-02-07T23:01:13Z
date_published: 2021-05-01T00:00:00Z
date_updated: 2023-08-07T13:42:38Z
day: '01'
department:
- _id: TaHa
doi: 10.1007/s00013-020-01564-y
ec_funded: 1
external_id:
arxiv:
- '2001.07762'
isi:
- '000612580200001'
intvolume: ' 116'
isi: 1
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2001.07762
month: '05'
oa: 1
oa_version: Preprint
page: 515-527
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Archiv der Mathematik
publication_identifier:
eissn:
- '14208938'
issn:
- 0003889X
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Lifting automorphisms on Abelian varieties as derived autoequivalences
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 116
year: '2021'
...
---
_id: '9100'
abstract:
- lang: eng
text: 'Marine environments are inhabited by a broad representation of the tree of
life, yet our understanding of speciation in marine ecosystems is extremely limited
compared with terrestrial and freshwater environments. Developing a more comprehensive
picture of speciation in marine environments requires that we ''dive under the
surface'' by studying a wider range of taxa and ecosystems is necessary for a
more comprehensive picture of speciation. Although studying marine evolutionary
processes is often challenging, recent technological advances in different fields,
from maritime engineering to genomics, are making it increasingly possible to
study speciation of marine life forms across diverse ecosystems and taxa. Motivated
by recent research in the field, including the 14 contributions in this issue,
we highlight and discuss six axes of research that we think will deepen our understanding
of speciation in the marine realm: (a) study a broader range of marine environments
and organisms; (b) identify the reproductive barriers driving speciation between
marine taxa; (c) understand the role of different genomic architectures underlying
reproductive isolation; (d) infer the evolutionary history of divergence using
model‐based approaches; (e) study patterns of hybridization and introgression
between marine taxa; and (f) implement highly interdisciplinary, collaborative
research programmes. In outlining these goals, we hope to inspire researchers
to continue filling this critical knowledge gap surrounding the origins of marine
biodiversity.'
acknowledgement: "We would like to thank all the participants in the speciation symposium
of the Marine Evolution Conference in Sweden for the interesting discussions and
to all the contributors to this special\r\nissue. We thank Nicolas Bierne and Wolf
Blanckenhorn (reviewer and editor, respectively) for valuable suggestions during
the revision of the manuscript, and Roger K. Butlin and Anja M. Westram for very
helpful comments on a previous draft. We would also like to thank Wolf Blanckenhorn
and Nicola Cook, the Editor in Chief and the Managing Editor of the Journal of Evolutionary
Biology, respectively, for the encouragement and support in putting together this
special issue, and to all reviewers involved. RF was financed by the European Union's
Horizon 2020 Research and Innovation Programme under the Marie Sklodowska-Curie
Grant Agreement Number 706376 and is currently financed by the FEDER Funds through
the Operational Competitiveness Factors Program COMPETE and by National Funds through
the Foundation for Science and Technology (FCT) within the scope of the project
‘Hybrabbid' (PTDC/BIA-EVL/30628/2017-POCI-01-0145-FEDER-030628). KJ was funded by
the Swedish\r\nResearch Council, VR. SS was supported by NERC and ERC funding awarded
to Roger K. Butlin."
article_processing_charge: No
article_type: original
author:
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
citation:
ama: 'Faria R, Johannesson K, Stankowski S. Speciation in marine environments: Diving
under the surface. Journal of Evolutionary Biology. 2021;34(1):4-15. doi:10.1111/jeb.13756'
apa: 'Faria, R., Johannesson, K., & Stankowski, S. (2021). Speciation in marine
environments: Diving under the surface. Journal of Evolutionary Biology.
Wiley. https://doi.org/10.1111/jeb.13756'
chicago: 'Faria, Rui, Kerstin Johannesson, and Sean Stankowski. “Speciation in Marine
Environments: Diving under the Surface.” Journal of Evolutionary Biology.
Wiley, 2021. https://doi.org/10.1111/jeb.13756.'
ieee: 'R. Faria, K. Johannesson, and S. Stankowski, “Speciation in marine environments:
Diving under the surface,” Journal of Evolutionary Biology, vol. 34, no.
1. Wiley, pp. 4–15, 2021.'
ista: 'Faria R, Johannesson K, Stankowski S. 2021. Speciation in marine environments:
Diving under the surface. Journal of Evolutionary Biology. 34(1), 4–15.'
mla: 'Faria, Rui, et al. “Speciation in Marine Environments: Diving under the Surface.”
Journal of Evolutionary Biology, vol. 34, no. 1, Wiley, 2021, pp. 4–15,
doi:10.1111/jeb.13756.'
short: R. Faria, K. Johannesson, S. Stankowski, Journal of Evolutionary Biology
34 (2021) 4–15.
date_created: 2021-02-07T23:01:13Z
date_published: 2021-01-18T00:00:00Z
date_updated: 2023-08-07T13:42:08Z
day: '18'
ddc:
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department:
- _id: NiBa
doi: 10.1111/jeb.13756
external_id:
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page: 4-15
publication: Journal of Evolutionary Biology
publication_identifier:
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issn:
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publisher: Wiley
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title: 'Speciation in marine environments: Diving under the surface'
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...