---
_id: '15264'
abstract:
- lang: eng
text: Signaling by the B cell antigen receptor (BCR) initiates actin remodeling.
The assembly of branched actin networks that are nucleated by the Arp2/3 complex
exert outward force on the plasma membrane, allowing B cells to form membrane
protrusions that can scan the surface of antigen-presenting cells (APCs). The
resulting Arp2/3 complex-dependent actin retrograde flow promotes the centripetal
movement and progressive coalescence of BCR microclusters, which amplifies BCR
signaling. Glia maturation factor γ (GMFγ) is an actin disassembly-protein that
releases Arp2/3 complex-nucleated actin filaments from actin networks. By doing
so, GMFγ could either oppose the actions of the Arp2/3 complex or support Arp2/3
complex-nucleated actin polymerization by contributing to the recycling of actin
monomers and Arp2/3 complexes. We now show that reducing the levels of GMFγ in
human B cell lines via transfection with a specific siRNA impairs the ability
of B cells to spread on antigen-coated surfaces, decreases the velocity of actin
retrograde flow, diminishes the coalescence of BCR microclusters into a central
cluster at the B cell-APC contact site, and decreases APC-induced BCR signaling.
These effects of depleting GMFγ are similar to what occurs when the Arp2/3 complex
is inhibited. This suggests that GMFγ cooperates with the Arp2/3 complex to support
BCR-induced actin remodeling and amplify BCR signaling at the immune synapse.
article_number: '647063'
article_processing_charge: No
article_type: original
author:
- first_name: Nikola
full_name: Deretic, Nikola
last_name: Deretic
- first_name: Madison
full_name: Bolger-Munro, Madison
id: 516F03FA-93A3-11EA-A7C5-D6BE3DDC885E
last_name: Bolger-Munro
orcid: 0000-0002-8176-4824
- first_name: Kate
full_name: Choi, Kate
last_name: Choi
- first_name: Libin
full_name: Abraham, Libin
last_name: Abraham
- first_name: Michael R.
full_name: Gold, Michael R.
last_name: Gold
citation:
ama: Deretic N, Bolger-Munro M, Choi K, Abraham L, Gold MR. The actin-disassembly
protein glia maturation factor γ enhances actin remodeling and B cell antigen
receptor signaling at the immune synapse. Frontiers in Cell and Developmental
Biology. 2021;9. doi:10.3389/fcell.2021.647063
apa: Deretic, N., Bolger-Munro, M., Choi, K., Abraham, L., & Gold, M. R. (2021).
The actin-disassembly protein glia maturation factor γ enhances actin remodeling
and B cell antigen receptor signaling at the immune synapse. Frontiers in Cell
and Developmental Biology. Frontiers Media. https://doi.org/10.3389/fcell.2021.647063
chicago: Deretic, Nikola, Madison Bolger-Munro, Kate Choi, Libin Abraham, and Michael
R. Gold. “The Actin-Disassembly Protein Glia Maturation Factor γ Enhances Actin
Remodeling and B Cell Antigen Receptor Signaling at the Immune Synapse.” Frontiers
in Cell and Developmental Biology. Frontiers Media, 2021. https://doi.org/10.3389/fcell.2021.647063.
ieee: N. Deretic, M. Bolger-Munro, K. Choi, L. Abraham, and M. R. Gold, “The actin-disassembly
protein glia maturation factor γ enhances actin remodeling and B cell antigen
receptor signaling at the immune synapse,” Frontiers in Cell and Developmental
Biology, vol. 9. Frontiers Media, 2021.
ista: Deretic N, Bolger-Munro M, Choi K, Abraham L, Gold MR. 2021. The actin-disassembly
protein glia maturation factor γ enhances actin remodeling and B cell antigen
receptor signaling at the immune synapse. Frontiers in Cell and Developmental
Biology. 9, 647063.
mla: Deretic, Nikola, et al. “The Actin-Disassembly Protein Glia Maturation Factor
γ Enhances Actin Remodeling and B Cell Antigen Receptor Signaling at the Immune
Synapse.” Frontiers in Cell and Developmental Biology, vol. 9, 647063,
Frontiers Media, 2021, doi:10.3389/fcell.2021.647063.
short: N. Deretic, M. Bolger-Munro, K. Choi, L. Abraham, M.R. Gold, Frontiers in
Cell and Developmental Biology 9 (2021).
date_created: 2024-04-03T07:34:08Z
date_published: 2021-07-01T00:00:00Z
date_updated: 2024-04-03T14:10:25Z
day: '01'
ddc:
- '570'
department:
- _id: CaHe
doi: 10.3389/fcell.2021.647063
external_id:
pmid:
- '34336818'
file:
- access_level: open_access
checksum: f6330b5c6718d6780383c0300fd4ef12
content_type: application/pdf
creator: dernst
date_created: 2024-04-03T14:08:05Z
date_updated: 2024-04-03T14:08:05Z
file_id: '15291'
file_name: 2021_Frontiers_Deretic.pdf
file_size: 7430029
relation: main_file
success: 1
file_date_updated: 2024-04-03T14:08:05Z
has_accepted_license: '1'
intvolume: ' 9'
keyword:
- Cell Biology
- Developmental Biology
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
publication: Frontiers in Cell and Developmental Biology
publication_identifier:
issn:
- 2296-634X
publication_status: published
publisher: Frontiers Media
quality_controlled: '1'
scopus_import: '1'
status: public
title: The actin-disassembly protein glia maturation factor γ enhances actin remodeling
and B cell antigen receptor signaling at the immune synapse
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: 9
year: '2021'
...
---
_id: '15265'
abstract:
- lang: eng
text: 'The highly enhanced thermoelectric figure of merit, zT ≈ 2.6 at 573 K, obtained
recently in Cd-doped polycrystalline AgSbTe2 by Roychowdhury et al. ( Science
2021, 371, 722) brings it to the forefront of thermoelectric and energy materials
research. Ag/Sb cationic ordering in polycrystalline AgSbTe2 was a challenging
issue for a long time: their ordered arrangement in the cationic sublattice in
polycrystalline samples remained elusive despite multiple theoretical predictions
and experimental studies. Recently, selective cation doping has been used to enhance
the Ag/Sb ordering, and cation ordered nanoscale (2–4 nm) domains were observed
in polycrystalline AgSbTe2, which reduce lattice thermal conductivity. The enhanced
cation ordering also delocalizes disorder-induced localized electronic states,
and consequently the electronic transport enhances. In this Focus Review, we provide
the details of the rational design of a high-performance thermoelectric material
using the recently developed atomic order–disorder optimization strategy with
AgSbTe2 as an example. Atomic disorder is ubiquitous in most thermoelectric materials,
and the atomic order–disorder optimization strategy applies to a large variety
of thermoelectric materials.'
article_processing_charge: No
article_type: original
author:
- first_name: Tanmoy
full_name: Ghosh, Tanmoy
id: a5fc9bc3-feff-11ea-93fe-e8015a3c7e9d
last_name: Ghosh
- first_name: Subhajit
full_name: Roychowdhury, Subhajit
last_name: Roychowdhury
- first_name: Moinak
full_name: Dutta, Moinak
last_name: Dutta
- first_name: Kanishka
full_name: Biswas, Kanishka
last_name: Biswas
citation:
ama: 'Ghosh T, Roychowdhury S, Dutta M, Biswas K. High-performance thermoelectric
energy conversion: A tale of atomic ordering in AgSbTe2. ACS Energy Letters.
2021;6(8):2825-2837. doi:10.1021/acsenergylett.1c01184'
apa: 'Ghosh, T., Roychowdhury, S., Dutta, M., & Biswas, K. (2021). High-performance
thermoelectric energy conversion: A tale of atomic ordering in AgSbTe2. ACS
Energy Letters. American Chemical Society. https://doi.org/10.1021/acsenergylett.1c01184'
chicago: 'Ghosh, Tanmoy, Subhajit Roychowdhury, Moinak Dutta, and Kanishka Biswas.
“High-Performance Thermoelectric Energy Conversion: A Tale of Atomic Ordering
in AgSbTe2.” ACS Energy Letters. American Chemical Society, 2021. https://doi.org/10.1021/acsenergylett.1c01184.'
ieee: 'T. Ghosh, S. Roychowdhury, M. Dutta, and K. Biswas, “High-performance thermoelectric
energy conversion: A tale of atomic ordering in AgSbTe2,” ACS Energy Letters,
vol. 6, no. 8. American Chemical Society, pp. 2825–2837, 2021.'
ista: 'Ghosh T, Roychowdhury S, Dutta M, Biswas K. 2021. High-performance thermoelectric
energy conversion: A tale of atomic ordering in AgSbTe2. ACS Energy Letters. 6(8),
2825–2837.'
mla: 'Ghosh, Tanmoy, et al. “High-Performance Thermoelectric Energy Conversion:
A Tale of Atomic Ordering in AgSbTe2.” ACS Energy Letters, vol. 6, no.
8, American Chemical Society, 2021, pp. 2825–37, doi:10.1021/acsenergylett.1c01184.'
short: T. Ghosh, S. Roychowdhury, M. Dutta, K. Biswas, ACS Energy Letters 6 (2021)
2825–2837.
date_created: 2024-04-03T07:36:10Z
date_published: 2021-07-21T00:00:00Z
date_updated: 2024-04-29T06:56:57Z
day: '21'
department:
- _id: MaIb
doi: 10.1021/acsenergylett.1c01184
intvolume: ' 6'
issue: '8'
keyword:
- Materials Chemistry
- Energy Engineering and Power Technology
- Fuel Technology
- Renewable Energy
- Sustainability and the Environment
- Chemistry (miscellaneous)
language:
- iso: eng
month: '07'
oa_version: None
page: 2825-2837
publication: ACS Energy Letters
publication_identifier:
issn:
- 2380-8195
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
status: public
title: 'High-performance thermoelectric energy conversion: A tale of atomic ordering
in AgSbTe2'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2021'
...
---
_id: '15266'
abstract:
- lang: eng
text: Plant pathogens often exploit a whole range of effectors to facilitate infection.
The RXLR effector AVR1 produced by the oomycete plant pathogen Phytophthora infestans
suppresses host defense by targeting Sec5. Sec5 is a subunit of the exocyst, a
protein complex that is important for mediating polarized exocytosis during plant
development and defense against pathogens. The mechanism by which AVR1 manipulates
Sec5 functioning is unknown. In this study, we analyzed the effect of AVR1 on
Sec5 localization and functioning in the moss Physcomitrium patens. P. patens
has four Sec5 homologs. Two (PpSec5b and PpSec5d) were found to interact with
AVR1 in yeast-two-hybrid assays while none of the four showed a positive interaction
with AVR1ΔT, a truncated version of AVR1. In P. patens lines carrying β-estradiol
inducible AVR1 or AVR1ΔT transgenes, expression of AVR1 or AVR1ΔT caused defects
in the development of caulonemal protonema cells and abnormal morphology of chloronema
cells. Similar phenotypes were observed in Sec5- or Sec6-silenced P. patens lines,
suggesting that both AVR1 and AVR1ΔT affect exocyst functioning in P. patens.
With respect to Sec5 localization we found no differences between β-estradiol-treated
and untreated transgenic AVR1 lines. Sec5 localizes at the plasma membrane in
growing caulonema cells, also during pathogen attack, and its subcellular localization
is the same, with or without AVR1 in the vicinity.
article_number: e0249637
article_processing_charge: Yes
article_type: original
author:
- first_name: Elysa J. R.
full_name: Overdijk, Elysa J. R.
last_name: Overdijk
- first_name: Vera
full_name: Putker, Vera
last_name: Putker
- first_name: Joep
full_name: Smits, Joep
last_name: Smits
- first_name: Han
full_name: Tang, Han
id: 19BDF720-25A0-11EA-AC6E-928F3DDC885E
last_name: Tang
orcid: 0000-0001-6152-6637
- first_name: Klaas
full_name: Bouwmeester, Klaas
last_name: Bouwmeester
- first_name: Francine
full_name: Govers, Francine
last_name: Govers
- first_name: Tijs
full_name: Ketelaar, Tijs
last_name: Ketelaar
citation:
ama: Overdijk EJR, Putker V, Smits J, et al. Phytophthora infestans RXLR effector
AVR1 disturbs the growth of Physcomitrium patens without affecting Sec5 localization.
PLoS One. 2021;16(4). doi:10.1371/journal.pone.0249637
apa: Overdijk, E. J. R., Putker, V., Smits, J., Tang, H., Bouwmeester, K., Govers,
F., & Ketelaar, T. (2021). Phytophthora infestans RXLR effector AVR1 disturbs
the growth of Physcomitrium patens without affecting Sec5 localization. PLoS
One. Public Library of Science. https://doi.org/10.1371/journal.pone.0249637
chicago: Overdijk, Elysa J. R., Vera Putker, Joep Smits, Han Tang, Klaas Bouwmeester,
Francine Govers, and Tijs Ketelaar. “Phytophthora Infestans RXLR Effector AVR1
Disturbs the Growth of Physcomitrium Patens without Affecting Sec5 Localization.”
PLoS One. Public Library of Science, 2021. https://doi.org/10.1371/journal.pone.0249637.
ieee: E. J. R. Overdijk et al., “Phytophthora infestans RXLR effector AVR1
disturbs the growth of Physcomitrium patens without affecting Sec5 localization,”
PLoS One, vol. 16, no. 4. Public Library of Science, 2021.
ista: Overdijk EJR, Putker V, Smits J, Tang H, Bouwmeester K, Govers F, Ketelaar
T. 2021. Phytophthora infestans RXLR effector AVR1 disturbs the growth of Physcomitrium
patens without affecting Sec5 localization. PLoS One. 16(4), e0249637.
mla: Overdijk, Elysa J. R., et al. “Phytophthora Infestans RXLR Effector AVR1 Disturbs
the Growth of Physcomitrium Patens without Affecting Sec5 Localization.” PLoS
One, vol. 16, no. 4, e0249637, Public Library of Science, 2021, doi:10.1371/journal.pone.0249637.
short: E.J.R. Overdijk, V. Putker, J. Smits, H. Tang, K. Bouwmeester, F. Govers,
T. Ketelaar, PLoS One 16 (2021).
date_created: 2024-04-03T07:38:14Z
date_published: 2021-04-08T00:00:00Z
date_updated: 2024-04-29T06:53:15Z
day: '08'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1371/journal.pone.0249637
external_id:
pmid:
- '33831039'
file:
- access_level: open_access
checksum: 25b7b329435af57db2c95571a8ef32fe
content_type: application/pdf
creator: dernst
date_created: 2024-04-29T06:51:59Z
date_updated: 2024-04-29T06:51:59Z
file_id: '15349'
file_name: 2021_PlosOne_Overdijk.pdf
file_size: 4738995
relation: main_file
success: 1
file_date_updated: 2024-04-29T06:51:59Z
has_accepted_license: '1'
intvolume: ' 16'
issue: '4'
keyword:
- Multidisciplinary
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
publication: PLoS One
publication_identifier:
issn:
- 1932-6203
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
status: public
title: Phytophthora infestans RXLR effector AVR1 disturbs the growth of Physcomitrium
patens without affecting Sec5 localization
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: 16
year: '2021'
...
---
_id: '15267'
abstract:
- lang: eng
text: "We study two fundamental communication primitives: broadcasting and leader
election in the classical model of multi-hop radio networks with unknown topology
and without collision detection mechanisms. It has been known for almost 20 years
that in undirected networks with n nodes and diameter D, randomized broadcasting
requires Ω(D log n/D + log2 n) rounds, assuming that uninformed nodes are not
allowed to communicate (until they are informed). Only very recently, Haeupler
and Wajc (PODC'2016) showed that this bound can be improved for the model with
spontaneous transmissions, providing an O(D log n log log n/log D + logO(1) n)-time
broadcasting algorithm. In this article, we give a new and faster algorithm that
completes broadcasting in O(D log n/log D + logO(1) n) time, succeeding with high
probability. This yields the first optimal O(D)-time broadcasting algorithm whenever
n is polynomial in D.\r\n\r\nFurthermore, our approach can be applied to design
a new leader election algorithm that matches the performance of our broadcasting
algorithm. Previously, all fast randomized leader election algorithms have used
broadcasting as a subroutine and their complexity has been asymptotically strictly
larger than the complexity of broadcasting. In particular, the fastest previously
known randomized leader election algorithm of Ghaffari and Haeupler (SODA'2013)
requires O(D log n/D min {log log n, log n/D} + logO(1) n)-time, succeeding with
high probability. Our new algorithm again requires O(D log n/log D + logO(1) n)
time, also succeeding with high probability."
article_number: '13'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Artur
full_name: Czumaj, Artur
last_name: Czumaj
- first_name: Peter
full_name: Davies, Peter
id: 11396234-BB50-11E9-B24C-90FCE5697425
last_name: Davies
orcid: 0000-0002-5646-9524
citation:
ama: Czumaj A, Davies P. Exploiting spontaneous transmissions for broadcasting and
leader election in radio networks. Journal of the ACM. 2021;68(2). doi:10.1145/3446383
apa: Czumaj, A., & Davies, P. (2021). Exploiting spontaneous transmissions for
broadcasting and leader election in radio networks. Journal of the ACM.
Association for Computing Machinery. https://doi.org/10.1145/3446383
chicago: Czumaj, Artur, and Peter Davies. “Exploiting Spontaneous Transmissions
for Broadcasting and Leader Election in Radio Networks.” Journal of the ACM.
Association for Computing Machinery, 2021. https://doi.org/10.1145/3446383.
ieee: A. Czumaj and P. Davies, “Exploiting spontaneous transmissions for broadcasting
and leader election in radio networks,” Journal of the ACM, vol. 68, no.
2. Association for Computing Machinery, 2021.
ista: Czumaj A, Davies P. 2021. Exploiting spontaneous transmissions for broadcasting
and leader election in radio networks. Journal of the ACM. 68(2), 13.
mla: Czumaj, Artur, and Peter Davies. “Exploiting Spontaneous Transmissions for
Broadcasting and Leader Election in Radio Networks.” Journal of the ACM,
vol. 68, no. 2, 13, Association for Computing Machinery, 2021, doi:10.1145/3446383.
short: A. Czumaj, P. Davies, Journal of the ACM 68 (2021).
date_created: 2024-04-03T07:41:46Z
date_published: 2021-01-28T00:00:00Z
date_updated: 2024-04-29T06:47:59Z
day: '28'
department:
- _id: DaAl
doi: 10.1145/3446383
external_id:
arxiv:
- '1703.01859'
intvolume: ' 68'
issue: '2'
keyword:
- Artificial Intelligence
- Hardware and Architecture
- Information Systems
- Control and Systems Engineering
- Software
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1703.01859
month: '01'
oa: 1
oa_version: Preprint
publication: Journal of the ACM
publication_identifier:
eissn:
- 1557-735X
issn:
- 0004-5411
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
status: public
title: Exploiting spontaneous transmissions for broadcasting and leader election in
radio networks
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 68
year: '2021'
...
---
_id: '15269'
abstract:
- lang: eng
text: We study different aspects of quantum field theory at finite density using
methods from quantum information theory. For simplicity we focus on massive Dirac
fermions with nonzero chemical potential, and work in 1 + 1 space-time dimensions.
Using the entanglement entropy on an interval, we construct an entropic c-function
that is finite. Unlike what happens in Lorentz-invariant theories, this c-function
exhibits a strong violation of monotonicity; it also encodes the creation of long-range
entanglement from the Fermi surface. Motivated by previous works on lattice models,
we next calculate numerically the Renyi entropies and find Friedel-type oscillations;
these are understood in terms of a defect operator product expansion. Furthermore,
we consider the mutual information as a measure of correlation functions between
different regions. Using a long-distance expansion previously developed by Cardy,
we argue that the mutual information detects Fermi surface correlations already
at leading order in the expansion. We also analyze the relative entropy and its
Renyi generalizations in order to distinguish states with different charge and/or
mass. In particular, we show that states in different superselection sectors give
rise to a super-extensive behavior in the relative entropy. Finally, we discuss
possible extensions to interacting theories, and argue for the relevance of some
of these measures for probing non-Fermi liquids.
acknowledgement: "We thank H. Casini for many interesting discussions and comments
on the manuscript.\r\nLD is supported by CNEA and UNCuyo, Inst. Balseiro. RM is
supported by IST Austria.\r\nMS is supported by CONICET and UNCuyo, Inst. Balseiro.
GT is supported by CONICET\r\n(PIP grant 11220150100299), ANPCyT (PICT 2018-2517),
CNEA, and UNCuyo,\r\nInst. Balseiro."
article_number: '79'
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: Lucas
full_name: Daguerre, Lucas
last_name: Daguerre
- first_name: Raimel A
full_name: Medina Ramos, Raimel A
id: CE680B90-D85A-11E9-B684-C920E6697425
last_name: Medina Ramos
orcid: 0000-0002-5383-2869
- first_name: Mario
full_name: Solís, Mario
last_name: Solís
- first_name: Gonzalo
full_name: Torroba, Gonzalo
last_name: Torroba
citation:
ama: Daguerre L, Medina Ramos RA, Solís M, Torroba G. Aspects of quantum information
in finite density field theory. Journal of High Energy Physics. 2021;2021(3).
doi:10.1007/jhep03(2021)079
apa: Daguerre, L., Medina Ramos, R. A., Solís, M., & Torroba, G. (2021). Aspects
of quantum information in finite density field theory. Journal of High Energy
Physics. Springer Nature. https://doi.org/10.1007/jhep03(2021)079
chicago: Daguerre, Lucas, Raimel A Medina Ramos, Mario Solís, and Gonzalo Torroba.
“Aspects of Quantum Information in Finite Density Field Theory.” Journal of
High Energy Physics. Springer Nature, 2021. https://doi.org/10.1007/jhep03(2021)079.
ieee: L. Daguerre, R. A. Medina Ramos, M. Solís, and G. Torroba, “Aspects of quantum
information in finite density field theory,” Journal of High Energy Physics,
vol. 2021, no. 3. Springer Nature, 2021.
ista: Daguerre L, Medina Ramos RA, Solís M, Torroba G. 2021. Aspects of quantum
information in finite density field theory. Journal of High Energy Physics. 2021(3),
79.
mla: Daguerre, Lucas, et al. “Aspects of Quantum Information in Finite Density Field
Theory.” Journal of High Energy Physics, vol. 2021, no. 3, 79, Springer
Nature, 2021, doi:10.1007/jhep03(2021)079.
short: L. Daguerre, R.A. Medina Ramos, M. Solís, G. Torroba, Journal of High Energy
Physics 2021 (2021).
corr_author: '1'
date_created: 2024-04-03T07:51:06Z
date_published: 2021-03-08T00:00:00Z
date_updated: 2025-09-10T10:15:02Z
day: '08'
ddc:
- '530'
department:
- _id: MaSe
doi: 10.1007/jhep03(2021)079
external_id:
arxiv:
- '2011.01252'
isi:
- '000627376600004'
file:
- access_level: open_access
checksum: 4f540e63988ee87173e02f51a19a6672
content_type: application/pdf
creator: dernst
date_created: 2024-04-10T09:18:38Z
date_updated: 2024-04-10T09:18:38Z
file_id: '15310'
file_name: 2021_JourHighEnergyPhysics_Daguerre.pdf
file_size: 5389195
relation: main_file
success: 1
file_date_updated: 2024-04-10T09:18:38Z
has_accepted_license: '1'
intvolume: ' 2021'
isi: 1
issue: '3'
keyword:
- Nuclear and High Energy Physics
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
publication: Journal of High Energy Physics
publication_identifier:
issn:
- 1029-8479
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Aspects of quantum information in finite density field theory
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 2021
year: '2021'
...
---
_id: '15270'
abstract:
- lang: eng
text: Various toxic compounds disrupt bacterial physiology. While bacteria harbor
defense mechanisms to mitigate the toxicity, these mechanisms are often coupled
to the physiological state of the cells and become ineffective when the physiology
is severely disrupted.
article_number: '676'
article_processing_charge: Yes
article_type: original
author:
- first_name: Dai
full_name: Le, Dai
last_name: Le
- first_name: Ekaterina
full_name: Krasnopeeva, Ekaterina
id: 1F1EE44A-BF83-11EA-B3C1-BB9CC619BF3A
last_name: Krasnopeeva
- first_name: Faris
full_name: Sinjab, Faris
last_name: Sinjab
- first_name: Teuta
full_name: Pilizota, Teuta
last_name: Pilizota
- first_name: Minsu
full_name: Kim, Minsu
last_name: Kim
citation:
ama: Le D, Krasnopeeva E, Sinjab F, Pilizota T, Kim M. Active efflux leads to heterogeneous
dissipation of proton motive force by protonophores in bacteria. mBio.
2021;12(4). doi:10.1128/mbio.00676-21
apa: Le, D., Krasnopeeva, E., Sinjab, F., Pilizota, T., & Kim, M. (2021). Active
efflux leads to heterogeneous dissipation of proton motive force by protonophores
in bacteria. MBio. American Society for Microbiology. https://doi.org/10.1128/mbio.00676-21
chicago: Le, Dai, Ekaterina Krasnopeeva, Faris Sinjab, Teuta Pilizota, and Minsu
Kim. “Active Efflux Leads to Heterogeneous Dissipation of Proton Motive Force
by Protonophores in Bacteria.” MBio. American Society for Microbiology,
2021. https://doi.org/10.1128/mbio.00676-21.
ieee: D. Le, E. Krasnopeeva, F. Sinjab, T. Pilizota, and M. Kim, “Active efflux
leads to heterogeneous dissipation of proton motive force by protonophores in
bacteria,” mBio, vol. 12, no. 4. American Society for Microbiology, 2021.
ista: Le D, Krasnopeeva E, Sinjab F, Pilizota T, Kim M. 2021. Active efflux leads
to heterogeneous dissipation of proton motive force by protonophores in bacteria.
mBio. 12(4), 676.
mla: Le, Dai, et al. “Active Efflux Leads to Heterogeneous Dissipation of Proton
Motive Force by Protonophores in Bacteria.” MBio, vol. 12, no. 4, 676,
American Society for Microbiology, 2021, doi:10.1128/mbio.00676-21.
short: D. Le, E. Krasnopeeva, F. Sinjab, T. Pilizota, M. Kim, MBio 12 (2021).
date_created: 2024-04-03T07:51:57Z
date_published: 2021-08-31T00:00:00Z
date_updated: 2024-04-10T09:13:59Z
day: '31'
ddc:
- '570'
department:
- _id: CaGu
doi: 10.1128/mbio.00676-21
external_id:
pmid:
- '34253054'
file:
- access_level: open_access
checksum: 529e3f97ae5c5f5cc743c4fc130c9440
content_type: application/pdf
creator: dernst
date_created: 2024-04-10T09:05:49Z
date_updated: 2024-04-10T09:05:49Z
file_id: '15309'
file_name: 2021_mBio_Le.pdf
file_size: 1344204
relation: main_file
success: 1
file_date_updated: 2024-04-10T09:05:49Z
has_accepted_license: '1'
intvolume: ' 12'
issue: '4'
keyword:
- Virology
- Microbiology
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
pmid: 1
publication: mBio
publication_identifier:
issn:
- 2150-7511
publication_status: published
publisher: American Society for Microbiology
quality_controlled: '1'
status: public
title: Active efflux leads to heterogeneous dissipation of proton motive force by
protonophores in bacteria
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: 12
year: '2021'
...
---
_id: '15271'
abstract:
- lang: eng
text: 'We settle the complexity of the (∆ + 1)-coloring and (∆ + 1)-list coloring
problems intheCONGESTED CLIQUEmodel by presenting a simpledeterministicalgorithm
for both problemsrunning in a constant number of rounds. This matches the complexity
of the recent breakthroughrandomizedconstant-round (∆ + 1)-list coloring algorithm
due to Chang et al. [Proceedings of the38th ACM Symposium on Principles of Distributed Computing, 2019] and significantly improvesupon
the state-of-the-artO(log ∆)-round deterministic (∆ + 1)-coloring bound of Parter
[Proceed-ings of the 45th Annual International Colloquium on Automata, Languages
and Programming]. Aremarkable property of our algorithm is its simplicity. Whereas
the state-of-the-artrandomizedal-gorithms for this problem are based on the quite
involved local coloring algorithm of Chang, Li, andPettie [Proceedings of the
50th Annual ACM SIGACT Symposium on Theory of Computing, 2018],our algorithm can
be described in just a few lines. At a high level, it applies a careful derandomiza-tion
of a recursive procedure which partitions the nodes and their respective palettes
into separatebins. We show that afterO(1) recursion steps, the remaining uncolored
subgraph within each bin haslinear size and thus can be solved locally by collecting
it to a single node. This algorithm can alsobe implemented in the massively parallel
computation (MPC) model provided that each machine haslinear (inn, the number
of nodes in the input graph) space. We also show an extension of our algo-rithm
to theMPCregime, in which machines havesublinearspace: we present the first deterministic(∆
+ 1)-list coloring algorithm designed for sublinear-spaceMPC, which runs inO(log
∆ + log logn)rounds.'
acknowledgement: The first author was partially supported by the Centre for Discrete Mathematics
and its Applications, by the IBM Faculty Award, and by the EPSRC award EP/N011163/1. The
second author was partially supported by the European Union’s Horizon 2020 research
and innovation program under the Marie Sklodowska-Curie grant agreement 754411. The
first and third authors were partially supported by a Weizmann-UK Making Connections
grant.
article_processing_charge: No
article_type: original
author:
- first_name: Artur
full_name: Czumaj, Artur
last_name: Czumaj
- first_name: Peter
full_name: Davies, Peter
id: 11396234-BB50-11E9-B24C-90FCE5697425
last_name: Davies
orcid: 0000-0002-5646-9524
- first_name: Merav
full_name: Parter, Merav
last_name: Parter
citation:
ama: Czumaj A, Davies P, Parter M. Simple, deterministic, constant-round coloring
in congested clique and MPC. SIAM Journal on Computing. 2021;50(5):1603-1626.
doi:10.1137/20m1366502
apa: Czumaj, A., Davies, P., & Parter, M. (2021). Simple, deterministic, constant-round
coloring in congested clique and MPC. SIAM Journal on Computing. Society
for Industrial and Applied Mathematics. https://doi.org/10.1137/20m1366502
chicago: Czumaj, Artur, Peter Davies, and Merav Parter. “Simple, Deterministic,
Constant-Round Coloring in Congested Clique and MPC.” SIAM Journal on Computing.
Society for Industrial and Applied Mathematics, 2021. https://doi.org/10.1137/20m1366502.
ieee: A. Czumaj, P. Davies, and M. Parter, “Simple, deterministic, constant-round
coloring in congested clique and MPC,” SIAM Journal on Computing, vol.
50, no. 5. Society for Industrial and Applied Mathematics, pp. 1603–1626, 2021.
ista: Czumaj A, Davies P, Parter M. 2021. Simple, deterministic, constant-round
coloring in congested clique and MPC. SIAM Journal on Computing. 50(5), 1603–1626.
mla: Czumaj, Artur, et al. “Simple, Deterministic, Constant-Round Coloring in Congested
Clique and MPC.” SIAM Journal on Computing, vol. 50, no. 5, Society for
Industrial and Applied Mathematics, 2021, pp. 1603–26, doi:10.1137/20m1366502.
short: A. Czumaj, P. Davies, M. Parter, SIAM Journal on Computing 50 (2021) 1603–1626.
date_created: 2024-04-03T07:53:22Z
date_published: 2021-01-01T00:00:00Z
date_updated: 2025-09-10T10:14:11Z
day: '01'
department:
- _id: DaAl
doi: 10.1137/20m1366502
ec_funded: 1
external_id:
isi:
- '000713008600004'
intvolume: ' 50'
isi: 1
issue: '5'
keyword:
- General Mathematics
- General Computer Science
language:
- iso: eng
month: '01'
oa_version: None
page: 1603-1626
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: SIAM Journal on Computing
publication_identifier:
eissn:
- 1095-7111
issn:
- 0097-5397
publication_status: published
publisher: Society for Industrial and Applied Mathematics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Simple, deterministic, constant-round coloring in congested clique and MPC
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 50
year: '2021'
...
---
_id: '15272'
abstract:
- lang: eng
text: The assembly of neuronal circuits involves the migrations of neurons from
their place of birth to their final location in the nervous system, as well as
the coordinated growth and patterning of axons and dendrites. In screens for genes
required for patterning of the nervous system, we identified the catp-8/P5A-ATPase
as an important regulator of neural patterning. P5A-ATPases are part of the P-type
ATPases, a family of proteins known to serve a conserved function as transporters
of ions, lipids and polyamines in unicellular eukaryotes, plants, and humans.
While the function of many P-type ATPases is relatively well understood, the function
of P5A-ATPases in metazoans remained elusive. We show here, that the Caenorhabditis
elegans ortholog catp-8/P5A-ATPase is
required for defined aspects of nervous system development. Specifically, the
catp-8/P5A-ATPase serves functions in shaping the elaborately
sculpted dendritic trees of somatosensory PVD neurons. Moreover, catp-8/P5A-ATPase
is required for axonal guidance and repulsion at the midline, as well as embryonic
and postembryonic neuronal migrations. Interestingly, not all axons at the midline
require catp-8/P5A-ATPase, although the axons run in
the same fascicles and navigate the same space. Similarly, not all neuronal migrations
require catp-8/P5A-ATPase. A CATP-8/P5A-ATPase reporter
is localized to the ER in most, if not all, tissues and catp-8/P5A-ATPase
can function both cell-autonomously and non-autonomously to regulate neuronal
development. Genetic analyses establish that catp-8/P5A-ATPase
can function in multiple pathways, including the Menorin pathway, previously shown
to control dendritic patterning in PVD, and Wnt signaling, which functions to
control neuronal migrations. Lastly, we show that catp-8/P5A-ATPase
is required for localizing select transmembrane proteins necessary for dendrite
morphogenesis. Collectively, our studies suggest that catp-8/P5A-ATPase
serves diverse, yet specific, roles in different genetic pathways and may be involved
in the regulation or localization of transmembrane and secreted proteins to specific
subcellular compartments.
article_number: e1009475
article_processing_charge: No
article_type: original
author:
- first_name: Leo T. H.
full_name: Tang, Leo T. H.
last_name: Tang
- first_name: Meera
full_name: Trivedi, Meera
last_name: Trivedi
- first_name: Jenna
full_name: Freund, Jenna
last_name: Freund
- first_name: Christopher J.
full_name: Salazar, Christopher J.
last_name: Salazar
- first_name: Maisha
full_name: Rahman, Maisha
last_name: Rahman
- first_name: Nelson
full_name: Ramirez, Nelson
id: 39831956-E4FE-11E9-85DE-0DC7E5697425
last_name: Ramirez
- first_name: Garrett
full_name: Lee, Garrett
last_name: Lee
- first_name: Yu
full_name: Wang, Yu
last_name: Wang
- first_name: Barth D.
full_name: Grant, Barth D.
last_name: Grant
- first_name: Hannes E.
full_name: Bülow, Hannes E.
last_name: Bülow
citation:
ama: Tang LTH, Trivedi M, Freund J, et al. The CATP-8/P5A-type ATPase functions
in multiple pathways during neuronal patterning. PLOS Genetics. 2021;17(7).
doi:10.1371/journal.pgen.1009475
apa: Tang, L. T. H., Trivedi, M., Freund, J., Salazar, C. J., Rahman, M., Ramirez,
N., … Bülow, H. E. (2021). The CATP-8/P5A-type ATPase functions in multiple pathways
during neuronal patterning. PLOS Genetics. Public Library of Science. https://doi.org/10.1371/journal.pgen.1009475
chicago: Tang, Leo T. H., Meera Trivedi, Jenna Freund, Christopher J. Salazar, Maisha
Rahman, Nelson Ramirez, Garrett Lee, Yu Wang, Barth D. Grant, and Hannes E. Bülow.
“The CATP-8/P5A-Type ATPase Functions in Multiple Pathways during Neuronal Patterning.”
PLOS Genetics. Public Library of Science, 2021. https://doi.org/10.1371/journal.pgen.1009475.
ieee: L. T. H. Tang et al., “The CATP-8/P5A-type ATPase functions in multiple
pathways during neuronal patterning,” PLOS Genetics, vol. 17, no. 7. Public
Library of Science, 2021.
ista: Tang LTH, Trivedi M, Freund J, Salazar CJ, Rahman M, Ramirez N, Lee G, Wang
Y, Grant BD, Bülow HE. 2021. The CATP-8/P5A-type ATPase functions in multiple
pathways during neuronal patterning. PLOS Genetics. 17(7), e1009475.
mla: Tang, Leo T. H., et al. “The CATP-8/P5A-Type ATPase Functions in Multiple Pathways
during Neuronal Patterning.” PLOS Genetics, vol. 17, no. 7, e1009475, Public
Library of Science, 2021, doi:10.1371/journal.pgen.1009475.
short: L.T.H. Tang, M. Trivedi, J. Freund, C.J. Salazar, M. Rahman, N. Ramirez,
G. Lee, Y. Wang, B.D. Grant, H.E. Bülow, PLOS Genetics 17 (2021).
date_created: 2024-04-03T07:57:12Z
date_published: 2021-07-01T00:00:00Z
date_updated: 2024-04-10T08:57:16Z
day: '01'
ddc:
- '570'
department:
- _id: MaDe
doi: 10.1371/journal.pgen.1009475
external_id:
pmid:
- '34197450'
file:
- access_level: open_access
checksum: 7352b195e4db6d404f702fe6ad8b55ad
content_type: application/pdf
creator: dernst
date_created: 2024-04-10T08:53:43Z
date_updated: 2024-04-10T08:53:43Z
file_id: '15308'
file_name: 2021_PlosGenetics_Tang.pdf
file_size: 4224934
relation: main_file
success: 1
file_date_updated: 2024-04-10T08:53:43Z
has_accepted_license: '1'
intvolume: ' 17'
issue: '7'
keyword:
- Cancer Research
- Genetics (clinical)
- Genetics
- Molecular Biology
- Ecology
- Evolution
- Behavior and Systematics
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
publication: PLOS Genetics
publication_identifier:
issn:
- 1553-7404
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
status: public
title: The CATP-8/P5A-type ATPase functions in multiple pathways during neuronal patterning
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: 17
year: '2021'
...
---
_id: '15273'
abstract:
- lang: eng
text: Synapses of glutamatergic mossy fibers (MFs) onto cerebellar unipolar brush
cells (UBCs) generate slow excitatory (ON) or inhibitory (OFF) postsynaptic responses
dependent on the complement of glutamate receptors expressed on the UBC’s large
dendritic brush. Using mouse brain slice recording and computational modeling
of synaptic transmission, we found that substantial glutamate is maintained in
the UBC synaptic cleft, sufficient to modify spontaneous firing in OFF UBCs and
tonically desensitize AMPARs of ON UBCs. The source of this ambient glutamate
was spontaneous, spike-independent exocytosis from the MF terminal, and its level
was dependent on activity of glutamate transporters EAAT1–2. Increasing levels
of ambient glutamate shifted the polarity of evoked synaptic responses in ON UBCs
and altered the phase of responses to in vivo-like synaptic activity. Unlike classical
fast synapses, receptors at the UBC synapse are virtually always exposed to a
significant level of glutamate, which varies in a graded manner during transmission.
article_number: e63819
article_processing_charge: Yes
article_type: original
author:
- first_name: Timothy S
full_name: Balmer, Timothy S
last_name: Balmer
- first_name: Carolina
full_name: Borges Merjane, Carolina
id: 4305C450-F248-11E8-B48F-1D18A9856A87
last_name: Borges Merjane
orcid: 0000-0003-0005-401X
- first_name: Laurence O
full_name: Trussell, Laurence O
last_name: Trussell
citation:
ama: Balmer TS, Borges Merjane C, Trussell LO. Incomplete removal of extracellular
glutamate controls synaptic transmission and integration at a cerebellar synapse.
eLife. 2021;10. doi:10.7554/elife.63819
apa: Balmer, T. S., Borges Merjane, C., & Trussell, L. O. (2021). Incomplete
removal of extracellular glutamate controls synaptic transmission and integration
at a cerebellar synapse. ELife. eLife Sciences Publications. https://doi.org/10.7554/elife.63819
chicago: Balmer, Timothy S, Carolina Borges Merjane, and Laurence O Trussell. “Incomplete
Removal of Extracellular Glutamate Controls Synaptic Transmission and Integration
at a Cerebellar Synapse.” ELife. eLife Sciences Publications, 2021. https://doi.org/10.7554/elife.63819.
ieee: T. S. Balmer, C. Borges Merjane, and L. O. Trussell, “Incomplete removal of
extracellular glutamate controls synaptic transmission and integration at a cerebellar
synapse,” eLife, vol. 10. eLife Sciences Publications, 2021.
ista: Balmer TS, Borges Merjane C, Trussell LO. 2021. Incomplete removal of extracellular
glutamate controls synaptic transmission and integration at a cerebellar synapse.
eLife. 10, e63819.
mla: Balmer, Timothy S., et al. “Incomplete Removal of Extracellular Glutamate Controls
Synaptic Transmission and Integration at a Cerebellar Synapse.” ELife,
vol. 10, e63819, eLife Sciences Publications, 2021, doi:10.7554/elife.63819.
short: T.S. Balmer, C. Borges Merjane, L.O. Trussell, ELife 10 (2021).
date_created: 2024-04-03T07:58:11Z
date_published: 2021-02-22T00:00:00Z
date_updated: 2024-04-09T11:15:01Z
day: '22'
ddc:
- '570'
department:
- _id: PeJo
doi: 10.7554/elife.63819
external_id:
pmid:
- '33616036'
file:
- access_level: open_access
checksum: bbd4de2e54b7fbc11fba14f59e87fe3f
content_type: application/pdf
creator: dernst
date_created: 2024-04-09T11:13:07Z
date_updated: 2024-04-09T11:13:07Z
file_id: '15307'
file_name: 2021_eLife_Balmer.pdf
file_size: 6997954
relation: main_file
success: 1
file_date_updated: 2024-04-09T11:13:07Z
has_accepted_license: '1'
intvolume: ' 10'
keyword:
- General Immunology and Microbiology
- General Biochemistry
- Genetics and Molecular Biology
- General Medicine
- General Neuroscience
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
publication: eLife
publication_identifier:
issn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
status: public
title: Incomplete removal of extracellular glutamate controls synaptic transmission
and integration at a cerebellar synapse
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 10
year: '2021'
...
---
_id: '15274'
abstract:
- lang: eng
text: Copper (Cu) is a redox-active micronutrient that is both essential and toxic.
Its cellular homeostasis is critical for supporting cuproprotein maturation while
avoiding excessive oxidative stress. The Cu importer CcoA is the prototype of
the widespread CalT subfamily of the MFS-type transporters. Hence, understanding
its molecular mechanism of function is significant. Here, we show that CcoA undergoes
a thiol:disulfide oxidoreduction cycle, which is important for its Cu import activity.
article_number: e01567
article_processing_charge: No
article_type: original
author:
- first_name: Bahia
full_name: Khalfaoui-Hassani, Bahia
last_name: Khalfaoui-Hassani
- first_name: Petru Iulian
full_name: Trasnea, Petru Iulian
id: D560034C-10C4-11EA-ABF4-A4B43DDC885E
last_name: Trasnea
- first_name: Stefan
full_name: Steimle, Stefan
last_name: Steimle
- first_name: Hans-Georg
full_name: Koch, Hans-Georg
last_name: Koch
- first_name: Fevzi
full_name: Daldal, Fevzi
last_name: Daldal
citation:
ama: Khalfaoui-Hassani B, Trasnea PI, Steimle S, Koch H-G, Daldal F. Cysteine mutants
of the major facilitator superfamily-type transporter CcoA provide insight into
copper import. mBio. 2021;12(4). doi:10.1128/mbio.01567-21
apa: Khalfaoui-Hassani, B., Trasnea, P. I., Steimle, S., Koch, H.-G., & Daldal,
F. (2021). Cysteine mutants of the major facilitator superfamily-type transporter
CcoA provide insight into copper import. MBio. American Society for Microbiology.
https://doi.org/10.1128/mbio.01567-21
chicago: Khalfaoui-Hassani, Bahia, Petru Iulian Trasnea, Stefan Steimle, Hans-Georg
Koch, and Fevzi Daldal. “Cysteine Mutants of the Major Facilitator Superfamily-Type
Transporter CcoA Provide Insight into Copper Import.” MBio. American Society
for Microbiology, 2021. https://doi.org/10.1128/mbio.01567-21.
ieee: B. Khalfaoui-Hassani, P. I. Trasnea, S. Steimle, H.-G. Koch, and F. Daldal,
“Cysteine mutants of the major facilitator superfamily-type transporter CcoA provide
insight into copper import,” mBio, vol. 12, no. 4. American Society for
Microbiology, 2021.
ista: Khalfaoui-Hassani B, Trasnea PI, Steimle S, Koch H-G, Daldal F. 2021. Cysteine
mutants of the major facilitator superfamily-type transporter CcoA provide insight
into copper import. mBio. 12(4), e01567.
mla: Khalfaoui-Hassani, Bahia, et al. “Cysteine Mutants of the Major Facilitator
Superfamily-Type Transporter CcoA Provide Insight into Copper Import.” MBio,
vol. 12, no. 4, e01567, American Society for Microbiology, 2021, doi:10.1128/mbio.01567-21.
short: B. Khalfaoui-Hassani, P.I. Trasnea, S. Steimle, H.-G. Koch, F. Daldal, MBio
12 (2021).
date_created: 2024-04-03T07:59:04Z
date_published: 2021-08-31T00:00:00Z
date_updated: 2024-04-09T10:47:16Z
day: '31'
ddc:
- '570'
department:
- _id: LeSa
doi: 10.1128/mbio.01567-21
external_id:
pmid:
- '34281385'
file:
- access_level: open_access
checksum: 2f6a57637cb3162eaeeb155a5b031e76
content_type: application/pdf
creator: dernst
date_created: 2024-04-09T10:45:11Z
date_updated: 2024-04-09T10:45:11Z
file_id: '15306'
file_name: 2021_mBio_KhalfaouiHassani.pdf
file_size: 3383398
relation: main_file
success: 1
file_date_updated: 2024-04-09T10:45:11Z
has_accepted_license: '1'
intvolume: ' 12'
issue: '4'
keyword:
- Virology
- Microbiology
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
pmid: 1
publication: mBio
publication_identifier:
issn:
- 2150-7511
publication_status: published
publisher: American Society for Microbiology
quality_controlled: '1'
status: public
title: Cysteine mutants of the major facilitator superfamily-type transporter CcoA
provide insight into copper import
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: 12
year: '2021'
...
---
_id: '15275'
abstract:
- lang: eng
text: In 1916, Schur introduced the Ramsey number r(3; m), which is the minimum
integer n > 1 such that for any m-coloring of the edges of the complete graph
Kn, there is a monochromatic copy of K3. He showed that r(3; m) ≤ O(m!), and a
simple construction demonstrates that r(3; m) ≥ 2Ω(m). An old conjecture of Erdős
states that r(3; m) = 2Θ(m). In this note, we prove the conjecture for m-colorings
with bounded VC-dimension, that is, for m-colorings with the property that the
set system induced by the neighborhoods of the vertices with respect to each color
class has bounded VC-dimension.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Jacob
full_name: Fox, Jacob
last_name: Fox
- first_name: János
full_name: Pach, János
id: E62E3130-B088-11EA-B919-BF823C25FEA4
last_name: Pach
- first_name: Andrew
full_name: Suk, Andrew
last_name: Suk
citation:
ama: Fox J, Pach J, Suk A. Bounded VC-dimension implies the Schur-Erdős conjecture.
Combinatorica. 2021;41(6):803-813. doi:10.1007/s00493-021-4530-9
apa: Fox, J., Pach, J., & Suk, A. (2021). Bounded VC-dimension implies the Schur-Erdős
conjecture. Combinatorica. Springer Nature. https://doi.org/10.1007/s00493-021-4530-9
chicago: Fox, Jacob, János Pach, and Andrew Suk. “Bounded VC-Dimension Implies the
Schur-Erdős Conjecture.” Combinatorica. Springer Nature, 2021. https://doi.org/10.1007/s00493-021-4530-9.
ieee: J. Fox, J. Pach, and A. Suk, “Bounded VC-dimension implies the Schur-Erdős
conjecture,” Combinatorica, vol. 41, no. 6. Springer Nature, pp. 803–813,
2021.
ista: Fox J, Pach J, Suk A. 2021. Bounded VC-dimension implies the Schur-Erdős conjecture.
Combinatorica. 41(6), 803–813.
mla: Fox, Jacob, et al. “Bounded VC-Dimension Implies the Schur-Erdős Conjecture.”
Combinatorica, vol. 41, no. 6, Springer Nature, 2021, pp. 803–13, doi:10.1007/s00493-021-4530-9.
short: J. Fox, J. Pach, A. Suk, Combinatorica 41 (2021) 803–813.
date_created: 2024-04-03T07:59:57Z
date_published: 2021-11-20T00:00:00Z
date_updated: 2024-04-09T10:40:08Z
day: '20'
department:
- _id: HeEd
doi: 10.1007/s00493-021-4530-9
external_id:
arxiv:
- '1912.02342'
intvolume: ' 41'
issue: '6'
keyword:
- Computational Mathematics
- Discrete Mathematics and Combinatorics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1912.02342
month: '11'
oa: 1
oa_version: Preprint
page: 803-813
publication: Combinatorica
publication_identifier:
eissn:
- 1439-6912
issn:
- 0209-9683
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Bounded VC-dimension implies the Schur-Erdős conjecture
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 41
year: '2021'
...
---
_id: '15276'
abstract:
- lang: eng
text: Biotrophic plant pathogens secrete effector proteins to manipulate the host
physiology. Effectors suppress defenses and induce an environment favorable to
disease development. Sequence-based prediction of effector function is impeded
by their rapid evolution rate. In the maize pathogen Ustilago maydis,
effector-coding genes frequently organize in clusters. Here we describe the functional
characterization of the pleiades, a cluster of ten
effector genes, by analyzing the micro- and macroscopic phenotype of the cluster
deletion and expressing these proteins in planta. Deletion
of the pleiades leads to strongly impaired virulence
and accumulation of reactive oxygen species (ROS) in infected tissue. Eight of
the Pleiades suppress the production of ROS upon perception of pathogen associated
molecular patterns (PAMPs). Although functionally redundant, the Pleiades target
different host components. The paralogs Taygeta1 and Merope1 suppress ROS production
in either the cytoplasm or nucleus, respectively. Merope1 targets and promotes
the auto-ubiquitination activity of RFI2, a conserved family of E3 ligases that
regulates the production of PAMP-triggered ROS burst in plants.
article_number: e1009641
article_processing_charge: Yes
article_type: original
author:
- first_name: Fernando
full_name: Navarrete, Fernando
last_name: Navarrete
- first_name: Nenad
full_name: Grujic, Nenad
last_name: Grujic
- first_name: Alexandra
full_name: Stirnberg, Alexandra
last_name: Stirnberg
- first_name: Indira
full_name: Saado, Indira
last_name: Saado
- first_name: David
full_name: Aleksza, David
last_name: Aleksza
- first_name: Michelle C
full_name: Gallei, Michelle C
id: 35A03822-F248-11E8-B48F-1D18A9856A87
last_name: Gallei
orcid: 0000-0003-1286-7368
- first_name: Hazem
full_name: Adi, Hazem
last_name: Adi
- first_name: André
full_name: Alcântara, André
last_name: Alcântara
- first_name: Mamoona
full_name: Khan, Mamoona
last_name: Khan
- first_name: Janos
full_name: Bindics, Janos
last_name: Bindics
- first_name: Marco
full_name: Trujillo, Marco
last_name: Trujillo
- first_name: Armin
full_name: Djamei, Armin
last_name: Djamei
citation:
ama: Navarrete F, Grujic N, Stirnberg A, et al. The Pleiades are a cluster of fungal
effectors that inhibit host defenses. PLOS Pathogens. 2021;17(6). doi:10.1371/journal.ppat.1009641
apa: Navarrete, F., Grujic, N., Stirnberg, A., Saado, I., Aleksza, D., Gallei, M.
C., … Djamei, A. (2021). The Pleiades are a cluster of fungal effectors that inhibit
host defenses. PLOS Pathogens. Public Library of Science. https://doi.org/10.1371/journal.ppat.1009641
chicago: Navarrete, Fernando, Nenad Grujic, Alexandra Stirnberg, Indira Saado, David
Aleksza, Michelle C Gallei, Hazem Adi, et al. “The Pleiades Are a Cluster of Fungal
Effectors That Inhibit Host Defenses.” PLOS Pathogens. Public Library of
Science, 2021. https://doi.org/10.1371/journal.ppat.1009641.
ieee: F. Navarrete et al., “The Pleiades are a cluster of fungal effectors
that inhibit host defenses,” PLOS Pathogens, vol. 17, no. 6. Public Library
of Science, 2021.
ista: Navarrete F, Grujic N, Stirnberg A, Saado I, Aleksza D, Gallei MC, Adi H,
Alcântara A, Khan M, Bindics J, Trujillo M, Djamei A. 2021. The Pleiades are a
cluster of fungal effectors that inhibit host defenses. PLOS Pathogens. 17(6),
e1009641.
mla: Navarrete, Fernando, et al. “The Pleiades Are a Cluster of Fungal Effectors
That Inhibit Host Defenses.” PLOS Pathogens, vol. 17, no. 6, e1009641,
Public Library of Science, 2021, doi:10.1371/journal.ppat.1009641.
short: F. Navarrete, N. Grujic, A. Stirnberg, I. Saado, D. Aleksza, M.C. Gallei,
H. Adi, A. Alcântara, M. Khan, J. Bindics, M. Trujillo, A. Djamei, PLOS Pathogens
17 (2021).
date_created: 2024-04-03T08:00:34Z
date_published: 2021-06-24T00:00:00Z
date_updated: 2024-04-09T10:26:12Z
day: '24'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1371/journal.ppat.1009641
external_id:
pmid:
- '34166468'
file:
- access_level: open_access
checksum: ab8428291a0c14607c4ea5656c029cff
content_type: application/pdf
creator: dernst
date_created: 2024-04-09T10:24:43Z
date_updated: 2024-04-09T10:24:43Z
file_id: '15305'
file_name: 2021_PlosPathogens_Navarrete.pdf
file_size: 2616563
relation: main_file
success: 1
file_date_updated: 2024-04-09T10:24:43Z
has_accepted_license: '1'
intvolume: ' 17'
issue: '6'
keyword:
- Virology
- Genetics
- Molecular Biology
- Immunology
- Microbiology
- Parasitology
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
pmid: 1
publication: PLOS Pathogens
publication_identifier:
issn:
- 1553-7374
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
status: public
title: The Pleiades are a cluster of fungal effectors that inhibit host defenses
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: 17
year: '2021'
...
---
_id: '15277'
abstract:
- lang: eng
text: Alternative splicing generates multiple transcript and protein isoforms from
a single gene and controls transcript intracellular localization and stability
by coupling to mRNA export and nonsense-mediated mRNA decay (NMD). RNA interference
(RNAi) is a potent mechanism to modulate gene expression. However, its interactions
with alternative splicing are poorly understood. We used artificial microRNAs
(amiRNAs, also termed shRNAmiR) to knockdown all splice variants of selected target
genes in Arabidopsis thaliana. We found that splice variants, which vary by their
protein-coding capacity, subcellular localization and sensitivity to NMD, are
affected differentially by an amiRNA, although all of them contain the target
site. Particular transcript isoforms escape amiRNA-mediated degradation due to
their nuclear localization. The nuclear and NMD-sensitive isoforms mask RNAi action
in alternatively spliced genes. Interestingly, Arabidopsis SPL genes, which undergo
alternative splicing and are targets of miR156, are regulated in the same manner.
Moreover, similar results were obtained in mammalian cells using siRNAs, indicating
cross-kingdom conservation of these interactions among RNAi and splicing isoforms.
Furthermore, we report that amiRNA can trigger artificial alternative splicing,
thus expanding the RNAi functional repertoire. Our findings unveil novel interactions
between different post-transcriptional processes in defining transcript fates
and regulating gene expression.
article_processing_charge: No
article_type: original
author:
- first_name: Armin
full_name: Fuchs, Armin
last_name: Fuchs
- first_name: Stefan
full_name: Riegler, Stefan
last_name: Riegler
- first_name: Zahra
full_name: Ayatollahi, Zahra
last_name: Ayatollahi
- first_name: Nicola
full_name: Cavallari, Nicola
id: 457160E6-F248-11E8-B48F-1D18A9856A87
last_name: Cavallari
- first_name: Luciana E
full_name: Giono, Luciana E
last_name: Giono
- first_name: Barbara A
full_name: Nimeth, Barbara A
last_name: Nimeth
- first_name: Krishna V
full_name: Mutanwad, Krishna V
last_name: Mutanwad
- first_name: Alois
full_name: Schweighofer, Alois
last_name: Schweighofer
- first_name: Doris
full_name: Lucyshyn, Doris
last_name: Lucyshyn
- first_name: Andrea
full_name: Barta, Andrea
last_name: Barta
- first_name: Ezequiel
full_name: Petrillo, Ezequiel
last_name: Petrillo
- first_name: Maria
full_name: Kalyna, Maria
last_name: Kalyna
citation:
ama: 'Fuchs A, Riegler S, Ayatollahi Z, et al. Targeting alternative splicing by
RNAi: From the differential impact on splice variants to triggering artificial
pre-mRNA splicing. Nucleic Acids Research. 2021;49(2):1133-1151. doi:10.1093/nar/gkaa1260'
apa: 'Fuchs, A., Riegler, S., Ayatollahi, Z., Cavallari, N., Giono, L. E., Nimeth,
B. A., … Kalyna, M. (2021). Targeting alternative splicing by RNAi: From the differential
impact on splice variants to triggering artificial pre-mRNA splicing. Nucleic
Acids Research. Oxford University Press. https://doi.org/10.1093/nar/gkaa1260'
chicago: 'Fuchs, Armin, Stefan Riegler, Zahra Ayatollahi, Nicola Cavallari, Luciana
E Giono, Barbara A Nimeth, Krishna V Mutanwad, et al. “Targeting Alternative Splicing
by RNAi: From the Differential Impact on Splice Variants to Triggering Artificial
Pre-MRNA Splicing.” Nucleic Acids Research. Oxford University Press, 2021.
https://doi.org/10.1093/nar/gkaa1260.'
ieee: 'A. Fuchs et al., “Targeting alternative splicing by RNAi: From the
differential impact on splice variants to triggering artificial pre-mRNA splicing,”
Nucleic Acids Research, vol. 49, no. 2. Oxford University Press, pp. 1133–1151,
2021.'
ista: 'Fuchs A, Riegler S, Ayatollahi Z, Cavallari N, Giono LE, Nimeth BA, Mutanwad
KV, Schweighofer A, Lucyshyn D, Barta A, Petrillo E, Kalyna M. 2021. Targeting
alternative splicing by RNAi: From the differential impact on splice variants
to triggering artificial pre-mRNA splicing. Nucleic Acids Research. 49(2), 1133–1151.'
mla: 'Fuchs, Armin, et al. “Targeting Alternative Splicing by RNAi: From the Differential
Impact on Splice Variants to Triggering Artificial Pre-MRNA Splicing.” Nucleic
Acids Research, vol. 49, no. 2, Oxford University Press, 2021, pp. 1133–51,
doi:10.1093/nar/gkaa1260.'
short: A. Fuchs, S. Riegler, Z. Ayatollahi, N. Cavallari, L.E. Giono, B.A. Nimeth,
K.V. Mutanwad, A. Schweighofer, D. Lucyshyn, A. Barta, E. Petrillo, M. Kalyna,
Nucleic Acids Research 49 (2021) 1133–1151.
date_created: 2024-04-03T08:02:09Z
date_published: 2021-01-25T00:00:00Z
date_updated: 2024-04-09T10:16:40Z
day: '25'
ddc:
- '570'
department:
- _id: EvBe
doi: 10.1093/nar/gkaa1260
external_id:
pmid:
- '33406240'
file:
- access_level: open_access
checksum: d3c90660759a5d34ad43ba1def130462
content_type: application/pdf
creator: dernst
date_created: 2024-04-09T10:14:39Z
date_updated: 2024-04-09T10:14:39Z
file_id: '15304'
file_name: 2021_NucleicAcidsRes_Fuchs.pdf
file_size: 6539791
relation: main_file
success: 1
file_date_updated: 2024-04-09T10:14:39Z
has_accepted_license: '1'
intvolume: ' 49'
issue: '2'
keyword:
- Genetics
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 1133-1151
pmid: 1
publication: Nucleic Acids Research
publication_identifier:
eissn:
- 1362-4962
issn:
- 0305-1048
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
status: public
title: 'Targeting alternative splicing by RNAi: From the differential impact on splice
variants to triggering artificial pre-mRNA splicing'
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: 49
year: '2021'
...
---
_id: '15278'
abstract:
- lang: eng
text: ‘Dysbiosis’ of the adult gut microbiota, in response to challenges such as
infection, altered diet, stress, and antibiotics treatment has been recently linked
to pathological alteration of brain function and behavior. Moreover, gut microbiota
composition constantly controls microglia maturation, as revealed by morphological
observations and gene expression analysis. However, it is unclear whether microglia
functional properties and crosstalk with neurons, known to shape and modulate
synaptic development and function, are influenced by the gut microbiota. Here,
we investigated how antibiotic-mediated alteration of the gut microbiota influences
microglial and neuronal functions in adult mice hippocampus. Hippocampal microglia
from adult mice treated with oral antibiotics exhibited increased microglia density,
altered basal patrolling activity, and impaired process rearrangement in response
to damage. Patch clamp recordings at CA3-CA1 synapses revealed that antibiotics
treatment alters neuronal functions, reducing spontaneous postsynaptic glutamatergic
currents and decreasing synaptic connectivity, without reducing dendritic spines
density. Antibiotics treatment was unable to modulate synaptic function in CX3CR1-deficient
mice, pointing to an involvement of microglia–neuron crosstalk through the CX3CL1/CX3CR1
axis in the effect of dysbiosis on neuronal functions. Together, our findings
show that antibiotic alteration of gut microbiota impairs synaptic efficacy, suggesting
that CX3CL1/CX3CR1 signaling supporting microglia is a major player in in the
gut–brain axis, and in particular in the gut microbiota-to-neuron communication
pathway.
article_number: '2648'
article_processing_charge: Yes
article_type: original
author:
- first_name: Federica
full_name: Cordella, Federica
last_name: Cordella
- first_name: Caterina
full_name: Sanchini, Caterina
last_name: Sanchini
- first_name: Maria
full_name: Rosito, Maria
last_name: Rosito
- first_name: Laura
full_name: Ferrucci, Laura
last_name: Ferrucci
- first_name: Natalia
full_name: Pediconi, Natalia
last_name: Pediconi
- first_name: Barbara
full_name: Cortese, Barbara
last_name: Cortese
- first_name: Francesca
full_name: Guerrieri, Francesca
last_name: Guerrieri
- first_name: Giuseppe Rubens
full_name: Pascucci, Giuseppe Rubens
last_name: Pascucci
- first_name: Fabrizio
full_name: Antonangeli, Fabrizio
last_name: Antonangeli
- first_name: Giovanna
full_name: Peruzzi, Giovanna
last_name: Peruzzi
- first_name: Maria
full_name: Giubettini, Maria
last_name: Giubettini
- first_name: Bernadette
full_name: Basilico, Bernadette
id: 36035796-5ACA-11E9-A75E-7AF2E5697425
last_name: Basilico
orcid: 0000-0003-1843-3173
- first_name: Francesca
full_name: Pagani, Francesca
last_name: Pagani
- first_name: Alfonso
full_name: Grimaldi, Alfonso
last_name: Grimaldi
- first_name: Giuseppina
full_name: D’Alessandro, Giuseppina
last_name: D’Alessandro
- first_name: Cristina
full_name: Limatola, Cristina
last_name: Limatola
- first_name: Davide
full_name: Ragozzino, Davide
last_name: Ragozzino
- first_name: Silvia
full_name: Di Angelantonio, Silvia
last_name: Di Angelantonio
citation:
ama: Cordella F, Sanchini C, Rosito M, et al. Antibiotics treatment modulates microglia–synapses
interaction. Cells. 2021;10(10). doi:10.3390/cells10102648
apa: Cordella, F., Sanchini, C., Rosito, M., Ferrucci, L., Pediconi, N., Cortese,
B., … Di Angelantonio, S. (2021). Antibiotics treatment modulates microglia–synapses
interaction. Cells. MDPI. https://doi.org/10.3390/cells10102648
chicago: Cordella, Federica, Caterina Sanchini, Maria Rosito, Laura Ferrucci, Natalia
Pediconi, Barbara Cortese, Francesca Guerrieri, et al. “Antibiotics Treatment
Modulates Microglia–Synapses Interaction.” Cells. MDPI, 2021. https://doi.org/10.3390/cells10102648.
ieee: F. Cordella et al., “Antibiotics treatment modulates microglia–synapses
interaction,” Cells, vol. 10, no. 10. MDPI, 2021.
ista: Cordella F, Sanchini C, Rosito M, Ferrucci L, Pediconi N, Cortese B, Guerrieri
F, Pascucci GR, Antonangeli F, Peruzzi G, Giubettini M, Basilico B, Pagani F,
Grimaldi A, D’Alessandro G, Limatola C, Ragozzino D, Di Angelantonio S. 2021.
Antibiotics treatment modulates microglia–synapses interaction. Cells. 10(10),
2648.
mla: Cordella, Federica, et al. “Antibiotics Treatment Modulates Microglia–Synapses
Interaction.” Cells, vol. 10, no. 10, 2648, MDPI, 2021, doi:10.3390/cells10102648.
short: F. Cordella, C. Sanchini, M. Rosito, L. Ferrucci, N. Pediconi, B. Cortese,
F. Guerrieri, G.R. Pascucci, F. Antonangeli, G. Peruzzi, M. Giubettini, B. Basilico,
F. Pagani, A. Grimaldi, G. D’Alessandro, C. Limatola, D. Ragozzino, S. Di Angelantonio,
Cells 10 (2021).
date_created: 2024-04-03T08:02:52Z
date_published: 2021-10-04T00:00:00Z
date_updated: 2024-04-09T08:53:23Z
day: '04'
ddc:
- '610'
department:
- _id: GaNo
doi: 10.3390/cells10102648
external_id:
pmid:
- '34685628'
file:
- access_level: open_access
checksum: 1a3b251ce82e2b9474b852d2abe5bb03
content_type: application/pdf
creator: dernst
date_created: 2024-04-09T08:51:22Z
date_updated: 2024-04-09T08:51:22Z
file_id: '15303'
file_name: 2021_Cells_Cordella.pdf
file_size: 2196672
relation: main_file
success: 1
file_date_updated: 2024-04-09T08:51:22Z
has_accepted_license: '1'
intvolume: ' 10'
issue: '10'
keyword:
- General Medicine
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
publication: Cells
publication_identifier:
issn:
- 2073-4409
publication_status: published
publisher: MDPI
quality_controlled: '1'
status: public
title: Antibiotics treatment modulates microglia–synapses interaction
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 10
year: '2021'
...
---
_id: '15279'
abstract:
- lang: eng
text: We formulate and prove an analog of Poonen’s finite-field Bertini theorem
with Taylor conditions that holds in the Grothendieck ring of varieties. This
gives a broad generalization of the work of Vakil and Wood, who treated the case
of smooth hypersurface sections, and is made possible by the use of motivic Euler
products to write down candidate motivic probabilities. As applications, we give
motivic analogs of many results in arithmetic statistics that have been proven
using Poonen’s sieve, including work of Bucur and Kedlaya on complete intersections
and Erman and Wood on semiample Bertini theorems.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Margaret
full_name: Bilu, Margaret
id: 98C47862-10D5-11EA-BEDD-0F6F3DDC885E
last_name: Bilu
- first_name: Sean
full_name: Howe, Sean
last_name: Howe
citation:
ama: Bilu M, Howe S. Motivic Euler products in motivic statistics. Algebra &
Number Theory. 2021;15(9):2195-2259. doi:10.2140/ant.2021.15.2195
apa: Bilu, M., & Howe, S. (2021). Motivic Euler products in motivic statistics.
Algebra & Number Theory. Mathematical Sciences Publishers. https://doi.org/10.2140/ant.2021.15.2195
chicago: Bilu, Margaret, and Sean Howe. “Motivic Euler Products in Motivic Statistics.”
Algebra & Number Theory. Mathematical Sciences Publishers, 2021. https://doi.org/10.2140/ant.2021.15.2195.
ieee: M. Bilu and S. Howe, “Motivic Euler products in motivic statistics,” Algebra
& Number Theory, vol. 15, no. 9. Mathematical Sciences Publishers, pp.
2195–2259, 2021.
ista: Bilu M, Howe S. 2021. Motivic Euler products in motivic statistics. Algebra
& Number Theory. 15(9), 2195–2259.
mla: Bilu, Margaret, and Sean Howe. “Motivic Euler Products in Motivic Statistics.”
Algebra & Number Theory, vol. 15, no. 9, Mathematical Sciences Publishers,
2021, pp. 2195–259, doi:10.2140/ant.2021.15.2195.
short: M. Bilu, S. Howe, Algebra & Number Theory 15 (2021) 2195–2259.
corr_author: '1'
date_created: 2024-04-03T08:12:59Z
date_published: 2021-12-23T00:00:00Z
date_updated: 2024-10-21T06:02:15Z
day: '23'
department:
- _id: TiBr
doi: 10.2140/ant.2021.15.2195
external_id:
arxiv:
- '1910.05207'
intvolume: ' 15'
issue: '9'
keyword:
- Algebra and Number Theory
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1910.05207
month: '12'
oa: 1
oa_version: Preprint
page: 2195-2259
publication: Algebra & Number Theory
publication_identifier:
eissn:
- 1944-7833
issn:
- 1937-0652
publication_status: published
publisher: Mathematical Sciences Publishers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Motivic Euler products in motivic statistics
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15
year: '2021'
...
---
_id: '15280'
article_number: '050'
article_processing_charge: No
author:
- first_name: Daniel
full_name: Balazs, Daniel
id: 302BADF6-85FC-11EA-9E3B-B9493DDC885E
last_name: Balazs
orcid: 0000-0001-7597-043X
- first_name: Jessica
full_name: Cimada da Silva, Jessica
last_name: Cimada da Silva
- first_name: Tyler
full_name: Dunbar, Tyler
last_name: Dunbar
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
- first_name: Tobias
full_name: Hanrath, Tobias
last_name: Hanrath
citation:
ama: 'Balazs D, Cimada da Silva J, Dunbar T, Ibáñez M, Hanrath T. Controlled reactive
assembly of colloidal nanocrystal superlattices: Mechanism and kinetics. In: Proceedings
of the Internet NanoGe Conference on Nanocrystals. Fundació Scito; 2021. doi:10.29363/nanoge.incnc.2021.050'
apa: 'Balazs, D., Cimada da Silva, J., Dunbar, T., Ibáñez, M., & Hanrath, T.
(2021). Controlled reactive assembly of colloidal nanocrystal superlattices: Mechanism
and kinetics. In Proceedings of the Internet NanoGe Conference on Nanocrystals.
Virtual: Fundació Scito. https://doi.org/10.29363/nanoge.incnc.2021.050'
chicago: 'Balazs, Daniel, Jessica Cimada da Silva, Tyler Dunbar, Maria Ibáñez, and
Tobias Hanrath. “Controlled Reactive Assembly of Colloidal Nanocrystal Superlattices:
Mechanism and Kinetics.” In Proceedings of the Internet NanoGe Conference on
Nanocrystals. Fundació Scito, 2021. https://doi.org/10.29363/nanoge.incnc.2021.050.'
ieee: 'D. Balazs, J. Cimada da Silva, T. Dunbar, M. Ibáñez, and T. Hanrath, “Controlled
reactive assembly of colloidal nanocrystal superlattices: Mechanism and kinetics,”
in Proceedings of the Internet NanoGe Conference on Nanocrystals, Virtual,
2021.'
ista: 'Balazs D, Cimada da Silva J, Dunbar T, Ibáñez M, Hanrath T. 2021. Controlled
reactive assembly of colloidal nanocrystal superlattices: Mechanism and kinetics.
Proceedings of the Internet NanoGe Conference on Nanocrystals. iNCNC: Internet
nanoGe Conference on Nanocrystals, 050.'
mla: 'Balazs, Daniel, et al. “Controlled Reactive Assembly of Colloidal Nanocrystal
Superlattices: Mechanism and Kinetics.” Proceedings of the Internet NanoGe
Conference on Nanocrystals, 050, Fundació Scito, 2021, doi:10.29363/nanoge.incnc.2021.050.'
short: D. Balazs, J. Cimada da Silva, T. Dunbar, M. Ibáñez, T. Hanrath, in:, Proceedings
of the Internet NanoGe Conference on Nanocrystals, Fundació Scito, 2021.
conference:
end_date: 2021-07-02
location: Virtual
name: 'iNCNC: Internet nanoGe Conference on Nanocrystals'
start_date: 2021-06-28
corr_author: '1'
date_created: 2024-04-03T08:28:26Z
date_published: 2021-06-08T00:00:00Z
date_updated: 2024-10-09T21:08:49Z
day: '08'
department:
- _id: MaIb
- _id: LifeSc
doi: 10.29363/nanoge.incnc.2021.050
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.29363/nanoge.incnc.2021.050
month: '06'
oa: 1
oa_version: Published Version
publication: Proceedings of the Internet NanoGe Conference on Nanocrystals
publication_status: published
publisher: Fundació Scito
quality_controlled: '1'
status: public
title: 'Controlled reactive assembly of colloidal nanocrystal superlattices: Mechanism
and kinetics'
type: conference_abstract
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '15283'
article_processing_charge: No
article_type: original
author:
- first_name: William
full_name: Nicolas, William
last_name: Nicolas
- first_name: Florian
full_name: Fäßler, Florian
id: 404F5528-F248-11E8-B48F-1D18A9856A87
last_name: Fäßler
orcid: 0000-0001-7149-769X
- first_name: Elliot
full_name: Meyerowitz, Elliot
last_name: Meyerowitz
- first_name: Grant
full_name: Jensen, Grant
last_name: Jensen
citation:
ama: Nicolas W, Fäßler F, Meyerowitz E, Jensen G. Peaking into the plant cell wall
using cryo-FIB milling and electron cryo-tomography. Microscopy and Microanalysis.
2021;27(S1):3024-3026. doi:10.1017/s1431927621010503
apa: Nicolas, W., Fäßler, F., Meyerowitz, E., & Jensen, G. (2021). Peaking into
the plant cell wall using cryo-FIB milling and electron cryo-tomography. Microscopy
and Microanalysis. Oxford University Press. https://doi.org/10.1017/s1431927621010503
chicago: Nicolas, William, Florian Fäßler, Elliot Meyerowitz, and Grant Jensen.
“Peaking into the Plant Cell Wall Using Cryo-FIB Milling and Electron Cryo-Tomography.”
Microscopy and Microanalysis. Oxford University Press, 2021. https://doi.org/10.1017/s1431927621010503.
ieee: W. Nicolas, F. Fäßler, E. Meyerowitz, and G. Jensen, “Peaking into the plant
cell wall using cryo-FIB milling and electron cryo-tomography,” Microscopy
and Microanalysis, vol. 27, no. S1. Oxford University Press, pp. 3024–3026,
2021.
ista: Nicolas W, Fäßler F, Meyerowitz E, Jensen G. 2021. Peaking into the plant
cell wall using cryo-FIB milling and electron cryo-tomography. Microscopy and
Microanalysis. 27(S1), 3024–3026.
mla: Nicolas, William, et al. “Peaking into the Plant Cell Wall Using Cryo-FIB Milling
and Electron Cryo-Tomography.” Microscopy and Microanalysis, vol. 27, no.
S1, Oxford University Press, 2021, pp. 3024–26, doi:10.1017/s1431927621010503.
short: W. Nicolas, F. Fäßler, E. Meyerowitz, G. Jensen, Microscopy and Microanalysis
27 (2021) 3024–3026.
date_created: 2024-04-03T08:57:23Z
date_published: 2021-08-01T00:00:00Z
date_updated: 2024-04-09T07:55:56Z
day: '01'
department:
- _id: FlSc
doi: 10.1017/s1431927621010503
intvolume: ' 27'
issue: S1
keyword:
- Instrumentation
language:
- iso: eng
month: '08'
oa_version: None
page: 3024-3026
publication: Microscopy and Microanalysis
publication_identifier:
eissn:
- 1435-8115
issn:
- 1431-9276
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
status: public
title: Peaking into the plant cell wall using cryo-FIB milling and electron cryo-tomography
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 27
year: '2021'
...
---
_id: '15284'
abstract:
- lang: eng
text: "RevTerm is a static analysis tool for proving non-termination of integer
C programs (possibly with non-determinism). RevTerm is an implementation of our
method for non-termination proving presented in the paper “Proving Non-termination
by Program Reversal”.\r\n\r\n"
article_processing_charge: No
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Ehsan Kafshdar
full_name: Goharshady, Ehsan Kafshdar
last_name: Goharshady
- first_name: Petr
full_name: Novotný, Petr
id: 3CC3B868-F248-11E8-B48F-1D18A9856A87
last_name: Novotný
- first_name: Dorde
full_name: Zikelic, Dorde
id: 294AA7A6-F248-11E8-B48F-1D18A9856A87
last_name: Zikelic
orcid: 0000-0002-4681-1699
citation:
ama: Chatterjee K, Goharshady EK, Novotný P, Zikelic D. RevTerm. 2021. doi:10.1145/3410304
apa: Chatterjee, K., Goharshady, E. K., Novotný, P., & Zikelic, D. (2021). RevTerm.
Association for Computing Machinery. https://doi.org/10.1145/3410304
chicago: Chatterjee, Krishnendu, Ehsan Kafshdar Goharshady, Petr Novotný, and Dorde
Zikelic. “RevTerm.” Association for Computing Machinery, 2021. https://doi.org/10.1145/3410304.
ieee: K. Chatterjee, E. K. Goharshady, P. Novotný, and D. Zikelic, “RevTerm.” Association
for Computing Machinery, 2021.
ista: Chatterjee K, Goharshady EK, Novotný P, Zikelic D. 2021. RevTerm, Association
for Computing Machinery, 10.1145/3410304.
mla: Chatterjee, Krishnendu, et al. RevTerm. Association for Computing Machinery,
2021, doi:10.1145/3410304.
short: K. Chatterjee, E.K. Goharshady, P. Novotný, D. Zikelic, (2021).
corr_author: '1'
date_created: 2024-04-03T09:00:42Z
date_published: 2021-06-01T00:00:00Z
date_updated: 2025-04-15T06:25:30Z
day: '01'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1145/3410304
has_accepted_license: '1'
main_file_link:
- open_access: '1'
url: https://doi.org/10.1145/3410304
month: '06'
oa: 1
oa_version: Published Version
publisher: Association for Computing Machinery
related_material:
record:
- id: '9644'
relation: used_in_publication
status: public
status: public
title: RevTerm
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '15285'
abstract:
- lang: eng
text: Ever since the first publication of the standard communication protocol for
computer-assisted electrocardiography (SCP-ECG), prENV 1064, in 1993, by the European
Committee for Standardization (CEN), SCP-ECG has become a leading example in health
informatics, enabling open, secure, and well-documented digital data exchange
at a low cost, for quick and efficient cardiovascular disease detection and management.
Based on the experiences gained, since the 1970s, in computerized electrocardiology,
and on the results achieved by the pioneering, international cooperative research
on common standards for quantitative electrocardiography (CSE), SCP-ECG was designed,
from the beginning, to empower personalized medicine, thanks to serial ECG analysis.
The fundamental concept behind SCP-ECG is to convey the necessary information
for ECG re-analysis, serial comparison, and interpretation, and to structure the
ECG data and metadata in sections that are mostly optional in order to fit all
use cases. SCP-ECG is open to the storage of the ECG signal and ECG measurement
data, whatever the ECG recording modality or computation method, and can store
the over-reading trails and ECG annotations, as well as any computerized or medical
interpretation reports. Only the encoding syntax and the semantics of the ECG
descriptors and of the diagnosis codes are standardized. We present all of the
landmarks in the development and publication of SCP-ECG, from the early 1990s
to the 2009 International Organization for Standardization (ISO) SCP-ECG standards,
including the latest version published by CEN in 2020, which now encompasses rest
and stress ECGs, Holter recordings, and protocol-based trials.
acknowledgement: This research received no external funding. The authors thank the
large number of researchers, engineers, cardiologists, and clinicians from academia,
industry, and normalization organizations who contributed to the development and
testing of the SCP-ECG standards.
article_processing_charge: Yes
article_type: review
author:
- first_name: Paul
full_name: Rubel, Paul
last_name: Rubel
- first_name: Jocelyne
full_name: Fayn, Jocelyne
last_name: Fayn
- first_name: Peter W.
full_name: Macfarlane, Peter W.
last_name: Macfarlane
- first_name: Danilo
full_name: Pani, Danilo
last_name: Pani
- first_name: Alois
full_name: Schlögl, Alois
id: 45BF87EE-F248-11E8-B48F-1D18A9856A87
last_name: Schlögl
orcid: 0000-0002-5621-8100
- first_name: Alpo
full_name: Värri, Alpo
last_name: Värri
citation:
ama: 'Rubel P, Fayn J, Macfarlane PW, Pani D, Schlögl A, Värri A. The history and
challenges of SCP-ECG: The standard communication protocol for computer-assisted
electrocardiography. Hearts. 2021;2(3):384-409. doi:10.3390/hearts2030031'
apa: 'Rubel, P., Fayn, J., Macfarlane, P. W., Pani, D., Schlögl, A., & Värri,
A. (2021). The history and challenges of SCP-ECG: The standard communication protocol
for computer-assisted electrocardiography. Hearts. MDPI. https://doi.org/10.3390/hearts2030031'
chicago: 'Rubel, Paul, Jocelyne Fayn, Peter W. Macfarlane, Danilo Pani, Alois Schlögl,
and Alpo Värri. “The History and Challenges of SCP-ECG: The Standard Communication
Protocol for Computer-Assisted Electrocardiography.” Hearts. MDPI, 2021.
https://doi.org/10.3390/hearts2030031.'
ieee: 'P. Rubel, J. Fayn, P. W. Macfarlane, D. Pani, A. Schlögl, and A. Värri, “The
history and challenges of SCP-ECG: The standard communication protocol for computer-assisted
electrocardiography,” Hearts, vol. 2, no. 3. MDPI, pp. 384–409, 2021.'
ista: 'Rubel P, Fayn J, Macfarlane PW, Pani D, Schlögl A, Värri A. 2021. The history
and challenges of SCP-ECG: The standard communication protocol for computer-assisted
electrocardiography. Hearts. 2(3), 384–409.'
mla: 'Rubel, Paul, et al. “The History and Challenges of SCP-ECG: The Standard Communication
Protocol for Computer-Assisted Electrocardiography.” Hearts, vol. 2, no.
3, MDPI, 2021, pp. 384–409, doi:10.3390/hearts2030031.'
short: P. Rubel, J. Fayn, P.W. Macfarlane, D. Pani, A. Schlögl, A. Värri, Hearts
2 (2021) 384–409.
date_created: 2024-04-03T09:03:31Z
date_published: 2021-08-24T00:00:00Z
date_updated: 2024-04-09T06:51:50Z
day: '24'
ddc:
- '610'
department:
- _id: ScienComp
doi: 10.3390/hearts2030031
file:
- access_level: open_access
checksum: f67142b1e1e8ca5cd7a6a6798f46375e
content_type: application/pdf
creator: dernst
date_created: 2024-04-09T06:49:47Z
date_updated: 2024-04-09T06:49:47Z
file_id: '15302'
file_name: 2021_Hearts_Rubel.pdf
file_size: 3539897
relation: main_file
success: 1
file_date_updated: 2024-04-09T06:49:47Z
has_accepted_license: '1'
intvolume: ' 2'
issue: '3'
keyword:
- General Medicine
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 384-409
publication: Hearts
publication_identifier:
issn:
- 2673-3846
publication_status: published
publisher: MDPI
quality_controlled: '1'
status: public
title: 'The history and challenges of SCP-ECG: The standard communication protocol
for computer-assisted electrocardiography'
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: 2
year: '2021'
...
---
_id: '10552'
abstract:
- lang: eng
text: We study a class of convex-concave saddle-point problems of the form minxmaxy⟨Kx,y⟩+fP(x)−h∗(y)
where K is a linear operator, fP is the sum of a convex function f with a Lipschitz-continuous
gradient and the indicator function of a bounded convex polytope P, and h∗ is
a convex (possibly nonsmooth) function. Such problem arises, for example, as a
Lagrangian relaxation of various discrete optimization problems. Our main assumptions
are the existence of an efficient linear minimization oracle (lmo) for fP and
an efficient proximal map for h∗ which motivate the solution via a blend of proximal
primal-dual algorithms and Frank-Wolfe algorithms. In case h∗ is the indicator
function of a linear constraint and function f is quadratic, we show a O(1/n2)
convergence rate on the dual objective, requiring O(nlogn) calls of lmo. If the
problem comes from the constrained optimization problem minx∈Rd{fP(x)|Ax−b=0}
then we additionally get bound O(1/n2) both on the primal gap and on the infeasibility
gap. In the most general case, we show a O(1/n) convergence rate of the primal-dual
gap again requiring O(nlogn) calls of lmo. To the best of our knowledge, this
improves on the known convergence rates for the considered class of saddle-point
problems. We show applications to labeling problems frequently appearing in machine
learning and computer vision.
acknowledgement: Vladimir Kolmogorov was supported by the European Research Council
under the European Unions Seventh Framework Programme (FP7/2007-2013)/ERC grant
agreement no 616160. Thomas Pock acknowledges support by an ERC grant HOMOVIS, no
640156.
article_processing_charge: No
arxiv: 1
author:
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Thomas
full_name: Pock, Thomas
last_name: Pock
citation:
ama: 'Kolmogorov V, Pock T. One-sided Frank-Wolfe algorithms for saddle problems.
In: 38th International Conference on Machine Learning. ; 2021.'
apa: Kolmogorov, V., & Pock, T. (2021). One-sided Frank-Wolfe algorithms for
saddle problems. In 38th International Conference on Machine Learning.
Virtual.
chicago: Kolmogorov, Vladimir, and Thomas Pock. “One-Sided Frank-Wolfe Algorithms
for Saddle Problems.” In 38th International Conference on Machine Learning,
2021.
ieee: V. Kolmogorov and T. Pock, “One-sided Frank-Wolfe algorithms for saddle problems,”
in 38th International Conference on Machine Learning, Virtual, 2021.
ista: 'Kolmogorov V, Pock T. 2021. One-sided Frank-Wolfe algorithms for saddle problems.
38th International Conference on Machine Learning. ICML: International Conference
on Machine Learning.'
mla: Kolmogorov, Vladimir, and Thomas Pock. “One-Sided Frank-Wolfe Algorithms for
Saddle Problems.” 38th International Conference on Machine Learning, 2021.
short: V. Kolmogorov, T. Pock, in:, 38th International Conference on Machine Learning,
2021.
conference:
end_date: 2021-07-24
location: Virtual
name: 'ICML: International Conference on Machine Learning'
start_date: 2021-07-18
corr_author: '1'
date_created: 2021-12-16T12:41:20Z
date_published: 2021-07-01T00:00:00Z
date_updated: 2025-07-16T08:04:23Z
day: '01'
department:
- _id: VlKo
ec_funded: 1
external_id:
arxiv:
- '2101.12617'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2101.12617
month: '07'
oa: 1
oa_version: Preprint
project:
- _id: 25FBA906-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '616160'
name: 'Discrete Optimization in Computer Vision: Theory and Practice'
publication: 38th International Conference on Machine Learning
publication_status: published
quality_controlled: '1'
scopus_import: '1'
status: public
title: One-sided Frank-Wolfe algorithms for saddle problems
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2021'
...