---
_id: '10553'
abstract:
- lang: eng
text: The popularity of permissioned blockchain systems demands BFT SMR protocols
that are efficient under good network conditions (synchrony) and robust under
bad network conditions (asynchrony). The state-of-the-art partially synchronous
BFT SMR protocols provide optimal linear communication cost per decision under
synchrony and good leaders, but lose liveness under asynchrony. On the other hand,
the state-of-the-art asynchronous BFT SMR protocols are live even under asynchrony,
but always pay quadratic cost even under synchrony. In this paper, we propose
a BFT SMR protocol that achieves the best of both worlds -- optimal linear cost
per decision under good networks and leaders, optimal quadratic cost per decision
under bad networks, and remains always live.
article_processing_charge: No
arxiv: 1
author:
- first_name: Rati
full_name: Gelashvili, Rati
last_name: Gelashvili
- first_name: Eleftherios
full_name: Kokoris Kogias, Eleftherios
id: f5983044-d7ef-11ea-ac6d-fd1430a26d30
last_name: Kokoris Kogias
- first_name: Alexander
full_name: Spiegelman, Alexander
last_name: Spiegelman
- first_name: Zhuolun
full_name: Xiang, Zhuolun
last_name: Xiang
citation:
ama: 'Gelashvili R, Kokoris Kogias E, Spiegelman A, Xiang Z. Brief announcement:
Be prepared when network goes bad: An asynchronous view-change protocol. In: Proceedings
of the 2021 ACM Symposium on Principles of Distributed Computing. Association
for Computing Machinery; 2021:187-190. doi:10.1145/3465084.3467941'
apa: 'Gelashvili, R., Kokoris Kogias, E., Spiegelman, A., & Xiang, Z. (2021).
Brief announcement: Be prepared when network goes bad: An asynchronous view-change
protocol. In Proceedings of the 2021 ACM Symposium on Principles of Distributed
Computing (pp. 187–190). Virtual, Italy: Association for Computing Machinery.
https://doi.org/10.1145/3465084.3467941'
chicago: 'Gelashvili, Rati, Eleftherios Kokoris Kogias, Alexander Spiegelman, and
Zhuolun Xiang. “Brief Announcement: Be Prepared When Network Goes Bad: An Asynchronous
View-Change Protocol.” In Proceedings of the 2021 ACM Symposium on Principles
of Distributed Computing, 187–90. Association for Computing Machinery, 2021.
https://doi.org/10.1145/3465084.3467941.'
ieee: 'R. Gelashvili, E. Kokoris Kogias, A. Spiegelman, and Z. Xiang, “Brief announcement:
Be prepared when network goes bad: An asynchronous view-change protocol,” in Proceedings
of the 2021 ACM Symposium on Principles of Distributed Computing, Virtual,
Italy, 2021, pp. 187–190.'
ista: 'Gelashvili R, Kokoris Kogias E, Spiegelman A, Xiang Z. 2021. Brief announcement:
Be prepared when network goes bad: An asynchronous view-change protocol. Proceedings
of the 2021 ACM Symposium on Principles of Distributed Computing. PODC: Principles
of Distributed Computing, 187–190.'
mla: 'Gelashvili, Rati, et al. “Brief Announcement: Be Prepared When Network Goes
Bad: An Asynchronous View-Change Protocol.” Proceedings of the 2021 ACM Symposium
on Principles of Distributed Computing, Association for Computing Machinery,
2021, pp. 187–90, doi:10.1145/3465084.3467941.'
short: R. Gelashvili, E. Kokoris Kogias, A. Spiegelman, Z. Xiang, in:, Proceedings
of the 2021 ACM Symposium on Principles of Distributed Computing, Association
for Computing Machinery, 2021, pp. 187–190.
conference:
end_date: 2021-07-30
location: Virtual, Italy
name: 'PODC: Principles of Distributed Computing'
start_date: 2021-07-26
date_created: 2021-12-16T13:20:19Z
date_published: 2021-07-21T00:00:00Z
date_updated: 2023-09-04T11:42:10Z
day: '21'
department:
- _id: ElKo
doi: 10.1145/3465084.3467941
external_id:
arxiv:
- '2103.03181'
isi:
- '000744439800018'
isi: 1
keyword:
- optimal
- state machine replication
- fallback
- asynchrony
- byzantine faults
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2103.03181
month: '07'
oa: 1
oa_version: Preprint
page: 187-190
publication: Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing
publication_identifier:
isbn:
- 9-781-4503-8548-0
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Brief announcement: Be prepared when network goes bad: An asynchronous view-change
protocol'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '10554'
abstract:
- lang: eng
text: 'We present DAG-Rider, the first asynchronous Byzantine Atomic Broadcast protocol
that achieves optimal resilience, optimal amortized communication complexity,
and optimal time complexity. DAG-Rider is post-quantum safe and ensures that all
values proposed by correct processes eventually get delivered. We construct DAG-Rider
in two layers: In the first layer, processes reliably broadcast their proposals
and build a structured Directed Acyclic Graph (DAG) of the communication among
them. In the second layer, processes locally observe their DAGs and totally order
all proposals with no extra communication.'
acknowledgement: "Oded Naor is grateful to the Technion Hiroshi Fujiwara Cyber-Security
Research Center for providing a research grant. Part of Oded’s work was done while
at Novi Research. This work was funded by the Novi team at Facebook. We also wish
to thank the Novi Research team for valuable feedback, and in particular George
Danezis, Alberto Sonnino, and Dahlia Malkhi.\r\n"
article_processing_charge: No
arxiv: 1
author:
- first_name: Idit
full_name: Keidar, Idit
last_name: Keidar
- first_name: Eleftherios
full_name: Kokoris Kogias, Eleftherios
id: f5983044-d7ef-11ea-ac6d-fd1430a26d30
last_name: Kokoris Kogias
- first_name: Oded
full_name: Naor, Oded
last_name: Naor
- first_name: Alexander
full_name: Spiegelman, Alexander
last_name: Spiegelman
citation:
ama: 'Keidar I, Kokoris Kogias E, Naor O, Spiegelman A. All You Need is DAG. In:
Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing.
Association for Computing Machinery; 2021:165-175. doi:10.1145/3465084.3467905'
apa: 'Keidar, I., Kokoris Kogias, E., Naor, O., & Spiegelman, A. (2021). All
You Need is DAG. In Proceedings of the 2021 ACM Symposium on Principles of
Distributed Computing (pp. 165–175). Virtual, Italy: Association for Computing
Machinery. https://doi.org/10.1145/3465084.3467905'
chicago: Keidar, Idit, Eleftherios Kokoris Kogias, Oded Naor, and Alexander Spiegelman.
“All You Need Is DAG.” In Proceedings of the 2021 ACM Symposium on Principles
of Distributed Computing, 165–75. Association for Computing Machinery, 2021.
https://doi.org/10.1145/3465084.3467905.
ieee: I. Keidar, E. Kokoris Kogias, O. Naor, and A. Spiegelman, “All You Need is
DAG,” in Proceedings of the 2021 ACM Symposium on Principles of Distributed
Computing, Virtual, Italy, 2021, pp. 165–175.
ista: 'Keidar I, Kokoris Kogias E, Naor O, Spiegelman A. 2021. All You Need is DAG.
Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing.
PODC: Principles of Distributed Computing, 165–175.'
mla: Keidar, Idit, et al. “All You Need Is DAG.” Proceedings of the 2021 ACM
Symposium on Principles of Distributed Computing, Association for Computing
Machinery, 2021, pp. 165–75, doi:10.1145/3465084.3467905.
short: I. Keidar, E. Kokoris Kogias, O. Naor, A. Spiegelman, in:, Proceedings of
the 2021 ACM Symposium on Principles of Distributed Computing, Association for
Computing Machinery, 2021, pp. 165–175.
conference:
end_date: 2021-07-30
location: Virtual, Italy
name: 'PODC: Principles of Distributed Computing'
start_date: 2021-07-26
date_created: 2021-12-16T13:21:13Z
date_published: 2021-07-21T00:00:00Z
date_updated: 2023-08-17T06:24:44Z
day: '21'
department:
- _id: ElKo
doi: 10.1145/3465084.3467905
external_id:
arxiv:
- '2102.08325'
isi:
- '000744439800016'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2102.08325
month: '07'
oa: 1
oa_version: Preprint
page: 165-175
publication: Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing
publication_identifier:
isbn:
- 978-1-4503-8548-0
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
scopus_import: '1'
status: public
title: All You Need is DAG
type: conference
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
year: '2021'
...
---
_id: '10559'
abstract:
- lang: eng
text: Hole gases in planar germanium can have high mobilities in combination with
strong spin-orbit interaction and electrically tunable g factors, and are therefore
emerging as a promising platform for creating hybrid superconductor-semiconductor
devices. A key challenge towards hybrid Ge-based quantum technologies is the design
of high-quality interfaces and superconducting contacts that are robust against
magnetic fields. In this work, by combining the assets of aluminum, which provides
good contact to the Ge, and niobium, which has a significant superconducting gap,
we demonstrate highly transparent low-disordered JoFETs with relatively large
ICRN products that are capable of withstanding high magnetic fields. We furthermore
demonstrate the ability of phase-biasing individual JoFETs, opening up an avenue
to explore topological superconductivity in planar Ge. The persistence of superconductivity
in the reported hybrid devices beyond 1.8 T paves the way towards integrating
spin qubits and proximity-induced superconductivity on the same chip.
acknowledged_ssus:
- _id: NanoFab
- _id: M-Shop
acknowledgement: This research and related results were made possible with the support
of the NOMIS Foundation. This research was supported by the Scientific Service Units
of IST Austria through resources provided by the MIBA Machine Shop and the nanofabrication
facility, the European Union's Horizon 2020 research and innovation program under
the Marie Sklodowska-Curie Grant agreement No. 844511 Grant Agreement No. 862046.
ICN2 acknowledge funding from Generalitat de Catalunya 2017 SGR 327. ICN2 is supported
by the Severo Ochoa program from Spanish MINECO (Grant No. SEV-2017-0706) and is
funded by the CERCA Programme/Generalitat de Catalunya. Part of the present work
has been performed in the framework of Universitat Autnoma de Barcelona Materials
Science PhD program. The HAADF-STEM microscopy was conducted in the Laboratorio
de Microscopias Avanzadas at Instituto de Nanociencia de Aragon-Universidad de Zaragoza.
Authors acknowledge the LMA-INA for offering access to their instruments and expertise.
We acknowledge support from CSIC Research Platform on Quantum Technologies PTI-001.
This project has received funding from the European Union's Horizon 2020 research
and innovation programme under Grant Agreement No. 823717 ESTEEM3. M.B. acknowledges
support from SUR Generalitat de Catalunya and the EU Social Fund; project ref. 2020
FI 00103. G.S. and M.V. acknowledge support through a projectruimte grant associated
with the Netherlands Organization of Scientific Research (NWO). J.D. acknowledges
support through FRIPRO-project 274853, which is funded by the Research Council of
Norway.
article_number: L022005
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Kushagra
full_name: Aggarwal, Kushagra
id: b22ab905-3539-11eb-84c3-fc159dcd79cb
last_name: Aggarwal
orcid: 0000-0001-9985-9293
- first_name: Andrea C
full_name: Hofmann, Andrea C
id: 340F461A-F248-11E8-B48F-1D18A9856A87
last_name: Hofmann
- first_name: Daniel
full_name: Jirovec, Daniel
id: 4C473F58-F248-11E8-B48F-1D18A9856A87
last_name: Jirovec
orcid: 0000-0002-7197-4801
- 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: Amir
full_name: Sammak, Amir
last_name: Sammak
- first_name: Marc
full_name: Botifoll, Marc
last_name: Botifoll
- first_name: Sara
full_name: Martí-Sánchez, Sara
last_name: Martí-Sánchez
- first_name: Menno
full_name: Veldhorst, Menno
last_name: Veldhorst
- first_name: Jordi
full_name: Arbiol, Jordi
last_name: Arbiol
- first_name: Giordano
full_name: Scappucci, Giordano
last_name: Scappucci
- first_name: Jeroen
full_name: Danon, Jeroen
last_name: Danon
- first_name: Georgios
full_name: Katsaros, Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
orcid: 0000-0001-8342-202X
citation:
ama: Aggarwal K, Hofmann AC, Jirovec D, et al. Enhancement of proximity-induced
superconductivity in a planar Ge hole gas. Physical Review Research. 2021;3(2).
doi:10.1103/physrevresearch.3.l022005
apa: Aggarwal, K., Hofmann, A. C., Jirovec, D., Prieto Gonzalez, I., Sammak, A.,
Botifoll, M., … Katsaros, G. (2021). Enhancement of proximity-induced superconductivity
in a planar Ge hole gas. Physical Review Research. American Physical Society.
https://doi.org/10.1103/physrevresearch.3.l022005
chicago: Aggarwal, Kushagra, Andrea C Hofmann, Daniel Jirovec, Ivan Prieto Gonzalez,
Amir Sammak, Marc Botifoll, Sara Martí-Sánchez, et al. “Enhancement of Proximity-Induced
Superconductivity in a Planar Ge Hole Gas.” Physical Review Research. American
Physical Society, 2021. https://doi.org/10.1103/physrevresearch.3.l022005.
ieee: K. Aggarwal et al., “Enhancement of proximity-induced superconductivity
in a planar Ge hole gas,” Physical Review Research, vol. 3, no. 2. American
Physical Society, 2021.
ista: Aggarwal K, Hofmann AC, Jirovec D, Prieto Gonzalez I, Sammak A, Botifoll M,
Martí-Sánchez S, Veldhorst M, Arbiol J, Scappucci G, Danon J, Katsaros G. 2021.
Enhancement of proximity-induced superconductivity in a planar Ge hole gas. Physical
Review Research. 3(2), L022005.
mla: Aggarwal, Kushagra, et al. “Enhancement of Proximity-Induced Superconductivity
in a Planar Ge Hole Gas.” Physical Review Research, vol. 3, no. 2, L022005,
American Physical Society, 2021, doi:10.1103/physrevresearch.3.l022005.
short: K. Aggarwal, A.C. Hofmann, D. Jirovec, I. Prieto Gonzalez, A. Sammak, M.
Botifoll, S. Martí-Sánchez, M. Veldhorst, J. Arbiol, G. Scappucci, J. Danon, G.
Katsaros, Physical Review Research 3 (2021).
date_created: 2021-12-16T18:50:57Z
date_published: 2021-04-15T00:00:00Z
date_updated: 2024-02-21T12:41:26Z
day: '15'
ddc:
- '620'
department:
- _id: GeKa
doi: 10.1103/physrevresearch.3.l022005
ec_funded: 1
external_id:
arxiv:
- '2012.00322'
file:
- access_level: open_access
checksum: 60a1bc9c9b616b1b155044bb8cfc6484
content_type: application/pdf
creator: cchlebak
date_created: 2021-12-17T08:12:37Z
date_updated: 2021-12-17T08:12:37Z
file_id: '10561'
file_name: 2021_PhysRevResearch_Aggarwal.pdf
file_size: 1917512
relation: main_file
success: 1
file_date_updated: 2021-12-17T08:12:37Z
has_accepted_license: '1'
intvolume: ' 3'
issue: '2'
keyword:
- general engineering
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '04'
oa: 1
oa_version: Published Version
project:
- _id: 26A151DA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '844511'
name: Majorana bound states in Ge/SiGe heterostructures
- _id: 237E5020-32DE-11EA-91FC-C7463DDC885E
call_identifier: H2020
grant_number: '862046'
name: TOPOLOGICALLY PROTECTED AND SCALABLE QUANTUM BITS
publication: Physical Review Research
publication_identifier:
issn:
- 2643-1564
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
related_material:
record:
- id: '8831'
relation: earlier_version
status: public
- id: '8834'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Enhancement of proximity-induced superconductivity in a planar Ge hole 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: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 3
year: '2021'
...
---
_id: '10565'
abstract:
- lang: eng
text: 'Enzymatic digestion of the extracellular matrix with chondroitinase-ABC reinstates
juvenile-like plasticity in the adult cortex as it also disassembles the perineuronal
nets (PNNs). The disadvantage of the enzyme is that it must be applied intracerebrally
and it degrades the ECM for several weeks. Here, we provide two minimally invasive
and transient protocols for microglia-enabled PNN disassembly in mouse cortex:
repeated treatment with ketamine-xylazine-acepromazine (KXA) anesthesia and 60-Hz
light entrainment. We also discuss how to analyze PNNs within microglial endosomes-lysosomes.
For complete details on the use and execution of this protocol, please refer to
Venturino et al. (2021).'
acknowledged_ssus:
- _id: Bio
acknowledgement: This research was supported by the European Research Council (grant
715571 to S.S.). We thank Rouven Schulz, Michael Schunn, Claudia Gold, Gabriel Krens,
Sarah Gorkiewicz, Margaret Maes, Jürgen Siegert, Marco Benevento, and Sara Oakeley
for comments on the manuscript and the IST Austria Bioimaging Facility for the technical
support.
article_number: '101012'
article_processing_charge: Yes
article_type: original
author:
- first_name: Alessandro
full_name: Venturino, Alessandro
id: 41CB84B2-F248-11E8-B48F-1D18A9856A87
last_name: Venturino
orcid: 0000-0003-2356-9403
- first_name: Sandra
full_name: Siegert, Sandra
id: 36ACD32E-F248-11E8-B48F-1D18A9856A87
last_name: Siegert
orcid: 0000-0001-8635-0877
citation:
ama: Venturino A, Siegert S. Minimally invasive protocols and quantification for
microglia-mediated perineuronal net disassembly in mouse brain. STAR Protocols.
2021;2(4). doi:10.1016/j.xpro.2021.101012
apa: Venturino, A., & Siegert, S. (2021). Minimally invasive protocols and quantification
for microglia-mediated perineuronal net disassembly in mouse brain. STAR Protocols.
Elsevier ; Cell Press. https://doi.org/10.1016/j.xpro.2021.101012
chicago: Venturino, Alessandro, and Sandra Siegert. “Minimally Invasive Protocols
and Quantification for Microglia-Mediated Perineuronal Net Disassembly in Mouse
Brain.” STAR Protocols. Elsevier ; Cell Press, 2021. https://doi.org/10.1016/j.xpro.2021.101012.
ieee: A. Venturino and S. Siegert, “Minimally invasive protocols and quantification
for microglia-mediated perineuronal net disassembly in mouse brain,” STAR Protocols,
vol. 2, no. 4. Elsevier ; Cell Press, 2021.
ista: Venturino A, Siegert S. 2021. Minimally invasive protocols and quantification
for microglia-mediated perineuronal net disassembly in mouse brain. STAR Protocols.
2(4), 101012.
mla: Venturino, Alessandro, and Sandra Siegert. “Minimally Invasive Protocols and
Quantification for Microglia-Mediated Perineuronal Net Disassembly in Mouse Brain.”
STAR Protocols, vol. 2, no. 4, 101012, Elsevier ; Cell Press, 2021, doi:10.1016/j.xpro.2021.101012.
short: A. Venturino, S. Siegert, STAR Protocols 2 (2021).
date_created: 2021-12-19T23:01:32Z
date_published: 2021-12-17T00:00:00Z
date_updated: 2023-11-16T13:11:04Z
day: '17'
ddc:
- '573'
department:
- _id: SaSi
doi: 10.1016/j.xpro.2021.101012
ec_funded: 1
file:
- access_level: open_access
checksum: 9ea2501056c5df99e84726b845e9b976
content_type: application/pdf
creator: cchlebak
date_created: 2021-12-20T08:58:40Z
date_updated: 2021-12-20T08:58:40Z
file_id: '10570'
file_name: 2021_STARProt_Venturino.pdf
file_size: 6207060
relation: main_file
success: 1
file_date_updated: 2021-12-20T08:58:40Z
has_accepted_license: '1'
intvolume: ' 2'
issue: '4'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
project:
- _id: 25D4A630-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715571'
name: Microglia action towards neuronal circuit formation and function in health
and disease
publication: STAR Protocols
publication_identifier:
eissn:
- 2666-1667
publication_status: published
publisher: Elsevier ; Cell Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Minimally invasive protocols and quantification for microglia-mediated perineuronal
net disassembly in mouse brain
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: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2021'
...
---
_id: '10568'
abstract:
- lang: eng
text: Genetic adaptation and phenotypic plasticity facilitate the migration into
new habitats and enable organisms to cope with a rapidly changing environment.
In contrast to genetic adaptation that spans multiple generations as an evolutionary
process, phenotypic plasticity allows acclimation within the life-time of an organism.
Genetic adaptation and phenotypic plasticity are usually studied in isolation,
however, only by including their interactive impact, we can understand acclimation
and adaptation in nature. We aimed to explore the contribution of adaptation and
plasticity in coping with an abiotic (salinity) and a biotic (Vibrio bacteria)
stressor using six different populations of the broad-nosed pipefish Syngnathus
typhle that originated from either high [14–17 Practical Salinity Unit (PSU)]
or low (7–11 PSU) saline environments along the German coastline of the Baltic
Sea. We exposed wild caught animals, to either high (15 PSU) or low (7 PSU) salinity,
representing native and novel salinity conditions and allowed animals to mate.
After male pregnancy, offspring was split and each half was exposed to one of
the two salinities and infected with Vibrio alginolyticus bacteria that were evolved
at either of the two salinities in a fully reciprocal design. We investigated
life-history traits of fathers and expression of 47 target genes in mothers and
offspring. Pregnant males originating from high salinity exposed to low salinity
were highly susceptible to opportunistic fungi infections resulting in decreased
offspring size and number. In contrast, no signs of fungal infection were identified
in fathers originating from low saline conditions suggesting that genetic adaptation
has the potential to overcome the challenges encountered at low salinity. Offspring
from parents with low saline origin survived better at low salinity suggesting
genetic adaptation to low salinity. In addition, gene expression analyses of juveniles
indicated patterns of local adaptation, trans-generational plasticity and developmental
plasticity. In conclusion, our study suggests that pipefish are locally adapted
to the low salinity in their environment, however, they are retaining phenotypic
plasticity, which allows them to also cope with ancestral salinity levels and
prevailing pathogens.
acknowledgement: We are grateful for the help of Kristina Dauven, Andreas Ebner, Janina
Röckner, and Paulina Urban for fish collection in the field and fish maintenance.
Furthermore, we thank Fabian Wendt for setting up the aquaria system and Tatjana
Liese, Paulina Urban, Jakob Gismann, and Thorsten Reusch for support with DNA extraction
and analysis of pipefish population structure. The authors acknowledge support of
Isabel Tanger, Agnes Piecyk, Jonas Müller, Grace Walls, Sebastian Albrecht, Julia
Böge, and Julia Stefanschitz for their support in preparing cDNA and running of
Fluidigm chips. A special thank goes to Diana Gill for general lab support, ordering
materials and just being the good spirit of our molecular lab, to Till Bayer for
bioinformatics support and to Melanie Heckwolf for fruitful discussion and feedback
on the manuscript. HG is very grateful for inspirational office space with ocean
view provided by Lisa Hentschel and family. This manuscript has been released as
a pre-print at BIORXIV.
article_number: '626442'
article_processing_charge: No
article_type: original
author:
- first_name: Henry
full_name: Goehlich, Henry
last_name: Goehlich
- first_name: Linda
full_name: Sartoris, Linda
id: 2B9284CA-F248-11E8-B48F-1D18A9856A87
last_name: Sartoris
- first_name: Kim-Sara
full_name: Wagner, Kim-Sara
last_name: Wagner
- first_name: Carolin C.
full_name: Wendling, Carolin C.
last_name: Wendling
- first_name: Olivia
full_name: Roth, Olivia
last_name: Roth
citation:
ama: Goehlich H, Sartoris L, Wagner K-S, Wendling CC, Roth O. Pipefish locally adapted
to low salinity in the Baltic Sea retain phenotypic plasticity to cope with ancestral
salinity levels. Frontiers in Ecology and Evolution. 2021;9. doi:10.3389/fevo.2021.626442
apa: Goehlich, H., Sartoris, L., Wagner, K.-S., Wendling, C. C., & Roth, O.
(2021). Pipefish locally adapted to low salinity in the Baltic Sea retain phenotypic
plasticity to cope with ancestral salinity levels. Frontiers in Ecology and
Evolution. Frontiers Media. https://doi.org/10.3389/fevo.2021.626442
chicago: Goehlich, Henry, Linda Sartoris, Kim-Sara Wagner, Carolin C. Wendling,
and Olivia Roth. “Pipefish Locally Adapted to Low Salinity in the Baltic Sea Retain
Phenotypic Plasticity to Cope with Ancestral Salinity Levels.” Frontiers in
Ecology and Evolution. Frontiers Media, 2021. https://doi.org/10.3389/fevo.2021.626442.
ieee: H. Goehlich, L. Sartoris, K.-S. Wagner, C. C. Wendling, and O. Roth, “Pipefish
locally adapted to low salinity in the Baltic Sea retain phenotypic plasticity
to cope with ancestral salinity levels,” Frontiers in Ecology and Evolution,
vol. 9. Frontiers Media, 2021.
ista: Goehlich H, Sartoris L, Wagner K-S, Wendling CC, Roth O. 2021. Pipefish locally
adapted to low salinity in the Baltic Sea retain phenotypic plasticity to cope
with ancestral salinity levels. Frontiers in Ecology and Evolution. 9, 626442.
mla: Goehlich, Henry, et al. “Pipefish Locally Adapted to Low Salinity in the Baltic
Sea Retain Phenotypic Plasticity to Cope with Ancestral Salinity Levels.” Frontiers
in Ecology and Evolution, vol. 9, 626442, Frontiers Media, 2021, doi:10.3389/fevo.2021.626442.
short: H. Goehlich, L. Sartoris, K.-S. Wagner, C.C. Wendling, O. Roth, Frontiers
in Ecology and Evolution 9 (2021).
date_created: 2021-12-20T07:53:19Z
date_published: 2021-03-25T00:00:00Z
date_updated: 2023-08-17T06:27:22Z
day: '25'
ddc:
- '597'
department:
- _id: SyCr
doi: 10.3389/fevo.2021.626442
external_id:
isi:
- '000637736300001'
file:
- access_level: open_access
checksum: 8d6e2b767bb0240a9b5a3a3555be51fd
content_type: application/pdf
creator: alisjak
date_created: 2021-12-20T10:44:20Z
date_updated: 2021-12-20T10:44:20Z
file_id: '10572'
file_name: 2021_Frontiers_Goehlich.pdf
file_size: 3175085
relation: main_file
success: 1
file_date_updated: 2021-12-20T10:44:20Z
has_accepted_license: '1'
intvolume: ' 9'
isi: 1
keyword:
- ecology
- evolution
- behavior and systematics
- trans-generational plasticity
- genetic adaptation
- local adaptation
- phenotypic plasticity
- Baltic Sea
- climate change
- salinity
- syngnathids
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
publication: Frontiers in Ecology and Evolution
publication_identifier:
issn:
- 2296-701X
publication_status: published
publisher: Frontiers Media
quality_controlled: '1'
scopus_import: '1'
status: public
title: Pipefish locally adapted to low salinity in the Baltic Sea retain phenotypic
plasticity to cope with ancestral salinity levels
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: 9
year: '2021'
...
---
_id: '10569'
abstract:
- lang: eng
text: 'For animals to survive until reproduction, it is crucial that juveniles successfully
detect potential predators and respond with appropriate behavior. The recognition
of cues originating from predators can be innate or learned. Cues of various modalities
might be used alone or in multi-modal combinations to detect and distinguish predators
but studies investigating multi-modal integration in predator avoidance are scarce.
Here, we used wild, naive tadpoles of the Neotropical poison frog Allobates femoralis
( Boulenger, 1884) to test their reaction to cues with two modalities from two
different sympatrically occurring potential predators: heterospecific predatory
Dendrobates tinctorius tadpoles and dragonfly larvae. We presented A. femoralis
tadpoles with olfactory or visual cues, or a combination of the two, and compared
their reaction to a water control in a between-individual design. In our trials,
A. femoralis tadpoles reacted to multi-modal stimuli (a combination of visual
and chemical information) originating from dragonfly larvae with avoidance but
showed no reaction to uni-modal cues or cues from heterospecific tadpoles. In
addition, visual cues from conspecifics increased swimming activity while cues
from predators had no effect on tadpole activity. Our results show that A. femoralis
tadpoles can innately recognize some predators and probably need both visual and
chemical information to effectively avoid them. This is the first study looking
at anti-predator behavior in poison frog tadpoles. We discuss how parental care
might influence the expression of predator avoidance responses in tadpoles.'
acknowledgement: We are grateful to Véronique Helfer, Walter Hödl, Lisa Schretzmeyer
and Julia Wotke, who assisted with fieldwork in French Guiana. This work was supported
by the Austrian Science Fund (FWF) [P24788, T699 and P31518 to E.R.; P33728 to M.R.;
J3827 to Thomas Bugnyar, Tecumseh Fitch and Ludwig Huber]; and by the Austrian Bundesministerium
für Wissenschaft, Forschung und Wirtschaft [IS761001 to J.O. (Tecumseh Fitch, Thomas
Bugnyar and Ludwig Huber)]. A.P. was supported by the European Union's Horizon 2020
research and innovation programme under the Marie Sklodowska-Curie grant agreement
no. 835530. S.A.R. was supported by the HT faculty, Lund University. We thank the
CNRS Nouragues Ecological Research Station, which benefited from the ‘Investissement
d'Avenir’ grants managed by the Agence Nationale de la Recherche (AnaEE France ANR-11-INBS-0001;
Labex CEBA ANR-10-LABX-25-01). Open access funding provided by University of Vienna.
Deposited in PMC for immediate release.
article_number: jeb243647
article_processing_charge: No
article_type: original
author:
- first_name: B
full_name: Szabo, B
last_name: Szabo
- first_name: R
full_name: Mangione, R
last_name: Mangione
- first_name: M
full_name: Rath, M
last_name: Rath
- first_name: A
full_name: Pašukonis, A
last_name: Pašukonis
- first_name: SA
full_name: Reber, SA
last_name: Reber
- first_name: Jinook
full_name: Oh, Jinook
id: 403169A4-080F-11EA-9993-BF3F3DDC885E
last_name: Oh
orcid: 0000-0001-7425-2372
- first_name: M
full_name: Ringler, M
last_name: Ringler
- first_name: E
full_name: Ringler, E
last_name: Ringler
citation:
ama: Szabo B, Mangione R, Rath M, et al. Naïve poison frog tadpoles use bi-modal
cues to avoid insect predators but not heterospecific predatory tadpoles. Journal
of Experimental Biology. 2021;224(24). doi:10.1242/jeb.243647
apa: Szabo, B., Mangione, R., Rath, M., Pašukonis, A., Reber, S., Oh, J., … Ringler,
E. (2021). Naïve poison frog tadpoles use bi-modal cues to avoid insect predators
but not heterospecific predatory tadpoles. Journal of Experimental Biology.
The Company of Biologists. https://doi.org/10.1242/jeb.243647
chicago: Szabo, B, R Mangione, M Rath, A Pašukonis, SA Reber, Jinook Oh, M Ringler,
and E Ringler. “Naïve Poison Frog Tadpoles Use Bi-Modal Cues to Avoid Insect Predators
but Not Heterospecific Predatory Tadpoles.” Journal of Experimental Biology.
The Company of Biologists, 2021. https://doi.org/10.1242/jeb.243647.
ieee: B. Szabo et al., “Naïve poison frog tadpoles use bi-modal cues to avoid
insect predators but not heterospecific predatory tadpoles,” Journal of Experimental
Biology, vol. 224, no. 24. The Company of Biologists, 2021.
ista: Szabo B, Mangione R, Rath M, Pašukonis A, Reber S, Oh J, Ringler M, Ringler
E. 2021. Naïve poison frog tadpoles use bi-modal cues to avoid insect predators
but not heterospecific predatory tadpoles. Journal of Experimental Biology. 224(24),
jeb243647.
mla: Szabo, B., et al. “Naïve Poison Frog Tadpoles Use Bi-Modal Cues to Avoid Insect
Predators but Not Heterospecific Predatory Tadpoles.” Journal of Experimental
Biology, vol. 224, no. 24, jeb243647, The Company of Biologists, 2021, doi:10.1242/jeb.243647.
short: B. Szabo, R. Mangione, M. Rath, A. Pašukonis, S. Reber, J. Oh, M. Ringler,
E. Ringler, Journal of Experimental Biology 224 (2021).
date_created: 2021-12-20T07:54:22Z
date_published: 2021-12-16T00:00:00Z
date_updated: 2023-08-17T06:26:15Z
day: '16'
ddc:
- '573'
department:
- _id: SyCr
doi: 10.1242/jeb.243647
external_id:
isi:
- '000738259300013'
pmid:
- '34845497'
file:
- access_level: open_access
checksum: 75d13a5ec8e3b90e3bc02bd8a9c17eef
content_type: application/pdf
creator: cchlebak
date_created: 2021-12-20T10:14:14Z
date_updated: 2021-12-20T10:14:14Z
file_id: '10571'
file_name: 2021_JExpBio_Szabo.pdf
file_size: 607096
relation: main_file
success: 1
file_date_updated: 2021-12-20T10:14:14Z
has_accepted_license: '1'
intvolume: ' 224'
isi: 1
issue: '24'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
publication: Journal of Experimental Biology
publication_identifier:
eissn:
- 1477-9145
issn:
- 0022-0949
publication_status: published
publisher: The Company of Biologists
quality_controlled: '1'
status: public
title: Naïve poison frog tadpoles use bi-modal cues to avoid insect predators but
not heterospecific predatory tadpoles
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: 224
year: '2021'
...
---
_id: '10573'
abstract:
- lang: eng
text: How tissues acquire complex shapes is a fundamental question in biology and
regenerative medicine. Zebrafish semicircular canals form from invaginations in
the otic epithelium (buds) that extend and fuse to form the hubs of each canal.
We find that conventional actomyosin-driven behaviors are not required. Instead,
local secretion of hyaluronan, made by the enzymes uridine 5′-diphosphate dehydrogenase
(ugdh) and hyaluronan synthase 3 (has3), drives canal morphogenesis. Charged hyaluronate
polymers osmotically swell with water and generate isotropic extracellular pressure
to deform the overlying epithelium into buds. The mechanical anisotropy needed
to shape buds into tubes is conferred by a polarized distribution of actomyosin
and E-cadherin-rich membrane tethers, which we term cytocinches. Most work on
tissue morphogenesis ascribes actomyosin contractility as the driving force, while
the extracellular matrix shapes tissues through differential stiffness. Our work
inverts this expectation. Hyaluronate pressure shaped by anisotropic tissue stiffness
may be a widespread mechanism for powering morphological change in organogenesis
and tissue engineering.
acknowledgement: We thank Ian Swinburne, Sandy Nandagopal, and Toru Kawanishi for
support, discussions, and reagents. We thank Vanessa Barone, Joseph Nasser, and
members of the Megason lab for useful comments on the manuscript and general feedback.
We are grateful to the Heisenberg and Knaut labs for transgenic fish. Diagrams on
the right in the graphical abstract were created using BioRender. This work was
supported by NIH R01DC015478 and NIH R01GM107733 to S.G.M. A.M. was supported by
Human Frontiers Science Program LTF and NIH K99HD098918.
article_processing_charge: No
article_type: original
author:
- first_name: Akankshi
full_name: Munjal, Akankshi
last_name: Munjal
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Tony Y.C.
full_name: Tsai, Tony Y.C.
last_name: Tsai
- first_name: Timothy J.
full_name: Mitchison, Timothy J.
last_name: Mitchison
- first_name: Sean G.
full_name: Megason, Sean G.
last_name: Megason
citation:
ama: Munjal A, Hannezo EB, Tsai TYC, Mitchison TJ, Megason SG. Extracellular hyaluronate
pressure shaped by cellular tethers drives tissue morphogenesis. Cell.
2021;184(26):6313-6325.e18. doi:10.1016/j.cell.2021.11.025
apa: Munjal, A., Hannezo, E. B., Tsai, T. Y. C., Mitchison, T. J., & Megason,
S. G. (2021). Extracellular hyaluronate pressure shaped by cellular tethers drives
tissue morphogenesis. Cell. Elsevier ; Cell Press. https://doi.org/10.1016/j.cell.2021.11.025
chicago: Munjal, Akankshi, Edouard B Hannezo, Tony Y.C. Tsai, Timothy J. Mitchison,
and Sean G. Megason. “Extracellular Hyaluronate Pressure Shaped by Cellular Tethers
Drives Tissue Morphogenesis.” Cell. Elsevier ; Cell Press, 2021. https://doi.org/10.1016/j.cell.2021.11.025.
ieee: A. Munjal, E. B. Hannezo, T. Y. C. Tsai, T. J. Mitchison, and S. G. Megason,
“Extracellular hyaluronate pressure shaped by cellular tethers drives tissue morphogenesis,”
Cell, vol. 184, no. 26. Elsevier ; Cell Press, p. 6313–6325.e18, 2021.
ista: Munjal A, Hannezo EB, Tsai TYC, Mitchison TJ, Megason SG. 2021. Extracellular
hyaluronate pressure shaped by cellular tethers drives tissue morphogenesis. Cell.
184(26), 6313–6325.e18.
mla: Munjal, Akankshi, et al. “Extracellular Hyaluronate Pressure Shaped by Cellular
Tethers Drives Tissue Morphogenesis.” Cell, vol. 184, no. 26, Elsevier ;
Cell Press, 2021, p. 6313–6325.e18, doi:10.1016/j.cell.2021.11.025.
short: A. Munjal, E.B. Hannezo, T.Y.C. Tsai, T.J. Mitchison, S.G. Megason, Cell
184 (2021) 6313–6325.e18.
date_created: 2021-12-26T23:01:26Z
date_published: 2021-12-22T00:00:00Z
date_updated: 2023-08-17T06:28:25Z
day: '22'
department:
- _id: EdHa
doi: 10.1016/j.cell.2021.11.025
external_id:
isi:
- '000735387500002'
intvolume: ' 184'
isi: 1
issue: '26'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.biorxiv.org/content/10.1101/2020.09.28.316042
month: '12'
oa: 1
oa_version: Preprint
page: 6313-6325.e18
publication: Cell
publication_identifier:
eissn:
- 1097-4172
issn:
- 0092-8674
publication_status: published
publisher: Elsevier ; Cell Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Extracellular hyaluronate pressure shaped by cellular tethers drives tissue
morphogenesis
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 184
year: '2021'
...
---
_id: '10574'
abstract:
- lang: eng
text: 'The understanding of material appearance perception is a complex problem
due to interactions between material reflectance, surface geometry, and illumination.
Recently, Serrano et al. collected the largest dataset to date with subjective
ratings of material appearance attributes, including glossiness, metallicness,
sharpness and contrast of reflections. In this work, we make use of their dataset
to investigate for the first time the impact of the interactions between illumination,
geometry, and eight different material categories in perceived appearance attributes.
After an initial analysis, we select for further analysis the four material categories
that cover the largest range for all perceptual attributes: fabric, plastic, ceramic,
and metal. Using a cumulative link mixed model (CLMM) for robust regression, we
discover interactions between these material categories and four representative
illuminations and object geometries. We believe that our findings contribute to
expanding the knowledge on material appearance perception and can be useful for
many applications, such as scene design, where any particular material in a given
shape can be aligned with dominant classes of illumination, so that a desired
strength of appearance attributes can be achieved.'
acknowledgement: This project has received funding from the European Union’s Horizon
2020 research and innovation programme under the Marie Sklodowska-Curie, grant agreement
N∘ 765911 (RealVision) and from the European Research Council (ERC), grant agreement
N∘ 804226 (PERDY). Open Access funding enabled and organized by Projekt DEAL.
article_processing_charge: Yes
article_type: original
author:
- first_name: Bin
full_name: Chen, Bin
last_name: Chen
- first_name: Chao
full_name: Wang, Chao
last_name: Wang
- first_name: Michael
full_name: Piovarci, Michael
id: 62E473F4-5C99-11EA-A40E-AF823DDC885E
last_name: Piovarci
orcid: 0000-0002-5062-4474
- first_name: Hans Peter
full_name: Seidel, Hans Peter
last_name: Seidel
- first_name: Piotr
full_name: Didyk, Piotr
last_name: Didyk
- first_name: Karol
full_name: Myszkowski, Karol
last_name: Myszkowski
- first_name: Ana
full_name: Serrano, Ana
last_name: Serrano
citation:
ama: Chen B, Wang C, Piovarci M, et al. The effect of geometry and illumination
on appearance perception of different material categories. Visual Computer.
2021;37(12):2975-2987. doi:10.1007/s00371-021-02227-x
apa: Chen, B., Wang, C., Piovarci, M., Seidel, H. P., Didyk, P., Myszkowski, K.,
& Serrano, A. (2021). The effect of geometry and illumination on appearance
perception of different material categories. Visual Computer. Springer
Nature. https://doi.org/10.1007/s00371-021-02227-x
chicago: Chen, Bin, Chao Wang, Michael Piovarci, Hans Peter Seidel, Piotr Didyk,
Karol Myszkowski, and Ana Serrano. “The Effect of Geometry and Illumination on
Appearance Perception of Different Material Categories.” Visual Computer.
Springer Nature, 2021. https://doi.org/10.1007/s00371-021-02227-x.
ieee: B. Chen et al., “The effect of geometry and illumination on appearance
perception of different material categories,” Visual Computer, vol. 37,
no. 12. Springer Nature, pp. 2975–2987, 2021.
ista: Chen B, Wang C, Piovarci M, Seidel HP, Didyk P, Myszkowski K, Serrano A. 2021.
The effect of geometry and illumination on appearance perception of different
material categories. Visual Computer. 37(12), 2975–2987.
mla: Chen, Bin, et al. “The Effect of Geometry and Illumination on Appearance Perception
of Different Material Categories.” Visual Computer, vol. 37, no. 12, Springer
Nature, 2021, pp. 2975–87, doi:10.1007/s00371-021-02227-x.
short: B. Chen, C. Wang, M. Piovarci, H.P. Seidel, P. Didyk, K. Myszkowski, A. Serrano,
Visual Computer 37 (2021) 2975–2987.
date_created: 2021-12-26T23:01:26Z
date_published: 2021-12-01T00:00:00Z
date_updated: 2023-08-17T06:29:34Z
day: '01'
ddc:
- '000'
department:
- _id: BeBi
doi: 10.1007/s00371-021-02227-x
external_id:
isi:
- '000673536600003'
file:
- access_level: open_access
checksum: 244cfcac0479ca6e3444c098ab2860a1
content_type: application/pdf
creator: cchlebak
date_created: 2021-12-27T13:51:08Z
date_updated: 2021-12-27T13:51:08Z
file_id: '10578'
file_name: 2021_VisComput_Chen.pdf
file_size: 5741094
relation: main_file
success: 1
file_date_updated: 2021-12-27T13:51:08Z
has_accepted_license: '1'
intvolume: ' 37'
isi: 1
issue: '12'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 2975-2987
publication: Visual Computer
publication_identifier:
eissn:
- 1432-2315
issn:
- 0178-2789
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: The effect of geometry and illumination on appearance perception of different
material categories
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: 37
year: '2021'
...
---
_id: '10575'
abstract:
- lang: eng
text: The choice of the boundary conditions in mechanical problems has to reflect
the interaction of the considered material with the surface. Still the assumption
of the no-slip condition is preferred in order to avoid boundary terms in the
analysis and slipping effects are usually overlooked. Besides the “static slip
models”, there are phenomena that are not accurately described by them, e.g. at
the moment when the slip changes rapidly, the wall shear stress and the slip can
exhibit a sudden overshoot and subsequent relaxation. When these effects become
significant, the so-called dynamic slip phenomenon occurs. We develop a mathematical
analysis of Navier–Stokes-like problems with a dynamic slip boundary condition,
which requires a proper generalization of the Gelfand triplet and the corresponding
function space setting.
acknowledgement: The research of A. Abbatiello is supported by Einstein Foundation,
Berlin. A. Abbatiello is also member of the Italian National Group for the Mathematical
Physics (GNFM) of INdAM. M. Bulíček acknowledges the support of the project No.
20-11027X financed by Czech Science Foundation (GACR). M. Bulíček is member of the
Jindřich Nečas Center for Mathematical Modelling. E. Maringová acknowledges support
from Charles University Research program UNCE/SCI/023, the grant SVV-2020-260583
by the Ministry of Education, Youth and Sports, Czech Republic and from the Austrian
Science Fund (FWF), grants P30000, W1245, and F65.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Anna
full_name: Abbatiello, Anna
last_name: Abbatiello
- first_name: Miroslav
full_name: Bulíček, Miroslav
last_name: Bulíček
- first_name: Erika
full_name: Maringová, Erika
id: dbabca31-66eb-11eb-963a-fb9c22c880b4
last_name: Maringová
citation:
ama: Abbatiello A, Bulíček M, Maringová E. On the dynamic slip boundary condition
for Navier-Stokes-like problems. Mathematical Models and Methods in Applied
Sciences. 2021;31(11):2165-2212. doi:10.1142/S0218202521500470
apa: Abbatiello, A., Bulíček, M., & Maringová, E. (2021). On the dynamic slip
boundary condition for Navier-Stokes-like problems. Mathematical Models and
Methods in Applied Sciences. World Scientific Publishing. https://doi.org/10.1142/S0218202521500470
chicago: Abbatiello, Anna, Miroslav Bulíček, and Erika Maringová. “On the Dynamic
Slip Boundary Condition for Navier-Stokes-like Problems.” Mathematical Models
and Methods in Applied Sciences. World Scientific Publishing, 2021. https://doi.org/10.1142/S0218202521500470.
ieee: A. Abbatiello, M. Bulíček, and E. Maringová, “On the dynamic slip boundary
condition for Navier-Stokes-like problems,” Mathematical Models and Methods
in Applied Sciences, vol. 31, no. 11. World Scientific Publishing, pp. 2165–2212,
2021.
ista: Abbatiello A, Bulíček M, Maringová E. 2021. On the dynamic slip boundary condition
for Navier-Stokes-like problems. Mathematical Models and Methods in Applied Sciences.
31(11), 2165–2212.
mla: Abbatiello, Anna, et al. “On the Dynamic Slip Boundary Condition for Navier-Stokes-like
Problems.” Mathematical Models and Methods in Applied Sciences, vol. 31,
no. 11, World Scientific Publishing, 2021, pp. 2165–212, doi:10.1142/S0218202521500470.
short: A. Abbatiello, M. Bulíček, E. Maringová, Mathematical Models and Methods
in Applied Sciences 31 (2021) 2165–2212.
date_created: 2021-12-26T23:01:27Z
date_published: 2021-10-13T00:00:00Z
date_updated: 2023-08-17T06:29:01Z
day: '13'
ddc:
- '510'
department:
- _id: JuFi
doi: 10.1142/S0218202521500470
external_id:
arxiv:
- '2009.09057'
isi:
- '000722309400001'
file:
- access_level: open_access
checksum: 8c0a9396335f0b70e1f5cbfe450a987a
content_type: application/pdf
creator: dernst
date_created: 2022-05-16T10:55:45Z
date_updated: 2022-05-16T10:55:45Z
file_id: '11385'
file_name: 2021_MathModelsMethods_Abbatiello.pdf
file_size: 795483
relation: main_file
success: 1
file_date_updated: 2022-05-16T10:55:45Z
has_accepted_license: '1'
intvolume: ' 31'
isi: 1
issue: '11'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '10'
oa: 1
oa_version: Published Version
page: 2165-2212
project:
- _id: fc31cba2-9c52-11eb-aca3-ff467d239cd2
grant_number: F6504
name: Taming Complexity in Partial Differential Systems
- _id: 260788DE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
name: Dissipation and Dispersion in Nonlinear Partial Differential Equations
publication: Mathematical Models and Methods in Applied Sciences
publication_identifier:
eissn:
- 1793-6314
issn:
- 0218-2025
publication_status: published
publisher: World Scientific Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the dynamic slip boundary condition for Navier-Stokes-like problems
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: 31
year: '2021'
...
---
_id: '10579'
abstract:
- lang: eng
text: 'We consider a totally asymmetric simple exclusion process (TASEP) consisting
of particles on a lattice that require binding by a "token" to move. Using a combination
of theory and simulations, we address the following questions: (i) How token binding
kinetics affects the current-density relation; (ii) How the current-density relation
depends on the scarcity of tokens; (iii) How tokens propagate the effects of the
locally-imposed disorder (such a slow site) over the entire lattice; (iv) How
a shared pool of tokens couples concurrent TASEPs running on multiple lattices;
(v) How our results translate to TASEPs with open boundaries that exchange particles
with the reservoir. Since real particle motion (including in systems that inspired
the standard TASEP model, e.g., protein synthesis or movement of molecular motors)
is often catalyzed, regulated, actuated, or otherwise mediated, the token-driven
TASEP dynamics analyzed in this paper should allow for a better understanding
of real systems and enable a closer match between TASEP theory and experimental
observations.'
acknowledgement: B.K. thanks Stefano Elefante, Simon Rella, and Michal Hledík for
their help with the usage of the cluster. B.K. additionally thanks Călin Guet and
his group for help and advice. We thank M. Hennessey-Wesen for constructive comments
on the manuscript. We thank Ankita Gupta (Indian Institute of Technology) for spotting
a typographical error in Eq. (49) in the preprint version of this paper.
article_number: '2112.13558'
article_processing_charge: No
arxiv: 1
author:
- first_name: Bor
full_name: Kavcic, Bor
id: 350F91D2-F248-11E8-B48F-1D18A9856A87
last_name: Kavcic
orcid: 0000-0001-6041-254X
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
citation:
ama: Kavcic B, Tkačik G. Token-driven totally asymmetric simple exclusion process.
arXiv. doi:10.48550/arXiv.2112.13558
apa: Kavcic, B., & Tkačik, G. (n.d.). Token-driven totally asymmetric simple
exclusion process. arXiv. https://doi.org/10.48550/arXiv.2112.13558
chicago: Kavcic, Bor, and Gašper Tkačik. “Token-Driven Totally Asymmetric Simple
Exclusion Process.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2112.13558.
ieee: B. Kavcic and G. Tkačik, “Token-driven totally asymmetric simple exclusion
process,” arXiv. .
ista: Kavcic B, Tkačik G. Token-driven totally asymmetric simple exclusion process.
arXiv, 2112.13558.
mla: Kavcic, Bor, and Gašper Tkačik. “Token-Driven Totally Asymmetric Simple Exclusion
Process.” ArXiv, 2112.13558, doi:10.48550/arXiv.2112.13558.
short: B. Kavcic, G. Tkačik, ArXiv (n.d.).
date_created: 2021-12-28T06:52:09Z
date_published: 2021-12-27T00:00:00Z
date_updated: 2023-05-03T10:54:05Z
day: '27'
ddc:
- '530'
department:
- _id: GaTk
doi: 10.48550/arXiv.2112.13558
external_id:
arxiv:
- '2112.13558'
has_accepted_license: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2112.13558
month: '12'
oa: 1
oa_version: Preprint
publication: arXiv
publication_status: submitted
status: public
title: Token-driven totally asymmetric simple exclusion process
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: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '10585'
abstract:
- lang: eng
text: Recently it was shown that anyons on the two-sphere naturally arise from a
system of molecular impurities exchanging angular momentum with a many-particle
bath (Phys. Rev. Lett. 126, 015301 (2021)). Here we further advance this approach
and rigorously demonstrate that in the experimentally realized regime the lowest
spectrum of two linear molecules immersed in superfluid helium corresponds to
the spectrum of two anyons on the sphere. We develop the formalism within the
framework of the recently experimentally observed angulon quasiparticle
acknowledgement: D. Lundholm acknowledges financial support from the Göran Gustafsson
Foundation (grant no. 1804).
article_number: '106'
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: Morris
full_name: Brooks, Morris
id: B7ECF9FC-AA38-11E9-AC9A-0930E6697425
last_name: Brooks
orcid: 0000-0002-6249-0928
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
- first_name: Douglas
full_name: Lundholm, Douglas
last_name: Lundholm
- first_name: Enderalp
full_name: Yakaboylu, Enderalp
id: 38CB71F6-F248-11E8-B48F-1D18A9856A87
last_name: Yakaboylu
orcid: 0000-0001-5973-0874
citation:
ama: Brooks M, Lemeshko M, Lundholm D, Yakaboylu E. Emergence of anyons on the two-sphere
in molecular impurities. Atoms. 2021;9(4). doi:10.3390/atoms9040106
apa: Brooks, M., Lemeshko, M., Lundholm, D., & Yakaboylu, E. (2021). Emergence
of anyons on the two-sphere in molecular impurities. Atoms. MDPI. https://doi.org/10.3390/atoms9040106
chicago: Brooks, Morris, Mikhail Lemeshko, Douglas Lundholm, and Enderalp Yakaboylu.
“Emergence of Anyons on the Two-Sphere in Molecular Impurities.” Atoms.
MDPI, 2021. https://doi.org/10.3390/atoms9040106.
ieee: M. Brooks, M. Lemeshko, D. Lundholm, and E. Yakaboylu, “Emergence of anyons
on the two-sphere in molecular impurities,” Atoms, vol. 9, no. 4. MDPI,
2021.
ista: Brooks M, Lemeshko M, Lundholm D, Yakaboylu E. 2021. Emergence of anyons on
the two-sphere in molecular impurities. Atoms. 9(4), 106.
mla: Brooks, Morris, et al. “Emergence of Anyons on the Two-Sphere in Molecular
Impurities.” Atoms, vol. 9, no. 4, 106, MDPI, 2021, doi:10.3390/atoms9040106.
short: M. Brooks, M. Lemeshko, D. Lundholm, E. Yakaboylu, Atoms 9 (2021).
date_created: 2022-01-02T23:01:33Z
date_published: 2021-12-02T00:00:00Z
date_updated: 2023-06-15T14:51:49Z
day: '02'
ddc:
- '530'
department:
- _id: MiLe
- _id: RoSe
doi: 10.3390/atoms9040106
external_id:
arxiv:
- '2108.06966'
file:
- access_level: open_access
checksum: d0e44b95f36c9e06724f66832af0f8c3
content_type: application/pdf
creator: alisjak
date_created: 2022-01-03T10:15:05Z
date_updated: 2022-01-03T10:15:05Z
file_id: '10592'
file_name: 2021_Atoms_Brooks.pdf
file_size: 303070
relation: main_file
success: 1
file_date_updated: 2022-01-03T10:15:05Z
has_accepted_license: '1'
intvolume: ' 9'
issue: '4'
keyword:
- anyons
- quasiparticles
- Quantum Hall Effect
- topological states of matter
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
publication: Atoms
publication_identifier:
eissn:
- 2218-2004
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Emergence of anyons on the two-sphere in molecular impurities
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: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2021'
...
---
_id: '10586'
abstract:
- lang: eng
text: A facile approach for developing an interfacial solar evaporator by heat localization
of solar-thermal energy conversion at water-air liquid composed by in-situ polymerization
of Fe2O3 nanoparticles (Fe2O3@PPy) deposited over a facial sponge is proposed.
The demonstrated system consists of a floating solar receiver having a vertically
cross-linked microchannel for wicking up saline water. The in situ polymerized
Fe2O3@PPy interfacial layer promotes diffuse reflection and its rough black surface
allows Omni-directional solar absorption (94%) and facilitates efficient thermal
localization at the water/air interface and offers a defect-rich surface to promote
heat localization (41.9 °C) and excellent thermal management due to cellulosic
content. The self-floating composite foam reveals continuous vapors generation
at a rate of 1.52 kg m−2 h−1 under one 1 kW m−2 and profound evaporating efficiency
(95%) without heat losses that dissipates in its surroundings. Indeed, long-term
evaporation experiments reveal the negligible disparity in continuous evaporation
rate (33.84 kg m−2/8.3 h) receiving two sun solar intensity, and ensures the stability
of the device under intense seawater conditions synchronized with excellent salt
rejection potential. More importantly, Raman spectroscopy investigation validates
the orange dye rejection via Fe2O3@PPy solar evaporator. The combined advantages
of high efficiency, self-floating capability, multimedia rejection, low cost,
and this configuration are promising for producing large-scale solar steam generating
systems appropriate for commercial clean water yield due to their scalable fabrication.
acknowledgement: The authors extend their appreciation to King Saud University for
funding this work through Researchers Supporting Project number (RSP-2021/387),
King Saud University, Riyadh, Saudi Arabia.
alternative_title:
- Hybrid and Composite Crystalline Materials
article_number: '1509'
article_processing_charge: No
article_type: original
author:
- first_name: Yuzheng
full_name: Lu, Yuzheng
last_name: Lu
- first_name: Naila
full_name: Arshad, Naila
last_name: Arshad
- first_name: Muhammad Sultan
full_name: Irshad, Muhammad Sultan
last_name: Irshad
- first_name: Iftikhar
full_name: Ahmed, Iftikhar
last_name: Ahmed
- first_name: Shafiq
full_name: Ahmad, Shafiq
last_name: Ahmad
- first_name: Lina Abdullah
full_name: Alshahrani, Lina Abdullah
last_name: Alshahrani
- first_name: Muhammad
full_name: Yousaf, Muhammad
last_name: Yousaf
- first_name: Abdelaty Edrees
full_name: Sayed, Abdelaty Edrees
last_name: Sayed
- first_name: Muhammad
full_name: Nauman, Muhammad
id: 32c21954-2022-11eb-9d5f-af9f93c24e71
last_name: Nauman
orcid: 0000-0002-2111-4846
citation:
ama: Lu Y, Arshad N, Irshad MS, et al. Fe2O3 nanoparticles deposited over self-floating
facial sponge for facile interfacial seawater solar desalination. Crystals.
2021;11(12). doi:10.3390/cryst11121509
apa: Lu, Y., Arshad, N., Irshad, M. S., Ahmed, I., Ahmad, S., Alshahrani, L. A.,
… Nauman, M. (2021). Fe2O3 nanoparticles deposited over self-floating facial sponge
for facile interfacial seawater solar desalination. Crystals. MDPI. https://doi.org/10.3390/cryst11121509
chicago: Lu, Yuzheng, Naila Arshad, Muhammad Sultan Irshad, Iftikhar Ahmed, Shafiq
Ahmad, Lina Abdullah Alshahrani, Muhammad Yousaf, Abdelaty Edrees Sayed, and Muhammad
Nauman. “Fe2O3 Nanoparticles Deposited over Self-Floating Facial Sponge for Facile
Interfacial Seawater Solar Desalination.” Crystals. MDPI, 2021. https://doi.org/10.3390/cryst11121509.
ieee: Y. Lu et al., “Fe2O3 nanoparticles deposited over self-floating facial
sponge for facile interfacial seawater solar desalination,” Crystals, vol.
11, no. 12. MDPI, 2021.
ista: Lu Y, Arshad N, Irshad MS, Ahmed I, Ahmad S, Alshahrani LA, Yousaf M, Sayed
AE, Nauman M. 2021. Fe2O3 nanoparticles deposited over self-floating facial sponge
for facile interfacial seawater solar desalination. Crystals. 11(12), 1509.
mla: Lu, Yuzheng, et al. “Fe2O3 Nanoparticles Deposited over Self-Floating Facial
Sponge for Facile Interfacial Seawater Solar Desalination.” Crystals, vol.
11, no. 12, 1509, MDPI, 2021, doi:10.3390/cryst11121509.
short: Y. Lu, N. Arshad, M.S. Irshad, I. Ahmed, S. Ahmad, L.A. Alshahrani, M. Yousaf,
A.E. Sayed, M. Nauman, Crystals 11 (2021).
date_created: 2022-01-02T23:01:34Z
date_published: 2021-12-03T00:00:00Z
date_updated: 2023-08-17T06:31:20Z
day: '03'
ddc:
- '620'
department:
- _id: KiMo
doi: 10.3390/cryst11121509
external_id:
isi:
- '000736602200001'
file:
- access_level: open_access
checksum: 668e9d777608ce0a3bc2e305133bd06b
content_type: application/pdf
creator: alisjak
date_created: 2022-01-03T09:46:53Z
date_updated: 2022-01-03T09:46:53Z
file_id: '10591'
file_name: 2021_Crystals_Yuzheng.pdf
file_size: 4569639
relation: main_file
success: 1
file_date_updated: 2022-01-03T09:46:53Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
issue: '12'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
publication: Crystals
publication_identifier:
eissn:
- 2073-4352
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Fe2O3 nanoparticles deposited over self-floating facial sponge for facile interfacial
seawater solar desalination
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: '10593'
abstract:
- lang: eng
text: 'We study the problem of estimating a rank-$1$ signal in the presence of rotationally
invariant noise-a class of perturbations more general than Gaussian noise. Principal
Component Analysis (PCA) provides a natural estimator, and sharp results on its
performance have been obtained in the high-dimensional regime. Recently, an Approximate
Message Passing (AMP) algorithm has been proposed as an alternative estimator
with the potential to improve the accuracy of PCA. However, the existing analysis
of AMP requires an initialization that is both correlated with the signal and
independent of the noise, which is often unrealistic in practice. In this work,
we combine the two methods, and propose to initialize AMP with PCA. Our main result
is a rigorous asymptotic characterization of the performance of this estimator.
Both the AMP algorithm and its analysis differ from those previously derived in
the Gaussian setting: at every iteration, our AMP algorithm requires a specific
term to account for PCA initialization, while in the Gaussian case, PCA initialization
affects only the first iteration of AMP. The proof is based on a two-phase artificial
AMP that first approximates the PCA estimator and then mimics the true AMP. Our
numerical simulations show an excellent agreement between AMP results and theoretical
predictions, and suggest an interesting open direction on achieving Bayes-optimal
performance.'
acknowledgement: "M. Mondelli would like to thank László Erdős for helpful discussions.
M. Mondelli was partially supported by the 2019 Lopez-Loreta Prize. R. Venkataramanan
was partially supported by the Alan Turing Institute under the EPSRC grant EP/N510129/1.\r\n"
article_processing_charge: No
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: Ramji
full_name: Venkataramanan, Ramji
last_name: Venkataramanan
citation:
ama: 'Mondelli M, Venkataramanan R. PCA initialization for approximate message passing
in rotationally invariant models. In: 35th Conference on Neural Information
Processing Systems. Vol 35. Neural Information Processing Systems Foundation;
2021:29616-29629.'
apa: 'Mondelli, M., & Venkataramanan, R. (2021). PCA initialization for approximate
message passing in rotationally invariant models. In 35th Conference on Neural
Information Processing Systems (Vol. 35, pp. 29616–29629). Virtual: Neural
Information Processing Systems Foundation.'
chicago: Mondelli, Marco, and Ramji Venkataramanan. “PCA Initialization for Approximate
Message Passing in Rotationally Invariant Models.” In 35th Conference on Neural
Information Processing Systems, 35:29616–29. Neural Information Processing
Systems Foundation, 2021.
ieee: M. Mondelli and R. Venkataramanan, “PCA initialization for approximate message
passing in rotationally invariant models,” in 35th Conference on Neural Information
Processing Systems, Virtual, 2021, vol. 35, pp. 29616–29629.
ista: 'Mondelli M, Venkataramanan R. 2021. PCA initialization for approximate message
passing in rotationally invariant models. 35th Conference on Neural Information
Processing Systems. NeurIPS: Neural Information Processing Systems vol. 35, 29616–29629.'
mla: Mondelli, Marco, and Ramji Venkataramanan. “PCA Initialization for Approximate
Message Passing in Rotationally Invariant Models.” 35th Conference on Neural
Information Processing Systems, vol. 35, Neural Information Processing Systems
Foundation, 2021, pp. 29616–29.
short: M. Mondelli, R. Venkataramanan, in:, 35th Conference on Neural Information
Processing Systems, Neural Information Processing Systems Foundation, 2021, pp.
29616–29629.
conference:
end_date: 2021-12-14
location: Virtual
name: 'NeurIPS: Neural Information Processing Systems'
start_date: 2021-12-06
date_created: 2022-01-03T10:50:02Z
date_published: 2021-12-01T00:00:00Z
date_updated: 2024-09-10T13:03:19Z
day: '01'
department:
- _id: MaMo
external_id:
arxiv:
- '2106.02356'
intvolume: ' 35'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2106.02356
month: '12'
oa: 1
oa_version: Preprint
page: 29616-29629
project:
- _id: 059876FA-7A3F-11EA-A408-12923DDC885E
name: Prix Lopez-Loretta 2019 - Marco Mondelli
publication: 35th Conference on Neural Information Processing Systems
publication_identifier:
isbn:
- '9781713845393'
issn:
- 1049-5258
publication_status: published
publisher: Neural Information Processing Systems Foundation
quality_controlled: '1'
scopus_import: '1'
status: public
title: PCA initialization for approximate message passing in rotationally invariant
models
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2021'
...
---
_id: '10594'
abstract:
- lang: eng
text: 'The question of how and why the phenomenon of mode connectivity occurs in
training deep neural networks has gained remarkable attention in the research
community. From a theoretical perspective, two possible explanations have been
proposed: (i) the loss function has connected sublevel sets, and (ii) the solutions
found by stochastic gradient descent are dropout stable. While these explanations
provide insights into the phenomenon, their assumptions are not always satisfied
in practice. In particular, the first approach requires the network to have one
layer with order of N neurons (N being the number of training samples), while
the second one requires the loss to be almost invariant after removing half of
the neurons at each layer (up to some rescaling of the remaining ones). In this
work, we improve both conditions by exploiting the quality of the features at
every intermediate layer together with a milder over-parameterization condition.
More specifically, we show that: (i) under generic assumptions on the features
of intermediate layers, it suffices that the last two hidden layers have order
of N−−√ neurons, and (ii) if subsets of features at each layer are linearly separable,
then no over-parameterization is needed to show the connectivity. Our experiments
confirm that the proposed condition ensures the connectivity of solutions found
by stochastic gradient descent, even in settings where the previous requirements
do not hold.'
acknowledgement: MM was partially supported by the 2019 Lopez-Loreta Prize. QN and
PB acknowledge support from the European Research Council (ERC) under the European
Union’s Horizon 2020 research and innovation programme (grant agreement no 757983).
article_processing_charge: No
arxiv: 1
author:
- first_name: Quynh
full_name: Nguyen, Quynh
last_name: Nguyen
- first_name: Pierre
full_name: Bréchet, Pierre
last_name: Bréchet
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
citation:
ama: 'Nguyen Q, Bréchet P, Mondelli M. When are solutions connected in deep networks?
In: 35th Conference on Neural Information Processing Systems. Vol 35. Neural
Information Processing Systems Foundation; 2021.'
apa: 'Nguyen, Q., Bréchet, P., & Mondelli, M. (2021). When are solutions connected
in deep networks? In 35th Conference on Neural Information Processing Systems
(Vol. 35). Virtual: Neural Information Processing Systems Foundation.'
chicago: Nguyen, Quynh, Pierre Bréchet, and Marco Mondelli. “When Are Solutions
Connected in Deep Networks?” In 35th Conference on Neural Information Processing
Systems, Vol. 35. Neural Information Processing Systems Foundation, 2021.
ieee: Q. Nguyen, P. Bréchet, and M. Mondelli, “When are solutions connected in deep
networks?,” in 35th Conference on Neural Information Processing Systems,
Virtual, 2021, vol. 35.
ista: Nguyen Q, Bréchet P, Mondelli M. 2021. When are solutions connected in deep
networks? 35th Conference on Neural Information Processing Systems. 35th Conference
on Neural Information Processing Systems vol. 35.
mla: Nguyen, Quynh, et al. “When Are Solutions Connected in Deep Networks?” 35th
Conference on Neural Information Processing Systems, vol. 35, Neural Information
Processing Systems Foundation, 2021.
short: Q. Nguyen, P. Bréchet, M. Mondelli, in:, 35th Conference on Neural Information
Processing Systems, Neural Information Processing Systems Foundation, 2021.
conference:
end_date: 2021-12-14
location: Virtual
name: 35th Conference on Neural Information Processing Systems
start_date: 2021-12-06
date_created: 2022-01-03T10:56:20Z
date_published: 2021-12-01T00:00:00Z
date_updated: 2024-09-10T13:03:19Z
day: '01'
department:
- _id: MaMo
external_id:
arxiv:
- '2102.09671'
intvolume: ' 35'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2102.09671
month: '12'
oa: 1
oa_version: Preprint
project:
- _id: 059876FA-7A3F-11EA-A408-12923DDC885E
name: Prix Lopez-Loretta 2019 - Marco Mondelli
publication: 35th Conference on Neural Information Processing Systems
publication_identifier:
isbn:
- '9781713845393'
issn:
- 1049-5258
publication_status: published
publisher: Neural Information Processing Systems Foundation
quality_controlled: '1'
status: public
title: When are solutions connected in deep networks?
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2021'
...
---
_id: '10595'
abstract:
- lang: eng
text: 'A recent line of work has analyzed the theoretical properties of deep neural
networks via the Neural Tangent Kernel (NTK). In particular, the smallest eigenvalue
of the NTK has been related to the memorization capacity, the global convergence
of gradient descent algorithms and the generalization of deep nets. However, existing
results either provide bounds in the two-layer setting or assume that the spectrum
of the NTK matrices is bounded away from 0 for multi-layer networks. In this paper,
we provide tight bounds on the smallest eigenvalue of NTK matrices for deep ReLU
nets, both in the limiting case of infinite widths and for finite widths. In the
finite-width setting, the network architectures we consider are fairly general:
we require the existence of a wide layer with roughly order of $N$ neurons, $N$
being the number of data samples; and the scaling of the remaining layer widths
is arbitrary (up to logarithmic factors). To obtain our results, we analyze various
quantities of independent interest: we give lower bounds on the smallest singular
value of hidden feature matrices, and upper bounds on the Lipschitz constant of
input-output feature maps.'
acknowledgement: "The authors would like to thank the anonymous reviewers for their
helpful comments. MM was partially supported\r\nby the 2019 Lopez-Loreta Prize.
QN and GM acknowledge support from the European Research Council (ERC) under\r\nthe
European Union’s Horizon 2020 research and innovation programme (grant agreement
no 757983)."
alternative_title:
- Proceedings of Machine Learning Research
article_processing_charge: No
arxiv: 1
author:
- first_name: Quynh
full_name: Nguyen, Quynh
last_name: Nguyen
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: Guido F
full_name: Montufar, Guido F
last_name: Montufar
citation:
ama: 'Nguyen Q, Mondelli M, Montufar GF. Tight bounds on the smallest eigenvalue
of the neural tangent kernel for deep ReLU networks. In: Meila M, Zhang T, eds.
Proceedings of the 38th International Conference on Machine Learning. Vol
139. ML Research Press; 2021:8119-8129.'
apa: 'Nguyen, Q., Mondelli, M., & Montufar, G. F. (2021). Tight bounds on the
smallest eigenvalue of the neural tangent kernel for deep ReLU networks. In M.
Meila & T. Zhang (Eds.), Proceedings of the 38th International Conference
on Machine Learning (Vol. 139, pp. 8119–8129). Virtual: ML Research Press.'
chicago: Nguyen, Quynh, Marco Mondelli, and Guido F Montufar. “Tight Bounds on the
Smallest Eigenvalue of the Neural Tangent Kernel for Deep ReLU Networks.” In Proceedings
of the 38th International Conference on Machine Learning, edited by Marina
Meila and Tong Zhang, 139:8119–29. ML Research Press, 2021.
ieee: Q. Nguyen, M. Mondelli, and G. F. Montufar, “Tight bounds on the smallest
eigenvalue of the neural tangent kernel for deep ReLU networks,” in Proceedings
of the 38th International Conference on Machine Learning, Virtual, 2021, vol.
139, pp. 8119–8129.
ista: 'Nguyen Q, Mondelli M, Montufar GF. 2021. Tight bounds on the smallest eigenvalue
of the neural tangent kernel for deep ReLU networks. Proceedings of the 38th International
Conference on Machine Learning. ICML: International Conference on Machine Learning,
Proceedings of Machine Learning Research, vol. 139, 8119–8129.'
mla: Nguyen, Quynh, et al. “Tight Bounds on the Smallest Eigenvalue of the Neural
Tangent Kernel for Deep ReLU Networks.” Proceedings of the 38th International
Conference on Machine Learning, edited by Marina Meila and Tong Zhang, vol.
139, ML Research Press, 2021, pp. 8119–29.
short: Q. Nguyen, M. Mondelli, G.F. Montufar, in:, M. Meila, T. Zhang (Eds.), Proceedings
of the 38th International Conference on Machine Learning, ML Research Press, 2021,
pp. 8119–8129.
conference:
end_date: 2021-07-24
location: Virtual
name: 'ICML: International Conference on Machine Learning'
start_date: 2021-07-18
date_created: 2022-01-03T10:57:49Z
date_published: 2021-01-01T00:00:00Z
date_updated: 2024-09-10T13:03:17Z
department:
- _id: MaMo
editor:
- first_name: Marina
full_name: Meila, Marina
last_name: Meila
- first_name: Tong
full_name: Zhang, Tong
last_name: Zhang
external_id:
arxiv:
- '2012.11654'
intvolume: ' 139'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://proceedings.mlr.press/v139/nguyen21g.html
oa: 1
oa_version: Published Version
page: 8119-8129
project:
- _id: 059876FA-7A3F-11EA-A408-12923DDC885E
name: Prix Lopez-Loretta 2019 - Marco Mondelli
publication: Proceedings of the 38th International Conference on Machine Learning
publication_status: published
publisher: ML Research Press
quality_controlled: '1'
status: public
title: Tight bounds on the smallest eigenvalue of the neural tangent kernel for deep
ReLU networks
type: conference
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 139
year: '2021'
...
---
_id: '10597'
abstract:
- lang: eng
text: We thank Emmanuel Abbe and Min Ye for providing us the implementation of RPA
decoding. D. Fathollahi and M. Mondelli are partially supported by the 2019 Lopez-Loreta
Prize. N. Farsad is supported by Discovery Grant from the Natural Sciences and
Engineering Research Council of Canada (NSERC) and Canada Foundation for Innovation
(CFI), John R. Evans Leader Fund. S. A. Hashemi is supported by a Postdoctoral
Fellowship from NSERC.
article_processing_charge: No
arxiv: 1
author:
- first_name: Dorsa
full_name: Fathollahi, Dorsa
last_name: Fathollahi
- first_name: Nariman
full_name: Farsad, Nariman
last_name: Farsad
- first_name: Seyyed Ali
full_name: Hashemi, Seyyed Ali
last_name: Hashemi
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
citation:
ama: 'Fathollahi D, Farsad N, Hashemi SA, Mondelli M. Sparse multi-decoder recursive
projection aggregation for Reed-Muller codes. In: 2021 IEEE International Symposium
on Information Theory. Institute of Electrical and Electronics Engineers;
2021:1082-1087. doi:10.1109/isit45174.2021.9517887'
apa: 'Fathollahi, D., Farsad, N., Hashemi, S. A., & Mondelli, M. (2021). Sparse
multi-decoder recursive projection aggregation for Reed-Muller codes. In 2021
IEEE International Symposium on Information Theory (pp. 1082–1087). Virtual,
Melbourne, Australia: Institute of Electrical and Electronics Engineers. https://doi.org/10.1109/isit45174.2021.9517887'
chicago: Fathollahi, Dorsa, Nariman Farsad, Seyyed Ali Hashemi, and Marco Mondelli.
“Sparse Multi-Decoder Recursive Projection Aggregation for Reed-Muller Codes.”
In 2021 IEEE International Symposium on Information Theory, 1082–87. Institute
of Electrical and Electronics Engineers, 2021. https://doi.org/10.1109/isit45174.2021.9517887.
ieee: D. Fathollahi, N. Farsad, S. A. Hashemi, and M. Mondelli, “Sparse multi-decoder
recursive projection aggregation for Reed-Muller codes,” in 2021 IEEE International
Symposium on Information Theory, Virtual, Melbourne, Australia, 2021, pp.
1082–1087.
ista: 'Fathollahi D, Farsad N, Hashemi SA, Mondelli M. 2021. Sparse multi-decoder
recursive projection aggregation for Reed-Muller codes. 2021 IEEE International
Symposium on Information Theory. ISIT: International Symposium on Information
Theory, 1082–1087.'
mla: Fathollahi, Dorsa, et al. “Sparse Multi-Decoder Recursive Projection Aggregation
for Reed-Muller Codes.” 2021 IEEE International Symposium on Information Theory,
Institute of Electrical and Electronics Engineers, 2021, pp. 1082–87, doi:10.1109/isit45174.2021.9517887.
short: D. Fathollahi, N. Farsad, S.A. Hashemi, M. Mondelli, in:, 2021 IEEE International
Symposium on Information Theory, Institute of Electrical and Electronics Engineers,
2021, pp. 1082–1087.
conference:
end_date: 2021-07-20
location: Virtual, Melbourne, Australia
name: 'ISIT: International Symposium on Information Theory'
start_date: 2021-07-12
date_created: 2022-01-03T11:31:26Z
date_published: 2021-09-01T00:00:00Z
date_updated: 2024-09-10T13:03:18Z
day: '01'
department:
- _id: MaMo
doi: 10.1109/isit45174.2021.9517887
external_id:
arxiv:
- '2011.12882'
isi:
- '000701502201029'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2011.12882
month: '09'
oa: 1
oa_version: Preprint
page: 1082-1087
project:
- _id: 059876FA-7A3F-11EA-A408-12923DDC885E
name: Prix Lopez-Loretta 2019 - Marco Mondelli
publication: 2021 IEEE International Symposium on Information Theory
publication_identifier:
eisbn:
- 978-1-5386-8209-8
isbn:
- 978-1-5386-8210-4
publication_status: published
publisher: Institute of Electrical and Electronics Engineers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Sparse multi-decoder recursive projection aggregation for Reed-Muller codes
type: conference
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
year: '2021'
...
---
_id: '10598'
abstract:
- lang: eng
text: ' We consider the problem of estimating a signal from measurements obtained
via a generalized linear model. We focus on estimators based on approximate message
passing (AMP), a family of iterative algorithms with many appealing features:
the performance of AMP in the high-dimensional limit can be succinctly characterized
under suitable model assumptions; AMP can also be tailored to the empirical distribution
of the signal entries, and for a wide class of estimation problems, AMP is conjectured
to be optimal among all polynomial-time algorithms. However, a major issue of
AMP is that in many models (such as phase retrieval), it requires an initialization
correlated with the ground-truth signal and independent from the measurement matrix.
Assuming that such an initialization is available is typically not realistic.
In this paper, we solve this problem by proposing an AMP algorithm initialized
with a spectral estimator. With such an initialization, the standard AMP analysis
fails since the spectral estimator depends in a complicated way on the design
matrix. Our main contribution is a rigorous characterization of the performance
of AMP with spectral initialization in the high-dimensional limit. The key technical
idea is to define and analyze a two-phase artificial AMP algorithm that first
produces the spectral estimator, and then closely approximates the iterates of
the true AMP. We also provide numerical results that demonstrate the validity
of the proposed approach. '
acknowledgement: The authors would like to thank Andrea Montanari for helpful discussions.
M. Mondelli was partially supported by the 2019 Lopez-Loreta Prize. R. Venkataramanan
was partially supported by the Alan Turing Institute under the EPSRC grant EP/N510129/1.
alternative_title:
- Proceedings of Machine Learning Research
article_processing_charge: Yes (via OA deal)
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: Ramji
full_name: Venkataramanan, Ramji
last_name: Venkataramanan
citation:
ama: 'Mondelli M, Venkataramanan R. Approximate message passing with spectral initialization
for generalized linear models. In: Banerjee A, Fukumizu K, eds. Proceedings
of The 24th International Conference on Artificial Intelligence and Statistics.
Vol 130. ML Research Press; 2021:397-405.'
apa: 'Mondelli, M., & Venkataramanan, R. (2021). Approximate message passing
with spectral initialization for generalized linear models. In A. Banerjee &
K. Fukumizu (Eds.), Proceedings of The 24th International Conference on Artificial
Intelligence and Statistics (Vol. 130, pp. 397–405). Virtual, San Diego, CA,
United States: ML Research Press.'
chicago: Mondelli, Marco, and Ramji Venkataramanan. “Approximate Message Passing
with Spectral Initialization for Generalized Linear Models.” In Proceedings
of The 24th International Conference on Artificial Intelligence and Statistics,
edited by Arindam Banerjee and Kenji Fukumizu, 130:397–405. ML Research Press,
2021.
ieee: M. Mondelli and R. Venkataramanan, “Approximate message passing with spectral
initialization for generalized linear models,” in Proceedings of The 24th International
Conference on Artificial Intelligence and Statistics, Virtual, San Diego,
CA, United States, 2021, vol. 130, pp. 397–405.
ista: 'Mondelli M, Venkataramanan R. 2021. Approximate message passing with spectral
initialization for generalized linear models. Proceedings of The 24th International
Conference on Artificial Intelligence and Statistics. AISTATS: Artificial Intelligence
and Statistics, Proceedings of Machine Learning Research, vol. 130, 397–405.'
mla: Mondelli, Marco, and Ramji Venkataramanan. “Approximate Message Passing with
Spectral Initialization for Generalized Linear Models.” Proceedings of The
24th International Conference on Artificial Intelligence and Statistics, edited
by Arindam Banerjee and Kenji Fukumizu, vol. 130, ML Research Press, 2021, pp.
397–405.
short: M. Mondelli, R. Venkataramanan, in:, A. Banerjee, K. Fukumizu (Eds.), Proceedings
of The 24th International Conference on Artificial Intelligence and Statistics,
ML Research Press, 2021, pp. 397–405.
conference:
end_date: 2021-04-15
location: Virtual, San Diego, CA, United States
name: 'AISTATS: Artificial Intelligence and Statistics'
start_date: 2021-04-13
date_created: 2022-01-03T11:34:22Z
date_published: 2021-04-01T00:00:00Z
date_updated: 2024-03-07T10:36:53Z
day: '01'
department:
- _id: MaMo
editor:
- first_name: Arindam
full_name: Banerjee, Arindam
last_name: Banerjee
- first_name: Kenji
full_name: Fukumizu, Kenji
last_name: Fukumizu
external_id:
arxiv:
- '2010.03460'
intvolume: ' 130'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://proceedings.mlr.press/v130/mondelli21a.html
month: '04'
oa: 1
oa_version: Preprint
page: 397-405
project:
- _id: 059876FA-7A3F-11EA-A408-12923DDC885E
name: Prix Lopez-Loretta 2019 - Marco Mondelli
publication: Proceedings of The 24th International Conference on Artificial Intelligence
and Statistics
publication_identifier:
issn:
- 2640-3498
publication_status: published
publisher: ML Research Press
quality_controlled: '1'
related_material:
record:
- id: '12480'
relation: later_version
status: public
scopus_import: '1'
status: public
title: Approximate message passing with spectral initialization for generalized linear
models
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 130
year: '2021'
...
---
_id: '10599'
abstract:
- lang: eng
text: A two-part successive syndrome-check decoding of polar codes is proposed with
the first part successively refining the received codeword and the second part
checking its syndrome. A new formulation of the successive-cancellation (SC) decoding
algorithm is presented that allows for successively refining the received codeword
by comparing the log-likelihood ratio value of a frozen bit with its predefined
value. The syndrome of the refined received codeword is then checked for possible
errors. In case there are no errors, the decoding process is terminated. Otherwise,
the decoder continues to refine the received codeword. The proposed method is
extended to the case of SC list (SCL) decoding by terminating the decoding process
when the syndrome of the best candidate in the list indicates no errors. Simulation
results show that the proposed method reduces the time-complexity of SC and SCL
decoders and their fast variants, especially at high signal-to-noise ratios.
acknowledgement: This work is supported in part by ONR grant N00014-18-1-2191. S.
A. Hashemi was supported by a Postdoctoral Fellowship from the Natural Sciences
and Engineering Research Council of Canada (NSERC) and by Huawei. M. Mondelli was
partially supported by the 2019 Lopez-Loreta Prize.
article_processing_charge: No
arxiv: 1
author:
- first_name: Seyyed Ali
full_name: Hashemi, Seyyed Ali
last_name: Hashemi
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: John
full_name: Cioffi, John
last_name: Cioffi
- first_name: Andrea
full_name: Goldsmith, Andrea
last_name: Goldsmith
citation:
ama: 'Hashemi SA, Mondelli M, Cioffi J, Goldsmith A. Successive syndrome-check decoding
of polar codes. In: Proceedings of the 55th Asilomar Conference on Signals,
Systems, and Computers. Vol 2021-October. Institute of Electrical and Electronics
Engineers; 2021:943-947. doi:10.1109/IEEECONF53345.2021.9723394'
apa: 'Hashemi, S. A., Mondelli, M., Cioffi, J., & Goldsmith, A. (2021). Successive
syndrome-check decoding of polar codes. In Proceedings of the 55th Asilomar
Conference on Signals, Systems, and Computers (Vol. 2021–October, pp. 943–947).
Virtual, Pacific Grove, CA, United States: Institute of Electrical and Electronics
Engineers. https://doi.org/10.1109/IEEECONF53345.2021.9723394'
chicago: Hashemi, Seyyed Ali, Marco Mondelli, John Cioffi, and Andrea Goldsmith.
“Successive Syndrome-Check Decoding of Polar Codes.” In Proceedings of the
55th Asilomar Conference on Signals, Systems, and Computers, 2021–October:943–47.
Institute of Electrical and Electronics Engineers, 2021. https://doi.org/10.1109/IEEECONF53345.2021.9723394.
ieee: S. A. Hashemi, M. Mondelli, J. Cioffi, and A. Goldsmith, “Successive syndrome-check
decoding of polar codes,” in Proceedings of the 55th Asilomar Conference on
Signals, Systems, and Computers, Virtual, Pacific Grove, CA, United States,
2021, vol. 2021–October, pp. 943–947.
ista: 'Hashemi SA, Mondelli M, Cioffi J, Goldsmith A. 2021. Successive syndrome-check
decoding of polar codes. Proceedings of the 55th Asilomar Conference on Signals,
Systems, and Computers. ACSSC: Asilomar Conference on Signals, Systems, and Computers
vol. 2021–October, 943–947.'
mla: Hashemi, Seyyed Ali, et al. “Successive Syndrome-Check Decoding of Polar Codes.”
Proceedings of the 55th Asilomar Conference on Signals, Systems, and Computers,
vol. 2021–October, Institute of Electrical and Electronics Engineers, 2021, pp.
943–47, doi:10.1109/IEEECONF53345.2021.9723394.
short: S.A. Hashemi, M. Mondelli, J. Cioffi, A. Goldsmith, in:, Proceedings of the
55th Asilomar Conference on Signals, Systems, and Computers, Institute of Electrical
and Electronics Engineers, 2021, pp. 943–947.
conference:
end_date: 2021-11-03
location: Virtual, Pacific Grove, CA, United States
name: 'ACSSC: Asilomar Conference on Signals, Systems, and Computers'
start_date: 2021-10-31
date_created: 2022-01-03T11:39:51Z
date_published: 2021-11-01T00:00:00Z
date_updated: 2024-09-10T13:03:17Z
day: '01'
department:
- _id: MaMo
doi: 10.1109/IEEECONF53345.2021.9723394
external_id:
arxiv:
- '2112.00057'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.48550/arXiv.2112.00057'
month: '11'
oa: 1
oa_version: Preprint
page: 943-947
project:
- _id: 059876FA-7A3F-11EA-A408-12923DDC885E
name: Prix Lopez-Loretta 2019 - Marco Mondelli
publication: Proceedings of the 55th Asilomar Conference on Signals, Systems, and
Computers
publication_identifier:
isbn:
- '9781665458283'
issn:
- 1058-6393
publication_status: published
publisher: Institute of Electrical and Electronics Engineers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Successive syndrome-check decoding of polar codes
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2021-October
year: '2021'
...
---
_id: '10606'
abstract:
- lang: eng
text: Cell division orientation is thought to result from a competition between
cell geometry and polarity domains controlling the position of the mitotic spindle
during mitosis. Depending on the level of cell shape anisotropy or the strength
of the polarity domain, one dominates the other and determines the orientation
of the spindle. Whether and how such competition is also at work to determine
unequal cell division (UCD), producing daughter cells of different size, remains
unclear. Here, we show that cell geometry and polarity domains cooperate, rather
than compete, in positioning the cleavage plane during UCDs in early ascidian
embryos. We found that the UCDs and their orientation at the ascidian third cleavage
rely on the spindle tilting in an anisotropic cell shape, and cortical polarity
domains exerting different effects on spindle astral microtubules. By systematically
varying mitotic cell shape, we could modulate the effect of attractive and repulsive
polarity domains and consequently generate predicted daughter cell size asymmetries
and position. We therefore propose that the spindle position during UCD is set
by the combined activities of cell geometry and polarity domains, where cell geometry
modulates the effect of cortical polarity domain(s).
acknowledged_ssus:
- _id: NanoFab
- _id: Bio
acknowledgement: 'We thank members of the Heisenberg and McDougall groups for technical
advice and discussion. We are grateful to the Bioimaging and Nanofabrication facilities
of IST Austria and the Imaging Platform (PIM) and animal facility (CRB) of Institut
de la Mer de Villefranche (IMEV), which is supported by EMBRC-France, whose French
state funds are managed by the ANR within the Investments of the Future program
under reference ANR-10-INBS-0, for continuous support. This work was supported by
a collaborative grant from the French Government funding agency Agence National
de la Recherche to McDougall (ANR ''MorCell'': ANR-17-CE 13-0028) and the Austrian
Science Fund to Heisenberg (FWF: I 3601-B27).'
article_number: e75639
article_processing_charge: No
article_type: original
author:
- first_name: Benoit G
full_name: Godard, Benoit G
id: 33280250-F248-11E8-B48F-1D18A9856A87
last_name: Godard
- first_name: Remi
full_name: Dumollard, Remi
last_name: Dumollard
- 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
- first_name: Alex
full_name: Mcdougall, Alex
last_name: Mcdougall
citation:
ama: Godard BG, Dumollard R, Heisenberg C-PJ, Mcdougall A. Combined effect of cell
geometry and polarity domains determines the orientation of unequal division.
eLife. 2021;10. doi:10.7554/eLife.75639
apa: Godard, B. G., Dumollard, R., Heisenberg, C.-P. J., & Mcdougall, A. (2021).
Combined effect of cell geometry and polarity domains determines the orientation
of unequal division. ELife. eLife Sciences Publications. https://doi.org/10.7554/eLife.75639
chicago: Godard, Benoit G, Remi Dumollard, Carl-Philipp J Heisenberg, and Alex Mcdougall.
“Combined Effect of Cell Geometry and Polarity Domains Determines the Orientation
of Unequal Division.” ELife. eLife Sciences Publications, 2021. https://doi.org/10.7554/eLife.75639.
ieee: B. G. Godard, R. Dumollard, C.-P. J. Heisenberg, and A. Mcdougall, “Combined
effect of cell geometry and polarity domains determines the orientation of unequal
division,” eLife, vol. 10. eLife Sciences Publications, 2021.
ista: Godard BG, Dumollard R, Heisenberg C-PJ, Mcdougall A. 2021. Combined effect
of cell geometry and polarity domains determines the orientation of unequal division.
eLife. 10, e75639.
mla: Godard, Benoit G., et al. “Combined Effect of Cell Geometry and Polarity Domains
Determines the Orientation of Unequal Division.” ELife, vol. 10, e75639,
eLife Sciences Publications, 2021, doi:10.7554/eLife.75639.
short: B.G. Godard, R. Dumollard, C.-P.J. Heisenberg, A. Mcdougall, ELife 10 (2021).
date_created: 2022-01-09T23:01:26Z
date_published: 2021-12-21T00:00:00Z
date_updated: 2023-08-17T06:32:44Z
day: '21'
ddc:
- '570'
department:
- _id: CaHe
doi: 10.7554/eLife.75639
external_id:
isi:
- '000733610100001'
file:
- access_level: open_access
checksum: 759c7a873d554c48a6639e6350746ca6
content_type: application/pdf
creator: alisjak
date_created: 2022-01-10T09:40:37Z
date_updated: 2022-01-10T09:40:37Z
file_id: '10611'
file_name: 2021_eLife_Godard.pdf
file_size: 7769934
relation: main_file
success: 1
file_date_updated: 2022-01-10T09:40:37Z
has_accepted_license: '1'
intvolume: ' 10'
isi: 1
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
project:
- _id: 2646861A-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03601
name: Control of embryonic cleavage pattern
publication: eLife
publication_identifier:
eissn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: Combined effect of cell geometry and polarity domains determines the orientation
of unequal division
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: '10607'
abstract:
- lang: eng
text: The evidence linking innate immunity mechanisms and neurodegenerative diseases
is growing, but the specific mechanisms are incompletely understood. Experimental
data suggest that microglial TLR4 mediates the uptake and clearance of α-synuclein
also termed synucleinophagy. The accumulation of misfolded α-synuclein throughout
the brain is central to Parkinson's disease (PD). The distribution and progression
of the pathology is often attributed to the propagation of α-synuclein. Here,
we apply a classical α-synuclein propagation model of prodromal PD in wild type
and TLR4 deficient mice to study the role of TLR4 in the progression of the disease.
Our data suggest that TLR4 deficiency facilitates the α-synuclein seed spreading
associated with reduced lysosomal activity of microglia. Three months after seed
inoculation, more pronounced proteinase K-resistant α-synuclein inclusion pathology
is observed in mice with TLR4 deficiency. The facilitated propagation of α-synuclein
is associated with early loss of dopamine transporter (DAT) signal in the striatum
and loss of dopaminergic neurons in substantia nigra pars compacta of TLR4 deficient
mice. These new results support TLR4 signaling as a putative target for disease
modification to slow the progression of PD and related disorders.
acknowledgement: This study was supported by grants of the Austrian Science Fund (FWF)
F4414 and W1206-08. Electron microscopy was performed at the Scientific Service
Units (SSU) of IST-Austria through resources provided by the Electron Microscopy
Facility.
article_processing_charge: No
article_type: original
author:
- first_name: Serena
full_name: Venezia, Serena
last_name: Venezia
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Gregor K.
full_name: Wenning, Gregor K.
last_name: Wenning
- first_name: Nadia
full_name: Stefanova, Nadia
last_name: Stefanova
citation:
ama: Venezia S, Kaufmann W, Wenning GK, Stefanova N. Toll-like receptor 4 deficiency
facilitates α-synuclein propagation and neurodegeneration in a mouse model of
prodromal Parkinson’s disease. Parkinsonism & Related Disorders. 2021;91:59-65.
doi:10.1016/j.parkreldis.2021.09.007
apa: Venezia, S., Kaufmann, W., Wenning, G. K., & Stefanova, N. (2021). Toll-like
receptor 4 deficiency facilitates α-synuclein propagation and neurodegeneration
in a mouse model of prodromal Parkinson’s disease. Parkinsonism & Related
Disorders. Elsevier. https://doi.org/10.1016/j.parkreldis.2021.09.007
chicago: Venezia, Serena, Walter Kaufmann, Gregor K. Wenning, and Nadia Stefanova.
“Toll-like Receptor 4 Deficiency Facilitates α-Synuclein Propagation and Neurodegeneration
in a Mouse Model of Prodromal Parkinson’s Disease.” Parkinsonism & Related
Disorders. Elsevier, 2021. https://doi.org/10.1016/j.parkreldis.2021.09.007.
ieee: S. Venezia, W. Kaufmann, G. K. Wenning, and N. Stefanova, “Toll-like receptor
4 deficiency facilitates α-synuclein propagation and neurodegeneration in a mouse
model of prodromal Parkinson’s disease,” Parkinsonism & Related Disorders,
vol. 91. Elsevier, pp. 59–65, 2021.
ista: Venezia S, Kaufmann W, Wenning GK, Stefanova N. 2021. Toll-like receptor 4
deficiency facilitates α-synuclein propagation and neurodegeneration in a mouse
model of prodromal Parkinson’s disease. Parkinsonism & Related Disorders.
91, 59–65.
mla: Venezia, Serena, et al. “Toll-like Receptor 4 Deficiency Facilitates α-Synuclein
Propagation and Neurodegeneration in a Mouse Model of Prodromal Parkinson’s Disease.”
Parkinsonism & Related Disorders, vol. 91, Elsevier, 2021, pp. 59–65,
doi:10.1016/j.parkreldis.2021.09.007.
short: S. Venezia, W. Kaufmann, G.K. Wenning, N. Stefanova, Parkinsonism & Related
Disorders 91 (2021) 59–65.
date_created: 2022-01-09T23:01:26Z
date_published: 2021-10-01T00:00:00Z
date_updated: 2023-08-17T06:36:01Z
day: '01'
ddc:
- '610'
department:
- _id: EM-Fac
doi: 10.1016/j.parkreldis.2021.09.007
external_id:
isi:
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pmid:
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title: Toll-like receptor 4 deficiency facilitates α-synuclein propagation and neurodegeneration
in a mouse model of prodromal Parkinson's disease
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...