---
_id: '12274'
abstract:
- lang: eng
text: The morphology and functionality of the epithelial lining differ along the
intestinal tract, but tissue renewal at all sites is driven by stem cells at the
base of crypts1,2,3. Whether stem cell numbers and behaviour vary at different
sites is unknown. Here we show using intravital microscopy that, despite similarities
in the number and distribution of proliferative cells with an Lgr5 signature in
mice, small intestinal crypts contain twice as many effective stem cells as large
intestinal crypts. We find that, although passively displaced by a conveyor-belt-like
upward movement, small intestinal cells positioned away from the crypt base can
function as long-term effective stem cells owing to Wnt-dependent retrograde cellular
movement. By contrast, the near absence of retrograde movement in the large intestine
restricts cell repositioning, leading to a reduction in effective stem cell number.
Moreover, after suppression of the retrograde movement in the small intestine,
the number of effective stem cells is reduced, and the rate of monoclonal conversion
of crypts is accelerated. Together, these results show that the number of effective
stem cells is determined by active retrograde movement, revealing a new channel
of stem cell regulation that can be experimentally and pharmacologically manipulated.
acknowledgement: We thank the members of the van Rheenen laboratory for reading the
manuscript, and the members of the bioimaging, FACS and animal facility of the NKI
for experimental support. We acknowledge the staff at the MedH Flow Cytometry core
facility, Karolinska Institutet, and LCI facility/Nikon Center of Excellence, Karolinska
Institutet. This work was financially supported by the Netherlands Organization
of Scientific Research NWO (Veni grant 863.15.011 to S.I.J.E. and Vici grant 09150182110004
to J.v.R.) and the CancerGenomics.nl (Netherlands Organisation for Scientific Research)
program (to J.v.R.) the Doctor Josef Steiner Foundation (to J.v.R). B.D.S. acknowledges
funding from the Royal Society E.P. Abraham Research Professorship (RP\R1\180165)
and the Wellcome Trust (098357/Z/12/Z and 219478/Z/19/Z). B.C.-M. acknowledges the
support of the field of excellence ‘Complexity of life in basic research and innovation’
of the University of Graz. O.J.S. and their laboratory acknowledge CRUK core funding
to the CRUK Beatson Institute (A17196 and A31287) and CRUK core funding to the Sansom
laboratory (A21139). P.K. and their laboratory are supported by grants from the
Swedish Research Council (2018-03078), Cancerfonden (190634), Academy of Finland
Centre of Excellence (266869, 304591 and 320185) and the Jane and Aatos Erkko Foundation.
P.L. has received funding from the European Research Council (ERC) under the European
Union’s Horizon 2020 research and innovation programme (grant agreement no. 758617).
E.H. acknowledges funding from the European Research Council (ERC) under the European
Union’s Horizon 2020 research and innovation programme (grant agreement no. 851288).
article_processing_charge: No
article_type: original
author:
- first_name: Maria
full_name: Azkanaz, Maria
last_name: Azkanaz
- first_name: Bernat
full_name: Corominas-Murtra, Bernat
id: 43BE2298-F248-11E8-B48F-1D18A9856A87
last_name: Corominas-Murtra
orcid: 0000-0001-9806-5643
- first_name: Saskia I. J.
full_name: Ellenbroek, Saskia I. J.
last_name: Ellenbroek
- first_name: Lotte
full_name: Bruens, Lotte
last_name: Bruens
- first_name: Anna T.
full_name: Webb, Anna T.
last_name: Webb
- first_name: Dimitrios
full_name: Laskaris, Dimitrios
last_name: Laskaris
- first_name: Koen C.
full_name: Oost, Koen C.
last_name: Oost
- first_name: Simona J. A.
full_name: Lafirenze, Simona J. A.
last_name: Lafirenze
- first_name: Karl
full_name: Annusver, Karl
last_name: Annusver
- first_name: Hendrik A.
full_name: Messal, Hendrik A.
last_name: Messal
- first_name: Sharif
full_name: Iqbal, Sharif
last_name: Iqbal
- first_name: Dustin J.
full_name: Flanagan, Dustin J.
last_name: Flanagan
- first_name: David J.
full_name: Huels, David J.
last_name: Huels
- first_name: Felipe
full_name: Rojas-Rodríguez, Felipe
last_name: Rojas-Rodríguez
- first_name: Miguel
full_name: Vizoso, Miguel
last_name: Vizoso
- first_name: Maria
full_name: Kasper, Maria
last_name: Kasper
- first_name: Owen J.
full_name: Sansom, Owen J.
last_name: Sansom
- first_name: Hugo J.
full_name: Snippert, Hugo J.
last_name: Snippert
- first_name: Prisca
full_name: Liberali, Prisca
last_name: Liberali
- first_name: Benjamin D.
full_name: Simons, Benjamin D.
last_name: Simons
- first_name: Pekka
full_name: Katajisto, Pekka
last_name: Katajisto
- 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: Jacco
full_name: van Rheenen, Jacco
last_name: van Rheenen
citation:
ama: Azkanaz M, Corominas-Murtra B, Ellenbroek SIJ, et al. Retrograde movements
determine effective stem cell numbers in the intestine. Nature. 2022;607(7919):548-554.
doi:10.1038/s41586-022-04962-0
apa: Azkanaz, M., Corominas-Murtra, B., Ellenbroek, S. I. J., Bruens, L., Webb,
A. T., Laskaris, D., … van Rheenen, J. (2022). Retrograde movements determine
effective stem cell numbers in the intestine. Nature. Springer Nature.
https://doi.org/10.1038/s41586-022-04962-0
chicago: Azkanaz, Maria, Bernat Corominas-Murtra, Saskia I. J. Ellenbroek, Lotte
Bruens, Anna T. Webb, Dimitrios Laskaris, Koen C. Oost, et al. “Retrograde Movements
Determine Effective Stem Cell Numbers in the Intestine.” Nature. Springer
Nature, 2022. https://doi.org/10.1038/s41586-022-04962-0.
ieee: M. Azkanaz et al., “Retrograde movements determine effective stem cell
numbers in the intestine,” Nature, vol. 607, no. 7919. Springer Nature,
pp. 548–554, 2022.
ista: Azkanaz M, Corominas-Murtra B, Ellenbroek SIJ, Bruens L, Webb AT, Laskaris
D, Oost KC, Lafirenze SJA, Annusver K, Messal HA, Iqbal S, Flanagan DJ, Huels
DJ, Rojas-Rodríguez F, Vizoso M, Kasper M, Sansom OJ, Snippert HJ, Liberali P,
Simons BD, Katajisto P, Hannezo EB, van Rheenen J. 2022. Retrograde movements
determine effective stem cell numbers in the intestine. Nature. 607(7919), 548–554.
mla: Azkanaz, Maria, et al. “Retrograde Movements Determine Effective Stem Cell
Numbers in the Intestine.” Nature, vol. 607, no. 7919, Springer Nature,
2022, pp. 548–54, doi:10.1038/s41586-022-04962-0.
short: M. Azkanaz, B. Corominas-Murtra, S.I.J. Ellenbroek, L. Bruens, A.T. Webb,
D. Laskaris, K.C. Oost, S.J.A. Lafirenze, K. Annusver, H.A. Messal, S. Iqbal,
D.J. Flanagan, D.J. Huels, F. Rojas-Rodríguez, M. Vizoso, M. Kasper, O.J. Sansom,
H.J. Snippert, P. Liberali, B.D. Simons, P. Katajisto, E.B. Hannezo, J. van Rheenen,
Nature 607 (2022) 548–554.
date_created: 2023-01-16T10:01:29Z
date_published: 2022-07-13T00:00:00Z
date_updated: 2023-10-03T11:16:30Z
day: '13'
department:
- _id: EdHa
doi: 10.1038/s41586-022-04962-0
ec_funded: 1
external_id:
isi:
- '000824430000004'
pmid:
- '35831497'
intvolume: ' 607'
isi: 1
issue: '7919'
keyword:
- Multidisciplinary
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://helda.helsinki.fi/items/94433455-4854-45c0-9de8-7326caea8780
month: '07'
oa: 1
oa_version: Submitted Version
page: 548-554
pmid: 1
project:
- _id: 05943252-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '851288'
name: Design Principles of Branching Morphogenesis
publication: Nature
publication_identifier:
eissn:
- 1476-4687
issn:
- 0028-0836
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/JaccovanRheenenLab/Retrograde_movement_Azkanaz_Nature_2022
scopus_import: '1'
status: public
title: Retrograde movements determine effective stem cell numbers in the intestine
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 607
year: '2022'
...
---
_id: '12275'
abstract:
- lang: eng
text: N-glycans are molecularly diverse sugars borne by over 70% of proteins transiting
the secretory pathway and have been implicated in protein folding, stability,
and localization. Mutations in genes important for N-glycosylation result in congenital
disorders of glycosylation that are often associated with intellectual disability.
Here, we show that structurally distinct N-glycans regulate an extracellular protein
complex involved in the patterning of somatosensory dendrites in Caenorhabditis
elegans. Specifically, aman-2/Golgi alpha-mannosidase II, a conserved key enzyme
in the biosynthesis of specific N-glycans, regulates the activity of the Menorin
adhesion complex without obviously affecting the protein stability and localization
of its components. AMAN-2 functions cell-autonomously to allow for decoration
of the neuronal transmembrane receptor DMA-1/LRR-TM with the correct set of high-mannose/hybrid/paucimannose
N-glycans. Moreover, distinct types of N-glycans on specific N-glycosylation sites
regulate DMA-1/LRR-TM receptor function, which, together with three other extracellular
proteins, forms the Menorin adhesion complex. In summary, specific N-glycan structures
regulate dendrite patterning by coordinating the activity of an extracellular
adhesion complex, suggesting that the molecular diversity of N-glycans can contribute
to developmental specificity in the nervous system.
acknowledgement: 'We thank Scott Garforth, Sarah Garrett, Peri Kurshan, Yehuda Salzberg,
PamelaStanley, Robert Townley, and members of the B€ulow laboratory for commentson
the manuscript or helpful discussions during the course of this work. Wethank David
Miller, Shohei Mitani, Kang Shen, and Iain Wilson for reagents,and Yuji Kohara for
theyk11g705cDNA clone. We are grateful to MeeraTrivedi for sharing thedzIs117strain
prior to publication. Some strains wereprovided by the Caenorhabditis Genome Center
(funded by the NIH Office ofResearch Infrastructure Programs P40OD010440). This
work was supportedby grants from the National Institute of Health (NIH): R01NS096672andR21NS111145to
HEB; F31NS100370to MR; T32GM007288and F31HD066967to CADB; P30HD071593to Albert Einstein
College of Medicine. We acknowl-edge support to MR by the Department of Neuroscience.
NJRS was the recipi-ent of a Colciencias-Fulbright Fellowship and HEB of an Irma
T. Hirschl/Monique Weill-Caulier research fellowship'
article_number: e54163
article_processing_charge: No
article_type: original
author:
- first_name: Maisha
full_name: Rahman, Maisha
last_name: Rahman
- first_name: Nelson
full_name: Ramirez, Nelson
id: 39831956-E4FE-11E9-85DE-0DC7E5697425
last_name: Ramirez
- first_name: Carlos A
full_name: Diaz‐Balzac, Carlos A
last_name: Diaz‐Balzac
- first_name: Hannes E
full_name: Bülow, Hannes E
last_name: Bülow
citation:
ama: Rahman M, Ramirez N, Diaz‐Balzac CA, Bülow HE. Specific N-glycans regulate
an extracellular adhesion complex during somatosensory dendrite patterning. EMBO
Reports. 2022;23(7). doi:10.15252/embr.202154163
apa: Rahman, M., Ramirez, N., Diaz‐Balzac, C. A., & Bülow, H. E. (2022). Specific
N-glycans regulate an extracellular adhesion complex during somatosensory dendrite
patterning. EMBO Reports. Embo Press. https://doi.org/10.15252/embr.202154163
chicago: Rahman, Maisha, Nelson Ramirez, Carlos A Diaz‐Balzac, and Hannes E Bülow.
“Specific N-Glycans Regulate an Extracellular Adhesion Complex during Somatosensory
Dendrite Patterning.” EMBO Reports. Embo Press, 2022. https://doi.org/10.15252/embr.202154163.
ieee: M. Rahman, N. Ramirez, C. A. Diaz‐Balzac, and H. E. Bülow, “Specific N-glycans
regulate an extracellular adhesion complex during somatosensory dendrite patterning,”
EMBO Reports, vol. 23, no. 7. Embo Press, 2022.
ista: Rahman M, Ramirez N, Diaz‐Balzac CA, Bülow HE. 2022. Specific N-glycans regulate
an extracellular adhesion complex during somatosensory dendrite patterning. EMBO
Reports. 23(7), e54163.
mla: Rahman, Maisha, et al. “Specific N-Glycans Regulate an Extracellular Adhesion
Complex during Somatosensory Dendrite Patterning.” EMBO Reports, vol. 23,
no. 7, e54163, Embo Press, 2022, doi:10.15252/embr.202154163.
short: M. Rahman, N. Ramirez, C.A. Diaz‐Balzac, H.E. Bülow, EMBO Reports 23 (2022).
date_created: 2023-01-16T10:01:44Z
date_published: 2022-07-05T00:00:00Z
date_updated: 2023-10-03T11:25:54Z
day: '05'
department:
- _id: MaDe
doi: 10.15252/embr.202154163
external_id:
isi:
- '000797302700001'
pmid:
- '35586945'
has_accepted_license: '1'
intvolume: ' 23'
isi: 1
issue: '7'
keyword:
- Genetics
- Molecular Biology
- Biochemistry
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.15252/embr.202154163
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
publication: EMBO Reports
publication_identifier:
eissn:
- 1469-3178
issn:
- 1469-221X
publication_status: published
publisher: Embo Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Specific N-glycans regulate an extracellular adhesion complex during somatosensory
dendrite patterning
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 23
year: '2022'
...
---
_id: '12276'
abstract:
- lang: eng
text: Ongoing development of quantum simulators allows for a progressively finer
degree of control of quantum many-body systems. This motivates the development
of efficient approaches to facilitate the control of such systems and enable the
preparation of nontrivial quantum states. Here we formulate an approach to control
quantum systems based on matrix product states (MPSs). We compare counterdiabatic
and leakage minimization approaches to the so-called local steering problem that
consists in finding the best value of the control parameters for generating a
unitary evolution of the specific MPS in a given direction. In order to benchmark
the different approaches, we apply them to the generalization of the PXP model
known to exhibit coherent quantum dynamics due to quantum many-body scars. We
find that the leakage-based approach generally outperforms the counterdiabatic
framework and use it to construct a Floquet model with quantum scars. We perform
the first steps towards global trajectory optimization and demonstrate entanglement
steering capabilities in the generalized PXP model. Finally, we apply our leakage
minimization approach to construct quantum scars in the periodically driven nonintegrable
Ising model.
acknowledgement: We thank A. A. Michailidis for insightful discussions. M.L. and M.S.
acknowledge support from the European Research Council (ERC) under the European
Union’s Horizon 2020 research and innovation programme (Grant Agreement No. 850899).
D.A. is supported by the European Research Council (ERC) under the European Union’s
Horizon 2020 research and innovation programme (Grant Agreement No. 864597) and
by the Swiss National Science Foundation. The infinite TEBD simulations were performed
using the ITensor library [67].
article_number: '030343'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Marko
full_name: Ljubotina, Marko
id: F75EE9BE-5C90-11EA-905D-16643DDC885E
last_name: Ljubotina
- first_name: Barbara
full_name: Roos, Barbara
id: 5DA90512-D80F-11E9-8994-2E2EE6697425
last_name: Roos
orcid: 0000-0002-9071-5880
- first_name: Dmitry A.
full_name: Abanin, Dmitry A.
last_name: Abanin
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
citation:
ama: Ljubotina M, Roos B, Abanin DA, Serbyn M. Optimal steering of matrix product
states and quantum many-body scars. PRX Quantum. 2022;3(3). doi:10.1103/prxquantum.3.030343
apa: Ljubotina, M., Roos, B., Abanin, D. A., & Serbyn, M. (2022). Optimal steering
of matrix product states and quantum many-body scars. PRX Quantum. American
Physical Society. https://doi.org/10.1103/prxquantum.3.030343
chicago: Ljubotina, Marko, Barbara Roos, Dmitry A. Abanin, and Maksym Serbyn. “Optimal
Steering of Matrix Product States and Quantum Many-Body Scars.” PRX Quantum.
American Physical Society, 2022. https://doi.org/10.1103/prxquantum.3.030343.
ieee: M. Ljubotina, B. Roos, D. A. Abanin, and M. Serbyn, “Optimal steering of matrix
product states and quantum many-body scars,” PRX Quantum, vol. 3, no. 3.
American Physical Society, 2022.
ista: Ljubotina M, Roos B, Abanin DA, Serbyn M. 2022. Optimal steering of matrix
product states and quantum many-body scars. PRX Quantum. 3(3), 030343.
mla: Ljubotina, Marko, et al. “Optimal Steering of Matrix Product States and Quantum
Many-Body Scars.” PRX Quantum, vol. 3, no. 3, 030343, American Physical
Society, 2022, doi:10.1103/prxquantum.3.030343.
short: M. Ljubotina, B. Roos, D.A. Abanin, M. Serbyn, PRX Quantum 3 (2022).
date_created: 2023-01-16T10:01:56Z
date_published: 2022-09-23T00:00:00Z
date_updated: 2023-01-30T11:05:23Z
day: '23'
ddc:
- '530'
department:
- _id: MaSe
- _id: RoSe
doi: 10.1103/prxquantum.3.030343
ec_funded: 1
external_id:
arxiv:
- '2204.02899'
file:
- access_level: open_access
checksum: ef8f0a1b5a019b3958009162de0fa4c3
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T11:02:50Z
date_updated: 2023-01-30T11:02:50Z
file_id: '12457'
file_name: 2022_PRXQuantum_Ljubotina.pdf
file_size: 7661905
relation: main_file
success: 1
file_date_updated: 2023-01-30T11:02:50Z
has_accepted_license: '1'
intvolume: ' 3'
issue: '3'
keyword:
- General Medicine
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: 23841C26-32DE-11EA-91FC-C7463DDC885E
call_identifier: H2020
grant_number: '850899'
name: 'Non-Ergodic Quantum Matter: Universality, Dynamics and Control'
publication: PRX Quantum
publication_identifier:
eissn:
- 2691-3399
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Optimal steering of matrix product states and quantum many-body scars
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 3
year: '2022'
...
---
_id: '12277'
abstract:
- lang: eng
text: Cell migration in confining physiological environments relies on the concerted
dynamics of several cellular components, including protrusions, adhesions with
the environment, and the cell nucleus. However, it remains poorly understood how
the dynamic interplay of these components and the cell polarity determine the
emergent migration behavior at the cellular scale. Here, we combine data-driven
inference with a mechanistic bottom-up approach to develop a model for protrusion
and polarity dynamics in confined cell migration, revealing how the cellular dynamics
adapt to confining geometries. Specifically, we use experimental data of joint
protrusion-nucleus migration trajectories of cells on confining micropatterns
to systematically determine a mechanistic model linking the stochastic dynamics
of cell polarity, protrusions, and nucleus. This model indicates that the cellular
dynamics adapt to confining constrictions through a switch in the polarity dynamics
from a negative to a positive self-reinforcing feedback loop. Our model further
reveals how this feedback loop leads to stereotypical cycles of protrusion-nucleus
dynamics that drive the migration of the cell through constrictions. These cycles
are disrupted upon perturbation of cytoskeletal components, indicating that the
positive feedback is controlled by cellular migration mechanisms. Our data-driven
theoretical approach therefore identifies polarity feedback adaptation as a key
mechanism in confined cell migration.
acknowledgement: "We thank Grzegorz Gradziuk, StevenRiedijk, Janni Harju, and M. R.
Schnucki for helpful discussions, and Andriy Goychuk for advice on the image segmentation.
This project\r\nwas funded by the Deutsche Forschungsgemeinschaft (DFG, German Research
Foundation), Project No. 201269156—SFB 1032 (Projects B01 and B12). D. B. B. is
supported by the NOMIS Foundation and in part by a DFG fellowship within the Graduate
School of Quantitative Biosciences Munich (QBM), as well as by the Joachim Herz
Stiftung."
article_number: '031041'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: David
full_name: Brückner, David
id: e1e86031-6537-11eb-953a-f7ab92be508d
last_name: Brückner
orcid: 0000-0001-7205-2975
- first_name: Matthew
full_name: Schmitt, Matthew
last_name: Schmitt
- first_name: Alexandra
full_name: Fink, Alexandra
last_name: Fink
- first_name: Georg
full_name: Ladurner, Georg
last_name: Ladurner
- first_name: Johannes
full_name: Flommersfeld, Johannes
last_name: Flommersfeld
- first_name: Nicolas
full_name: Arlt, Nicolas
last_name: Arlt
- 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: Joachim O.
full_name: Rädler, Joachim O.
last_name: Rädler
- first_name: Chase P.
full_name: Broedersz, Chase P.
last_name: Broedersz
citation:
ama: Brückner D, Schmitt M, Fink A, et al. Geometry adaptation of protrusion and
polarity dynamics in confined cell migration. Physical Review X. 2022;12(3).
doi:10.1103/physrevx.12.031041
apa: Brückner, D., Schmitt, M., Fink, A., Ladurner, G., Flommersfeld, J., Arlt,
N., … Broedersz, C. P. (2022). Geometry adaptation of protrusion and polarity
dynamics in confined cell migration. Physical Review X. American Physical
Society. https://doi.org/10.1103/physrevx.12.031041
chicago: Brückner, David, Matthew Schmitt, Alexandra Fink, Georg Ladurner, Johannes
Flommersfeld, Nicolas Arlt, Edouard B Hannezo, Joachim O. Rädler, and Chase P.
Broedersz. “Geometry Adaptation of Protrusion and Polarity Dynamics in Confined
Cell Migration.” Physical Review X. American Physical Society, 2022. https://doi.org/10.1103/physrevx.12.031041.
ieee: D. Brückner et al., “Geometry adaptation of protrusion and polarity
dynamics in confined cell migration,” Physical Review X, vol. 12, no. 3.
American Physical Society, 2022.
ista: Brückner D, Schmitt M, Fink A, Ladurner G, Flommersfeld J, Arlt N, Hannezo
EB, Rädler JO, Broedersz CP. 2022. Geometry adaptation of protrusion and polarity
dynamics in confined cell migration. Physical Review X. 12(3), 031041.
mla: Brückner, David, et al. “Geometry Adaptation of Protrusion and Polarity Dynamics
in Confined Cell Migration.” Physical Review X, vol. 12, no. 3, 031041,
American Physical Society, 2022, doi:10.1103/physrevx.12.031041.
short: D. Brückner, M. Schmitt, A. Fink, G. Ladurner, J. Flommersfeld, N. Arlt,
E.B. Hannezo, J.O. Rädler, C.P. Broedersz, Physical Review X 12 (2022).
date_created: 2023-01-16T10:02:06Z
date_published: 2022-09-20T00:00:00Z
date_updated: 2023-08-04T10:25:49Z
day: '20'
ddc:
- '530'
- '570'
department:
- _id: EdHa
doi: 10.1103/physrevx.12.031041
external_id:
arxiv:
- '2106.01014'
isi:
- '000861534700001'
file:
- access_level: open_access
checksum: 40a8fbc3663bf07b37cb80020974d40d
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T11:07:27Z
date_updated: 2023-01-30T11:07:27Z
file_id: '12458'
file_name: 2022_PhysicalReviewX_Brueckner.pdf
file_size: 4686804
relation: main_file
success: 1
file_date_updated: 2023-01-30T11:07:27Z
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
issue: '3'
keyword:
- General Physics and Astronomy
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
publication: Physical Review X
publication_identifier:
issn:
- 2160-3308
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Geometry adaptation of protrusion and polarity dynamics in confined cell migration
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 12
year: '2022'
...
---
_id: '12278'
abstract:
- lang: eng
text: Mercury telluride (HgTe) thin films with a critical thickness of 6.5 nm are
predicted to possess a gapless Dirac-like band structure. We report a comprehensive
study on gated and optically doped samples by magnetooptical spectroscopy in the
THz range. The quasi-classical analysis of the cyclotron resonance allowed the
mapping of the band dispersion of Dirac charge carriers in a broad range of electron
and hole doping. A smooth transition through the charge neutrality point between
Dirac holes and electrons was observed. An additional peak coming from a second
type of holes with an almost density-independent mass of around 0.04m0 was detected
in the hole-doping range and attributed to an asymmetric spin splitting of the
Dirac cone. Spectroscopic evidence for disorder-induced band energy fluctuations
could not be detected in present cyclotron resonance experiments.
acknowledgement: "This work was supported by the Austrian Science Funds (W1243, I
3456-N27, I 5539-N).\r\nOpen Access Funding by the Austrian Science Fund (FWF)."
article_number: '2492'
article_processing_charge: Yes
article_type: original
author:
- first_name: Alexey
full_name: Shuvaev, Alexey
last_name: Shuvaev
- first_name: Uladzislau
full_name: Dziom, Uladzislau
id: 6A9A37C2-8C5C-11E9-AE53-F2FDE5697425
last_name: Dziom
orcid: 0000-0002-1648-0999
- first_name: Jan
full_name: Gospodarič, Jan
last_name: Gospodarič
- first_name: Elena G.
full_name: Novik, Elena G.
last_name: Novik
- first_name: Alena A.
full_name: Dobretsova, Alena A.
last_name: Dobretsova
- first_name: Nikolay N.
full_name: Mikhailov, Nikolay N.
last_name: Mikhailov
- first_name: Ze Don
full_name: Kvon, Ze Don
last_name: Kvon
- first_name: Andrei
full_name: Pimenov, Andrei
last_name: Pimenov
citation:
ama: Shuvaev A, Dziom U, Gospodarič J, et al. Band structure near the Dirac Point
in HgTe quantum wells with critical thickness. Nanomaterials. 2022;12(14).
doi:10.3390/nano12142492
apa: Shuvaev, A., Dziom, U., Gospodarič, J., Novik, E. G., Dobretsova, A. A., Mikhailov,
N. N., … Pimenov, A. (2022). Band structure near the Dirac Point in HgTe quantum
wells with critical thickness. Nanomaterials. MDPI. https://doi.org/10.3390/nano12142492
chicago: Shuvaev, Alexey, Uladzislau Dziom, Jan Gospodarič, Elena G. Novik, Alena
A. Dobretsova, Nikolay N. Mikhailov, Ze Don Kvon, and Andrei Pimenov. “Band Structure
near the Dirac Point in HgTe Quantum Wells with Critical Thickness.” Nanomaterials.
MDPI, 2022. https://doi.org/10.3390/nano12142492.
ieee: A. Shuvaev et al., “Band structure near the Dirac Point in HgTe quantum
wells with critical thickness,” Nanomaterials, vol. 12, no. 14. MDPI, 2022.
ista: Shuvaev A, Dziom U, Gospodarič J, Novik EG, Dobretsova AA, Mikhailov NN, Kvon
ZD, Pimenov A. 2022. Band structure near the Dirac Point in HgTe quantum wells
with critical thickness. Nanomaterials. 12(14), 2492.
mla: Shuvaev, Alexey, et al. “Band Structure near the Dirac Point in HgTe Quantum
Wells with Critical Thickness.” Nanomaterials, vol. 12, no. 14, 2492, MDPI,
2022, doi:10.3390/nano12142492.
short: A. Shuvaev, U. Dziom, J. Gospodarič, E.G. Novik, A.A. Dobretsova, N.N. Mikhailov,
Z.D. Kvon, A. Pimenov, Nanomaterials 12 (2022).
date_created: 2023-01-16T10:02:31Z
date_published: 2022-07-20T00:00:00Z
date_updated: 2023-10-17T11:41:28Z
day: '20'
ddc:
- '530'
department:
- _id: ZhAl
doi: 10.3390/nano12142492
external_id:
isi:
- '000834401600001'
file:
- access_level: open_access
checksum: efad6742f89f39a18bec63116dd689a0
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T11:16:54Z
date_updated: 2023-01-30T11:16:54Z
file_id: '12459'
file_name: 2022_Nanomaterials_Shuvaev.pdf
file_size: 464840
relation: main_file
success: 1
file_date_updated: 2023-01-30T11:16:54Z
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
issue: '14'
keyword:
- General Materials Science
- General Chemical Engineering
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
publication: Nanomaterials
publication_identifier:
issn:
- 2079-4991
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Band structure near the Dirac Point in HgTe quantum wells with critical thickness
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2022'
...
---
_id: '12279'
abstract:
- lang: eng
text: We report frictional drag reduction and a complete flow relaminarization of
elastic turbulence (ET) at vanishing inertia in a viscoelastic channel flow past
an obstacle. We show that the intensity of the observed elastic waves and wall-normal
vorticity correlate well with the measured drag above the onset of ET. Moreover,
we find that the elastic wave frequency grows with the Weissenberg number, and
at sufficiently high frequency it causes a decay of the elastic waves, resulting
in ET attenuation and drag reduction. Thus, this allows us to substantiate a physical
mechanism, involving the interaction of elastic waves with wall-normal vorticity
fluctuations, leading to the drag reduction and relaminarization phenomena at
low Reynolds number.
acknowledgement: "We thank G. Falkovich for discussion and Guy Han for technical support.
We are grateful to N. Jha for his help in µPIV measurements. This work is partially
supported by the grants from\r\nIsrael Science Foundation (ISF; grant #882/15 and
grant #784/19) and Binational USA-Israel Foundation (BSF;grant #2016145). "
article_number: L081301
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: M. Vijay
full_name: Kumar, M. Vijay
last_name: Kumar
- first_name: Atul
full_name: Varshney, Atul
id: 2A2006B2-F248-11E8-B48F-1D18A9856A87
last_name: Varshney
orcid: 0000-0002-3072-5999
- first_name: Dongyang
full_name: Li, Dongyang
last_name: Li
- first_name: Victor
full_name: Steinberg, Victor
last_name: Steinberg
citation:
ama: Kumar MV, Varshney A, Li D, Steinberg V. Relaminarization of elastic turbulence.
Physical Review Fluids. 2022;7(8). doi:10.1103/physrevfluids.7.l081301
apa: Kumar, M. V., Varshney, A., Li, D., & Steinberg, V. (2022). Relaminarization
of elastic turbulence. Physical Review Fluids. American Physical Society.
https://doi.org/10.1103/physrevfluids.7.l081301
chicago: Kumar, M. Vijay, Atul Varshney, Dongyang Li, and Victor Steinberg. “Relaminarization
of Elastic Turbulence.” Physical Review Fluids. American Physical Society,
2022. https://doi.org/10.1103/physrevfluids.7.l081301.
ieee: M. V. Kumar, A. Varshney, D. Li, and V. Steinberg, “Relaminarization of elastic
turbulence,” Physical Review Fluids, vol. 7, no. 8. American Physical Society,
2022.
ista: Kumar MV, Varshney A, Li D, Steinberg V. 2022. Relaminarization of elastic
turbulence. Physical Review Fluids. 7(8), L081301.
mla: Kumar, M. Vijay, et al. “Relaminarization of Elastic Turbulence.” Physical
Review Fluids, vol. 7, no. 8, L081301, American Physical Society, 2022, doi:10.1103/physrevfluids.7.l081301.
short: M.V. Kumar, A. Varshney, D. Li, V. Steinberg, Physical Review Fluids 7 (2022).
date_created: 2023-01-16T10:02:40Z
date_published: 2022-08-03T00:00:00Z
date_updated: 2023-08-04T10:26:40Z
day: '03'
department:
- _id: BjHo
doi: 10.1103/physrevfluids.7.l081301
external_id:
arxiv:
- '2205.12871'
isi:
- '000836397000001'
intvolume: ' 7'
isi: 1
issue: '8'
keyword:
- Fluid Flow and Transfer Processes
- Modeling and Simulation
- Computational Mechanics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.48550/arXiv.2205.12871'
month: '08'
oa: 1
oa_version: Preprint
publication: Physical Review Fluids
publication_identifier:
issn:
- 2469-990X
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Relaminarization of elastic turbulence
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 7
year: '2022'
...
---
_id: '12280'
abstract:
- lang: eng
text: 'In repeated interactions, players can use strategies that respond to the
outcome of previous rounds. Much of the existing literature on direct reciprocity
assumes that all competing individuals use the same strategy space. Here, we study
both learning and evolutionary dynamics of players that differ in the strategy
space they explore. We focus on the infinitely repeated donation game and compare
three natural strategy spaces: memory-1 strategies, which consider the last moves
of both players, reactive strategies, which respond to the last move of the co-player,
and unconditional strategies. These three strategy spaces differ in the memory
capacity that is needed. We compute the long term average payoff that is achieved
in a pairwise learning process. We find that smaller strategy spaces can dominate
larger ones. For weak selection, unconditional players dominate both reactive
and memory-1 players. For intermediate selection, reactive players dominate memory-1
players. Only for strong selection and low cost-to-benefit ratio, memory-1 players
dominate the others. We observe that the supergame between strategy spaces can
be a social dilemma: maximum payoff is achieved if both players explore a larger
strategy space, but smaller strategy spaces dominate.'
acknowledgement: "This work was supported by the European Research Council (https://erc.europa.eu/)\r\nCoG
863818 (ForM-SMArt) (to K.C.), and the European Research Council Starting Grant
850529: E-DIRECT (to C.H.). The funders had no role in study design, data collection
and analysis, decision to publish, or preparation of the manuscript."
article_number: e1010149
article_processing_charge: No
article_type: original
author:
- first_name: Laura
full_name: Schmid, Laura
id: 38B437DE-F248-11E8-B48F-1D18A9856A87
last_name: Schmid
orcid: 0000-0002-6978-7329
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Martin
full_name: Nowak, Martin
last_name: Nowak
citation:
ama: Schmid L, Hilbe C, Chatterjee K, Nowak M. Direct reciprocity between individuals
that use different strategy spaces. PLOS Computational Biology. 2022;18(6).
doi:10.1371/journal.pcbi.1010149
apa: Schmid, L., Hilbe, C., Chatterjee, K., & Nowak, M. (2022). Direct reciprocity
between individuals that use different strategy spaces. PLOS Computational
Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1010149
chicago: Schmid, Laura, Christian Hilbe, Krishnendu Chatterjee, and Martin Nowak.
“Direct Reciprocity between Individuals That Use Different Strategy Spaces.” PLOS
Computational Biology. Public Library of Science, 2022. https://doi.org/10.1371/journal.pcbi.1010149.
ieee: L. Schmid, C. Hilbe, K. Chatterjee, and M. Nowak, “Direct reciprocity between
individuals that use different strategy spaces,” PLOS Computational Biology,
vol. 18, no. 6. Public Library of Science, 2022.
ista: Schmid L, Hilbe C, Chatterjee K, Nowak M. 2022. Direct reciprocity between
individuals that use different strategy spaces. PLOS Computational Biology. 18(6),
e1010149.
mla: Schmid, Laura, et al. “Direct Reciprocity between Individuals That Use Different
Strategy Spaces.” PLOS Computational Biology, vol. 18, no. 6, e1010149,
Public Library of Science, 2022, doi:10.1371/journal.pcbi.1010149.
short: L. Schmid, C. Hilbe, K. Chatterjee, M. Nowak, PLOS Computational Biology
18 (2022).
date_created: 2023-01-16T10:02:51Z
date_published: 2022-06-14T00:00:00Z
date_updated: 2025-07-14T09:09:49Z
day: '14'
ddc:
- '000'
- '570'
department:
- _id: KrCh
doi: 10.1371/journal.pcbi.1010149
ec_funded: 1
external_id:
isi:
- '000843626800031'
pmid:
- '35700167'
file:
- access_level: open_access
checksum: 31b6b311b6731f1658277a9dfff6632c
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T11:28:13Z
date_updated: 2023-01-30T11:28:13Z
file_id: '12460'
file_name: 2022_PlosCompBio_Schmid.pdf
file_size: 3143222
relation: main_file
success: 1
file_date_updated: 2023-01-30T11:28:13Z
has_accepted_license: '1'
intvolume: ' 18'
isi: 1
issue: '6'
keyword:
- Computational Theory and Mathematics
- Cellular and Molecular Neuroscience
- Genetics
- Molecular Biology
- Ecology
- Modeling and Simulation
- Ecology
- Evolution
- Behavior and Systematics
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '863818'
name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
publication: PLOS Computational Biology
publication_identifier:
eissn:
- 1553-7358
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: Direct reciprocity between individuals that use different strategy spaces
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: 18
year: '2022'
...
---
_id: '12281'
abstract:
- lang: eng
text: We study the hydrodynamic and hydrostatic limits of the one-dimensional open
symmetric inclusion process with slow boundary. Depending on the value of the
parameter tuning the interaction rate of the bulk of the system with the boundary,
we obtain a linear heat equation with either Dirichlet, Robin or Neumann boundary
conditions as hydrodynamic equation. In our approach, we combine duality and first-second
class particle techniques to reduce the scaling limit of the inclusion process
to the limiting behavior of a single, non-interacting, particle.
acknowledgement: "C.F. and P.G. thank FCT/Portugal for support through the project
UID/MAT/04459/2013.\r\nThis project has received funding from the European Research
Council (ERC) under the European Union’s Horizon 2020 research and innovative programme
(grant agreement No. 715734). F.S. was founded by the European Union’s Horizon 2020
research and innovation programme under the Marie-Skłodowska-Curie grant agreement
No. 754411.\r\nF.S. wishes to thank Joe P. Chen for some fruitful discussions at
an early stage of this work. F.S. thanks CAMGSD, IST, Lisbon, where part of this
work has been done, and the European research and innovative programme No. 715734
for the kind hospitality."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Chiara
full_name: Franceschini, Chiara
last_name: Franceschini
- first_name: Patrícia
full_name: Gonçalves, Patrícia
last_name: Gonçalves
- first_name: Federico
full_name: Sau, Federico
id: E1836206-9F16-11E9-8814-AEFDE5697425
last_name: Sau
citation:
ama: 'Franceschini C, Gonçalves P, Sau F. Symmetric inclusion process with slow
boundary: Hydrodynamics and hydrostatics. Bernoulli. 2022;28(2):1340-1381.
doi:10.3150/21-bej1390'
apa: 'Franceschini, C., Gonçalves, P., & Sau, F. (2022). Symmetric inclusion
process with slow boundary: Hydrodynamics and hydrostatics. Bernoulli.
Bernoulli Society for Mathematical Statistics and Probability. https://doi.org/10.3150/21-bej1390'
chicago: 'Franceschini, Chiara, Patrícia Gonçalves, and Federico Sau. “Symmetric
Inclusion Process with Slow Boundary: Hydrodynamics and Hydrostatics.” Bernoulli.
Bernoulli Society for Mathematical Statistics and Probability, 2022. https://doi.org/10.3150/21-bej1390.'
ieee: 'C. Franceschini, P. Gonçalves, and F. Sau, “Symmetric inclusion process with
slow boundary: Hydrodynamics and hydrostatics,” Bernoulli, vol. 28, no.
2. Bernoulli Society for Mathematical Statistics and Probability, pp. 1340–1381,
2022.'
ista: 'Franceschini C, Gonçalves P, Sau F. 2022. Symmetric inclusion process with
slow boundary: Hydrodynamics and hydrostatics. Bernoulli. 28(2), 1340–1381.'
mla: 'Franceschini, Chiara, et al. “Symmetric Inclusion Process with Slow Boundary:
Hydrodynamics and Hydrostatics.” Bernoulli, vol. 28, no. 2, Bernoulli Society
for Mathematical Statistics and Probability, 2022, pp. 1340–81, doi:10.3150/21-bej1390.'
short: C. Franceschini, P. Gonçalves, F. Sau, Bernoulli 28 (2022) 1340–1381.
date_created: 2023-01-16T10:03:04Z
date_published: 2022-05-01T00:00:00Z
date_updated: 2023-08-04T10:27:35Z
day: '01'
department:
- _id: JaMa
doi: 10.3150/21-bej1390
ec_funded: 1
external_id:
arxiv:
- '2007.11998'
isi:
- '000766619100025'
intvolume: ' 28'
isi: 1
issue: '2'
keyword:
- Statistics and Probability
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2007.11998
month: '05'
oa: 1
oa_version: Preprint
page: 1340-1381
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Bernoulli
publication_identifier:
issn:
- 1350-7265
publication_status: published
publisher: Bernoulli Society for Mathematical Statistics and Probability
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Symmetric inclusion process with slow boundary: Hydrodynamics and hydrostatics'
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 28
year: '2022'
...
---
_id: '12282'
abstract:
- lang: eng
text: From a simple thought to a multicellular movement
acknowledgement: The authors want to thank Professors Carrie Bernecky, Tom Henzinger,
Martin Loose and Gaia Novarino for accepting to be interviewed, thus giving significant
contribution to the discussion that lead to this article.
article_number: '260017'
article_processing_charge: No
article_type: letter_note
author:
- first_name: Nicole
full_name: Amberg, Nicole
id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87
last_name: Amberg
orcid: 0000-0002-3183-8207
- first_name: Melissa A
full_name: Stouffer, Melissa A
id: 4C9372C4-F248-11E8-B48F-1D18A9856A87
last_name: Stouffer
- first_name: Irene
full_name: Vercellino, Irene
id: 3ED6AF16-F248-11E8-B48F-1D18A9856A87
last_name: Vercellino
orcid: 0000-0001-5618-3449
citation:
ama: Amberg N, Stouffer MA, Vercellino I. Operation STEM fatale – how an equity,
diversity and inclusion initiative has brought us to reflect on the current challenges
in cell biology and science as a whole. Journal of Cell Science. 2022;135(8).
doi:10.1242/jcs.260017
apa: Amberg, N., Stouffer, M. A., & Vercellino, I. (2022). Operation STEM fatale
– how an equity, diversity and inclusion initiative has brought us to reflect
on the current challenges in cell biology and science as a whole. Journal of
Cell Science. The Company of Biologists. https://doi.org/10.1242/jcs.260017
chicago: Amberg, Nicole, Melissa A Stouffer, and Irene Vercellino. “Operation STEM
Fatale – How an Equity, Diversity and Inclusion Initiative Has Brought Us to Reflect
on the Current Challenges in Cell Biology and Science as a Whole.” Journal
of Cell Science. The Company of Biologists, 2022. https://doi.org/10.1242/jcs.260017.
ieee: N. Amberg, M. A. Stouffer, and I. Vercellino, “Operation STEM fatale – how
an equity, diversity and inclusion initiative has brought us to reflect on the
current challenges in cell biology and science as a whole,” Journal of Cell
Science, vol. 135, no. 8. The Company of Biologists, 2022.
ista: Amberg N, Stouffer MA, Vercellino I. 2022. Operation STEM fatale – how an
equity, diversity and inclusion initiative has brought us to reflect on the current
challenges in cell biology and science as a whole. Journal of Cell Science. 135(8),
260017.
mla: Amberg, Nicole, et al. “Operation STEM Fatale – How an Equity, Diversity and
Inclusion Initiative Has Brought Us to Reflect on the Current Challenges in Cell
Biology and Science as a Whole.” Journal of Cell Science, vol. 135, no.
8, 260017, The Company of Biologists, 2022, doi:10.1242/jcs.260017.
short: N. Amberg, M.A. Stouffer, I. Vercellino, Journal of Cell Science 135 (2022).
date_created: 2023-01-16T10:03:14Z
date_published: 2022-04-19T00:00:00Z
date_updated: 2023-08-04T10:28:04Z
day: '19'
department:
- _id: SiHi
- _id: LeSa
doi: 10.1242/jcs.260017
external_id:
isi:
- '000798123600015'
pmid:
- '35438168'
intvolume: ' 135'
isi: 1
issue: '8'
language:
- iso: eng
month: '04'
oa_version: None
pmid: 1
publication: Journal of Cell Science
publication_identifier:
eissn:
- 1477-9137
issn:
- 0021-9533
publication_status: published
publisher: The Company of Biologists
quality_controlled: '1'
scopus_import: '1'
status: public
title: Operation STEM fatale – how an equity, diversity and inclusion initiative has
brought us to reflect on the current challenges in cell biology and science as a
whole
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 135
year: '2022'
...
---
_id: '12283'
abstract:
- lang: eng
text: Neurons extend axons to form the complex circuitry of the mature brain. This
depends on the coordinated response and continuous remodelling of the microtubule
and F-actin networks in the axonal growth cone. Growth cone architecture remains
poorly understood at nanoscales. We therefore investigated mouse hippocampal neuron
growth cones using cryo-electron tomography to directly visualise their three-dimensional
subcellular architecture with molecular detail. Our data showed that the hexagonal
arrays of actin bundles that form filopodia penetrate and terminate deep within
the growth cone interior. We directly observed the modulation of these and other
growth cone actin bundles by alteration of individual F-actin helical structures.
Microtubules with blunt, slightly flared or gently curved ends predominated in
the growth cone, frequently contained lumenal particles and exhibited lattice
defects. Investigation of the effect of absence of doublecortin, a neurodevelopmental
cytoskeleton regulator, on growth cone cytoskeleton showed no major anomalies
in overall growth cone organisation or in F-actin subpopulations. However, our
data suggested that microtubules sustained more structural defects, highlighting
the importance of microtubule integrity during growth cone migration.
acknowledgement: "J.A. was supported by a grant from the Medical Research Council
(MRC), UK (MR/R000352/1) to C.A.M. Cryo-EM data were collected on equipment funded
by the Wellcome Trust, UK (079605/Z/06/Z) and the Biotechnology and Biological Sciences
Research Council (BBSRC) UK (BB/L014211/1). F.F.’s salary and institute were supported
by Inserm (Institut National de la Santé et de la Recherche Médicale), CNRS (Centre
National de la Recherche Scientifique) and Sorbonne Université. F.F.’s group was
particularly supported by Agence Nationale de la\r\nRecherche (ANR-16-CE16-0011-03)
and Seventh Framework Programme (EUHEALTH-\r\n2013, DESIRE, N° 60253; also funding
M.S.’s salary) and the European Cooperation in Science and Technology (COST Action
CA16118). Open Access funding provided by Birkbeck College: Birkbeck University
of London. Deposited in PMC for immediate release."
article_number: '259234'
article_processing_charge: No
article_type: original
author:
- first_name: Joseph
full_name: Atherton, Joseph
last_name: Atherton
- first_name: Melissa A
full_name: Stouffer, Melissa A
id: 4C9372C4-F248-11E8-B48F-1D18A9856A87
last_name: Stouffer
- first_name: Fiona
full_name: Francis, Fiona
last_name: Francis
- first_name: Carolyn A.
full_name: Moores, Carolyn A.
last_name: Moores
citation:
ama: Atherton J, Stouffer MA, Francis F, Moores CA. Visualising the cytoskeletal
machinery in neuronal growth cones using cryo-electron tomography. Journal
of Cell Science. 2022;135(7). doi:10.1242/jcs.259234
apa: Atherton, J., Stouffer, M. A., Francis, F., & Moores, C. A. (2022). Visualising
the cytoskeletal machinery in neuronal growth cones using cryo-electron tomography.
Journal of Cell Science. The Company of Biologists. https://doi.org/10.1242/jcs.259234
chicago: Atherton, Joseph, Melissa A Stouffer, Fiona Francis, and Carolyn A. Moores.
“Visualising the Cytoskeletal Machinery in Neuronal Growth Cones Using Cryo-Electron
Tomography.” Journal of Cell Science. The Company of Biologists, 2022.
https://doi.org/10.1242/jcs.259234.
ieee: J. Atherton, M. A. Stouffer, F. Francis, and C. A. Moores, “Visualising the
cytoskeletal machinery in neuronal growth cones using cryo-electron tomography,”
Journal of Cell Science, vol. 135, no. 7. The Company of Biologists, 2022.
ista: Atherton J, Stouffer MA, Francis F, Moores CA. 2022. Visualising the cytoskeletal
machinery in neuronal growth cones using cryo-electron tomography. Journal of
Cell Science. 135(7), 259234.
mla: Atherton, Joseph, et al. “Visualising the Cytoskeletal Machinery in Neuronal
Growth Cones Using Cryo-Electron Tomography.” Journal of Cell Science,
vol. 135, no. 7, 259234, The Company of Biologists, 2022, doi:10.1242/jcs.259234.
short: J. Atherton, M.A. Stouffer, F. Francis, C.A. Moores, Journal of Cell Science
135 (2022).
date_created: 2023-01-16T10:03:24Z
date_published: 2022-04-01T00:00:00Z
date_updated: 2023-08-04T10:28:34Z
day: '01'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.1242/jcs.259234
external_id:
isi:
- '000783840400010'
pmid:
- '35383828'
file:
- access_level: open_access
checksum: 4346ed32cb7c89a8ca051c7da68a9a1c
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T11:41:01Z
date_updated: 2023-01-30T11:41:01Z
file_id: '12461'
file_name: 2022_JourCellBiology_Atherton.pdf
file_size: 13868733
relation: main_file
success: 1
file_date_updated: 2023-01-30T11:41:01Z
has_accepted_license: '1'
intvolume: ' 135'
isi: 1
issue: '7'
keyword:
- Cell Biology
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
publication: Journal of Cell Science
publication_identifier:
eissn:
- 1477-9137
issn:
- 0021-9533
publication_status: published
publisher: The Company of Biologists
quality_controlled: '1'
scopus_import: '1'
status: public
title: Visualising the cytoskeletal machinery in neuronal growth cones using cryo-electron
tomography
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: 135
year: '2022'
...
---
_id: '12286'
abstract:
- lang: eng
text: "Inspired by the study of loose cycles in hypergraphs, we define the loose
core in hypergraphs as a structurewhich mirrors the close relationship between
cycles and $2$-cores in graphs. We prove that in the $r$-uniform binomial random
hypergraph $H^r(n,p)$, the order of the loose core undergoes a phase transition
at a certain critical threshold and determine this order, as well as the number
of edges, asymptotically in the subcritical and supercritical regimes.
\r\nOur
main tool is an algorithm called CoreConstruct, which enables us to analyse a
peeling process for the loose core. By analysing this algorithm we determine the
asymptotic degree distribution of vertices in the loose core and in particular
how many vertices and edges the loose core contains. As a corollary we obtain
an improved upper bound on the length of the longest loose cycle in $H^r(n,p)$."
acknowledgement: 'Supported by Austrian Science Fund (FWF): I3747, W1230.'
article_number: P4.13
article_processing_charge: No
article_type: original
author:
- first_name: Oliver
full_name: Cooley, Oliver
id: 43f4ddd0-a46b-11ec-8df6-ef3703bd721d
last_name: Cooley
- first_name: Mihyun
full_name: Kang, Mihyun
last_name: Kang
- first_name: Julian
full_name: Zalla, Julian
last_name: Zalla
citation:
ama: Cooley O, Kang M, Zalla J. Loose cores and cycles in random hypergraphs. The
Electronic Journal of Combinatorics. 2022;29(4). doi:10.37236/10794
apa: Cooley, O., Kang, M., & Zalla, J. (2022). Loose cores and cycles in random
hypergraphs. The Electronic Journal of Combinatorics. The Electronic Journal
of Combinatorics. https://doi.org/10.37236/10794
chicago: Cooley, Oliver, Mihyun Kang, and Julian Zalla. “Loose Cores and Cycles
in Random Hypergraphs.” The Electronic Journal of Combinatorics. The Electronic
Journal of Combinatorics, 2022. https://doi.org/10.37236/10794.
ieee: O. Cooley, M. Kang, and J. Zalla, “Loose cores and cycles in random hypergraphs,”
The Electronic Journal of Combinatorics, vol. 29, no. 4. The Electronic
Journal of Combinatorics, 2022.
ista: Cooley O, Kang M, Zalla J. 2022. Loose cores and cycles in random hypergraphs.
The Electronic Journal of Combinatorics. 29(4), P4.13.
mla: Cooley, Oliver, et al. “Loose Cores and Cycles in Random Hypergraphs.” The
Electronic Journal of Combinatorics, vol. 29, no. 4, P4.13, The Electronic
Journal of Combinatorics, 2022, doi:10.37236/10794.
short: O. Cooley, M. Kang, J. Zalla, The Electronic Journal of Combinatorics 29
(2022).
date_created: 2023-01-16T10:03:57Z
date_published: 2022-10-21T00:00:00Z
date_updated: 2023-08-04T10:29:18Z
day: '21'
ddc:
- '510'
department:
- _id: MaKw
doi: 10.37236/10794
external_id:
isi:
- '000876763300001'
file:
- access_level: open_access
checksum: 00122b2459f09b5ae43073bfba565e94
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T11:45:13Z
date_updated: 2023-01-30T11:45:13Z
file_id: '12462'
file_name: 2022_ElecJournCombinatorics_Cooley_Kang_Zalla.pdf
file_size: 626953
relation: main_file
success: 1
file_date_updated: 2023-01-30T11:45:13Z
has_accepted_license: '1'
intvolume: ' 29'
isi: 1
issue: '4'
keyword:
- Computational Theory and Mathematics
- Geometry and Topology
- Theoretical Computer Science
- Applied Mathematics
- Discrete Mathematics and Combinatorics
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nd/4.0/
month: '10'
oa: 1
oa_version: Published Version
publication: The Electronic Journal of Combinatorics
publication_identifier:
eissn:
- 1077-8926
publication_status: published
publisher: The Electronic Journal of Combinatorics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Loose cores and cycles in random hypergraphs
tmp:
image: /image/cc_by_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nd/4.0/legalcode
name: Creative Commons Attribution-NoDerivatives 4.0 International (CC BY-ND 4.0)
short: CC BY-ND (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 29
year: '2022'
...
---
_id: '12288'
abstract:
- lang: eng
text: To understand the function of neuronal circuits, it is crucial to disentangle
the connectivity patterns within the network. However, most tools currently used
to explore connectivity have low throughput, low selectivity, or limited accessibility.
Here, we report the development of an improved packaging system for the production
of the highly neurotropic RVdGenvA-CVS-N2c rabies viral vectors, yielding titers
orders of magnitude higher with no background contamination, at a fraction of
the production time, while preserving the efficiency of transsynaptic labeling.
Along with the production pipeline, we developed suites of ‘starter’ AAV and bicistronic
RVdG-CVS-N2c vectors, enabling retrograde labeling from a wide range of neuronal
populations, tailored for diverse experimental requirements. We demonstrate the
power and flexibility of the new system by uncovering hidden local and distal
inhibitory connections in the mouse hippocampal formation and by imaging the functional
properties of a cortical microcircuit across weeks. Our novel production pipeline
provides a convenient approach to generate new rabies vectors, while our toolkit
flexibly and efficiently expands the current capacity to label, manipulate and
image the neuronal activity of interconnected neuronal circuits in vitro and in
vivo.
acknowledged_ssus:
- _id: Bio
- _id: PreCl
acknowledgement: We thank F Marr for technical assistance, A Murray for RVdG-CVS-N2c
viruses and Neuro2A packaging cell-lines and J Watson for reading the manuscript.
This research was supported by the Scientific Service Units (SSU) of IST-Austria
through resources provided by the Imaging and Optics Facility (IOF) and the Preclinical
Facility (PCF). This project was funded by the European Research Council (ERC) under
the European Union’s Horizon 2020 research and innovation programme (ERC advanced
grant No 692692, PJ, ERC starting grant No 756502, MJ), the Fond zur Förderung der
Wissenschaftlichen Forschung (Z 312-B27, Wittgenstein award, PJ), the Human Frontier
Science Program (LT000256/2018-L, AS) and EMBO (ALTF 1098-2017, AS).
article_number: '79848'
article_processing_charge: No
article_type: original
author:
- first_name: Anton L
full_name: Sumser, Anton L
id: 3320A096-F248-11E8-B48F-1D18A9856A87
last_name: Sumser
orcid: 0000-0002-4792-1881
- first_name: Maximilian A
full_name: Jösch, Maximilian A
id: 2BD278E6-F248-11E8-B48F-1D18A9856A87
last_name: Jösch
orcid: 0000-0002-3937-1330
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
- first_name: Yoav
full_name: Ben Simon, Yoav
id: 43DF3136-F248-11E8-B48F-1D18A9856A87
last_name: Ben Simon
citation:
ama: Sumser AL, Jösch MA, Jonas PM, Ben Simon Y. Fast, high-throughput production
of improved rabies viral vectors for specific, efficient and versatile transsynaptic
retrograde labeling. eLife. 2022;11. doi:10.7554/elife.79848
apa: Sumser, A. L., Jösch, M. A., Jonas, P. M., & Ben Simon, Y. (2022). Fast,
high-throughput production of improved rabies viral vectors for specific, efficient
and versatile transsynaptic retrograde labeling. ELife. eLife Sciences
Publications. https://doi.org/10.7554/elife.79848
chicago: Sumser, Anton L, Maximilian A Jösch, Peter M Jonas, and Yoav Ben Simon.
“Fast, High-Throughput Production of Improved Rabies Viral Vectors for Specific,
Efficient and Versatile Transsynaptic Retrograde Labeling.” ELife. eLife
Sciences Publications, 2022. https://doi.org/10.7554/elife.79848.
ieee: A. L. Sumser, M. A. Jösch, P. M. Jonas, and Y. Ben Simon, “Fast, high-throughput
production of improved rabies viral vectors for specific, efficient and versatile
transsynaptic retrograde labeling,” eLife, vol. 11. eLife Sciences Publications,
2022.
ista: Sumser AL, Jösch MA, Jonas PM, Ben Simon Y. 2022. Fast, high-throughput production
of improved rabies viral vectors for specific, efficient and versatile transsynaptic
retrograde labeling. eLife. 11, 79848.
mla: Sumser, Anton L., et al. “Fast, High-Throughput Production of Improved Rabies
Viral Vectors for Specific, Efficient and Versatile Transsynaptic Retrograde Labeling.”
ELife, vol. 11, 79848, eLife Sciences Publications, 2022, doi:10.7554/elife.79848.
short: A.L. Sumser, M.A. Jösch, P.M. Jonas, Y. Ben Simon, ELife 11 (2022).
date_created: 2023-01-16T10:04:15Z
date_published: 2022-09-15T00:00:00Z
date_updated: 2023-08-04T10:29:48Z
day: '15'
ddc:
- '570'
department:
- _id: MaJö
- _id: PeJo
doi: 10.7554/elife.79848
ec_funded: 1
external_id:
isi:
- '000892204300001'
pmid:
- '36040301'
file:
- access_level: open_access
checksum: 5a2a65e3e7225090c3d8199f3bbd7b7b
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T11:50:53Z
date_updated: 2023-01-30T11:50:53Z
file_id: '12463'
file_name: 2022_eLife_Sumser.pdf
file_size: 8506811
relation: main_file
success: 1
file_date_updated: 2023-01-30T11:50:53Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
keyword:
- General Immunology and Microbiology
- General Biochemistry
- Genetics and Molecular Biology
- General Medicine
- General Neuroscience
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25B7EB9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '692692'
name: Biophysics and circuit function of a giant cortical glumatergic synapse
- _id: 2634E9D2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '756502'
name: Circuits of Visual Attention
- _id: 25C5A090-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00312
name: The Wittgenstein Prize
- _id: 266D407A-B435-11E9-9278-68D0E5697425
grant_number: LT000256
name: Neuronal networks of salience and spatial detection in the murine superior
colliculus
- _id: 264FEA02-B435-11E9-9278-68D0E5697425
grant_number: ALTF 1098-2017
name: Connecting sensory with motor processing in the superior colliculus
publication: eLife
publication_identifier:
eissn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: Fast, high-throughput production of improved rabies viral vectors for specific,
efficient and versatile transsynaptic retrograde labeling
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: '2022'
...
---
_id: '12290'
abstract:
- lang: eng
text: We prove local laws, i.e. optimal concentration estimates for arbitrary products
of resolvents of a Wigner random matrix with deterministic matrices in between.
We find that the size of such products heavily depends on whether some of the
deterministic matrices are traceless. Our estimates correctly account for this
dependence and they hold optimally down to the smallest possible spectral scale.
acknowledgement: L. Erdős was supported by ERC Advanced Grant “RMTBeyond” No. 101020331.
D. Schröder was supported by Dr. Max Rössler, the Walter Haefner Foundation and
the ETH Zürich Foundation.
article_processing_charge: No
article_type: original
author:
- first_name: Giorgio
full_name: Cipolloni, Giorgio
id: 42198EFA-F248-11E8-B48F-1D18A9856A87
last_name: Cipolloni
orcid: 0000-0002-4901-7992
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Dominik J
full_name: Schröder, Dominik J
id: 408ED176-F248-11E8-B48F-1D18A9856A87
last_name: Schröder
orcid: 0000-0002-2904-1856
citation:
ama: Cipolloni G, Erdös L, Schröder DJ. Optimal multi-resolvent local laws for Wigner
matrices. Electronic Journal of Probability. 2022;27:1-38. doi:10.1214/22-ejp838
apa: Cipolloni, G., Erdös, L., & Schröder, D. J. (2022). Optimal multi-resolvent
local laws for Wigner matrices. Electronic Journal of Probability. Institute
of Mathematical Statistics. https://doi.org/10.1214/22-ejp838
chicago: Cipolloni, Giorgio, László Erdös, and Dominik J Schröder. “Optimal Multi-Resolvent
Local Laws for Wigner Matrices.” Electronic Journal of Probability. Institute
of Mathematical Statistics, 2022. https://doi.org/10.1214/22-ejp838.
ieee: G. Cipolloni, L. Erdös, and D. J. Schröder, “Optimal multi-resolvent local
laws for Wigner matrices,” Electronic Journal of Probability, vol. 27.
Institute of Mathematical Statistics, pp. 1–38, 2022.
ista: Cipolloni G, Erdös L, Schröder DJ. 2022. Optimal multi-resolvent local laws
for Wigner matrices. Electronic Journal of Probability. 27, 1–38.
mla: Cipolloni, Giorgio, et al. “Optimal Multi-Resolvent Local Laws for Wigner Matrices.”
Electronic Journal of Probability, vol. 27, Institute of Mathematical Statistics,
2022, pp. 1–38, doi:10.1214/22-ejp838.
short: G. Cipolloni, L. Erdös, D.J. Schröder, Electronic Journal of Probability
27 (2022) 1–38.
date_created: 2023-01-16T10:04:38Z
date_published: 2022-09-12T00:00:00Z
date_updated: 2023-08-04T10:32:23Z
day: '12'
ddc:
- '510'
department:
- _id: LaEr
doi: 10.1214/22-ejp838
ec_funded: 1
external_id:
isi:
- '000910863700003'
file:
- access_level: open_access
checksum: bb647b48fbdb59361210e425c220cdcb
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T11:59:21Z
date_updated: 2023-01-30T11:59:21Z
file_id: '12464'
file_name: 2022_ElecJournProbability_Cipolloni.pdf
file_size: 502149
relation: main_file
success: 1
file_date_updated: 2023-01-30T11:59:21Z
has_accepted_license: '1'
intvolume: ' 27'
isi: 1
keyword:
- Statistics
- Probability and Uncertainty
- Statistics and Probability
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 1-38
project:
- _id: 62796744-2b32-11ec-9570-940b20777f1d
call_identifier: H2020
grant_number: '101020331'
name: Random matrices beyond Wigner-Dyson-Mehta
publication: Electronic Journal of Probability
publication_identifier:
eissn:
- 1083-6489
publication_status: published
publisher: Institute of Mathematical Statistics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Optimal multi-resolvent local laws for Wigner matrices
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: 27
year: '2022'
...
---
_id: '12291'
abstract:
- lang: eng
text: The phytohormone auxin triggers transcriptional reprogramming through a well-characterized
perception machinery in the nucleus. By contrast, mechanisms that underlie fast
effects of auxin, such as the regulation of ion fluxes, rapid phosphorylation
of proteins or auxin feedback on its transport, remain unclear1,2,3. Whether auxin-binding
protein 1 (ABP1) is an auxin receptor has been a source of debate for decades1,4.
Here we show that a fraction of Arabidopsis thaliana ABP1 is secreted and binds
auxin specifically at an acidic pH that is typical of the apoplast. ABP1 and its
plasma-membrane-localized partner, transmembrane kinase 1 (TMK1), are required
for the auxin-induced ultrafast global phospho-response and for downstream processes
that include the activation of H+-ATPase and accelerated cytoplasmic streaming.
abp1 and tmk mutants cannot establish auxin-transporting channels and show defective
auxin-induced vasculature formation and regeneration. An ABP1(M2X) variant that
lacks the capacity to bind auxin is unable to complement these defects in abp1
mutants. These data indicate that ABP1 is the auxin receptor for TMK1-based cell-surface
signalling, which mediates the global phospho-response and auxin canalization.
acknowledged_ssus:
- _id: Bio
- _id: EM-Fac
- _id: LifeSc
acknowledgement: We acknowledge K. Kubiasová for excellent technical assistance, J.
Neuhold, A. Lehner and A. Sedivy for technical assistance with protein production
and purification at Vienna Biocenter Core Facilities; Creoptix for performing GCI;
and the Bioimaging, Electron Microscopy and Life Science Facilities at ISTA, the
Plant Sciences Core Facility of CEITEC Masaryk University, the Core Facility CELLIM
(MEYS CR, LM2018129 Czech-BioImaging) and J. Sprakel for their assistance. J.F.
is grateful to R. Napier for many insightful suggestions and support. We thank all
past and present members of the Friml group for their support and for other contributions
to this effort to clarify the controversial role of ABP1 over the past seven years.
The project received funding from the European Research Council (ERC) under the
European Union’s Horizon 2020 research and innovation program (grant agreement no.
742985 to J.F. and 833867 to D.W.); the Austrian Science Fund (FWF; P29988 to J.F.);
the Netherlands Organization for Scientific Research (NWO; VICI grant 865.14.001
to D.W. and VENI grant VI.Veni.212.003 to A.K.); the Ministry of Education, Science
and Technological Development of the Republic of Serbia (contract no. 451-03-68/2022-14/200053
to B.D.Ž.); and the MEXT/JSPS KAKENHI to K.T. (20K06685) and T.K. (20H05687 and
20H05910).
article_processing_charge: No
article_type: original
author:
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Michelle C
full_name: Gallei, Michelle C
id: 35A03822-F248-11E8-B48F-1D18A9856A87
last_name: Gallei
orcid: 0000-0003-1286-7368
- first_name: Zuzana
full_name: Gelová, Zuzana
id: 0AE74790-0E0B-11E9-ABC7-1ACFE5697425
last_name: Gelová
orcid: 0000-0003-4783-1752
- first_name: Alexander J
full_name: Johnson, Alexander J
id: 46A62C3A-F248-11E8-B48F-1D18A9856A87
last_name: Johnson
orcid: 0000-0002-2739-8843
- first_name: Ewa
full_name: Mazur, Ewa
last_name: Mazur
- first_name: Aline
full_name: Monzer, Aline
id: 2DB5D88C-D7B3-11E9-B8FD-7907E6697425
last_name: Monzer
- first_name: Lesia
full_name: Rodriguez Solovey, Lesia
id: 3922B506-F248-11E8-B48F-1D18A9856A87
last_name: Rodriguez Solovey
orcid: 0000-0002-7244-7237
- first_name: Mark
full_name: Roosjen, Mark
last_name: Roosjen
- first_name: Inge
full_name: Verstraeten, Inge
id: 362BF7FE-F248-11E8-B48F-1D18A9856A87
last_name: Verstraeten
orcid: 0000-0001-7241-2328
- first_name: Branka D.
full_name: Živanović, Branka D.
last_name: Živanović
- first_name: Minxia
full_name: Zou, Minxia
id: 5c243f41-03f3-11ec-841c-96faf48a7ef9
last_name: Zou
- first_name: Lukas
full_name: Fiedler, Lukas
id: 7c417475-8972-11ed-ae7b-8b674ca26986
last_name: Fiedler
- first_name: Caterina
full_name: Giannini, Caterina
id: e3fdddd5-f6e0-11ea-865d-ca99ee6367f4
last_name: Giannini
- first_name: Peter
full_name: Grones, Peter
last_name: Grones
- first_name: Mónika
full_name: Hrtyan, Mónika
id: 45A71A74-F248-11E8-B48F-1D18A9856A87
last_name: Hrtyan
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Andre
full_name: Kuhn, Andre
last_name: Kuhn
- first_name: Madhumitha
full_name: Narasimhan, Madhumitha
id: 44BF24D0-F248-11E8-B48F-1D18A9856A87
last_name: Narasimhan
orcid: 0000-0002-8600-0671
- first_name: Marek
full_name: Randuch, Marek
id: 6ac4636d-15b2-11ec-abd3-fb8df79972ae
last_name: Randuch
- first_name: Nikola
full_name: Rýdza, Nikola
last_name: Rýdza
- first_name: Koji
full_name: Takahashi, Koji
last_name: Takahashi
- first_name: Shutang
full_name: Tan, Shutang
id: 2DE75584-F248-11E8-B48F-1D18A9856A87
last_name: Tan
orcid: 0000-0002-0471-8285
- first_name: Anastasiia
full_name: Teplova, Anastasiia
id: e3736151-106c-11ec-b916-c2558e2762c6
last_name: Teplova
- first_name: Toshinori
full_name: Kinoshita, Toshinori
last_name: Kinoshita
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
- first_name: Hana
full_name: Rakusová, Hana
last_name: Rakusová
citation:
ama: Friml J, Gallei MC, Gelová Z, et al. ABP1–TMK auxin perception for global phosphorylation
and auxin canalization. Nature. 2022;609(7927):575-581. doi:10.1038/s41586-022-05187-x
apa: Friml, J., Gallei, M. C., Gelová, Z., Johnson, A. J., Mazur, E., Monzer, A.,
… Rakusová, H. (2022). ABP1–TMK auxin perception for global phosphorylation and
auxin canalization. Nature. Springer Nature. https://doi.org/10.1038/s41586-022-05187-x
chicago: Friml, Jiří, Michelle C Gallei, Zuzana Gelová, Alexander J Johnson, Ewa
Mazur, Aline Monzer, Lesia Rodriguez Solovey, et al. “ABP1–TMK Auxin Perception
for Global Phosphorylation and Auxin Canalization.” Nature. Springer Nature,
2022. https://doi.org/10.1038/s41586-022-05187-x.
ieee: J. Friml et al., “ABP1–TMK auxin perception for global phosphorylation
and auxin canalization,” Nature, vol. 609, no. 7927. Springer Nature, pp.
575–581, 2022.
ista: Friml J, Gallei MC, Gelová Z, Johnson AJ, Mazur E, Monzer A, Rodriguez Solovey
L, Roosjen M, Verstraeten I, Živanović BD, Zou M, Fiedler L, Giannini C, Grones
P, Hrtyan M, Kaufmann W, Kuhn A, Narasimhan M, Randuch M, Rýdza N, Takahashi K,
Tan S, Teplova A, Kinoshita T, Weijers D, Rakusová H. 2022. ABP1–TMK auxin perception
for global phosphorylation and auxin canalization. Nature. 609(7927), 575–581.
mla: Friml, Jiří, et al. “ABP1–TMK Auxin Perception for Global Phosphorylation and
Auxin Canalization.” Nature, vol. 609, no. 7927, Springer Nature, 2022,
pp. 575–81, doi:10.1038/s41586-022-05187-x.
short: J. Friml, M.C. Gallei, Z. Gelová, A.J. Johnson, E. Mazur, A. Monzer, L. Rodriguez
Solovey, M. Roosjen, I. Verstraeten, B.D. Živanović, M. Zou, L. Fiedler, C. Giannini,
P. Grones, M. Hrtyan, W. Kaufmann, A. Kuhn, M. Narasimhan, M. Randuch, N. Rýdza,
K. Takahashi, S. Tan, A. Teplova, T. Kinoshita, D. Weijers, H. Rakusová, Nature
609 (2022) 575–581.
date_created: 2023-01-16T10:04:48Z
date_published: 2022-09-15T00:00:00Z
date_updated: 2023-11-07T08:16:09Z
day: '15'
ddc:
- '580'
department:
- _id: JiFr
- _id: GradSch
- _id: EvBe
- _id: EM-Fac
doi: 10.1038/s41586-022-05187-x
ec_funded: 1
external_id:
isi:
- '000851357500002'
pmid:
- '36071161'
file:
- access_level: open_access
checksum: a6055c606aefb900bf62ae3e7d15f921
content_type: application/pdf
creator: amally
date_created: 2023-11-02T17:12:37Z
date_updated: 2023-11-02T17:12:37Z
file_id: '14483'
file_name: Friml Nature 2022_merged.pdf
file_size: 79774945
relation: main_file
success: 1
file_date_updated: 2023-11-02T17:12:37Z
has_accepted_license: '1'
intvolume: ' 609'
isi: 1
issue: '7927'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Submitted Version
page: 575-581
pmid: 1
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
- _id: 262EF96E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P29988
name: RNA-directed DNA methylation in plant development
publication: Nature
publication_identifier:
eissn:
- 1476-4687
issn:
- 0028-0836
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: ABP1–TMK auxin perception for global phosphorylation and auxin canalization
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 609
year: '2022'
...
---
_id: '12298'
abstract:
- lang: eng
text: 'Existing committee-based Byzantine state machine replication (SMR) protocols,
typically deployed in production blockchains, face a clear trade-off: (1) they
either achieve linear communication cost in the steady state, but sacrifice liveness
during periods of asynchrony, or (2) they are robust (progress with probability
one) but pay quadratic communication cost. We believe this trade-off is unwarranted
since existing linear protocols still have asymptotic quadratic cost in the worst
case. We design Ditto, a Byzantine SMR protocol that enjoys the best of both worlds:
optimal communication on and off the steady state (linear and quadratic, respectively)
and progress guarantee under asynchrony and DDoS attacks. We achieve this by replacing
the view-synchronization of partially synchronous protocols with an asynchronous
fallback mechanism at no extra asymptotic cost. Specifically, we start from HotStuff,
a state-of-the-art linear protocol, and gradually build Ditto. As a separate contribution
and an intermediate step, we design a 2-chain version of HotStuff, Jolteon, which
leverages a quadratic view-change mechanism to reduce the latency of the standard
3-chain HotStuff. We implement and experimentally evaluate all our systems to
prove that breaking the robustness-efficiency trade-off is in the realm of practicality.'
acknowledgement: We thank our shepherd Aniket Kate and the anonymous reviewers at
FC 2022 for their helpful feedback. This work is supported by the Novi team at Facebook.
We also thank the Novi Research and Engineering teams for valuable feedback, and
in particular Mathieu Baudet, Andrey Chursin, George Danezis, Zekun Li, and Dahlia
Malkhi for discussions that shaped this work.
alternative_title:
- LNCS
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: Alberto
full_name: Sonnino, Alberto
last_name: Sonnino
- 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, Sonnino A, Spiegelman A, Xiang Z. Jolteon
and ditto: Network-adaptive efficient consensus with asynchronous fallback. In:
Financial Cryptography and Data Security. Vol 13411. Springer Nature; 2022:296-315.
doi:10.1007/978-3-031-18283-9_14'
apa: 'Gelashvili, R., Kokoris Kogias, E., Sonnino, A., Spiegelman, A., & Xiang,
Z. (2022). Jolteon and ditto: Network-adaptive efficient consensus with asynchronous
fallback. In Financial Cryptography and Data Security (Vol. 13411, pp.
296–315). Radisson Grenada Beach Resort, Grenada: Springer Nature. https://doi.org/10.1007/978-3-031-18283-9_14'
chicago: 'Gelashvili, Rati, Eleftherios Kokoris Kogias, Alberto Sonnino, Alexander
Spiegelman, and Zhuolun Xiang. “Jolteon and Ditto: Network-Adaptive Efficient
Consensus with Asynchronous Fallback.” In Financial Cryptography and Data Security,
13411:296–315. Springer Nature, 2022. https://doi.org/10.1007/978-3-031-18283-9_14.'
ieee: 'R. Gelashvili, E. Kokoris Kogias, A. Sonnino, A. Spiegelman, and Z. Xiang,
“Jolteon and ditto: Network-adaptive efficient consensus with asynchronous fallback,”
in Financial Cryptography and Data Security, Radisson Grenada Beach Resort,
Grenada, 2022, vol. 13411, pp. 296–315.'
ista: 'Gelashvili R, Kokoris Kogias E, Sonnino A, Spiegelman A, Xiang Z. 2022. Jolteon
and ditto: Network-adaptive efficient consensus with asynchronous fallback. Financial
Cryptography and Data Security. FC: Financial Cryptography, LNCS, vol. 13411,
296–315.'
mla: 'Gelashvili, Rati, et al. “Jolteon and Ditto: Network-Adaptive Efficient Consensus
with Asynchronous Fallback.” Financial Cryptography and Data Security,
vol. 13411, Springer Nature, 2022, pp. 296–315, doi:10.1007/978-3-031-18283-9_14.'
short: R. Gelashvili, E. Kokoris Kogias, A. Sonnino, A. Spiegelman, Z. Xiang, in:,
Financial Cryptography and Data Security, Springer Nature, 2022, pp. 296–315.
conference:
end_date: 2022-05-06
location: Radisson Grenada Beach Resort, Grenada
name: 'FC: Financial Cryptography'
start_date: 2022-05-02
date_created: 2023-01-16T10:05:51Z
date_published: 2022-10-22T00:00:00Z
date_updated: 2023-09-05T15:13:17Z
day: '22'
department:
- _id: ElKo
doi: 10.1007/978-3-031-18283-9_14
external_id:
arxiv:
- '2106.10362'
intvolume: ' 13411'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.48550/arXiv.2106.10362'
month: '10'
oa: 1
oa_version: Preprint
page: 296-315
publication: Financial Cryptography and Data Security
publication_identifier:
eisbn:
- '9783031182839'
eissn:
- 1611-3349
isbn:
- '9783031182822'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Jolteon and ditto: Network-adaptive efficient consensus with asynchronous
fallback'
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 13411
year: '2022'
...
---
_id: '12299'
abstract:
- lang: eng
text: 'Transfer learning is a classic paradigm by which models pretrained on large
“upstream” datasets are adapted to yield good results on “downstream” specialized
datasets. Generally, more accurate models on the “upstream” dataset tend to provide
better transfer accuracy “downstream”. In this work, we perform an in-depth investigation
of this phenomenon in the context of convolutional neural networks (CNNs) trained
on the ImageNet dataset, which have been pruned-that is, compressed by sparsifiying
their connections. We consider transfer using unstructured pruned models obtained
by applying several state-of-the-art pruning methods, including magnitude-based,
second-order, regrowth, lottery-ticket, and regularization approaches, in the
context of twelve standard transfer tasks. In a nutshell, our study shows that
sparse models can match or even outperform the transfer performance of dense models,
even at high sparsities, and, while doing so, can lead to significant inference
and even training speedups. At the same time, we observe and analyze significant
differences in the behaviour of different pruning methods. The code is available
at: https://github.com/IST-DASLab/sparse-imagenet-transfer.'
acknowledgement: he authors would like to sincerely thank Christoph Lampert and Nir
Shavit for fruitful discussions during the development of this work, and Eldar Kurtic
for experimental support. EI was supported in part by the FWF DK VGSCO, grant agreement
number W1260-N35, while AP and DA acknowledge generous support by the ERC, via Starting
Grant 805223 ScaleML.
article_processing_charge: No
arxiv: 1
author:
- first_name: Eugenia B
full_name: Iofinova, Eugenia B
id: f9a17499-f6e0-11ea-865d-fdf9a3f77117
last_name: Iofinova
orcid: 0000-0002-7778-3221
- first_name: Elena-Alexandra
full_name: Peste, Elena-Alexandra
id: 32D78294-F248-11E8-B48F-1D18A9856A87
last_name: Peste
- first_name: Mark
full_name: Kurtz, Mark
last_name: Kurtz
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
citation:
ama: 'Iofinova EB, Peste E-A, Kurtz M, Alistarh D-A. How well do sparse ImageNet
models transfer? In: 2022 IEEE/CVF Conference on Computer Vision and Pattern
Recognition. Institute of Electrical and Electronics Engineers; 2022:12256-12266.
doi:10.1109/cvpr52688.2022.01195'
apa: 'Iofinova, E. B., Peste, E.-A., Kurtz, M., & Alistarh, D.-A. (2022). How
well do sparse ImageNet models transfer? In 2022 IEEE/CVF Conference on Computer
Vision and Pattern Recognition (pp. 12256–12266). New Orleans, LA, United
States: Institute of Electrical and Electronics Engineers. https://doi.org/10.1109/cvpr52688.2022.01195'
chicago: Iofinova, Eugenia B, Elena-Alexandra Peste, Mark Kurtz, and Dan-Adrian
Alistarh. “How Well Do Sparse ImageNet Models Transfer?” In 2022 IEEE/CVF Conference
on Computer Vision and Pattern Recognition, 12256–66. Institute of Electrical
and Electronics Engineers, 2022. https://doi.org/10.1109/cvpr52688.2022.01195.
ieee: E. B. Iofinova, E.-A. Peste, M. Kurtz, and D.-A. Alistarh, “How well do sparse
ImageNet models transfer?,” in 2022 IEEE/CVF Conference on Computer Vision
and Pattern Recognition, New Orleans, LA, United States, 2022, pp. 12256–12266.
ista: 'Iofinova EB, Peste E-A, Kurtz M, Alistarh D-A. 2022. How well do sparse ImageNet
models transfer? 2022 IEEE/CVF Conference on Computer Vision and Pattern Recognition.
CVPR: Computer Vision and Pattern Recognition, 12256–12266.'
mla: Iofinova, Eugenia B., et al. “How Well Do Sparse ImageNet Models Transfer?”
2022 IEEE/CVF Conference on Computer Vision and Pattern Recognition, Institute
of Electrical and Electronics Engineers, 2022, pp. 12256–66, doi:10.1109/cvpr52688.2022.01195.
short: E.B. Iofinova, E.-A. Peste, M. Kurtz, D.-A. Alistarh, in:, 2022 IEEE/CVF
Conference on Computer Vision and Pattern Recognition, Institute of Electrical
and Electronics Engineers, 2022, pp. 12256–12266.
conference:
end_date: 2022-06-24
location: New Orleans, LA, United States
name: 'CVPR: Computer Vision and Pattern Recognition'
start_date: 2022-06-18
date_created: 2023-01-16T10:06:00Z
date_published: 2022-09-27T00:00:00Z
date_updated: 2023-08-04T10:33:28Z
day: '27'
department:
- _id: DaAl
- _id: ChLa
doi: 10.1109/cvpr52688.2022.01195
ec_funded: 1
external_id:
arxiv:
- '2111.13445'
isi:
- '000870759105034'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2111.13445
month: '09'
oa: 1
oa_version: Preprint
page: 12256-12266
project:
- _id: 9B9290DE-BA93-11EA-9121-9846C619BF3A
grant_number: ' W1260-N35'
name: Vienna Graduate School on Computational Optimization
- _id: 268A44D6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '805223'
name: Elastic Coordination for Scalable Machine Learning
publication: 2022 IEEE/CVF Conference on Computer Vision and Pattern Recognition
publication_identifier:
eissn:
- 2575-7075
publication_status: published
publisher: Institute of Electrical and Electronics Engineers
quality_controlled: '1'
related_material:
record:
- id: '13074'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: How well do sparse ImageNet models transfer?
type: conference
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
year: '2022'
...
---
_id: '12300'
abstract:
- lang: eng
text: Distributed Key Generation (DKG) is a technique to bootstrap threshold cryptosystems
without a trusted third party and is a building block to decentralized protocols
such as randomness beacons, threshold signatures, and general multiparty computation.
Until recently, DKG protocols have assumed the synchronous model and thus are
vulnerable when their underlying network assumptions do not hold. The recent advancements
in asynchronous DKG protocols are insufficient as they either have poor efficiency
or limited functionality, resulting in a lack of concrete implementations. In
this paper, we present a simple and concretely efficient asynchronous DKG (ADKG)
protocol. In a network of n nodes, our ADKG protocol can tolerate up to t2022 IEEE Symposium on Security and Privacy.
Institute of Electrical and Electronics Engineers; 2022:2518-2534. doi:10.1109/sp46214.2022.9833584'
apa: 'Das, S., Yurek, T., Xiang, Z., Miller, A., Kokoris Kogias, E., & Ren,
L. (2022). Practical asynchronous distributed key generation. In 2022 IEEE
Symposium on Security and Privacy (pp. 2518–2534). San Francisco, CA, United
States: Institute of Electrical and Electronics Engineers. https://doi.org/10.1109/sp46214.2022.9833584'
chicago: Das, Sourav, Thomas Yurek, Zhuolun Xiang, Andrew Miller, Eleftherios Kokoris
Kogias, and Ling Ren. “Practical Asynchronous Distributed Key Generation.” In
2022 IEEE Symposium on Security and Privacy, 2518–34. Institute of Electrical
and Electronics Engineers, 2022. https://doi.org/10.1109/sp46214.2022.9833584.
ieee: S. Das, T. Yurek, Z. Xiang, A. Miller, E. Kokoris Kogias, and L. Ren, “Practical
asynchronous distributed key generation,” in 2022 IEEE Symposium on Security
and Privacy, San Francisco, CA, United States, 2022, pp. 2518–2534.
ista: 'Das S, Yurek T, Xiang Z, Miller A, Kokoris Kogias E, Ren L. 2022. Practical
asynchronous distributed key generation. 2022 IEEE Symposium on Security and Privacy.
SP: Symposium on Security and Privacy, 2518–2534.'
mla: Das, Sourav, et al. “Practical Asynchronous Distributed Key Generation.” 2022
IEEE Symposium on Security and Privacy, Institute of Electrical and Electronics
Engineers, 2022, pp. 2518–34, doi:10.1109/sp46214.2022.9833584.
short: S. Das, T. Yurek, Z. Xiang, A. Miller, E. Kokoris Kogias, L. Ren, in:, 2022
IEEE Symposium on Security and Privacy, Institute of Electrical and Electronics
Engineers, 2022, pp. 2518–2534.
conference:
end_date: 2022-05-26
location: San Francisco, CA, United States
name: 'SP: Symposium on Security and Privacy'
start_date: 2022-05-23
date_created: 2023-01-16T10:06:11Z
date_published: 2022-07-27T00:00:00Z
date_updated: 2023-02-16T07:43:53Z
day: '27'
department:
- _id: ElKo
doi: 10.1109/sp46214.2022.9833584
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2021/1591
month: '07'
oa: 1
oa_version: Preprint
page: 2518-2534
publication: 2022 IEEE Symposium on Security and Privacy
publication_identifier:
eisbn:
- '9781665413169'
eissn:
- 2375-1207
publication_status: published
publisher: Institute of Electrical and Electronics Engineers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Practical asynchronous distributed key generation
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '12302'
abstract:
- lang: eng
text: 'We propose a novel algorithm to decide the language inclusion between (nondeterministic)
Büchi automata, a PSPACE-complete problem. Our approach, like others before, leverage
a notion of quasiorder to prune the search for a counterexample by discarding
candidates which are subsumed by others for the quasiorder. Discarded candidates
are guaranteed to not compromise the completeness of the algorithm. The novelty
of our work lies in the quasiorder used to discard candidates. We introduce FORQs
(family of right quasiorders) that we obtain by adapting the notion of family
of right congruences put forward by Maler and Staiger in 1993. We define a FORQ-based
inclusion algorithm which we prove correct and instantiate it for a specific FORQ,
called the structural FORQ, induced by the Büchi automaton to the right of the
inclusion sign. The resulting implementation, called FORKLIFT, scales up better
than the state-of-the-art on a variety of benchmarks including benchmarks from
program verification and theorem proving for word combinatorics. Artifact: https://doi.org/10.5281/zenodo.6552870'
acknowledgement: This work was partially funded by the ESF Investing in your future,
the Madrid regional project S2018/TCS-4339 BLOQUES, the Spanish project PGC2018-102210-B-I00
BOSCO, the Ramón y Cajal fellowship RYC-2016-20281, and the ERC grant PR1001ERC02.
alternative_title:
- LNCS
article_processing_charge: No
arxiv: 1
author:
- first_name: Kyveli
full_name: Doveri, Kyveli
last_name: Doveri
- first_name: Pierre
full_name: Ganty, Pierre
last_name: Ganty
- first_name: Nicolas Adrien
full_name: Mazzocchi, Nicolas Adrien
id: b26baa86-3308-11ec-87b0-8990f34baa85
last_name: Mazzocchi
citation:
ama: 'Doveri K, Ganty P, Mazzocchi NA. FORQ-based language inclusion formal testing.
In: Computer Aided Verification. Vol 13372. Springer Nature; 2022:109-129.
doi:10.1007/978-3-031-13188-2_6'
apa: 'Doveri, K., Ganty, P., & Mazzocchi, N. A. (2022). FORQ-based language
inclusion formal testing. In Computer Aided Verification (Vol. 13372, pp.
109–129). Haifa, Israel: Springer Nature. https://doi.org/10.1007/978-3-031-13188-2_6'
chicago: Doveri, Kyveli, Pierre Ganty, and Nicolas Adrien Mazzocchi. “FORQ-Based
Language Inclusion Formal Testing.” In Computer Aided Verification, 13372:109–29.
Springer Nature, 2022. https://doi.org/10.1007/978-3-031-13188-2_6.
ieee: K. Doveri, P. Ganty, and N. A. Mazzocchi, “FORQ-based language inclusion formal
testing,” in Computer Aided Verification, Haifa, Israel, 2022, vol. 13372,
pp. 109–129.
ista: 'Doveri K, Ganty P, Mazzocchi NA. 2022. FORQ-based language inclusion formal
testing. Computer Aided Verification. CAV: Computer Aided Verification, LNCS,
vol. 13372, 109–129.'
mla: Doveri, Kyveli, et al. “FORQ-Based Language Inclusion Formal Testing.” Computer
Aided Verification, vol. 13372, Springer Nature, 2022, pp. 109–29, doi:10.1007/978-3-031-13188-2_6.
short: K. Doveri, P. Ganty, N.A. Mazzocchi, in:, Computer Aided Verification, Springer
Nature, 2022, pp. 109–129.
conference:
end_date: 2022-08-10
location: Haifa, Israel
name: 'CAV: Computer Aided Verification'
start_date: 2022-08-07
date_created: 2023-01-16T10:06:31Z
date_published: 2022-08-06T00:00:00Z
date_updated: 2023-09-05T15:13:36Z
day: '06'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1007/978-3-031-13188-2_6
ec_funded: 1
external_id:
arxiv:
- '2207.13549'
isi:
- '000870310500006'
file:
- access_level: open_access
checksum: edc363b1be5447a09063e115c247918a
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T12:51:02Z
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file_size: 497682
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file_date_updated: 2023-01-30T12:51:02Z
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intvolume: ' 13372'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 109-129
project:
- _id: 62781420-2b32-11ec-9570-8d9b63373d4d
call_identifier: H2020
grant_number: '101020093'
name: Vigilant Algorithmic Monitoring of Software
publication: Computer Aided Verification
publication_identifier:
eisbn:
- '9783031131882'
eissn:
- 1611-3349
isbn:
- '9783031131875'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: FORQ-based language inclusion formal testing
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: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 13372
year: '2022'
...
---
_id: '12303'
abstract:
- lang: eng
text: We construct for each choice of a quiver Q, a cohomology theory A, and a poset
P a “loop Grassmannian” GP(Q,A). This generalizes loop Grassmannians of semisimple
groups and the loop Grassmannians of based quadratic forms. The addition of a
“dilation” torus D⊆G2m gives a quantization GPD(Q,A). This construction is motivated
by the program of introducing an inner cohomology theory in algebraic geometry
adequate for the Geometric Langlands program (Mirković, Some extensions of the
notion of loop Grassmannians. Rad Hrvat. Akad. Znan. Umjet. Mat. Znan., the Mardešić
issue. No. 532, 53–74, 2017) and on the construction of affine quantum groups
from generalized cohomology theories (Yang and Zhao, Quiver varieties and elliptic
quantum groups, preprint. arxiv1708.01418).
acknowledgement: I.M. thanks Zhijie Dong for long-term discussions on the material
that entered this work. We thank Misha Finkelberg for pointing out errors in earlier
versions. His advice and his insistence have led to a much better paper. A part
of the writing was done at the conference at IST (Vienna) attended by all coauthors.
We therefore thank the organizers of the conference and the support of ERC Advanced
Grant Arithmetic and Physics of Higgs moduli spaces No. 320593. The work of I.M.
was partially supported by NSF grants. The work of Y.Y. was partially supported
by the Australian Research Council (ARC) via the award DE190101231. The work of
G.Z. was partially supported by ARC via the award DE190101222.
alternative_title:
- Trends in Mathematics
article_processing_charge: No
arxiv: 1
author:
- first_name: Ivan
full_name: Mirković, Ivan
last_name: Mirković
- first_name: Yaping
full_name: Yang, Yaping
last_name: Yang
- first_name: Gufang
full_name: Zhao, Gufang
id: 2BC2AC5E-F248-11E8-B48F-1D18A9856A87
last_name: Zhao
citation:
ama: 'Mirković I, Yang Y, Zhao G. Loop Grassmannians of Quivers and Affine Quantum
Groups. In: Baranovskky V, Guay N, Schedler T, eds. Representation Theory and
Algebraic Geometry. 1st ed. TM. Cham: Springer Nature; Birkhäuser; 2022:347-392.
doi:10.1007/978-3-030-82007-7_8'
apa: 'Mirković, I., Yang, Y., & Zhao, G. (2022). Loop Grassmannians of Quivers
and Affine Quantum Groups. In V. Baranovskky, N. Guay, & T. Schedler (Eds.),
Representation Theory and Algebraic Geometry (1st ed., pp. 347–392). Cham:
Springer Nature; Birkhäuser. https://doi.org/10.1007/978-3-030-82007-7_8'
chicago: 'Mirković, Ivan, Yaping Yang, and Gufang Zhao. “Loop Grassmannians of Quivers
and Affine Quantum Groups.” In Representation Theory and Algebraic Geometry,
edited by Vladimir Baranovskky, Nicolas Guay, and Travis Schedler, 1st ed., 347–92.
TM. Cham: Springer Nature; Birkhäuser, 2022. https://doi.org/10.1007/978-3-030-82007-7_8.'
ieee: 'I. Mirković, Y. Yang, and G. Zhao, “Loop Grassmannians of Quivers and Affine
Quantum Groups,” in Representation Theory and Algebraic Geometry, 1st ed.,
V. Baranovskky, N. Guay, and T. Schedler, Eds. Cham: Springer Nature; Birkhäuser,
2022, pp. 347–392.'
ista: 'Mirković I, Yang Y, Zhao G. 2022.Loop Grassmannians of Quivers and Affine
Quantum Groups. In: Representation Theory and Algebraic Geometry. Trends in Mathematics,
, 347–392.'
mla: Mirković, Ivan, et al. “Loop Grassmannians of Quivers and Affine Quantum Groups.”
Representation Theory and Algebraic Geometry, edited by Vladimir Baranovskky
et al., 1st ed., Springer Nature; Birkhäuser, 2022, pp. 347–92, doi:10.1007/978-3-030-82007-7_8.
short: I. Mirković, Y. Yang, G. Zhao, in:, V. Baranovskky, N. Guay, T. Schedler
(Eds.), Representation Theory and Algebraic Geometry, 1st ed., Springer Nature;
Birkhäuser, Cham, 2022, pp. 347–392.
date_created: 2023-01-16T10:06:41Z
date_published: 2022-06-16T00:00:00Z
date_updated: 2023-01-27T07:07:31Z
day: '16'
department:
- _id: TaHa
doi: 10.1007/978-3-030-82007-7_8
ec_funded: 1
edition: '1'
editor:
- first_name: Vladimir
full_name: Baranovskky, Vladimir
last_name: Baranovskky
- first_name: Nicolas
full_name: Guay, Nicolas
last_name: Guay
- first_name: Travis
full_name: Schedler, Travis
last_name: Schedler
external_id:
arxiv:
- '1810.10095'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1810.10095
month: '06'
oa: 1
oa_version: Preprint
page: 347-392
place: Cham
project:
- _id: 25E549F4-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '320593'
name: Arithmetic and physics of Higgs moduli spaces
publication: Representation Theory and Algebraic Geometry
publication_identifier:
eisbn:
- '9783030820077'
eissn:
- 2297-024X
isbn:
- '9783030820060'
issn:
- 2297-0215
publication_status: published
publisher: Springer Nature; Birkhäuser
quality_controlled: '1'
scopus_import: '1'
series_title: TM
status: public
title: Loop Grassmannians of Quivers and Affine Quantum Groups
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '12304'
abstract:
- lang: eng
text: 'We establish sharp criteria for the instantaneous propagation of free boundaries
in solutions to the thin-film equation. The criteria are formulated in terms of
the initial distribution of mass (as opposed to previous almost-optimal results),
reflecting the fact that mass is a locally conserved quantity for the thin-film
equation. In the regime of weak slippage, our criteria are at the same time necessary
and sufficient. The proof of our upper bounds on free boundary propagation is
based on a strategy of “propagation of degeneracy” down to arbitrarily small spatial
scales: We combine estimates on the local mass and estimates on energies to show
that “degeneracy” on a certain space-time cylinder entails “degeneracy” on a spatially
smaller space-time cylinder with the same time horizon. The derivation of our
lower bounds on free boundary propagation is based on a combination of a monotone
quantity and almost optimal estimates established previously by the second author
with a new estimate connecting motion of mass to entropy production.'
acknowledgement: N. De Nitti acknowledges the kind hospitality of IST Austria within
the framework of the ISTernship Summer Program 2018, during which most of the present
article was written. N. DeNitti has received funding by The Austrian Agency for
International Cooperation in Education &Research (OeAD-GmbH) via its financial support
of the ISTernship Summer Program 2018. N.De Nitti would also like to thank Giuseppe
Coclite, Giuseppe Devillanova, Giuseppe Florio, Sebastian Hensel, and Francesco
Maddalena for several helpful conversations on topics related to this work.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Nicola
full_name: De Nitti, Nicola
last_name: De Nitti
- first_name: Julian L
full_name: Fischer, Julian L
id: 2C12A0B0-F248-11E8-B48F-1D18A9856A87
last_name: Fischer
orcid: 0000-0002-0479-558X
citation:
ama: De Nitti N, Fischer JL. Sharp criteria for the waiting time phenomenon in solutions
to the thin-film equation. Communications in Partial Differential Equations.
2022;47(7):1394-1434. doi:10.1080/03605302.2022.2056702
apa: De Nitti, N., & Fischer, J. L. (2022). Sharp criteria for the waiting time
phenomenon in solutions to the thin-film equation. Communications in Partial
Differential Equations. Taylor & Francis. https://doi.org/10.1080/03605302.2022.2056702
chicago: De Nitti, Nicola, and Julian L Fischer. “Sharp Criteria for the Waiting
Time Phenomenon in Solutions to the Thin-Film Equation.” Communications in
Partial Differential Equations. Taylor & Francis, 2022. https://doi.org/10.1080/03605302.2022.2056702.
ieee: N. De Nitti and J. L. Fischer, “Sharp criteria for the waiting time phenomenon
in solutions to the thin-film equation,” Communications in Partial Differential
Equations, vol. 47, no. 7. Taylor & Francis, pp. 1394–1434, 2022.
ista: De Nitti N, Fischer JL. 2022. Sharp criteria for the waiting time phenomenon
in solutions to the thin-film equation. Communications in Partial Differential
Equations. 47(7), 1394–1434.
mla: De Nitti, Nicola, and Julian L. Fischer. “Sharp Criteria for the Waiting Time
Phenomenon in Solutions to the Thin-Film Equation.” Communications in Partial
Differential Equations, vol. 47, no. 7, Taylor & Francis, 2022, pp. 1394–434,
doi:10.1080/03605302.2022.2056702.
short: N. De Nitti, J.L. Fischer, Communications in Partial Differential Equations
47 (2022) 1394–1434.
date_created: 2023-01-16T10:06:50Z
date_published: 2022-07-01T00:00:00Z
date_updated: 2023-08-04T10:34:31Z
day: '01'
department:
- _id: JuFi
doi: 10.1080/03605302.2022.2056702
external_id:
arxiv:
- '1907.05342'
isi:
- '000805689800001'
intvolume: ' 47'
isi: 1
issue: '7'
keyword:
- Applied Mathematics
- Analysis
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.48550/arXiv.1907.05342'
month: '07'
oa: 1
oa_version: Preprint
page: 1394-1434
publication: Communications in Partial Differential Equations
publication_identifier:
eissn:
- 1532-4133
issn:
- 0360-5302
publication_status: published
publisher: Taylor & Francis
quality_controlled: '1'
scopus_import: '1'
status: public
title: Sharp criteria for the waiting time phenomenon in solutions to the thin-film
equation
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 47
year: '2022'
...