---
_id: '12548'
abstract:
- lang: eng
  text: The limited exchange between human communities is a key factor in preventing
    the spread of COVID-19. This paper introduces a digital framework that combines
    an integration of real mobility data at the country scale with a series of modeling
    techniques and visual capabilities that highlight mobility patterns before and
    during the pandemic. The findings not only significantly exhibit mobility trends
    and different degrees of similarities at regional and local levels but also provide
    potential insight into the emergence of a pandemic on human behavior patterns
    and their likely socio-economic impacts.
article_number: '00093'
article_processing_charge: No
author:
- first_name: Mohammad
  full_name: Forghani, Mohammad
  last_name: Forghani
- first_name: Christophe
  full_name: Claramunt, Christophe
  last_name: Claramunt
- first_name: Farid
  full_name: Karimipour, Farid
  id: 2A2BCDC4-CF62-11E9-BE5E-3B1EE6697425
  last_name: Karimipour
  orcid: 0000-0001-6746-4174
- first_name: Georg
  full_name: Heiler, Georg
  last_name: Heiler
citation:
  ama: 'Forghani M, Claramunt C, Karimipour F, Heiler G. Visual analytics of mobility
    network changes observed using mobile phone data during COVID-19 pandemic. In:
    <i>2022 IEEE International Conference on Data Mining Workshops</i>. Institute
    of Electrical and Electronics Engineers; 2023. doi:<a href="https://doi.org/10.1109/icdmw58026.2022.00093">10.1109/icdmw58026.2022.00093</a>'
  apa: 'Forghani, M., Claramunt, C., Karimipour, F., &#38; Heiler, G. (2023). Visual
    analytics of mobility network changes observed using mobile phone data during
    COVID-19 pandemic. In <i>2022 IEEE International Conference on Data Mining Workshops</i>.
    Orlando, FL, United States: Institute of Electrical and Electronics Engineers.
    <a href="https://doi.org/10.1109/icdmw58026.2022.00093">https://doi.org/10.1109/icdmw58026.2022.00093</a>'
  chicago: Forghani, Mohammad, Christophe Claramunt, Farid Karimipour, and Georg Heiler.
    “Visual Analytics of Mobility Network Changes Observed Using Mobile Phone Data
    during COVID-19 Pandemic.” In <i>2022 IEEE International Conference on Data Mining
    Workshops</i>. Institute of Electrical and Electronics Engineers, 2023. <a href="https://doi.org/10.1109/icdmw58026.2022.00093">https://doi.org/10.1109/icdmw58026.2022.00093</a>.
  ieee: M. Forghani, C. Claramunt, F. Karimipour, and G. Heiler, “Visual analytics
    of mobility network changes observed using mobile phone data during COVID-19 pandemic,”
    in <i>2022 IEEE International Conference on Data Mining Workshops</i>, Orlando,
    FL, United States, 2023.
  ista: 'Forghani M, Claramunt C, Karimipour F, Heiler G. 2023. Visual analytics of
    mobility network changes observed using mobile phone data during COVID-19 pandemic.
    2022 IEEE International Conference on Data Mining Workshops. ICDMW: Conference
    on Data Mining Workshops, 00093.'
  mla: Forghani, Mohammad, et al. “Visual Analytics of Mobility Network Changes Observed
    Using Mobile Phone Data during COVID-19 Pandemic.” <i>2022 IEEE International
    Conference on Data Mining Workshops</i>, 00093, Institute of Electrical and Electronics
    Engineers, 2023, doi:<a href="https://doi.org/10.1109/icdmw58026.2022.00093">10.1109/icdmw58026.2022.00093</a>.
  short: M. Forghani, C. Claramunt, F. Karimipour, G. Heiler, in:, 2022 IEEE International
    Conference on Data Mining Workshops, Institute of Electrical and Electronics Engineers,
    2023.
conference:
  end_date: 2022-12-01
  location: Orlando, FL, United States
  name: 'ICDMW: Conference on Data Mining Workshops'
  start_date: 2022-11-28
date_created: 2023-02-14T07:56:21Z
date_published: 2023-02-08T00:00:00Z
date_updated: 2023-08-01T13:15:48Z
day: '08'
ddc:
- '600'
department:
- _id: HeEd
doi: 10.1109/icdmw58026.2022.00093
external_id:
  isi:
  - '000971492200145'
file:
- access_level: open_access
  checksum: c253bee25e6dfe484f96662daa119cb6
  content_type: application/pdf
  creator: fkarimip
  date_created: 2023-02-14T07:58:26Z
  date_updated: 2023-02-14T07:58:26Z
  file_id: '12549'
  file_name: Visual Analysis_Mobility_COVID19 - SocDM2022.pdf
  file_size: 1183339
  relation: main_file
  success: 1
file_date_updated: 2023-02-14T07:58:26Z
has_accepted_license: '1'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Submitted Version
publication: 2022 IEEE International Conference on Data Mining Workshops
publication_identifier:
  eisbn:
  - '9798350346091'
  eissn:
  - 2375-9259
publication_status: published
publisher: Institute of Electrical and Electronics Engineers
quality_controlled: '1'
status: public
title: Visual analytics of mobility network changes observed using mobile phone data
  during COVID-19 pandemic
type: conference
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
year: '2023'
...
---
_id: '12562'
abstract:
- lang: eng
  text: Presynaptic inputs determine the pattern of activation of postsynaptic neurons
    in a neural circuit. Molecular and genetic pathways that regulate the selective
    formation of subsets of presynaptic inputs are largely unknown, despite significant
    understanding of the general process of synaptogenesis. In this study, we have
    begun to identify such factors using the spinal monosynaptic stretch reflex circuit
    as a model system. In this neuronal circuit, Ia proprioceptive afferents establish
    monosynaptic connections with spinal motor neurons that project to the same muscle
    (termed homonymous connections) or muscles with related or synergistic function.
    However, monosynaptic connections are not formed with motor neurons innervating
    muscles with antagonistic functions. The ETS transcription factor ER81 (also known
    as ETV1) is expressed by all proprioceptive afferents, but only a small set of
    motor neuron pools in the lumbar spinal cord of the mouse. Here we use conditional
    mouse genetic techniques to eliminate Er81 expression selectively from motor neurons.
    We find that ablation of Er81 in motor neurons reduces synaptic inputs from proprioceptive
    afferents conveying information from homonymous and synergistic muscles, with
    no change observed in the connectivity pattern from antagonistic proprioceptive
    afferents. In summary, these findings suggest a role for ER81 in defined motor
    neuron pools to control the assembly of specific presynaptic inputs and thereby
    influence the profile of activation of these motor neurons.
acknowledgement: The authors gratefully thank Dr. Silvia Arber, University of Basel
  and Friedrich Miescher Institute for Biomedical Research, for support and in whose
  lab the data were collected. For advice on statistical analysis, we thank Michael
  Bottomley from the Statistical Consulting Center, College of Science and Mathematics,
  Wright State University.
article_processing_charge: No
article_type: original
author:
- first_name: David R.
  full_name: Ladle, David R.
  last_name: Ladle
- first_name: Simon
  full_name: Hippenmeyer, Simon
  id: 37B36620-F248-11E8-B48F-1D18A9856A87
  last_name: Hippenmeyer
  orcid: 0000-0003-2279-1061
citation:
  ama: Ladle DR, Hippenmeyer S. Loss of ETV1/ER81 in motor neurons leads to reduced
    monosynaptic inputs from proprioceptive sensory neurons. <i>Journal of Neurophysiology</i>.
    2023;129(3):501-512. doi:<a href="https://doi.org/10.1152/jn.00172.2022">10.1152/jn.00172.2022</a>
  apa: Ladle, D. R., &#38; Hippenmeyer, S. (2023). Loss of ETV1/ER81 in motor neurons
    leads to reduced monosynaptic inputs from proprioceptive sensory neurons. <i>Journal
    of Neurophysiology</i>. American Physiological Society. <a href="https://doi.org/10.1152/jn.00172.2022">https://doi.org/10.1152/jn.00172.2022</a>
  chicago: Ladle, David R., and Simon Hippenmeyer. “Loss of ETV1/ER81 in Motor Neurons
    Leads to Reduced Monosynaptic Inputs from Proprioceptive Sensory Neurons.” <i>Journal
    of Neurophysiology</i>. American Physiological Society, 2023. <a href="https://doi.org/10.1152/jn.00172.2022">https://doi.org/10.1152/jn.00172.2022</a>.
  ieee: D. R. Ladle and S. Hippenmeyer, “Loss of ETV1/ER81 in motor neurons leads
    to reduced monosynaptic inputs from proprioceptive sensory neurons,” <i>Journal
    of Neurophysiology</i>, vol. 129, no. 3. American Physiological Society, pp. 501–512,
    2023.
  ista: Ladle DR, Hippenmeyer S. 2023. Loss of ETV1/ER81 in motor neurons leads to
    reduced monosynaptic inputs from proprioceptive sensory neurons. Journal of Neurophysiology.
    129(3), 501–512.
  mla: Ladle, David R., and Simon Hippenmeyer. “Loss of ETV1/ER81 in Motor Neurons
    Leads to Reduced Monosynaptic Inputs from Proprioceptive Sensory Neurons.” <i>Journal
    of Neurophysiology</i>, vol. 129, no. 3, American Physiological Society, 2023,
    pp. 501–12, doi:<a href="https://doi.org/10.1152/jn.00172.2022">10.1152/jn.00172.2022</a>.
  short: D.R. Ladle, S. Hippenmeyer, Journal of Neurophysiology 129 (2023) 501–512.
date_created: 2023-02-15T14:46:14Z
date_published: 2023-03-01T00:00:00Z
date_updated: 2023-09-05T12:13:34Z
day: '01'
department:
- _id: SiHi
doi: 10.1152/jn.00172.2022
external_id:
  isi:
  - '000957721600001'
  pmid:
  - '36695533'
intvolume: '       129'
isi: 1
issue: '3'
keyword:
- Physiology
- General Neuroscience
language:
- iso: eng
month: '03'
oa_version: None
page: 501-512
pmid: 1
publication: Journal of Neurophysiology
publication_identifier:
  eissn:
  - 1522-1598
  issn:
  - 0022-3077
publication_status: published
publisher: American Physiological Society
quality_controlled: '1'
status: public
title: Loss of ETV1/ER81 in motor neurons leads to reduced monosynaptic inputs from
  proprioceptive sensory neurons
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 129
year: '2023'
...
---
_id: '12563'
abstract:
- lang: eng
  text: 'he approximate graph coloring problem, whose complexity is unresolved in
    most cases, concerns finding a c-coloring of a graph that is promised to be k-colorable,
    where c≥k. This problem naturally generalizes to promise graph homomorphism problems
    and further to promise constraint satisfaction problems. The complexity of these
    problems has recently been studied through an algebraic approach. In this paper,
    we introduce two new techniques to analyze the complexity of promise CSPs: one
    is based on topology and the other on adjunction. We apply these techniques, together
    with the previously introduced algebraic approach, to obtain new unconditional
    NP-hardness results for a significant class of approximate graph coloring and
    promise graph homomorphism problems.'
acknowledgement: "Andrei Krokhin and Jakub Opršal were supported by the UK EPSRC grant
  EP/R034516/1. Jakub Opršal has received funding from the European Union’s Horizon
  2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement
  No 101034413. Stanislav Živný was supported by a Royal Society University Research
  Fellowship. This project has received funding from the European Research Council
  (ERC) under the European Union’s Horizon 2020 research and innovation programme
  (grant agreement No 714532). The paper re\x1Eects only the authors’ views and not
  the views of the ERC or the European Commission. "
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Andrei
  full_name: Krokhin, Andrei
  last_name: Krokhin
- first_name: Jakub
  full_name: Opršal, Jakub
  id: ec596741-c539-11ec-b829-c79322a91242
  last_name: Opršal
  orcid: 0000-0003-1245-3456
- first_name: Marcin
  full_name: Wrochna, Marcin
  last_name: Wrochna
- first_name: Stanislav
  full_name: Živný, Stanislav
  last_name: Živný
citation:
  ama: Krokhin A, Opršal J, Wrochna M, Živný S. Topology and adjunction in promise
    constraint satisfaction. <i>SIAM Journal on Computing</i>. 2023;52(1):38-79. doi:<a
    href="https://doi.org/10.1137/20m1378223">10.1137/20m1378223</a>
  apa: Krokhin, A., Opršal, J., Wrochna, M., &#38; Živný, S. (2023). Topology and
    adjunction in promise constraint satisfaction. <i>SIAM Journal on Computing</i>.
    Society for Industrial &#38; Applied Mathematics. <a href="https://doi.org/10.1137/20m1378223">https://doi.org/10.1137/20m1378223</a>
  chicago: Krokhin, Andrei, Jakub Opršal, Marcin Wrochna, and Stanislav Živný. “Topology
    and Adjunction in Promise Constraint Satisfaction.” <i>SIAM Journal on Computing</i>.
    Society for Industrial &#38; Applied Mathematics, 2023. <a href="https://doi.org/10.1137/20m1378223">https://doi.org/10.1137/20m1378223</a>.
  ieee: A. Krokhin, J. Opršal, M. Wrochna, and S. Živný, “Topology and adjunction
    in promise constraint satisfaction,” <i>SIAM Journal on Computing</i>, vol. 52,
    no. 1. Society for Industrial &#38; Applied Mathematics, pp. 38–79, 2023.
  ista: Krokhin A, Opršal J, Wrochna M, Živný S. 2023. Topology and adjunction in
    promise constraint satisfaction. SIAM Journal on Computing. 52(1), 38–79.
  mla: Krokhin, Andrei, et al. “Topology and Adjunction in Promise Constraint Satisfaction.”
    <i>SIAM Journal on Computing</i>, vol. 52, no. 1, Society for Industrial &#38;
    Applied Mathematics, 2023, pp. 38–79, doi:<a href="https://doi.org/10.1137/20m1378223">10.1137/20m1378223</a>.
  short: A. Krokhin, J. Opršal, M. Wrochna, S. Živný, SIAM Journal on Computing 52
    (2023) 38–79.
date_created: 2023-02-16T07:03:52Z
date_published: 2023-01-01T00:00:00Z
date_updated: 2023-08-01T13:11:30Z
day: '01'
department:
- _id: UlWa
doi: 10.1137/20m1378223
ec_funded: 1
external_id:
  arxiv:
  - '2003.11351'
  isi:
  - '000955000000001'
intvolume: '        52'
isi: 1
issue: '1'
keyword:
- General Mathematics
- General Computer Science
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2003.11351
month: '01'
oa: 1
oa_version: Preprint
page: 38-79
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
  call_identifier: H2020
  grant_number: '101034413'
  name: 'IST-BRIDGE: International postdoctoral program'
publication: SIAM Journal on Computing
publication_identifier:
  eissn:
  - 1095-7111
  issn:
  - 0097-5397
publication_status: published
publisher: Society for Industrial & Applied Mathematics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Topology and adjunction in promise constraint satisfaction
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 52
year: '2023'
...
---
_id: '12566'
abstract:
- lang: eng
  text: "Approximate agreement is one of the few variants of consensus that can be
    solved in a wait-free manner in asynchronous systems where processes communicate
    by reading and writing to shared memory. In this work, we consider a natural generalisation
    of approximate agreement on arbitrary undirected connected graphs. Each process
    is given a node of the graph as input and, if non-faulty, must output a node such
    that\r\n– all the outputs are within distance 1 of one another, and\r\n– each
    output value lies on a shortest path between two input values.\r\nFrom prior work,
    it is known that there is no wait-free algorithm among  processes for this problem
    on any cycle of length , by reduction from 2-set agreement (Castañeda et al.,
    2018).\r\n\r\nIn this work, we investigate the solvability of this task on general
    graphs. We give a new, direct proof of the impossibility of approximate agreement
    on cycles of length , via a generalisation of Sperner's Lemma to convex polygons.
    We also extend the reduction from 2-set agreement to a larger class of graphs,
    showing that approximate agreement on these graphs is unsolvable. On the positive
    side, we present a wait-free algorithm for a different class of graphs, which
    properly contains the class of chordal graphs."
acknowledgement: This project has received funding from the European Research Council
  (ERC) under the European Union’s Horizon 2020 research and innovation programme
  (grant agreement No. 805223 ScaleML) and under the Marie Skłodowska-Curie grant
  agreement No. 840605 and from the Natural Sciences and Engineering Research Council
  of Canada grant RGPIN-2020-04178. Part of this work was done while Faith Ellen was
  visiting IST Austria.
article_number: '113733'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Dan-Adrian
  full_name: Alistarh, Dan-Adrian
  id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
  last_name: Alistarh
  orcid: 0000-0003-3650-940X
- first_name: Faith
  full_name: Ellen, Faith
  last_name: Ellen
- first_name: Joel
  full_name: Rybicki, Joel
  id: 334EFD2E-F248-11E8-B48F-1D18A9856A87
  last_name: Rybicki
  orcid: 0000-0002-6432-6646
citation:
  ama: Alistarh D-A, Ellen F, Rybicki J. Wait-free approximate agreement on graphs.
    <i>Theoretical Computer Science</i>. 2023;948(2). doi:<a href="https://doi.org/10.1016/j.tcs.2023.113733">10.1016/j.tcs.2023.113733</a>
  apa: Alistarh, D.-A., Ellen, F., &#38; Rybicki, J. (2023). Wait-free approximate
    agreement on graphs. <i>Theoretical Computer Science</i>. Elsevier. <a href="https://doi.org/10.1016/j.tcs.2023.113733">https://doi.org/10.1016/j.tcs.2023.113733</a>
  chicago: Alistarh, Dan-Adrian, Faith Ellen, and Joel Rybicki. “Wait-Free Approximate
    Agreement on Graphs.” <i>Theoretical Computer Science</i>. Elsevier, 2023. <a
    href="https://doi.org/10.1016/j.tcs.2023.113733">https://doi.org/10.1016/j.tcs.2023.113733</a>.
  ieee: D.-A. Alistarh, F. Ellen, and J. Rybicki, “Wait-free approximate agreement
    on graphs,” <i>Theoretical Computer Science</i>, vol. 948, no. 2. Elsevier, 2023.
  ista: Alistarh D-A, Ellen F, Rybicki J. 2023. Wait-free approximate agreement on
    graphs. Theoretical Computer Science. 948(2), 113733.
  mla: Alistarh, Dan-Adrian, et al. “Wait-Free Approximate Agreement on Graphs.” <i>Theoretical
    Computer Science</i>, vol. 948, no. 2, 113733, Elsevier, 2023, doi:<a href="https://doi.org/10.1016/j.tcs.2023.113733">10.1016/j.tcs.2023.113733</a>.
  short: D.-A. Alistarh, F. Ellen, J. Rybicki, Theoretical Computer Science 948 (2023).
date_created: 2023-02-19T23:00:55Z
date_published: 2023-02-28T00:00:00Z
date_updated: 2023-08-01T13:17:20Z
day: '28'
ddc:
- '000'
department:
- _id: DaAl
doi: 10.1016/j.tcs.2023.113733
ec_funded: 1
external_id:
  isi:
  - '000934262700001'
file:
- access_level: open_access
  checksum: b27c5290f2f1500c403494364ee39c9f
  content_type: application/pdf
  creator: dernst
  date_created: 2023-02-20T07:30:20Z
  date_updated: 2023-02-20T07:30:20Z
  file_id: '12570'
  file_name: 2023_TheoreticalCompScience_Alistarh.pdf
  file_size: 602333
  relation: main_file
  success: 1
file_date_updated: 2023-02-20T07:30:20Z
has_accepted_license: '1'
intvolume: '       948'
isi: 1
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 268A44D6-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '805223'
  name: Elastic Coordination for Scalable Machine Learning
- _id: 26A5D39A-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '840605'
  name: Coordination in constrained and natural distributed systems
publication: Theoretical Computer Science
publication_identifier:
  issn:
  - 0304-3975
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Wait-free approximate agreement on graphs
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: 948
year: '2023'
...
---
_id: '12567'
abstract:
- lang: eng
  text: Single-molecule localization microscopy (SMLM) greatly advances structural
    studies of diverse biological tissues. For example, presynaptic active zone (AZ)
    nanotopology is resolved in increasing detail. Immunofluorescence imaging of AZ
    proteins usually relies on epitope preservation using aldehyde-based immunocompetent
    fixation. Cryofixation techniques, such as high-pressure freezing (HPF) and freeze
    substitution (FS), are widely used for ultrastructural studies of presynaptic
    architecture in electron microscopy (EM). HPF/FS demonstrated nearer-to-native
    preservation of AZ ultrastructure, e.g., by facilitating single filamentous structures.
    Here, we present a protocol combining the advantages of HPF/FS and direct stochastic
    optical reconstruction microscopy (dSTORM) to quantify nanotopology of the AZ
    scaffold protein Bruchpilot (Brp) at neuromuscular junctions (NMJs) of Drosophila
    melanogaster. Using this standardized model, we tested for preservation of Brp
    clusters in different FS protocols compared to classical aldehyde fixation. In
    HPF/FS samples, presynaptic boutons were structurally well preserved with ~22%
    smaller Brp clusters that allowed quantification of subcluster topology. In summary,
    we established a standardized near-to-native preparation and immunohistochemistry
    protocol for SMLM analyses of AZ protein clusters in a defined model synapse.
    Our protocol could be adapted to study protein arrangements at single-molecule
    resolution in other intact tissue preparations.
acknowledgement: This work has been supported by funding of the German Research Foundation
  (Deutsche Forschungsgemeinschaft [DFG], CRC 166, Project B06 to M.H. and A.-L.S.,
  FOR 3004 SYNABS P1 to M.H.) and by the Interdisciplinary Clinical Research Center
  (IZKF) Würzburg (Z-3/69 to M.M.P., N-229 to M.H. and A.-L.S.). A.M. is funded by
  the University of Leipzig Clinician Scientist Program.
article_number: '2128'
article_processing_charge: No
article_type: original
author:
- first_name: Achmed
  full_name: Mrestani, Achmed
  last_name: Mrestani
- first_name: Katharina
  full_name: Lichter, Katharina
  id: 39302e62-fcfc-11ec-8196-8b01447dbd3d
  last_name: Lichter
- first_name: Anna Leena
  full_name: Sirén, Anna Leena
  last_name: Sirén
- first_name: Manfred
  full_name: Heckmann, Manfred
  last_name: Heckmann
- first_name: Mila M.
  full_name: Paul, Mila M.
  last_name: Paul
- first_name: Martin
  full_name: Pauli, Martin
  last_name: Pauli
citation:
  ama: Mrestani A, Lichter K, Sirén AL, Heckmann M, Paul MM, Pauli M. Single-molecule
    localization microscopy of presynaptic active zones in Drosophila melanogaster
    after rapid cryofixation. <i>International Journal of Molecular Sciences</i>.
    2023;24(3). doi:<a href="https://doi.org/10.3390/ijms24032128">10.3390/ijms24032128</a>
  apa: Mrestani, A., Lichter, K., Sirén, A. L., Heckmann, M., Paul, M. M., &#38; Pauli,
    M. (2023). Single-molecule localization microscopy of presynaptic active zones
    in Drosophila melanogaster after rapid cryofixation. <i>International Journal
    of Molecular Sciences</i>. MDPI. <a href="https://doi.org/10.3390/ijms24032128">https://doi.org/10.3390/ijms24032128</a>
  chicago: Mrestani, Achmed, Katharina Lichter, Anna Leena Sirén, Manfred Heckmann,
    Mila M. Paul, and Martin Pauli. “Single-Molecule Localization Microscopy of Presynaptic
    Active Zones in Drosophila Melanogaster after Rapid Cryofixation.” <i>International
    Journal of Molecular Sciences</i>. MDPI, 2023. <a href="https://doi.org/10.3390/ijms24032128">https://doi.org/10.3390/ijms24032128</a>.
  ieee: A. Mrestani, K. Lichter, A. L. Sirén, M. Heckmann, M. M. Paul, and M. Pauli,
    “Single-molecule localization microscopy of presynaptic active zones in Drosophila
    melanogaster after rapid cryofixation,” <i>International Journal of Molecular
    Sciences</i>, vol. 24, no. 3. MDPI, 2023.
  ista: Mrestani A, Lichter K, Sirén AL, Heckmann M, Paul MM, Pauli M. 2023. Single-molecule
    localization microscopy of presynaptic active zones in Drosophila melanogaster
    after rapid cryofixation. International Journal of Molecular Sciences. 24(3),
    2128.
  mla: Mrestani, Achmed, et al. “Single-Molecule Localization Microscopy of Presynaptic
    Active Zones in Drosophila Melanogaster after Rapid Cryofixation.” <i>International
    Journal of Molecular Sciences</i>, vol. 24, no. 3, 2128, MDPI, 2023, doi:<a href="https://doi.org/10.3390/ijms24032128">10.3390/ijms24032128</a>.
  short: A. Mrestani, K. Lichter, A.L. Sirén, M. Heckmann, M.M. Paul, M. Pauli, International
    Journal of Molecular Sciences 24 (2023).
date_created: 2023-02-19T23:00:56Z
date_published: 2023-01-21T00:00:00Z
date_updated: 2023-08-01T13:16:36Z
day: '21'
ddc:
- '570'
department:
- _id: PeJo
doi: 10.3390/ijms24032128
external_id:
  isi:
  - '000930324700001'
file:
- access_level: open_access
  checksum: 69a35dcd3e0249f902ab881b06ee2e58
  content_type: application/pdf
  creator: dernst
  date_created: 2023-02-20T07:09:27Z
  date_updated: 2023-02-20T07:09:27Z
  file_id: '12569'
  file_name: 2023_IJMS_Mrestani.pdf
  file_size: 2823025
  relation: main_file
  success: 1
file_date_updated: 2023-02-20T07:09:27Z
has_accepted_license: '1'
intvolume: '        24'
isi: 1
issue: '3'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: International Journal of Molecular Sciences
publication_identifier:
  eissn:
  - 1422-0067
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Single-molecule localization microscopy of presynaptic active zones in Drosophila
  melanogaster after rapid cryofixation
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: 24
year: '2023'
...
---
_id: '12668'
abstract:
- lang: eng
  text: "Background: Plant and animal embryogenesis have conserved and distinct features.
    Cell fate transitions occur during embryogenesis in both plants and animals. The
    epigenomic processes regulating plant embryogenesis remain largely elusive.\r\n\r\nResults:
    Here, we elucidate chromatin and transcriptomic dynamics during embryogenesis
    of the most cultivated crop, hexaploid wheat. Time-series analysis reveals stage-specific
    and proximal–distal distinct chromatin accessibility and dynamics concordant with
    transcriptome changes. Following fertilization, the remodeling kinetics of H3K4me3,
    H3K27ac, and H3K27me3 differ from that in mammals, highlighting considerable species-specific
    epigenomic dynamics during zygotic genome activation. Polycomb repressive complex
    2 (PRC2)-mediated H3K27me3 deposition is important for embryo establishment. Later
    H3K27ac, H3K27me3, and chromatin accessibility undergo dramatic remodeling to
    establish a permissive chromatin environment facilitating the access of transcription
    factors to cis-elements for fate patterning. Embryonic maturation is characterized
    by increasing H3K27me3 and decreasing chromatin accessibility, which likely participates
    in restricting totipotency while preventing extensive organogenesis. Finally,
    epigenomic signatures are correlated with biased expression among homeolog triads
    and divergent expression after polyploidization, revealing an epigenomic contributor
    to subgenome diversification in an allohexaploid genome.\r\n\r\nConclusions: Collectively,
    we present an invaluable resource for comparative and mechanistic analysis of
    the epigenomic regulation of crop embryogenesis."
article_number: '7'
article_processing_charge: No
article_type: original
author:
- first_name: Long
  full_name: Zhao, Long
  last_name: Zhao
- first_name: Yiman
  full_name: Yang, Yiman
  last_name: Yang
- first_name: Jinchao
  full_name: Chen, Jinchao
  last_name: Chen
- first_name: Xuelei
  full_name: Lin, Xuelei
  last_name: Lin
- first_name: Hao
  full_name: Zhang, Hao
  last_name: Zhang
- first_name: Hao
  full_name: Wang, Hao
  last_name: Wang
- first_name: Hongzhe
  full_name: Wang, Hongzhe
  last_name: Wang
- first_name: Xiaomin
  full_name: Bie, Xiaomin
  last_name: Bie
- first_name: Jiafu
  full_name: Jiang, Jiafu
  last_name: Jiang
- first_name: Xiaoqi
  full_name: Feng, Xiaoqi
  id: e0164712-22ee-11ed-b12a-d80fcdf35958
  last_name: Feng
  orcid: 0000-0002-4008-1234
- first_name: Xiangdong
  full_name: Fu, Xiangdong
  last_name: Fu
- first_name: Xiansheng
  full_name: Zhang, Xiansheng
  last_name: Zhang
- first_name: Zhuo
  full_name: Du, Zhuo
  last_name: Du
- first_name: Jun
  full_name: Xiao, Jun
  last_name: Xiao
citation:
  ama: Zhao L, Yang Y, Chen J, et al. Dynamic chromatin regulatory programs during
    embryogenesis of hexaploid wheat. <i>Genome Biology</i>. 2023;24. doi:<a href="https://doi.org/10.1186/s13059-022-02844-2">10.1186/s13059-022-02844-2</a>
  apa: Zhao, L., Yang, Y., Chen, J., Lin, X., Zhang, H., Wang, H., … Xiao, J. (2023).
    Dynamic chromatin regulatory programs during embryogenesis of hexaploid wheat.
    <i>Genome Biology</i>. Springer Nature. <a href="https://doi.org/10.1186/s13059-022-02844-2">https://doi.org/10.1186/s13059-022-02844-2</a>
  chicago: Zhao, Long, Yiman Yang, Jinchao Chen, Xuelei Lin, Hao Zhang, Hao Wang,
    Hongzhe Wang, et al. “Dynamic Chromatin Regulatory Programs during Embryogenesis
    of Hexaploid Wheat.” <i>Genome Biology</i>. Springer Nature, 2023. <a href="https://doi.org/10.1186/s13059-022-02844-2">https://doi.org/10.1186/s13059-022-02844-2</a>.
  ieee: L. Zhao <i>et al.</i>, “Dynamic chromatin regulatory programs during embryogenesis
    of hexaploid wheat,” <i>Genome Biology</i>, vol. 24. Springer Nature, 2023.
  ista: Zhao L, Yang Y, Chen J, Lin X, Zhang H, Wang H, Wang H, Bie X, Jiang J, Feng
    X, Fu X, Zhang X, Du Z, Xiao J. 2023. Dynamic chromatin regulatory programs during
    embryogenesis of hexaploid wheat. Genome Biology. 24, 7.
  mla: Zhao, Long, et al. “Dynamic Chromatin Regulatory Programs during Embryogenesis
    of Hexaploid Wheat.” <i>Genome Biology</i>, vol. 24, 7, Springer Nature, 2023,
    doi:<a href="https://doi.org/10.1186/s13059-022-02844-2">10.1186/s13059-022-02844-2</a>.
  short: L. Zhao, Y. Yang, J. Chen, X. Lin, H. Zhang, H. Wang, H. Wang, X. Bie, J.
    Jiang, X. Feng, X. Fu, X. Zhang, Z. Du, J. Xiao, Genome Biology 24 (2023).
date_created: 2023-02-23T09:13:49Z
date_published: 2023-01-13T00:00:00Z
date_updated: 2023-05-08T10:52:49Z
day: '13'
department:
- _id: XiFe
doi: 10.1186/s13059-022-02844-2
extern: '1'
external_id:
  pmid:
  - '36639687'
intvolume: '        24'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1186/s13059-022-02844-2
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: Genome Biology
publication_identifier:
  issn:
  - 1474-760X
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Dynamic chromatin regulatory programs during embryogenesis of hexaploid wheat
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2023'
...
---
_id: '12669'
abstract:
- lang: eng
  text: The study of RNAs has become one of the most influential research fields in
    contemporary biology and biomedicine. In the last few years, new sequencing technologies
    have produced an explosion of new and exciting discoveries in the field but have
    also given rise to many open questions. Defining these questions, together with
    old, long-standing gaps in our knowledge, is the spirit of this article. The breadth
    of topics within RNA biology research is vast, and every aspect of the biology
    of these molecules contains countless exciting open questions. Here, we asked
    12 groups to discuss their most compelling question among some plant RNA biology
    topics. The following vignettes cover RNA alternative splicing; RNA dynamics;
    RNA translation; RNA structures; R-loops; epitranscriptomics; long non-coding
    RNAs; small RNA production and their functions in crops; small RNAs during gametogenesis
    and in cross-kingdom RNA interference; and RNA-directed DNA methylation. In each
    section, we will present the current state-of-the-art in plant RNA biology research
    before asking the questions that will surely motivate future discoveries in the
    field. We hope this article will spark a debate about the future perspective on
    RNA biology and provoke novel reflections in the reader.
article_number: koac346
article_processing_charge: No
article_type: original
author:
- first_name: Pablo A
  full_name: Manavella, Pablo A
  last_name: Manavella
- first_name: Micaela A
  full_name: Godoy Herz, Micaela A
  last_name: Godoy Herz
- first_name: Alberto R
  full_name: Kornblihtt, Alberto R
  last_name: Kornblihtt
- first_name: Reed
  full_name: Sorenson, Reed
  last_name: Sorenson
- first_name: Leslie E
  full_name: Sieburth, Leslie E
  last_name: Sieburth
- first_name: Kentaro
  full_name: Nakaminami, Kentaro
  last_name: Nakaminami
- first_name: Motoaki
  full_name: Seki, Motoaki
  last_name: Seki
- first_name: Yiliang
  full_name: Ding, Yiliang
  last_name: Ding
- first_name: Qianwen
  full_name: Sun, Qianwen
  last_name: Sun
- first_name: Hunseung
  full_name: Kang, Hunseung
  last_name: Kang
- first_name: Federico D
  full_name: Ariel, Federico D
  last_name: Ariel
- first_name: Martin
  full_name: Crespi, Martin
  last_name: Crespi
- first_name: Axel J
  full_name: Giudicatti, Axel J
  last_name: Giudicatti
- first_name: Qiang
  full_name: Cai, Qiang
  last_name: Cai
- first_name: Hailing
  full_name: Jin, Hailing
  last_name: Jin
- first_name: Xiaoqi
  full_name: Feng, Xiaoqi
  id: e0164712-22ee-11ed-b12a-d80fcdf35958
  last_name: Feng
  orcid: 0000-0002-4008-1234
- first_name: Yijun
  full_name: Qi, Yijun
  last_name: Qi
- first_name: Craig S
  full_name: Pikaard, Craig S
  last_name: Pikaard
citation:
  ama: 'Manavella PA, Godoy Herz MA, Kornblihtt AR, et al. Beyond transcription: compelling
    open questions in plant RNA biology. <i>The Plant Cell</i>. 2023;35(6). doi:<a
    href="https://doi.org/10.1093/plcell/koac346">10.1093/plcell/koac346</a>'
  apa: 'Manavella, P. A., Godoy Herz, M. A., Kornblihtt, A. R., Sorenson, R., Sieburth,
    L. E., Nakaminami, K., … Pikaard, C. S. (2023). Beyond transcription: compelling
    open questions in plant RNA biology. <i>The Plant Cell</i>. Oxford University
    Press. <a href="https://doi.org/10.1093/plcell/koac346">https://doi.org/10.1093/plcell/koac346</a>'
  chicago: 'Manavella, Pablo A, Micaela A Godoy Herz, Alberto R Kornblihtt, Reed Sorenson,
    Leslie E Sieburth, Kentaro Nakaminami, Motoaki Seki, et al. “Beyond Transcription:
    Compelling Open Questions in Plant RNA Biology.” <i>The Plant Cell</i>. Oxford
    University Press, 2023. <a href="https://doi.org/10.1093/plcell/koac346">https://doi.org/10.1093/plcell/koac346</a>.'
  ieee: 'P. A. Manavella <i>et al.</i>, “Beyond transcription: compelling open questions
    in plant RNA biology,” <i>The Plant Cell</i>, vol. 35, no. 6. Oxford University
    Press, 2023.'
  ista: 'Manavella PA, Godoy Herz MA, Kornblihtt AR, Sorenson R, Sieburth LE, Nakaminami
    K, Seki M, Ding Y, Sun Q, Kang H, Ariel FD, Crespi M, Giudicatti AJ, Cai Q, Jin
    H, Feng X, Qi Y, Pikaard CS. 2023. Beyond transcription: compelling open questions
    in plant RNA biology. The Plant Cell. 35(6), koac346.'
  mla: 'Manavella, Pablo A., et al. “Beyond Transcription: Compelling Open Questions
    in Plant RNA Biology.” <i>The Plant Cell</i>, vol. 35, no. 6, koac346, Oxford
    University Press, 2023, doi:<a href="https://doi.org/10.1093/plcell/koac346">10.1093/plcell/koac346</a>.'
  short: P.A. Manavella, M.A. Godoy Herz, A.R. Kornblihtt, R. Sorenson, L.E. Sieburth,
    K. Nakaminami, M. Seki, Y. Ding, Q. Sun, H. Kang, F.D. Ariel, M. Crespi, A.J.
    Giudicatti, Q. Cai, H. Jin, X. Feng, Y. Qi, C.S. Pikaard, The Plant Cell 35 (2023).
date_created: 2023-02-23T09:14:59Z
date_published: 2023-06-01T00:00:00Z
date_updated: 2023-10-04T09:48:43Z
day: '01'
department:
- _id: XiFe
doi: 10.1093/plcell/koac346
extern: '1'
external_id:
  pmid:
  - '36477566'
intvolume: '        35'
issue: '6'
keyword:
- Cell Biology
- Plant Science
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1093/plcell/koac346
month: '06'
oa: 1
oa_version: Published Version
pmid: 1
publication: The Plant Cell
publication_identifier:
  eissn:
  - 1532-298X
  issn:
  - 1040-4651
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Beyond transcription: compelling open questions in plant RNA biology'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2023'
...
---
_id: '12672'
abstract:
- lang: eng
  text: Cytosine methylation within CG dinucleotides (mCG) can be epigenetically inherited
    over many generations. Such inheritance is thought to be mediated by a semiconservative
    mechanism that produces binary present/absent methylation patterns. However, we
    show here that in Arabidopsis thaliana h1ddm1 mutants, intermediate heterochromatic
    mCG is stably inherited across many generations and is quantitatively associated
    with transposon expression. We develop a mathematical model that estimates the
    rates of semiconservative maintenance failure and de novo methylation at each
    transposon, demonstrating that mCG can be stably inherited at any level via a
    dynamic balance of these activities. We find that DRM2 – the core methyltransferase
    of the RNA-directed DNA methylation pathway – catalyzes most of the heterochromatic
    de novo mCG, with de novo rates orders of magnitude higher than previously thought,
    whereas chromomethylases make smaller contributions. Our results demonstrate that
    stable epigenetic inheritance of mCG in plant heterochromatin is enabled by extensive
    de novo methylation.
acknowledgement: The authors would like to thank Jasper Rine for advice and mentorship
  to D.B.L., Lesley Philips, Timothy Wells, Sophie Able, and Christina Wistrom for
  support with plant growth, and Bhagyshree Jamge and Frédéric Berger for help with
  analysis of ddm1 × WT RNA-sequencing data. This work was supported by BBSRC Institute
  Strategic Program GEN (BB/P013511/1) to X.F., M.H., and D.Z., a European Research
  Council grant MaintainMeth (725746) to D.Z., and a postdoctoral fellowship from
  the Helen Hay Whitney Foundation to D.B.L.
article_number: '112132'
article_processing_charge: Yes
article_type: original
author:
- first_name: David B.
  full_name: Lyons, David B.
  last_name: Lyons
- first_name: Amy
  full_name: Briffa, Amy
  last_name: Briffa
- first_name: Shengbo
  full_name: He, Shengbo
  last_name: He
- first_name: Jaemyung
  full_name: Choi, Jaemyung
  last_name: Choi
- first_name: Elizabeth
  full_name: Hollwey, Elizabeth
  id: b8c4f54b-e484-11eb-8fdc-a54df64ef6dd
  last_name: Hollwey
- first_name: Jack
  full_name: Colicchio, Jack
  last_name: Colicchio
- first_name: Ian
  full_name: Anderson, Ian
  last_name: Anderson
- first_name: Xiaoqi
  full_name: Feng, Xiaoqi
  id: e0164712-22ee-11ed-b12a-d80fcdf35958
  last_name: Feng
  orcid: 0000-0002-4008-1234
- first_name: Martin
  full_name: Howard, Martin
  last_name: Howard
- first_name: Daniel
  full_name: Zilberman, Daniel
  id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
  last_name: Zilberman
  orcid: 0000-0002-0123-8649
citation:
  ama: Lyons DB, Briffa A, He S, et al. Extensive de novo activity stabilizes epigenetic
    inheritance of CG methylation in Arabidopsis transposons. <i>Cell Reports</i>.
    2023;42(3). doi:<a href="https://doi.org/10.1016/j.celrep.2023.112132">10.1016/j.celrep.2023.112132</a>
  apa: Lyons, D. B., Briffa, A., He, S., Choi, J., Hollwey, E., Colicchio, J., … Zilberman,
    D. (2023). Extensive de novo activity stabilizes epigenetic inheritance of CG
    methylation in Arabidopsis transposons. <i>Cell Reports</i>. Elsevier. <a href="https://doi.org/10.1016/j.celrep.2023.112132">https://doi.org/10.1016/j.celrep.2023.112132</a>
  chicago: Lyons, David B., Amy Briffa, Shengbo He, Jaemyung Choi, Elizabeth Hollwey,
    Jack Colicchio, Ian Anderson, Xiaoqi Feng, Martin Howard, and Daniel Zilberman.
    “Extensive de Novo Activity Stabilizes Epigenetic Inheritance of CG Methylation
    in Arabidopsis Transposons.” <i>Cell Reports</i>. Elsevier, 2023. <a href="https://doi.org/10.1016/j.celrep.2023.112132">https://doi.org/10.1016/j.celrep.2023.112132</a>.
  ieee: D. B. Lyons <i>et al.</i>, “Extensive de novo activity stabilizes epigenetic
    inheritance of CG methylation in Arabidopsis transposons,” <i>Cell Reports</i>,
    vol. 42, no. 3. Elsevier, 2023.
  ista: Lyons DB, Briffa A, He S, Choi J, Hollwey E, Colicchio J, Anderson I, Feng
    X, Howard M, Zilberman D. 2023. Extensive de novo activity stabilizes epigenetic
    inheritance of CG methylation in Arabidopsis transposons. Cell Reports. 42(3),
    112132.
  mla: Lyons, David B., et al. “Extensive de Novo Activity Stabilizes Epigenetic Inheritance
    of CG Methylation in Arabidopsis Transposons.” <i>Cell Reports</i>, vol. 42, no.
    3, 112132, Elsevier, 2023, doi:<a href="https://doi.org/10.1016/j.celrep.2023.112132">10.1016/j.celrep.2023.112132</a>.
  short: D.B. Lyons, A. Briffa, S. He, J. Choi, E. Hollwey, J. Colicchio, I. Anderson,
    X. Feng, M. Howard, D. Zilberman, Cell Reports 42 (2023).
date_created: 2023-02-23T09:17:44Z
date_published: 2023-03-28T00:00:00Z
date_updated: 2023-11-02T12:23:45Z
day: '28'
ddc:
- '580'
department:
- _id: DaZi
- _id: XiFe
doi: 10.1016/j.celrep.2023.112132
ec_funded: 1
external_id:
  isi:
  - '000944921600001'
file:
- access_level: open_access
  checksum: 6cbc44fdb18bf18834c9e2a5b9c67123
  content_type: application/pdf
  creator: kschuh
  date_created: 2023-05-11T10:41:42Z
  date_updated: 2023-05-11T10:41:42Z
  file_id: '12941'
  file_name: 2023_CellReports_Lyons.pdf
  file_size: 8401261
  relation: main_file
  success: 1
file_date_updated: 2023-05-11T10:41:42Z
has_accepted_license: '1'
intvolume: '        42'
isi: 1
issue: '3'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
project:
- _id: 62935a00-2b32-11ec-9570-eff30fa39068
  call_identifier: H2020
  grant_number: '725746'
  name: Quantitative analysis of DNA methylation maintenance with chromatin
publication: Cell Reports
publication_identifier:
  eissn:
  - 2211-1247
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Extensive de novo activity stabilizes epigenetic inheritance of CG methylation
  in Arabidopsis transposons
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 42
year: '2023'
...
---
_id: '12675'
abstract:
- lang: eng
  text: Aromatic side chains are important reporters of the plasticity of proteins,
    and often form important contacts in protein--protein interactions. By studying
    a pair of structurally homologous cross-β amyloid fibrils, HET-s and HELLF, with
    a specific isotope-labeling approach and magic-angle-spinning (MAS) NMR, we have
    characterized the dynamic behavior of Phe and Tyr aromatic rings to show that
    the hydrophobic amyloid core is rigid, without any sign of "breathing motions"
    over hundreds of milliseconds at least. Aromatic residues exposed at the fibril
    surface have a rigid ring axis but undergo ring flips, on a variety of time scales
    from ns to µs. Our approach provides direct insight into hydrophobic-core motions,
    enabling a better evaluation of the conformational heterogeneity generated from
    a NMR structural ensemble of such amyloid cross-β architecture.
acknowledgement: We thank AlbertA. Smith (Leipzig)for insightful discussions. This
  work was supported by funding from the European Research Council (StG-2012-311318
  to P.S.) and used the platforms of the Grenoble Instruct-ERIC center (ISBG;UMS 3518
  CNRS-CEA-UJF-EMBL) within the Grenoble Partnership for Structural Biology(PSB) and
  facilities and expertiseof the Biophysical and Structural Chemistry platform (BPCS)
  at IECB,CNRSUAR3033,INSERMUS001 and Bordeaux University.
article_number: e202219314
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Lea Marie
  full_name: Becker, Lea Marie
  id: 36336939-eb97-11eb-a6c2-c83f1214ca79
  last_name: Becker
  orcid: 0000-0002-6401-5151
- first_name: Mélanie
  full_name: Berbon, Mélanie
  last_name: Berbon
- first_name: Alicia
  full_name: Vallet, Alicia
  last_name: Vallet
- first_name: Axelle
  full_name: Grelard, Axelle
  last_name: Grelard
- first_name: Estelle
  full_name: Morvan, Estelle
  last_name: Morvan
- first_name: Benjamin
  full_name: Bardiaux, Benjamin
  last_name: Bardiaux
- first_name: Roman
  full_name: Lichtenecker, Roman
  last_name: Lichtenecker
- first_name: Matthias
  full_name: Ernst, Matthias
  last_name: Ernst
- first_name: Antoine
  full_name: Loquet, Antoine
  last_name: Loquet
- first_name: Paul
  full_name: Schanda, Paul
  id: 7B541462-FAF6-11E9-A490-E8DFE5697425
  last_name: Schanda
  orcid: 0000-0002-9350-7606
citation:
  ama: Becker LM, Berbon M, Vallet A, et al. The rigid core and flexible surface of
    amyloid fibrils probed by Magic‐Angle Spinning NMR of aromatic residues. <i>Angewandte
    Chemie International Edition</i>. 2023;62(19). doi:<a href="https://doi.org/10.1002/anie.202219314">10.1002/anie.202219314</a>
  apa: Becker, L. M., Berbon, M., Vallet, A., Grelard, A., Morvan, E., Bardiaux, B.,
    … Schanda, P. (2023). The rigid core and flexible surface of amyloid fibrils probed
    by Magic‐Angle Spinning NMR of aromatic residues. <i>Angewandte Chemie International
    Edition</i>. Wiley. <a href="https://doi.org/10.1002/anie.202219314">https://doi.org/10.1002/anie.202219314</a>
  chicago: Becker, Lea Marie, Mélanie Berbon, Alicia Vallet, Axelle Grelard, Estelle
    Morvan, Benjamin Bardiaux, Roman Lichtenecker, Matthias Ernst, Antoine Loquet,
    and Paul Schanda. “The Rigid Core and Flexible Surface of Amyloid Fibrils Probed
    by Magic‐Angle Spinning NMR of Aromatic Residues.” <i>Angewandte Chemie International
    Edition</i>. Wiley, 2023. <a href="https://doi.org/10.1002/anie.202219314">https://doi.org/10.1002/anie.202219314</a>.
  ieee: L. M. Becker <i>et al.</i>, “The rigid core and flexible surface of amyloid
    fibrils probed by Magic‐Angle Spinning NMR of aromatic residues,” <i>Angewandte
    Chemie International Edition</i>, vol. 62, no. 19. Wiley, 2023.
  ista: Becker LM, Berbon M, Vallet A, Grelard A, Morvan E, Bardiaux B, Lichtenecker
    R, Ernst M, Loquet A, Schanda P. 2023. The rigid core and flexible surface of
    amyloid fibrils probed by Magic‐Angle Spinning NMR of aromatic residues. Angewandte
    Chemie International Edition. 62(19), e202219314.
  mla: Becker, Lea Marie, et al. “The Rigid Core and Flexible Surface of Amyloid Fibrils
    Probed by Magic‐Angle Spinning NMR of Aromatic Residues.” <i>Angewandte Chemie
    International Edition</i>, vol. 62, no. 19, e202219314, Wiley, 2023, doi:<a href="https://doi.org/10.1002/anie.202219314">10.1002/anie.202219314</a>.
  short: L.M. Becker, M. Berbon, A. Vallet, A. Grelard, E. Morvan, B. Bardiaux, R.
    Lichtenecker, M. Ernst, A. Loquet, P. Schanda, Angewandte Chemie International
    Edition 62 (2023).
date_created: 2023-02-24T10:45:01Z
date_published: 2023-05-01T00:00:00Z
date_updated: 2024-02-21T12:14:06Z
day: '01'
ddc:
- '540'
department:
- _id: GradSch
- _id: PaSc
doi: 10.1002/anie.202219314
external_id:
  isi:
  - '000956919900001'
  pmid:
  - '36738230'
file:
- access_level: open_access
  checksum: 7dd083ed8850faa55c34e411ed390de9
  content_type: application/pdf
  creator: dernst
  date_created: 2023-08-16T12:33:31Z
  date_updated: 2023-08-16T12:33:31Z
  file_id: '14072'
  file_name: 2023_AngewChemInt_Becker.pdf
  file_size: 1422445
  relation: main_file
  success: 1
file_date_updated: 2023-08-16T12:33:31Z
has_accepted_license: '1'
intvolume: '        62'
isi: 1
issue: '19'
keyword:
- General Chemistry
- Catalysis
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '05'
oa: 1
oa_version: Published Version
pmid: 1
publication: Angewandte Chemie International Edition
publication_identifier:
  eissn:
  - 1521-3773
  issn:
  - 1433-7851
publication_status: published
publisher: Wiley
quality_controlled: '1'
related_material:
  link:
  - description: News on ISTA website
    relation: press_release
    url: https://ista.ac.at/en/news/dancing-styles-of-atoms/
  record:
  - id: '14861'
    relation: other
    status: public
  - id: '12497'
    relation: research_data
    status: public
status: public
title: The rigid core and flexible surface of amyloid fibrils probed by Magic‐Angle
  Spinning NMR of aromatic residues
tmp:
  image: /images/cc_by_nc.png
  legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
  name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
  short: CC BY-NC (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 62
year: '2023'
...
---
_id: '12676'
abstract:
- lang: eng
  text: Turn-based stochastic games (aka simple stochastic games) are two-player zero-sum
    games played on directed graphs with probabilistic transitions. The goal of player-max
    is to maximize the probability to reach a target state against the adversarial
    player-min. These games lie in NP ∩ coNP and are among the rare combinatorial
    problems that belong to this complexity class for which the existence of polynomial-time
    algorithm is a major open question. While randomized sub-exponential time algorithm
    exists, all known deterministic algorithms require exponential time in the worst-case.
    An important open question has been whether faster algorithms can be obtained
    parametrized by the treewidth of the game graph. Even deterministic sub-exponential
    time algorithm for constant treewidth turn-based stochastic games has remain elusive.
    In this work our main result is a deterministic algorithm to solve turn-based
    stochastic games that, given a game with n states, treewidth at most t, and the
    bit-complexity of the probabilistic transition function log D, has running time
    O ((tn2 log D)t log n). In particular, our algorithm is quasi-polynomial time
    for games with constant or poly-logarithmic treewidth.
acknowledgement: This research was partially supported by the ERC CoG 863818 (ForM-SMArt)
  grant.
article_processing_charge: No
author:
- first_name: Krishnendu
  full_name: Chatterjee, Krishnendu
  id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
  last_name: Chatterjee
  orcid: 0000-0002-4561-241X
- first_name: Tobias
  full_name: Meggendorfer, Tobias
  id: b21b0c15-30a2-11eb-80dc-f13ca25802e1
  last_name: Meggendorfer
  orcid: 0000-0002-1712-2165
- first_name: Raimundo J
  full_name: Saona Urmeneta, Raimundo J
  id: BD1DF4C4-D767-11E9-B658-BC13E6697425
  last_name: Saona Urmeneta
  orcid: 0000-0001-5103-038X
- first_name: Jakub
  full_name: Svoboda, Jakub
  id: 130759D2-D7DD-11E9-87D2-DE0DE6697425
  last_name: Svoboda
  orcid: 0000-0002-1419-3267
citation:
  ama: 'Chatterjee K, Meggendorfer T, Saona Urmeneta RJ, Svoboda J. Faster algorithm
    for turn-based stochastic games with bounded treewidth. In: <i>Proceedings of
    the 2023 Annual ACM-SIAM Symposium on Discrete Algorithms</i>. Society for Industrial
    and Applied Mathematics; 2023:4590-4605. doi:<a href="https://doi.org/10.1137/1.9781611977554.ch173">10.1137/1.9781611977554.ch173</a>'
  apa: 'Chatterjee, K., Meggendorfer, T., Saona Urmeneta, R. J., &#38; Svoboda, J.
    (2023). Faster algorithm for turn-based stochastic games with bounded treewidth.
    In <i>Proceedings of the 2023 Annual ACM-SIAM Symposium on Discrete Algorithms</i>
    (pp. 4590–4605). Florence, Italy: Society for Industrial and Applied Mathematics.
    <a href="https://doi.org/10.1137/1.9781611977554.ch173">https://doi.org/10.1137/1.9781611977554.ch173</a>'
  chicago: Chatterjee, Krishnendu, Tobias Meggendorfer, Raimundo J Saona Urmeneta,
    and Jakub Svoboda. “Faster Algorithm for Turn-Based Stochastic Games with Bounded
    Treewidth.” In <i>Proceedings of the 2023 Annual ACM-SIAM Symposium on Discrete
    Algorithms</i>, 4590–4605. Society for Industrial and Applied Mathematics, 2023.
    <a href="https://doi.org/10.1137/1.9781611977554.ch173">https://doi.org/10.1137/1.9781611977554.ch173</a>.
  ieee: K. Chatterjee, T. Meggendorfer, R. J. Saona Urmeneta, and J. Svoboda, “Faster
    algorithm for turn-based stochastic games with bounded treewidth,” in <i>Proceedings
    of the 2023 Annual ACM-SIAM Symposium on Discrete Algorithms</i>, Florence, Italy,
    2023, pp. 4590–4605.
  ista: 'Chatterjee K, Meggendorfer T, Saona Urmeneta RJ, Svoboda J. 2023. Faster
    algorithm for turn-based stochastic games with bounded treewidth. Proceedings
    of the 2023 Annual ACM-SIAM Symposium on Discrete Algorithms. SODA: Symposium
    on Discrete Algorithms, 4590–4605.'
  mla: Chatterjee, Krishnendu, et al. “Faster Algorithm for Turn-Based Stochastic
    Games with Bounded Treewidth.” <i>Proceedings of the 2023 Annual ACM-SIAM Symposium
    on Discrete Algorithms</i>, Society for Industrial and Applied Mathematics, 2023,
    pp. 4590–605, doi:<a href="https://doi.org/10.1137/1.9781611977554.ch173">10.1137/1.9781611977554.ch173</a>.
  short: K. Chatterjee, T. Meggendorfer, R.J. Saona Urmeneta, J. Svoboda, in:, Proceedings
    of the 2023 Annual ACM-SIAM Symposium on Discrete Algorithms, Society for Industrial
    and Applied Mathematics, 2023, pp. 4590–4605.
conference:
  end_date: 2023-01-25
  location: Florence, Italy
  name: 'SODA: Symposium on Discrete Algorithms'
  start_date: 2023-01-22
date_created: 2023-02-24T12:20:47Z
date_published: 2023-02-01T00:00:00Z
date_updated: 2025-07-14T09:09:50Z
day: '01'
department:
- _id: GradSch
- _id: KrCh
doi: 10.1137/1.9781611977554.ch173
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1137/1.9781611977554.ch173
month: '02'
oa: 1
oa_version: Published Version
page: 4590-4605
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
  call_identifier: H2020
  grant_number: '863818'
  name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
publication: Proceedings of the 2023 Annual ACM-SIAM Symposium on Discrete Algorithms
publication_identifier:
  isbn:
  - '9781611977554'
publication_status: published
publisher: Society for Industrial and Applied Mathematics
quality_controlled: '1'
status: public
title: Faster algorithm for turn-based stochastic games with bounded treewidth
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '12679'
abstract:
- lang: eng
  text: How to generate a brain of correct size and with appropriate cell-type diversity
    during development is a major question in Neuroscience. In the developing neocortex,
    radial glial progenitor (RGP) cells are the main neural stem cells that produce
    cortical excitatory projection neurons, glial cells, and establish the prospective
    postnatal stem cell niche in the lateral ventricles. RGPs follow a tightly orchestrated
    developmental program that when disrupted can result in severe cortical malformations
    such as microcephaly and megalencephaly. The precise cellular and molecular mechanisms
    instructing faithful RGP lineage progression are however not well understood.
    This review will summarize recent conceptual advances that contribute to our understanding
    of the general principles of RGP lineage progression.
acknowledgement: "I wish to thank all current and past members of the Hippenmeyer
  laboratory at ISTA for exciting discussions on the subject of this review. I apologize
  to colleagues whose work I could not cite and/or discuss in the frame of the available
  space. Work in the Hippenmeyer laboratory on the\r\ndiscussed topic is supported
  by ISTA institutional funds, FWF SFB F78 to S.H., and the European Research Council
  (ERC) under the European Union’s Horizon 2020 Research and Innovation Programme
  (grant agree-ment no. 725780 LinPro) to SH."
article_number: '102695'
article_processing_charge: Yes (via OA deal)
article_type: review
author:
- first_name: Simon
  full_name: Hippenmeyer, Simon
  id: 37B36620-F248-11E8-B48F-1D18A9856A87
  last_name: Hippenmeyer
  orcid: 0000-0003-2279-1061
citation:
  ama: 'Hippenmeyer S. Principles of neural stem cell lineage progression: Insights
    from developing cerebral cortex. <i>Current Opinion in Neurobiology</i>. 2023;79(4).
    doi:<a href="https://doi.org/10.1016/j.conb.2023.102695">10.1016/j.conb.2023.102695</a>'
  apa: 'Hippenmeyer, S. (2023). Principles of neural stem cell lineage progression:
    Insights from developing cerebral cortex. <i>Current Opinion in Neurobiology</i>.
    Elsevier. <a href="https://doi.org/10.1016/j.conb.2023.102695">https://doi.org/10.1016/j.conb.2023.102695</a>'
  chicago: 'Hippenmeyer, Simon. “Principles of Neural Stem Cell Lineage Progression:
    Insights from Developing Cerebral Cortex.” <i>Current Opinion in Neurobiology</i>.
    Elsevier, 2023. <a href="https://doi.org/10.1016/j.conb.2023.102695">https://doi.org/10.1016/j.conb.2023.102695</a>.'
  ieee: 'S. Hippenmeyer, “Principles of neural stem cell lineage progression: Insights
    from developing cerebral cortex,” <i>Current Opinion in Neurobiology</i>, vol.
    79, no. 4. Elsevier, 2023.'
  ista: 'Hippenmeyer S. 2023. Principles of neural stem cell lineage progression:
    Insights from developing cerebral cortex. Current Opinion in Neurobiology. 79(4),
    102695.'
  mla: 'Hippenmeyer, Simon. “Principles of Neural Stem Cell Lineage Progression: Insights
    from Developing Cerebral Cortex.” <i>Current Opinion in Neurobiology</i>, vol.
    79, no. 4, 102695, Elsevier, 2023, doi:<a href="https://doi.org/10.1016/j.conb.2023.102695">10.1016/j.conb.2023.102695</a>.'
  short: S. Hippenmeyer, Current Opinion in Neurobiology 79 (2023).
date_created: 2023-02-26T12:24:21Z
date_published: 2023-04-01T00:00:00Z
date_updated: 2023-08-16T12:30:25Z
day: '01'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.1016/j.conb.2023.102695
ec_funded: 1
external_id:
  isi:
  - '000953497700001'
  pmid:
  - '36842274'
file:
- access_level: open_access
  checksum: 4d11c4ca87e6cbc4d2ac46d3225ea615
  content_type: application/pdf
  creator: dernst
  date_created: 2023-08-16T12:29:06Z
  date_updated: 2023-08-16T12:29:06Z
  file_id: '14071'
  file_name: 2023_CurrentOpinionNeurobio_Hippenmeyer.pdf
  file_size: 1787894
  relation: main_file
  success: 1
file_date_updated: 2023-08-16T12:29:06Z
has_accepted_license: '1'
intvolume: '        79'
isi: 1
issue: '4'
keyword:
- General Neuroscience
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 059F6AB4-7A3F-11EA-A408-12923DDC885E
  grant_number: F07805
  name: Molecular Mechanisms of Neural Stem Cell Lineage Progression
- _id: 260018B0-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '725780'
  name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
publication: Current Opinion in Neurobiology
publication_identifier:
  issn:
  - 0959-4388
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Principles of neural stem cell lineage progression: Insights from developing
  cerebral cortex'
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: 79
year: '2023'
...
---
_id: '12680'
abstract:
- lang: eng
  text: The celebrated Erdős–Ko–Rado theorem about the maximal size of an intersecting
    family of r-element subsets of  was extended to the setting of exterior algebra
    in [5, Theorem 2.3] and in [6, Theorem 1.4]. However, the equality case has not
    been settled yet. In this short note, we show that the extension of the Erdős–Ko–Rado
    theorem and the characterization of the equality case therein, as well as those
    of the Hilton–Milner theorem to the setting of exterior algebra in the simplest
    non-trivial case of two-forms follow from a folklore puzzle about possible arrangements
    of an intersecting family of lines.
article_number: '113363'
article_processing_charge: No
article_type: letter_note
arxiv: 1
author:
- first_name: Grigory
  full_name: Ivanov, Grigory
  id: 87744F66-5C6F-11EA-AFE0-D16B3DDC885E
  last_name: Ivanov
- first_name: Seyda
  full_name: Köse, Seyda
  id: 8ba3170d-dc85-11ea-9058-c4251c96a6eb
  last_name: Köse
citation:
  ama: Ivanov G, Köse S. Erdős-Ko-Rado and Hilton-Milner theorems for two-forms. <i>Discrete
    Mathematics</i>. 2023;346(6). doi:<a href="https://doi.org/10.1016/j.disc.2023.113363">10.1016/j.disc.2023.113363</a>
  apa: Ivanov, G., &#38; Köse, S. (2023). Erdős-Ko-Rado and Hilton-Milner theorems
    for two-forms. <i>Discrete Mathematics</i>. Elsevier. <a href="https://doi.org/10.1016/j.disc.2023.113363">https://doi.org/10.1016/j.disc.2023.113363</a>
  chicago: Ivanov, Grigory, and Seyda Köse. “Erdős-Ko-Rado and Hilton-Milner Theorems
    for Two-Forms.” <i>Discrete Mathematics</i>. Elsevier, 2023. <a href="https://doi.org/10.1016/j.disc.2023.113363">https://doi.org/10.1016/j.disc.2023.113363</a>.
  ieee: G. Ivanov and S. Köse, “Erdős-Ko-Rado and Hilton-Milner theorems for two-forms,”
    <i>Discrete Mathematics</i>, vol. 346, no. 6. Elsevier, 2023.
  ista: Ivanov G, Köse S. 2023. Erdős-Ko-Rado and Hilton-Milner theorems for two-forms.
    Discrete Mathematics. 346(6), 113363.
  mla: Ivanov, Grigory, and Seyda Köse. “Erdős-Ko-Rado and Hilton-Milner Theorems
    for Two-Forms.” <i>Discrete Mathematics</i>, vol. 346, no. 6, 113363, Elsevier,
    2023, doi:<a href="https://doi.org/10.1016/j.disc.2023.113363">10.1016/j.disc.2023.113363</a>.
  short: G. Ivanov, S. Köse, Discrete Mathematics 346 (2023).
date_created: 2023-02-26T23:01:00Z
date_published: 2023-06-01T00:00:00Z
date_updated: 2023-10-04T11:54:57Z
day: '01'
department:
- _id: UlWa
- _id: GradSch
doi: 10.1016/j.disc.2023.113363
external_id:
  arxiv:
  - '2201.10892'
intvolume: '       346'
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: ' https://doi.org/10.48550/arXiv.2201.10892'
month: '06'
oa: 1
oa_version: Preprint
publication: Discrete Mathematics
publication_identifier:
  issn:
  - 0012-365X
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
  record:
  - id: '13331'
    relation: dissertation_contains
    status: public
scopus_import: '1'
status: public
title: Erdős-Ko-Rado and Hilton-Milner theorems for two-forms
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 346
year: '2023'
...
---
_id: '12681'
abstract:
- lang: eng
  text: The dissolution of minute concentration of polymers in wall-bounded flows
    is well-known for its unparalleled ability to reduce turbulent friction drag.
    Another phenomenon, elasto-inertial turbulence (EIT), has been far less studied
    even though elastic instabilities have already been observed in dilute polymer
    solutions before the discovery of polymer drag reduction. EIT is a chaotic state
    driven by polymer dynamics that is observed across many orders of magnitude in
    Reynolds number. It involves energy transfer from small elastic scales to large
    flow scales. The investigation of the mechanisms of EIT offers the possibility
    to better understand other complex phenomena such as elastic turbulence and maximum
    drag reduction. In this review, we survey recent research efforts that are advancing
    the understanding of the dynamics of EIT. We highlight the fundamental differences
    between EIT and Newtonian/inertial turbulence from the perspective of experiments,
    numerical simulations, instabilities, and coherent structures. Finally, we discuss
    the possible links between EIT and elastic turbulence and polymer drag reduction,
    as well as the remaining challenges in unraveling the self-sustaining mechanism
    of EIT.
acknowledgement: Part of the material presented here is based upon work supported
  by the National Science Foundation CBET (Chemical, Bioengineering, Environmental
  and Transport Systems) award 1805636 (to Y.D.), the Binational Science Foundation
  award 2016145 (to Y.D. and Victor Steinberg), a FRIA (Fund for Research Training
  in Industry and Agriculture) grant of the Belgian F.R.S.-FNRS (National Fund for
  Scientific Research) (to V.E.T.), the Marie Curie FP7 Career Integration grant PCIG10-GA-2011-304073
  (to V.E.T.), and the Fonds spéciaux pour la recherche grant C-13/19 of the University
  of Liege (to V.E.T.). Computational resources have been provided by the Consortium
  des Équipements de Calcul Intensif (CECI) funded by the Belgian F.R.S.-FNRS, the
  Vermont Advanced Computing Center (VACC), the Partnership for Advanced Computing
  in Europe (PRACE), and the Tier-1 supercomputer of the Fédération Wallonie-Bruxelles
  funded by the Walloon Region (grant agreement 117545).
article_processing_charge: No
article_type: original
author:
- first_name: Yves
  full_name: Dubief, Yves
  last_name: Dubief
- first_name: Vincent E.
  full_name: Terrapon, Vincent E.
  last_name: Terrapon
- first_name: Björn
  full_name: Hof, Björn
  id: 3A374330-F248-11E8-B48F-1D18A9856A87
  last_name: Hof
  orcid: 0000-0003-2057-2754
citation:
  ama: Dubief Y, Terrapon VE, Hof B. Elasto-inertial turbulence. <i>Annual Review
    of Fluid Mechanics</i>. 2023;55(1):675-705. doi:<a href="https://doi.org/10.1146/annurev-fluid-032822-025933">10.1146/annurev-fluid-032822-025933</a>
  apa: Dubief, Y., Terrapon, V. E., &#38; Hof, B. (2023). Elasto-inertial turbulence.
    <i>Annual Review of Fluid Mechanics</i>. Annual Reviews. <a href="https://doi.org/10.1146/annurev-fluid-032822-025933">https://doi.org/10.1146/annurev-fluid-032822-025933</a>
  chicago: Dubief, Yves, Vincent E. Terrapon, and Björn Hof. “Elasto-Inertial Turbulence.”
    <i>Annual Review of Fluid Mechanics</i>. Annual Reviews, 2023. <a href="https://doi.org/10.1146/annurev-fluid-032822-025933">https://doi.org/10.1146/annurev-fluid-032822-025933</a>.
  ieee: Y. Dubief, V. E. Terrapon, and B. Hof, “Elasto-inertial turbulence,” <i>Annual
    Review of Fluid Mechanics</i>, vol. 55, no. 1. Annual Reviews, pp. 675–705, 2023.
  ista: Dubief Y, Terrapon VE, Hof B. 2023. Elasto-inertial turbulence. Annual Review
    of Fluid Mechanics. 55(1), 675–705.
  mla: Dubief, Yves, et al. “Elasto-Inertial Turbulence.” <i>Annual Review of Fluid
    Mechanics</i>, vol. 55, no. 1, Annual Reviews, 2023, pp. 675–705, doi:<a href="https://doi.org/10.1146/annurev-fluid-032822-025933">10.1146/annurev-fluid-032822-025933</a>.
  short: Y. Dubief, V.E. Terrapon, B. Hof, Annual Review of Fluid Mechanics 55 (2023)
    675–705.
date_created: 2023-02-26T23:01:01Z
date_published: 2023-01-19T00:00:00Z
date_updated: 2023-08-01T13:19:47Z
day: '19'
ddc:
- '530'
department:
- _id: BjHo
doi: 10.1146/annurev-fluid-032822-025933
external_id:
  isi:
  - '000915418100026'
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  date_created: 2023-02-27T09:23:02Z
  date_updated: 2023-02-27T09:23:02Z
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  file_name: 2023_AnnReviewFluidMech_Dubief.pdf
  file_size: 4036706
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has_accepted_license: '1'
intvolume: '        55'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 675-705
publication: Annual Review of Fluid Mechanics
publication_identifier:
  eissn:
  - 1545-4479
  issn:
  - 0066-4189
publication_status: published
publisher: Annual Reviews
quality_controlled: '1'
scopus_import: '1'
status: public
title: Elasto-inertial turbulence
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: 55
year: '2023'
...
---
_id: '12682'
abstract:
- lang: eng
  text: 'Since the seminal studies by Osborne Reynolds in the nineteenth century,
    pipe flow has served as a primary prototype for investigating the transition to
    turbulence in wall-bounded flows. Despite the apparent simplicity of this flow,
    various facets of this problem have occupied researchers for more than a century.
    Here we review insights from three distinct perspectives: (a) stability and susceptibility
    of laminar flow, (b) phase transition and spatiotemporal dynamics, and (c) dynamical
    systems analysis of the Navier—Stokes equations. We show how these perspectives
    have led to a profound understanding of the onset of turbulence in pipe flow.
    Outstanding open points, applications to flows of complex fluids, and similarities
    with other wall-bounded flows are discussed.'
acknowledgement: 'The authors are very grateful to Laurette Tuckerman for her helpful
  comments. This work was supported by grants from the Simons Foundation (grant numbers
  662985, D.B., and 662960, B.H.) and the Priority Programme “SPP 1881: Turbulent
  Superstructures” of the Deutsche Forschungsgemeinschaft (grant number AV120/3-2
  to M.A.).'
article_processing_charge: No
article_type: original
author:
- first_name: Marc
  full_name: Avila, Marc
  last_name: Avila
- first_name: Dwight
  full_name: Barkley, Dwight
  last_name: Barkley
- first_name: Björn
  full_name: Hof, Björn
  id: 3A374330-F248-11E8-B48F-1D18A9856A87
  last_name: Hof
  orcid: 0000-0003-2057-2754
citation:
  ama: Avila M, Barkley D, Hof B. Transition to turbulence in pipe flow. <i>Annual
    Review of Fluid Mechanics</i>. 2023;55:575-602. doi:<a href="https://doi.org/10.1146/annurev-fluid-120720-025957">10.1146/annurev-fluid-120720-025957</a>
  apa: Avila, M., Barkley, D., &#38; Hof, B. (2023). Transition to turbulence in pipe
    flow. <i>Annual Review of Fluid Mechanics</i>. Annual Reviews. <a href="https://doi.org/10.1146/annurev-fluid-120720-025957">https://doi.org/10.1146/annurev-fluid-120720-025957</a>
  chicago: Avila, Marc, Dwight Barkley, and Björn Hof. “Transition to Turbulence in
    Pipe Flow.” <i>Annual Review of Fluid Mechanics</i>. Annual Reviews, 2023. <a
    href="https://doi.org/10.1146/annurev-fluid-120720-025957">https://doi.org/10.1146/annurev-fluid-120720-025957</a>.
  ieee: M. Avila, D. Barkley, and B. Hof, “Transition to turbulence in pipe flow,”
    <i>Annual Review of Fluid Mechanics</i>, vol. 55. Annual Reviews, pp. 575–602,
    2023.
  ista: Avila M, Barkley D, Hof B. 2023. Transition to turbulence in pipe flow. Annual
    Review of Fluid Mechanics. 55, 575–602.
  mla: Avila, Marc, et al. “Transition to Turbulence in Pipe Flow.” <i>Annual Review
    of Fluid Mechanics</i>, vol. 55, Annual Reviews, 2023, pp. 575–602, doi:<a href="https://doi.org/10.1146/annurev-fluid-120720-025957">10.1146/annurev-fluid-120720-025957</a>.
  short: M. Avila, D. Barkley, B. Hof, Annual Review of Fluid Mechanics 55 (2023)
    575–602.
date_created: 2023-02-26T23:01:01Z
date_published: 2023-01-19T00:00:00Z
date_updated: 2023-08-01T13:20:30Z
day: '19'
ddc:
- '530'
department:
- _id: BjHo
doi: 10.1146/annurev-fluid-120720-025957
external_id:
  isi:
  - '000915418100023'
file:
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  creator: dernst
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  date_updated: 2023-02-27T09:35:52Z
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  file_name: 2023_AnnReviewFluidMech_Avila.pdf
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has_accepted_license: '1'
intvolume: '        55'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 575-602
project:
- _id: 238598C6-32DE-11EA-91FC-C7463DDC885E
  grant_number: '662960'
  name: 'Revisiting the Turbulence Problem Using Statistical Mechanics: Experimental
    Studies on Transitional and Turbulent Flows'
publication: Annual Review of Fluid Mechanics
publication_identifier:
  issn:
  - 0066-4189
publication_status: published
publisher: Annual Reviews
quality_controlled: '1'
scopus_import: '1'
status: public
title: Transition to turbulence in pipe flow
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: 55
year: '2023'
...
---
_id: '12683'
abstract:
- lang: eng
  text: We study the eigenvalue trajectories of a time dependent matrix Gt=H+itvv∗
    for t≥0, where H is an N×N Hermitian random matrix and v is a unit vector. In
    particular, we establish that with high probability, an outlier can be distinguished
    at all times t>1+N−1/3+ϵ, for any ϵ>0. The study of this natural process combines
    elements of Hermitian and non-Hermitian analysis, and illustrates some aspects
    of the intrinsic instability of (even weakly) non-Hermitian matrices.
acknowledgement: G. Dubach gratefully acknowledges funding from the European Union’s
  Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie
  Grant Agreement No. 754411. L. Erdős is supported by ERC Advanced Grant “RMTBeyond”
  No. 101020331.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Guillaume
  full_name: Dubach, Guillaume
  id: D5C6A458-10C4-11EA-ABF4-A4B43DDC885E
  last_name: Dubach
  orcid: 0000-0001-6892-8137
- first_name: László
  full_name: Erdös, László
  id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
  last_name: Erdös
  orcid: 0000-0001-5366-9603
citation:
  ama: Dubach G, Erdös L. Dynamics of a rank-one perturbation of a Hermitian matrix.
    <i>Electronic Communications in Probability</i>. 2023;28:1-13. doi:<a href="https://doi.org/10.1214/23-ECP516">10.1214/23-ECP516</a>
  apa: Dubach, G., &#38; Erdös, L. (2023). Dynamics of a rank-one perturbation of
    a Hermitian matrix. <i>Electronic Communications in Probability</i>. Institute
    of Mathematical Statistics. <a href="https://doi.org/10.1214/23-ECP516">https://doi.org/10.1214/23-ECP516</a>
  chicago: Dubach, Guillaume, and László Erdös. “Dynamics of a Rank-One Perturbation
    of a Hermitian Matrix.” <i>Electronic Communications in Probability</i>. Institute
    of Mathematical Statistics, 2023. <a href="https://doi.org/10.1214/23-ECP516">https://doi.org/10.1214/23-ECP516</a>.
  ieee: G. Dubach and L. Erdös, “Dynamics of a rank-one perturbation of a Hermitian
    matrix,” <i>Electronic Communications in Probability</i>, vol. 28. Institute of
    Mathematical Statistics, pp. 1–13, 2023.
  ista: Dubach G, Erdös L. 2023. Dynamics of a rank-one perturbation of a Hermitian
    matrix. Electronic Communications in Probability. 28, 1–13.
  mla: Dubach, Guillaume, and László Erdös. “Dynamics of a Rank-One Perturbation of
    a Hermitian Matrix.” <i>Electronic Communications in Probability</i>, vol. 28,
    Institute of Mathematical Statistics, 2023, pp. 1–13, doi:<a href="https://doi.org/10.1214/23-ECP516">10.1214/23-ECP516</a>.
  short: G. Dubach, L. Erdös, Electronic Communications in Probability 28 (2023) 1–13.
date_created: 2023-02-26T23:01:01Z
date_published: 2023-02-08T00:00:00Z
date_updated: 2023-10-17T12:48:10Z
day: '08'
ddc:
- '510'
department:
- _id: LaEr
doi: 10.1214/23-ECP516
ec_funded: 1
external_id:
  arxiv:
  - '2108.13694'
  isi:
  - '000950650200005'
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  date_created: 2023-02-27T09:43:27Z
  date_updated: 2023-02-27T09:43:27Z
  file_id: '12692'
  file_name: 2023_ElectCommProbability_Dubach.pdf
  file_size: 479105
  relation: main_file
  success: 1
file_date_updated: 2023-02-27T09:43:27Z
has_accepted_license: '1'
intvolume: '        28'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 1-13
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '754411'
  name: ISTplus - Postdoctoral Fellowships
- _id: 62796744-2b32-11ec-9570-940b20777f1d
  call_identifier: H2020
  grant_number: '101020331'
  name: Random matrices beyond Wigner-Dyson-Mehta
publication: Electronic Communications in Probability
publication_identifier:
  eissn:
  - 1083-589X
publication_status: published
publisher: Institute of Mathematical Statistics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Dynamics of a rank-one perturbation of a Hermitian matrix
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: 28
year: '2023'
...
---
_id: '12693'
abstract:
- lang: eng
  text: See Readme File for further information.
article_processing_charge: No
author:
- first_name: Sylvia
  full_name: Cremer, Sylvia
  id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
  last_name: Cremer
  orcid: 0000-0002-2193-3868
citation:
  ama: 'Cremer S. Source data for Metzler et al, 2023: Trade-offs between immunity
    and competitive ability in fighting ant males . 2023. doi:<a href="https://doi.org/10.15479/AT:ISTA:12693">10.15479/AT:ISTA:12693</a>'
  apa: 'Cremer, S. (2023). Source data for Metzler et al, 2023: Trade-offs between
    immunity and competitive ability in fighting ant males . Institute of Science
    and Technology Austria. <a href="https://doi.org/10.15479/AT:ISTA:12693">https://doi.org/10.15479/AT:ISTA:12693</a>'
  chicago: 'Cremer, Sylvia. “Source Data for Metzler et Al, 2023: Trade-Offs between
    Immunity and Competitive Ability in Fighting Ant Males .” Institute of Science
    and Technology Austria, 2023. <a href="https://doi.org/10.15479/AT:ISTA:12693">https://doi.org/10.15479/AT:ISTA:12693</a>.'
  ieee: 'S. Cremer, “Source data for Metzler et al, 2023: Trade-offs between immunity
    and competitive ability in fighting ant males .” Institute of Science and Technology
    Austria, 2023.'
  ista: 'Cremer S. 2023. Source data for Metzler et al, 2023: Trade-offs between immunity
    and competitive ability in fighting ant males , Institute of Science and Technology
    Austria, <a href="https://doi.org/10.15479/AT:ISTA:12693">10.15479/AT:ISTA:12693</a>.'
  mla: 'Cremer, Sylvia. <i>Source Data for Metzler et Al, 2023: Trade-Offs between
    Immunity and Competitive Ability in Fighting Ant Males </i>. Institute of Science
    and Technology Austria, 2023, doi:<a href="https://doi.org/10.15479/AT:ISTA:12693">10.15479/AT:ISTA:12693</a>.'
  short: S. Cremer, (2023).
contributor:
- contributor_type: data_collector
  first_name: Sina
  id: 48204546-F248-11E8-B48F-1D18A9856A87
  last_name: Metzler
- contributor_type: data_collector
  first_name: Jessica
  id: 21516227-15aa-11ec-9fb2-c6e8ffc155d3
  last_name: Kirchner
- contributor_type: data_collector
  first_name: Anna V
  id: 406F989C-F248-11E8-B48F-1D18A9856A87
  last_name: Grasse
date_created: 2023-02-28T06:38:37Z
date_published: 2023-02-28T00:00:00Z
date_updated: 2023-12-13T11:13:13Z
day: '28'
ddc:
- '570'
department:
- _id: SyCr
doi: 10.15479/AT:ISTA:12693
file:
- access_level: open_access
  checksum: c1565d655ca05601acfd84e0d12b8563
  content_type: application/pdf
  creator: scremer
  date_created: 2023-02-28T06:34:08Z
  date_updated: 2023-02-28T06:34:08Z
  file_id: '12694'
  file_name: Metzler_ReadMe.pdf
  file_size: 77070
  relation: main_file
  success: 1
- access_level: open_access
  checksum: 75c4c4948563d6261cb7548f80d909f1
  content_type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet
  creator: scremer
  date_created: 2023-02-28T06:34:12Z
  date_updated: 2023-02-28T06:34:12Z
  file_id: '12695'
  file_name: Metzler_RepositoryData.xlsx
  file_size: 88001
  relation: main_file
  success: 1
file_date_updated: 2023-02-28T06:34:12Z
has_accepted_license: '1'
month: '02'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
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  - id: '12696'
    relation: used_in_publication
    status: public
status: public
title: 'Source data for Metzler et al, 2023: Trade-offs between immunity and competitive
  ability in fighting ant males '
tmp:
  image: /images/cc_by_nc.png
  legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
  name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
  short: CC BY-NC (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '12696'
abstract:
- lang: eng
  text: "Background: Fighting disease while fighting rivals exposes males to constraints
    and tradeoffs during male-male competition. We here tested how both the stage
    and intensity of infection with the fungal pathogen Metarhizium robertsii interfered
    with fighting success in Cardiocondyla obscurior ant males. Males of this species
    have evolved long lifespans during which they can gain many matings with the young
    queens of the colony, if successful in male-male competition. Since male fights
    occur inside the colony, the outcome of male-male competition can further be biased
    by interference of the colony’s worker force.\r\nResults: We found that severe,
    but not yet mild, infection strongly impaired male fighting success. In late-stage
    infection, this could be attributed to worker aggression directed towards the
    infected rather than the healthy male and an already very high male morbidity
    even in the absence of fighting. Shortly after pathogen exposure, however, male
    mortality was particularly increased during combat. Since these males mounted
    a strong immune response, their reduced fighting success suggests a trade-off
    between immune investment and competitive ability already early in the infection.
    Even if the males themselves showed no difference in the number of attacks they
    raised against their healthy rivals across infection stages and levels, severely
    infected males were thus losing in male-male competition from an early stage of
    infection on.\r\nConclusions: Males of the ant C. obscurior have evolved high
    immune investment, triggering an effective immune response very fast after fungal
    exposure. This allows them to cope with mild pathogen exposures without cost to
    their success in male-male competition, and hence to gain multiple mating opportunities
    with the emerging virgin queens of the colony. Under severe infection, however,
    they are weak fighters and rarely survive a combat already at early infection
    when raising an immune response, as well as at progressed infection, when they
    are morbid and preferentially targeted by worker aggression. Workers thereby remove
    males that pose a future disease threat by biasing male-male competition. Our
    study thus revealed a novel social immunity mechanism how social insect workers
    protect the colony against disease risk."
acknowledged_ssus:
- _id: LifeSc
acknowledgement: "We are thankful to Mike Bidochka for the fungal strain, Lukas Schrader
  for sharing the C. obscurior genome data for primer development, the Lab Support
  Facility of ISTA for general laboratory support and help with the permit approval
  procedures, and the Finca El Quinto for letting us collect ants on their property.
  We thank the Social Immunity Team at ISTA for help with ant collection and experimental
  help, in particular Elina Hanhimäki and Marta Gorecka for behavioural observation,
  and Elisabeth Naderlinger for spore load PCRs. We further thank the Social Immunity
  Team and Jürgen Heinze for continued discussion and comments on the manuscript.\r\nOpen
  access funding provided by Institute of Science and Technology Austria (ISTA). This
  project received funding from the European Research Council (ERC) under the European
  Union’s Horizon 2020 research and innovation programme (grant agreement No 771402
  to SC). "
article_number: '37'
article_processing_charge: Yes
article_type: original
author:
- first_name: Sina
  full_name: Metzler, Sina
  id: 48204546-F248-11E8-B48F-1D18A9856A87
  last_name: Metzler
  orcid: 0000-0002-9547-2494
- first_name: Jessica
  full_name: Kirchner, Jessica
  id: 21516227-15aa-11ec-9fb2-c6e8ffc155d3
  last_name: Kirchner
- first_name: Anna V
  full_name: Grasse, Anna V
  id: 406F989C-F248-11E8-B48F-1D18A9856A87
  last_name: Grasse
- first_name: Sylvia
  full_name: Cremer, Sylvia
  id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
  last_name: Cremer
  orcid: 0000-0002-2193-3868
citation:
  ama: Metzler S, Kirchner J, Grasse AV, Cremer S. Trade-offs between immunity and
    competitive ability in fighting ant males. <i>BMC Ecology and Evolution</i>. 2023;23.
    doi:<a href="https://doi.org/10.1186/s12862-023-02137-7">10.1186/s12862-023-02137-7</a>
  apa: Metzler, S., Kirchner, J., Grasse, A. V., &#38; Cremer, S. (2023). Trade-offs
    between immunity and competitive ability in fighting ant males. <i>BMC Ecology
    and Evolution</i>. Springer Nature. <a href="https://doi.org/10.1186/s12862-023-02137-7">https://doi.org/10.1186/s12862-023-02137-7</a>
  chicago: Metzler, Sina, Jessica Kirchner, Anna V Grasse, and Sylvia Cremer. “Trade-Offs
    between Immunity and Competitive Ability in Fighting Ant Males.” <i>BMC Ecology
    and Evolution</i>. Springer Nature, 2023. <a href="https://doi.org/10.1186/s12862-023-02137-7">https://doi.org/10.1186/s12862-023-02137-7</a>.
  ieee: S. Metzler, J. Kirchner, A. V. Grasse, and S. Cremer, “Trade-offs between
    immunity and competitive ability in fighting ant males,” <i>BMC Ecology and Evolution</i>,
    vol. 23. Springer Nature, 2023.
  ista: Metzler S, Kirchner J, Grasse AV, Cremer S. 2023. Trade-offs between immunity
    and competitive ability in fighting ant males. BMC Ecology and Evolution. 23,
    37.
  mla: Metzler, Sina, et al. “Trade-Offs between Immunity and Competitive Ability
    in Fighting Ant Males.” <i>BMC Ecology and Evolution</i>, vol. 23, 37, Springer
    Nature, 2023, doi:<a href="https://doi.org/10.1186/s12862-023-02137-7">10.1186/s12862-023-02137-7</a>.
  short: S. Metzler, J. Kirchner, A.V. Grasse, S. Cremer, BMC Ecology and Evolution
    23 (2023).
date_created: 2023-02-28T07:38:17Z
date_published: 2023-08-07T00:00:00Z
date_updated: 2023-12-13T11:13:14Z
day: '07'
ddc:
- '570'
department:
- _id: SyCr
doi: 10.1186/s12862-023-02137-7
ec_funded: 1
external_id:
  isi:
  - '001042643600002'
  pmid:
  - '37550612'
file:
- access_level: open_access
  checksum: 95966dc7d242d2c85bdd4fe14233dbd8
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  creator: dernst
  date_created: 2023-08-14T07:51:47Z
  date_updated: 2023-08-14T07:51:47Z
  file_id: '14048'
  file_name: 2023_BMCEcology_Metzler.pdf
  file_size: 2004276
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has_accepted_license: '1'
intvolume: '        23'
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language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 2649B4DE-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '771402'
  name: Epidemics in ant societies on a chip
publication: BMC Ecology and Evolution
publication_identifier:
  issn:
  - 2730-7182
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
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scopus_import: '1'
status: public
title: Trade-offs between immunity and competitive ability in fighting ant males
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
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  short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 23
year: '2023'
...
---
_id: '12697'
abstract:
- lang: eng
  text: Models for same-material contact electrification in granular media often rely
    on a local charge-driving parameter whose spatial variations lead to a stochastic
    origin for charge exchange. Measuring the charge transfer from individual granular
    spheres after contacts with substrates of the same material, we find instead a
    “global” charging behavior, coherent over the sample’s whole surface. Cleaning
    and baking samples fully resets charging magnitude and direction, which indicates
    the underlying global parameter is not intrinsic to the material, but acquired
    from its history. Charging behavior is randomly and irreversibly affected by changes
    in relative humidity, hinting at a mechanism where adsorbates, in particular,
    water, are fundamental to the charge-transfer process.
acknowledgement: "We would like to thank Troy Shinbrot, Victor Lee and Daniele Foresti
  for helpful discussions. This project has received funding from the European Research
  Council Grant Agreement No. 949120 and from the the Marie Sk lodowska-Curie Grant
  Agreement No. 754411 under\r\nthe European Union’s Horizon 2020 research and innovation
  program."
article_number: '098202'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Galien M
  full_name: Grosjean, Galien M
  id: 0C5FDA4A-9CF6-11E9-8939-FF05E6697425
  last_name: Grosjean
  orcid: 0000-0001-5154-417X
- first_name: Scott R
  full_name: Waitukaitis, Scott R
  id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
  last_name: Waitukaitis
  orcid: 0000-0002-2299-3176
citation:
  ama: Grosjean GM, Waitukaitis SR. Single-collision statistics reveal a global mechanism
    driven by sample history for contact electrification in granular media. <i>Physical
    Review Letters</i>. 2023;130(9). doi:<a href="https://doi.org/10.1103/physrevlett.130.098202">10.1103/physrevlett.130.098202</a>
  apa: Grosjean, G. M., &#38; Waitukaitis, S. R. (2023). Single-collision statistics
    reveal a global mechanism driven by sample history for contact electrification
    in granular media. <i>Physical Review Letters</i>. American Physical Society.
    <a href="https://doi.org/10.1103/physrevlett.130.098202">https://doi.org/10.1103/physrevlett.130.098202</a>
  chicago: Grosjean, Galien M, and Scott R Waitukaitis. “Single-Collision Statistics
    Reveal a Global Mechanism Driven by Sample History for Contact Electrification
    in Granular Media.” <i>Physical Review Letters</i>. American Physical Society,
    2023. <a href="https://doi.org/10.1103/physrevlett.130.098202">https://doi.org/10.1103/physrevlett.130.098202</a>.
  ieee: G. M. Grosjean and S. R. Waitukaitis, “Single-collision statistics reveal
    a global mechanism driven by sample history for contact electrification in granular
    media,” <i>Physical Review Letters</i>, vol. 130, no. 9. American Physical Society,
    2023.
  ista: Grosjean GM, Waitukaitis SR. 2023. Single-collision statistics reveal a global
    mechanism driven by sample history for contact electrification in granular media.
    Physical Review Letters. 130(9), 098202.
  mla: Grosjean, Galien M., and Scott R. Waitukaitis. “Single-Collision Statistics
    Reveal a Global Mechanism Driven by Sample History for Contact Electrification
    in Granular Media.” <i>Physical Review Letters</i>, vol. 130, no. 9, 098202, American
    Physical Society, 2023, doi:<a href="https://doi.org/10.1103/physrevlett.130.098202">10.1103/physrevlett.130.098202</a>.
  short: G.M. Grosjean, S.R. Waitukaitis, Physical Review Letters 130 (2023).
date_created: 2023-02-28T12:14:46Z
date_published: 2023-03-03T00:00:00Z
date_updated: 2023-08-22T08:41:32Z
day: '03'
ddc:
- '530'
- '537'
department:
- _id: ScWa
doi: 10.1103/physrevlett.130.098202
ec_funded: 1
external_id:
  arxiv:
  - '2211.02488'
  isi:
  - '000946178200008'
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isi: 1
issue: '9'
keyword:
- General Physics
- Electrostatics
- Triboelectricity
- Soft Matter
- Acoustic Levitation
- Granular Materials
language:
- iso: eng
main_file_link:
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  url: https://arxiv.org/abs/2211.02488
month: '03'
oa: 1
oa_version: Preprint
project:
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  call_identifier: H2020
  grant_number: '949120'
  name: 'Tribocharge: a multi-scale approach to an enduring problem in physics'
- _id: 260C2330-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '754411'
  name: ISTplus - Postdoctoral Fellowships
publication: Physical Review Letters
publication_identifier:
  eissn:
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  issn:
  - 0031-9007
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
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status: public
title: Single-collision statistics reveal a global mechanism driven by sample history
  for contact electrification in granular media
tmp:
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  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
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  short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 130
year: '2023'
...
---
_id: '12702'
abstract:
- lang: eng
  text: Hydrocarbon mixtures are extremely abundant in the Universe, and diamond formation
    from them can play a crucial role in shaping the interior structure and evolution
    of planets. With first-principles accuracy, we first estimate the melting line
    of diamond, and then reveal the nature of chemical bonding in hydrocarbons at
    extreme conditions. We finally establish the pressure-temperature phase boundary
    where it is thermodynamically possible for diamond to form from hydrocarbon mixtures
    with different atomic fractions of carbon. Notably, here we show a depletion zone
    at pressures above 200 GPa and temperatures below 3000 K-3500 K where diamond
    formation is thermodynamically favorable regardless of the carbon atomic fraction,
    due to a phase separation mechanism. The cooler condition of the interior of Neptune
    compared to Uranus means that the former is much more likely to contain the depletion
    zone. Our findings can help explain the dichotomy of the two ice giants manifested
    by the low luminosity of Uranus, and lead to a better understanding of (exo-)planetary
    formation and evolution.
acknowledgement: BC thanks Daan Frenkel for stimulating discussions. We thank Aleks
  Reinhardt, Daan Frenkel, Marius Millot, Federica Coppari, Rhys Bunting, and Chris
  J. Pickard for critically reading the manuscript and providing useful suggestions.
  BC acknowledges resources provided by the Cambridge Tier-2 system operated by the
  University of Cambridge Research Computing Service funded by EPSRC Tier-2 capital
  grant EP/P020259/1. SH acknowledges support from LDRD 19-ERD-031 and computing support
  from the Lawrence Livermore National Laboratory (LLNL) Institutional Computing Grand
  Challenge program. Lawrence Livermore National Laboratory is operated by Lawrence
  Livermore National Security, LLC, for the U.S. Department of Energy, National Nuclear
  Security Administration under Contract DE-AC52-07NA27344. MB acknowledges support
  by the European Horizon 2020 program within the Marie Skłodowska-Curie actions (xICE
  grant number 894725), funding from the NOMIS foundation and computational resources
  at the North-German Supercomputing Alliance (HLRN) facilities.
article_number: '1104'
article_processing_charge: No
article_type: original
author:
- first_name: Bingqing
  full_name: Cheng, Bingqing
  id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
  last_name: Cheng
  orcid: 0000-0002-3584-9632
- first_name: Sebastien
  full_name: Hamel, Sebastien
  last_name: Hamel
- first_name: Mandy
  full_name: Bethkenhagen, Mandy
  id: 201939f4-803f-11ed-ab7e-d8da4bd1517f
  last_name: Bethkenhagen
  orcid: 0000-0002-1838-2129
citation:
  ama: Cheng B, Hamel S, Bethkenhagen M. Thermodynamics of diamond formation from
    hydrocarbon mixtures in planets. <i>Nature Communications</i>. 2023;14. doi:<a
    href="https://doi.org/10.1038/s41467-023-36841-1">10.1038/s41467-023-36841-1</a>
  apa: Cheng, B., Hamel, S., &#38; Bethkenhagen, M. (2023). Thermodynamics of diamond
    formation from hydrocarbon mixtures in planets. <i>Nature Communications</i>.
    Springer Nature. <a href="https://doi.org/10.1038/s41467-023-36841-1">https://doi.org/10.1038/s41467-023-36841-1</a>
  chicago: Cheng, Bingqing, Sebastien Hamel, and Mandy Bethkenhagen. “Thermodynamics
    of Diamond Formation from Hydrocarbon Mixtures in Planets.” <i>Nature Communications</i>.
    Springer Nature, 2023. <a href="https://doi.org/10.1038/s41467-023-36841-1">https://doi.org/10.1038/s41467-023-36841-1</a>.
  ieee: B. Cheng, S. Hamel, and M. Bethkenhagen, “Thermodynamics of diamond formation
    from hydrocarbon mixtures in planets,” <i>Nature Communications</i>, vol. 14.
    Springer Nature, 2023.
  ista: Cheng B, Hamel S, Bethkenhagen M. 2023. Thermodynamics of diamond formation
    from hydrocarbon mixtures in planets. Nature Communications. 14, 1104.
  mla: Cheng, Bingqing, et al. “Thermodynamics of Diamond Formation from Hydrocarbon
    Mixtures in Planets.” <i>Nature Communications</i>, vol. 14, 1104, Springer Nature,
    2023, doi:<a href="https://doi.org/10.1038/s41467-023-36841-1">10.1038/s41467-023-36841-1</a>.
  short: B. Cheng, S. Hamel, M. Bethkenhagen, Nature Communications 14 (2023).
date_created: 2023-03-05T23:01:04Z
date_published: 2023-02-27T00:00:00Z
date_updated: 2023-08-01T13:36:11Z
day: '27'
ddc:
- '540'
department:
- _id: BiCh
doi: 10.1038/s41467-023-36841-1
external_id:
  isi:
  - '000939678300002'
  pmid:
  - '36843123'
file:
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  creator: cchlebak
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  file_id: '12713'
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  file_size: 1946443
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  success: 1
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has_accepted_license: '1'
intvolume: '        14'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A
  name: NOMIS Fellowship Program
publication: Nature Communications
publication_identifier:
  eissn:
  - 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Thermodynamics of diamond formation from hydrocarbon mixtures in planets
tmp:
  image: /images/cc_by.png
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  short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 14
year: '2023'
...
---
_id: '12704'
abstract:
- lang: eng
  text: Adversarial training (i.e., training on adversarially perturbed input data)
    is a well-studied method for making neural networks robust to potential adversarial
    attacks during inference. However, the improved robustness does not come for free
    but rather is accompanied by a decrease in overall model accuracy and performance.
    Recent work has shown that, in practical robot learning applications, the effects
    of adversarial training do not pose a fair trade-off but inflict a net loss when
    measured in holistic robot performance. This work revisits the robustness-accuracy
    trade-off in robot learning by systematically analyzing if recent advances in
    robust training methods and theory in conjunction with adversarial robot learning,
    are capable of making adversarial training suitable for real-world robot applications.
    We evaluate three different robot learning tasks ranging from autonomous driving
    in a high-fidelity environment amenable to sim-to-real deployment to mobile robot
    navigation and gesture recognition. Our results demonstrate that, while these
    techniques make incremental improvements on the trade-off on a relative scale,
    the negative impact on the nominal accuracy caused by adversarial training still
    outweighs the improved robustness by an order of magnitude. We conclude that although
    progress is happening, further advances in robust learning methods are necessary
    before they can benefit robot learning tasks in practice.
acknowledgement: "We thank Christoph Lampert for inspiring this work. The\r\nviews
  and conclusions contained in this document are those of\r\nthe authors and should
  not be interpreted as representing the\r\nofficial policies, either expressed or
  implied, of the United States\r\nAir Force or the U.S. Government. The U.S. Government
  is\r\nauthorized to reproduce and distribute reprints for Government\r\npurposes
  notwithstanding any copyright notation herein."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Mathias
  full_name: Lechner, Mathias
  id: 3DC22916-F248-11E8-B48F-1D18A9856A87
  last_name: Lechner
- first_name: Alexander
  full_name: Amini, Alexander
  last_name: Amini
- first_name: Daniela
  full_name: Rus, Daniela
  last_name: Rus
- first_name: Thomas A
  full_name: Henzinger, Thomas A
  id: 40876CD8-F248-11E8-B48F-1D18A9856A87
  last_name: Henzinger
  orcid: 0000-0002-2985-7724
citation:
  ama: Lechner M, Amini A, Rus D, Henzinger TA. Revisiting the adversarial robustness-accuracy
    tradeoff in robot learning. <i>IEEE Robotics and Automation Letters</i>. 2023;8(3):1595-1602.
    doi:<a href="https://doi.org/10.1109/LRA.2023.3240930">10.1109/LRA.2023.3240930</a>
  apa: Lechner, M., Amini, A., Rus, D., &#38; Henzinger, T. A. (2023). Revisiting
    the adversarial robustness-accuracy tradeoff in robot learning. <i>IEEE Robotics
    and Automation Letters</i>. Institute of Electrical and Electronics Engineers.
    <a href="https://doi.org/10.1109/LRA.2023.3240930">https://doi.org/10.1109/LRA.2023.3240930</a>
  chicago: Lechner, Mathias, Alexander Amini, Daniela Rus, and Thomas A Henzinger.
    “Revisiting the Adversarial Robustness-Accuracy Tradeoff in Robot Learning.” <i>IEEE
    Robotics and Automation Letters</i>. Institute of Electrical and Electronics Engineers,
    2023. <a href="https://doi.org/10.1109/LRA.2023.3240930">https://doi.org/10.1109/LRA.2023.3240930</a>.
  ieee: M. Lechner, A. Amini, D. Rus, and T. A. Henzinger, “Revisiting the adversarial
    robustness-accuracy tradeoff in robot learning,” <i>IEEE Robotics and Automation
    Letters</i>, vol. 8, no. 3. Institute of Electrical and Electronics Engineers,
    pp. 1595–1602, 2023.
  ista: Lechner M, Amini A, Rus D, Henzinger TA. 2023. Revisiting the adversarial
    robustness-accuracy tradeoff in robot learning. IEEE Robotics and Automation Letters.
    8(3), 1595–1602.
  mla: Lechner, Mathias, et al. “Revisiting the Adversarial Robustness-Accuracy Tradeoff
    in Robot Learning.” <i>IEEE Robotics and Automation Letters</i>, vol. 8, no. 3,
    Institute of Electrical and Electronics Engineers, 2023, pp. 1595–602, doi:<a
    href="https://doi.org/10.1109/LRA.2023.3240930">10.1109/LRA.2023.3240930</a>.
  short: M. Lechner, A. Amini, D. Rus, T.A. Henzinger, IEEE Robotics and Automation
    Letters 8 (2023) 1595–1602.
date_created: 2023-03-05T23:01:04Z
date_published: 2023-03-01T00:00:00Z
date_updated: 2023-08-01T13:36:50Z
day: '01'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1109/LRA.2023.3240930
external_id:
  arxiv:
  - '2204.07373'
  isi:
  - '000936534100012'
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- iso: eng
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oa: 1
oa_version: Published Version
page: 1595-1602
publication: IEEE Robotics and Automation Letters
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  eissn:
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publisher: Institute of Electrical and Electronics Engineers
quality_controlled: '1'
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title: Revisiting the adversarial robustness-accuracy tradeoff in robot learning
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  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: 8
year: '2023'
...
