---
OA_place: publisher
_id: '21863'
abstract:
- lang: eng
  text: "Atoms and photons, two things so different but yet so alike. The former,
    the building block of matter, something we learn about in school and imagine it
    as some tiny marbles encircled by other tinier marbles. The latter, an electromagnetic
    wave, a light particle or an excitation of the electromagnetic field. Quantum
    mechanics tells us about the properties of these two entities. And even if it
    sounds, looks and writes counter-intuitive, it has proven right for over a century
    now.\r\n\r\nIn this work, I elaborate on how we tested the laws of quantum mechanics
    and how we used them learn more about the tiny building blocks of nature and the
    fields they use to talk to each other. The atoms we use, are artificial. Superconducting
    qubits, small electrical circuits with quantized energy levels behave like electrons
    that transition between different orbitals in an atom. One of the qubits' advantages,
    is also a big disadvantage. We design the circuits' energy levels and fabricate
    them in a cleanroom. This allows for arbitrary spaced energy levels but in contrast
    to real atoms, prevents two superconducting qubits from being alike. Still, this
    qubit platform is one of the frontrunners for future quantum computing technology
    and testing fundamental physics due to their scalability.\r\n\r\nWe interface
    superconducting qubits, which operate in the GHz regime, with microwave photons.
    We use 3D aluminum cavities as mediators between qubits and photons. The cavities
    allow for non-destructive readout of the qubit state, they shield the qubits from
    noise at the qubit frequency and they give us an easy way to frequency-tune these
    joint systems.\r\n\r\nWe need to operate superconducting qubits and their cavities
    at millikelvin temperatures in dilution refrigerators. At higher temperatures,
    superconductivity suffers and even worse, the environment is filled with thermal
    noise photons. This poses a fundamental limitation on the scalability of superconducting
    qubit devices. Also connecting multiple devices in different fridges does not
    work over room temperature links because the microwave photons used for this purpose
    will be covered in noise and the quantum information they carry, will be unusable.\r\n\r\nInfrared
    photons do not suffer from this noise problem since there are close to zero thermal
    noise photons at their frequencies at room temperature. We cannot simply interface
    superconducting devices with optical photons due their frequency mismatch and
    the destructive effect of optical photons on superconductors. Therefore, we use
    microwave-to-optics transducers that allow to convert microwave photons into optical
    ones and vice-versa. The transducers that we use are macroscopic electro-optic
    transducers using the Pockels effect in a disk-shaped Lithium Niobate whispering
    gallery mode resonator. By using a strong optical pump, photons from the two frequency
    domains experience a beam-splitter interaction and get converted from one to the
    other.\r\n\r\nWe measure the generated optical photons using elaborate optical
    setups, optical heterodyning and single photon detectors to gain knowledge about
    the qubit state or the converted microwave photons. Bridging the microwave and
    the optical world allows us to take advantage of both of their strengths but it
    also requires deep knowledge about both of their working principles.\r\n\r\nIn
    this work, we describe two experiments that our group conducted to showcase the
    opportunities that arise from interfacing superconducting qubits with optical
    photons but also the pitfalls, one may encounter on the way.\r\n\r\nIn the first
    experiment, we managed to all-optically read out a superconducting qubit. We show
    that the assignment fidelity, the probability that a measurement of the qubit
    state matches the prepared state, is close to equal for all-optical, microwave-to-optics
    and conventional microwave readout. We show T1 and T2 measurements for all three
    readout types and give an analysis of the noise caused by the optics. Finally,
    we show that the infrared light does not affect the qubit performance in a negative
    way but that the heating it causes does. This is an important insight that we
    used in the next experiment.\r\n\r\nThe second experiment is the upconversion
    of itinerant single microwave photons to the optical domain. We show that we can
    generate single microwave photons from a qubit-cavity system. We upconvert these
    single photons, measure them with a single photon detector and reconstruct their
    shape. By conducting a single photon Rabi measurement, we show correlations between
    the microwave and the optical domain. And by thorough signal-to-noise measurements
    and noise analysis, we find that we can generate single infrared photons with
    high signal-to-noise ratio 5.1 and low transducer added noise (<0.012 quanta).
    We show that this measurement creates a path towards entanglement of a superconducting
    qubit and an optical photon and what parameters need to be improved to achieve
    it. Additionally, this experiment is a proof of principle for an on-demand infrared
    single photon source. More generally, it allows to link microwave quantum technology
    in general to the optical domain."
acknowledged_ssus:
- _id: M-Shop
- _id: NanoFab
- _id: LifeSc
- _id: SSU
acknowledgement: "The author of this work was supported by the European Research Council
  under grant no.\r\n101089099 (ERC CoG cQEO) and the European Union’s Horizon 2020
  research and innovation\r\nprogram under grant no. 899354 (FETopen SuperQuLAN).\r\nThis
  work was also supported by the European Research Council under grant nos. 758053\r\n(ERC
  StG QUNNECT), 101248662 (ERC POC CoupledEOT), and the European Innovation\r\nCouncil
  no. 101187231 (PathfinderOpen CIELO). This research was funded in whole or in part\r\nby
  the Austrian Science Fund (FWF) [10.55776/F71]. For open access purposes, the author\r\nhas
  applied a CC BY public copyright license to any author accepted manuscript version
  arising\r\nfrom this submission.\r\niii\r\nMy co-authors in the works mentioned
  later acknowledge generous support from the ISTFELLOW program, the NOMIS-ISTA fellowship,
  the Horizon Europe Program HORIZONCL4-2022-QUANTUM-01-SGA via Project No. 101113946
  OpenSuperQPlus100 and a DOC fellowship of the Austrian Academy of Sciences at IST
  Austria.\r\n"
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Thomas
  full_name: Werner, Thomas
  id: 1fcd8497-dba3-11ea-a45e-c6fbd715f7c7
  last_name: Werner
  orcid: 0009-0001-2346-5236
citation:
  ama: Werner T. Interfacing superconducting qubits with optical photons. 2026. doi:<a
    href="https://doi.org/10.15479/AT-ISTA-21863">10.15479/AT-ISTA-21863</a>
  apa: Werner, T. (2026). <i>Interfacing superconducting qubits with optical photons</i>.
    Institute of Science and Technology Austria. <a href="https://doi.org/10.15479/AT-ISTA-21863">https://doi.org/10.15479/AT-ISTA-21863</a>
  chicago: Werner, Thomas. “Interfacing Superconducting Qubits with Optical Photons.”
    Institute of Science and Technology Austria, 2026. <a href="https://doi.org/10.15479/AT-ISTA-21863">https://doi.org/10.15479/AT-ISTA-21863</a>.
  ieee: T. Werner, “Interfacing superconducting qubits with optical photons,” Institute
    of Science and Technology Austria, 2026.
  ista: Werner T. 2026. Interfacing superconducting qubits with optical photons. Institute
    of Science and Technology Austria.
  mla: Werner, Thomas. <i>Interfacing Superconducting Qubits with Optical Photons</i>.
    Institute of Science and Technology Austria, 2026, doi:<a href="https://doi.org/10.15479/AT-ISTA-21863">10.15479/AT-ISTA-21863</a>.
  short: T. Werner, Interfacing Superconducting Qubits with Optical Photons, Institute
    of Science and Technology Austria, 2026.
corr_author: '1'
date_created: 2026-05-12T09:04:02Z
date_published: 2026-05-12T00:00:00Z
date_updated: 2026-05-20T13:35:43Z
day: '12'
ddc:
- '530'
- '537'
- '539'
degree_awarded: PhD
department:
- _id: GradSch
- _id: JoFi
doi: 10.15479/AT-ISTA-21863
ec_funded: 1
file:
- access_level: open_access
  checksum: a5b4d8dba83f96e955a3625c0eebee98
  content_type: application/pdf
  creator: twerner
  date_created: 2026-05-15T15:53:57Z
  date_updated: 2026-05-15T15:53:57Z
  file_id: '21879'
  file_name: 2026_Werner_Thomas_Thesis.pdf
  file_size: 9330516
  relation: main_file
- access_level: closed
  checksum: b41282beaacfb32472769b9e3b1758d8
  content_type: application/x-zip-compressed
  creator: twerner
  date_created: 2026-05-15T15:54:06Z
  date_updated: 2026-05-15T15:54:06Z
  file_id: '21880'
  file_name: 2026_Werner_Thomas_Thesis.zip
  file_size: 9370704
  relation: source_file
file_date_updated: 2026-05-15T15:54:06Z
has_accepted_license: '1'
keyword:
- Superconducting qubits
- Quantum optics
- Single photons and quantum effects
- Nonlinear optics
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: '97'
project:
- _id: bdadfa0d-d553-11ed-ba76-fb85edbd456a
  grant_number: '101089099'
  name: 'Cavity Quantum Electro Optics: Microwave photonics with nonclassical states'
- _id: 9B868D20-BA93-11EA-9121-9846C619BF3A
  call_identifier: H2020
  grant_number: '899354'
  name: Quantum Local Area Networks with Superconducting Qubits
- _id: 26336814-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '758053'
  name: A Fiber Optic Transceiver for Superconducting Qubits
- _id: 5b807754-ab3d-11f0-914f-ff8c34502cc9
  grant_number: '101248662'
  name: Integrated optical coupling for low loss electro-optic interconnects
- _id: 91aaf765-16d5-11f0-9cad-a8e7e44cccb7
  grant_number: '101187231'
  name: 'Cavity-Integrated Electro-Optics: Measuring, Converting and Manipulating
    Microwaves with Light'
- _id: bdb108fd-d553-11ed-ba76-83dc74a9864f
  grant_number: F07105
  name: QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration
    of Superconducting Quantum Circuits
- _id: bdb7cfc1-d553-11ed-ba76-d2eaab167738
  grant_number: '101080139'
  name: Open Superconducting Quantum Computers (OpenSuperQPlus)
- _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A
  name: NOMIS Fellowship Program
publication_identifier:
  issn:
  - 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
  record:
  - id: '19073'
    relation: part_of_dissertation
    status: public
  - id: '21870'
    relation: part_of_dissertation
    status: public
status: public
supervisor:
- first_name: Johannes M
  full_name: Fink, Johannes M
  id: 4B591CBA-F248-11E8-B48F-1D18A9856A87
  last_name: Fink
  orcid: 0000-0001-8112-028X
title: Interfacing superconducting qubits with optical photons
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2026'
...
---
OA_place: repository
OA_type: green
_id: '21870'
abstract:
- lang: eng
  text: Superconducting qubits are a leading candidate for utility-scale quantum computing
    due to their fast gate speeds and steadily decreasing error rates. The requirement
    for millikelvin operating temperatures, however, creates a significant scaling
    bottleneck. Modular architectures using optical fiber links could bridge separate
    cryogenic nodes, but superconducting circuits do not have coherent optical transitions
    and microwave-to-optical conversion has not been shown for any non-classical photon
    state. In this work, we demonstrate the on-demand generation and tomographic reconstruction
    of itinerant single microwave photons at 8.9 GHz from a superconducting qubit.
    We upconvert this non-Gaussian state with a transducer added noise below 0.012
    quanta and count the converted telecom photons at 193.4 THz with a signal-to-noise
    ratio of up to 5.1$\pm$1.1. We characterize the trade-offs between throughput
    and noise, and establish a viable path toward heralded entanglement distribution
    and gate teleportation. Looking ahead, these results empower existing superconducting
    devices to take a key role in distributed quantum technologies and heterogeneous
    quantum systems.
acknowledgement: "We thank Fritz Diorico and Onur Hosten who suggested the filter
  cavity design, and gave important insights about the assembly and the testing of
  the FabryPerot filter cavities. Ekatrina Fedotova and Diego A.\r\nLancheros Naranjo
  worked on the filter cavity setup in\r\nthe early stages of this work. Gustavo Wiederhecker
  and\r\nYiewen Chu provided insights as to the origins of the\r\nobserved optical
  noise and Nicola Carlon Zambon suggested using telecom filters to mitigate it further.
  This\r\nwork was supported by the European Research Council under grant agreement
  no. 101089099 (ERC CoG\r\ncQEO), and 101248662 (ERC POC CoupledEOT), the\r\nEuropean
  Unions Horizon 2020 research and innovation\r\nprogram under grant agreement no.
  899354 (FETopen\r\nSuperQuLAN), the European Innovation Council no.\r\n101187231
  (PathfinderOpen CIELO), and the Austrian\r\nScience Fund (FWF) no. F7105 (SFB BeyondC).
  J.F.\r\nand L.K. acknowledge support from the Horizon Europe\r\nProgram HORIZON-CL4-2022-QUANTUM-01-SGA
  via\r\nProject No. 101113946 OpenSuperQPlus100. A.M. acknowledges support from the
  NOMIS-ISTA fellowship."
article_processing_charge: No
arxiv: 1
author:
- first_name: Thomas
  full_name: Werner, Thomas
  id: 1fcd8497-dba3-11ea-a45e-c6fbd715f7c7
  last_name: Werner
  orcid: 0009-0001-2346-5236
- first_name: Erfan
  full_name: Riyazi, Erfan
  id: 53322f94-5355-11ee-ae5a-ff6f81c87d51
  last_name: Riyazi
- first_name: Samarth
  full_name: Hawaldar, Samarth
  id: 221708e1-1ff6-11ee-9fa6-85146607433e
  last_name: Hawaldar
  orcid: 0000-0002-1965-4309
- first_name: Rishabh
  full_name: Sahu, Rishabh
  id: 47D26E34-F248-11E8-B48F-1D18A9856A87
  last_name: Sahu
  orcid: 0000-0001-6264-2162
- first_name: Georg M
  full_name: Arnold, Georg M
  id: 3770C838-F248-11E8-B48F-1D18A9856A87
  last_name: Arnold
  orcid: 0000-0003-1397-7876
- first_name: Paul Falthansl-Scheinecker
  full_name: Paul Falthansl-Scheinecker, Paul Falthansl-Scheinecker
  last_name: Paul Falthansl-Scheinecker
- first_name: Jennifer A. Sánchez
  full_name: Naranjo, Jennifer A. Sánchez
  last_name: Naranjo
- first_name: Dante
  full_name: Loi, Dante
  last_name: Loi
- first_name: Lucky N.
  full_name: Kapoor, Lucky N.
  last_name: Kapoor
- first_name: Martin
  full_name: Zemlicka, Martin
  id: 2DCF8DE6-F248-11E8-B48F-1D18A9856A87
  last_name: Zemlicka
  orcid: 0009-0005-0878-3032
- first_name: Liu
  full_name: Qiu, Liu
  id: 45e99c0d-1eb1-11eb-9b96-ed8ab2983cac
  last_name: Qiu
  orcid: 0000-0003-4345-4267
- first_name: Andrei
  full_name: Militaru, Andrei
  id: d67706f8-8eb1-11ee-ad1b-9c30dfa19e0b
  last_name: Militaru
- first_name: Johannes M
  full_name: Fink, Johannes M
  id: 4B591CBA-F248-11E8-B48F-1D18A9856A87
  last_name: Fink
  orcid: 0000-0001-8112-028X
citation:
  ama: Werner T, Riyazi E, Hawaldar S, et al. Electro-optic conversion of itinerant
    Fock states. <i>arXiv</i>. doi:<a href="https://doi.org/10.48550/arXiv.2602.00928">10.48550/arXiv.2602.00928</a>
  apa: Werner, T., Riyazi, E., Hawaldar, S., Sahu, R., Arnold, G. M., Paul Falthansl-Scheinecker,
    P. F.-S., … Fink, J. M. (n.d.). Electro-optic conversion of itinerant Fock states.
    <i>arXiv</i>. <a href="https://doi.org/10.48550/arXiv.2602.00928">https://doi.org/10.48550/arXiv.2602.00928</a>
  chicago: Werner, Thomas, Erfan Riyazi, Samarth Hawaldar, Rishabh Sahu, Georg M Arnold,
    Paul Falthansl-Scheinecker Paul Falthansl-Scheinecker, Jennifer A. Sánchez Naranjo,
    et al. “Electro-Optic Conversion of Itinerant Fock States.” <i>ArXiv</i>, n.d.
    <a href="https://doi.org/10.48550/arXiv.2602.00928">https://doi.org/10.48550/arXiv.2602.00928</a>.
  ieee: T. Werner <i>et al.</i>, “Electro-optic conversion of itinerant Fock states,”
    <i>arXiv</i>. .
  ista: Werner T, Riyazi E, Hawaldar S, Sahu R, Arnold GM, Paul Falthansl-Scheinecker
    PF-S, Naranjo JAS, Loi D, Kapoor LN, Zemlicka M, Qiu L, Militaru A, Fink JM. Electro-optic
    conversion of itinerant Fock states. arXiv, <a href="https://doi.org/10.48550/arXiv.2602.00928">10.48550/arXiv.2602.00928</a>.
  mla: Werner, Thomas, et al. “Electro-Optic Conversion of Itinerant Fock States.”
    <i>ArXiv</i>, doi:<a href="https://doi.org/10.48550/arXiv.2602.00928">10.48550/arXiv.2602.00928</a>.
  short: T. Werner, E. Riyazi, S. Hawaldar, R. Sahu, G.M. Arnold, P.F.-S. Paul Falthansl-Scheinecker,
    J.A.S. Naranjo, D. Loi, L.N. Kapoor, M. Zemlicka, L. Qiu, A. Militaru, J.M. Fink,
    ArXiv (n.d.).
corr_author: '1'
date_created: 2026-05-12T13:58:18Z
date_published: 2026-01-31T00:00:00Z
date_updated: 2026-05-20T13:35:42Z
day: '31'
department:
- _id: JoFi
- _id: GradSch
doi: 10.48550/arXiv.2602.00928
ec_funded: 1
external_id:
  arxiv:
  - '2602.00928'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.48550/arXiv.2602.00928
month: '01'
oa: 1
oa_version: Preprint
project:
- _id: bdadfa0d-d553-11ed-ba76-fb85edbd456a
  grant_number: '101089099'
  name: 'Cavity Quantum Electro Optics: Microwave photonics with nonclassical states'
- _id: 5b807754-ab3d-11f0-914f-ff8c34502cc9
  grant_number: '101248662'
  name: Integrated optical coupling for low loss electro-optic interconnects
- _id: 9B868D20-BA93-11EA-9121-9846C619BF3A
  call_identifier: H2020
  grant_number: '899354'
  name: Quantum Local Area Networks with Superconducting Qubits
- _id: 91aaf765-16d5-11f0-9cad-a8e7e44cccb7
  grant_number: '101187231'
  name: 'Cavity-Integrated Electro-Optics: Measuring, Converting and Manipulating
    Microwaves with Light'
- _id: 26927A52-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: F07105
  name: Integrating superconducting quantum circuits
- _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A
  name: NOMIS Fellowship Program
publication: arXiv
publication_status: draft
related_material:
  record:
  - id: '21863'
    relation: dissertation_contains
    status: public
scopus_import: '1'
status: public
title: Electro-optic conversion of itinerant Fock states
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: preprint
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2026'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '20977'
abstract:
- lang: eng
  text: Hippocampal sharp-wave ripples (SPW-Rs) are high-frequency oscillations critical
    for memory consolidation. Despite extensive characterization in rodents, their
    detection in humans is limited by coarse spatial sampling, interictal epileptiform
    discharges (IEDs), and a lack of consensus on human ripple localization and morphology.
    Here, we demonstrate that mouse and human hippocampal ripples share spatial, spectral
    and temporal features, which are clearly distinct from IEDs. In recordings from
    male APP/PS1 mice, SPW-Rs were distinguishable from IEDs by multiple criteria.
    Hippocampal ripples recorded during NREM sleep in female and male surgical epilepsy
    patients exhibited similar narrowband frequency peaks and multiple ripple cycles
    in the CA1 and subiculum regions. Conversely, IEDs showed a broad spatial extent
    and wide-band frequency power. We developed a semi-automated, ripple curation
    toolbox (ripmap) to separate event waveforms by low-dimensional embedding to reduce
    false-positive rate in selected ripple channels. Our approach improves ripple
    detection and provides a firm foundation for future human memory research.
acknowledgement: We thank Karl Rössler and Sebastian Brandner for the human SEEG implantations;
  Katja Kobow for providing the histopathological findings of the patients; Jay Jeschke
  for help with human electrode localization; Esha Brahmbhatt and Deren Aykan for
  help with animal habituation; Mursel Karadas for the rodent treadmill design; Nicholas
  Paleologos, Noam Nitzan, Michael D Hadler and Samuel McKenzie for rating events
  in a human ripple survey included in a previous version of the manuscript; Nicholas
  Paleologos for sharing NYU iEEG data for validating UMAP parameters; Julio Esparza
  for help on the topological analysis through discussions; Thomas Hainmüller, Yiyao
  Zhang and Mursel Karadas for feedback on the manuscript. We would like to acknowledge
  Corticale SRL (Genoa, Italy) for providing the SiNAPS probes, and NeuroNexus (Ann
  Arbor, MI) for their contribution of the data acquisition system and Radiens software.
  We further acknowledge both Corticale and NeuroNexus for training and support making
  this research possible. This work was supported by the German Research Foundation
  (DFG; Walter Benjamin Fellowship MA 10301/1-1, A.M.), NYU Langone Health Finding
  a Cure for Epilepsy and Seizures (FACES, A.M.), the NOMIS Fellowship (A.N.-O.),
  the National Institutes of Health (R01NS127954, K23NS104252, A.L.; MH122391, U19NS107616,
  R01MH139216 G.B.,), and the NYU Department of Neurology (A.L.).
article_number: '11636'
article_processing_charge: Yes
article_type: original
author:
- first_name: Anna
  full_name: Maslarova, Anna
  last_name: Maslarova
- first_name: Jiyun N.
  full_name: Shin, Jiyun N.
  last_name: Shin
- first_name: Andrea C
  full_name: Navas Olivé, Andrea C
  id: 739d26c9-52e8-11ee-8d72-f14d3893b4ce
  last_name: Navas Olivé
  orcid: 0000-0002-9280-8597
- first_name: Mihály
  full_name: Vöröslakos, Mihály
  last_name: Vöröslakos
- first_name: Hajo
  full_name: Hamer, Hajo
  last_name: Hamer
- first_name: Arnd
  full_name: Doerfler, Arnd
  last_name: Doerfler
- first_name: Simon
  full_name: Henin, Simon
  last_name: Henin
- first_name: György
  full_name: Buzsáki, György
  last_name: Buzsáki
- first_name: Anli
  full_name: Liu, Anli
  last_name: Liu
citation:
  ama: Maslarova A, Shin JN, Navas Olivé AC, et al. Spatiotemporal patterns differentiate
    hippocampal sharp-wave ripples from interictal epileptiform discharges in mice
    and humans. <i>Nature Communications</i>. 2025;16. doi:<a href="https://doi.org/10.1038/s41467-025-66562-6">10.1038/s41467-025-66562-6</a>
  apa: Maslarova, A., Shin, J. N., Navas Olivé, A. C., Vöröslakos, M., Hamer, H.,
    Doerfler, A., … Liu, A. (2025). Spatiotemporal patterns differentiate hippocampal
    sharp-wave ripples from interictal epileptiform discharges in mice and humans.
    <i>Nature Communications</i>. Springer Nature. <a href="https://doi.org/10.1038/s41467-025-66562-6">https://doi.org/10.1038/s41467-025-66562-6</a>
  chicago: Maslarova, Anna, Jiyun N. Shin, Andrea C Navas Olivé, Mihály Vöröslakos,
    Hajo Hamer, Arnd Doerfler, Simon Henin, György Buzsáki, and Anli Liu. “Spatiotemporal
    Patterns Differentiate Hippocampal Sharp-Wave Ripples from Interictal Epileptiform
    Discharges in Mice and Humans.” <i>Nature Communications</i>. Springer Nature,
    2025. <a href="https://doi.org/10.1038/s41467-025-66562-6">https://doi.org/10.1038/s41467-025-66562-6</a>.
  ieee: A. Maslarova <i>et al.</i>, “Spatiotemporal patterns differentiate hippocampal
    sharp-wave ripples from interictal epileptiform discharges in mice and humans,”
    <i>Nature Communications</i>, vol. 16. Springer Nature, 2025.
  ista: Maslarova A, Shin JN, Navas Olivé AC, Vöröslakos M, Hamer H, Doerfler A, Henin
    S, Buzsáki G, Liu A. 2025. Spatiotemporal patterns differentiate hippocampal sharp-wave
    ripples from interictal epileptiform discharges in mice and humans. Nature Communications.
    16, 11636.
  mla: Maslarova, Anna, et al. “Spatiotemporal Patterns Differentiate Hippocampal
    Sharp-Wave Ripples from Interictal Epileptiform Discharges in Mice and Humans.”
    <i>Nature Communications</i>, vol. 16, 11636, Springer Nature, 2025, doi:<a href="https://doi.org/10.1038/s41467-025-66562-6">10.1038/s41467-025-66562-6</a>.
  short: A. Maslarova, J.N. Shin, A.C. Navas Olivé, M. Vöröslakos, H. Hamer, A. Doerfler,
    S. Henin, G. Buzsáki, A. Liu, Nature Communications 16 (2025).
date_created: 2026-01-11T23:01:35Z
date_published: 2025-12-30T00:00:00Z
date_updated: 2026-01-12T09:31:56Z
day: '30'
ddc:
- '570'
department:
- _id: PeJo
doi: 10.1038/s41467-025-66562-6
external_id:
  pmid:
  - '39975118'
file:
- access_level: open_access
  checksum: a8a1670e197484382e087be60f643945
  content_type: application/pdf
  creator: dernst
  date_created: 2026-01-12T09:30:15Z
  date_updated: 2026-01-12T09:30:15Z
  file_id: '20978'
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  success: 1
file_date_updated: 2026-01-12T09:30:15Z
has_accepted_license: '1'
intvolume: '        16'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '12'
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: Spatiotemporal patterns differentiate hippocampal sharp-wave ripples from interictal
  epileptiform discharges in mice and humans
tmp:
  image: /images/cc_by_nc_nd.png
  legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
  name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
    (CC BY-NC-ND 4.0)
  short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 16
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
_id: '18879'
abstract:
- lang: eng
  text: 'Our brain has remarkable computational power, generating sophisticated behaviors,
    storing memories over an individual’s lifetime, and producing higher cognitive
    functions. However, little of our neuroscience knowledge covers the human brain.
    Is this organ truly unique, or is it a scaled version of the extensively studied
    rodent brain? Combining multicellular patch-clamp recording with expansion-based
    superresolution microscopy and full-scale modeling, we determined the cellular
    and microcircuit properties of the human hippocampal CA3 region, a fundamental
    circuit for memory storage. In contrast to neocortical networks, human hippocampal
    CA3 displayed sparse connectivity, providing a circuit architecture that maximizes
    associational power. Human synapses showed unique reliability, high precision,
    and long integration times, exhibiting both species- and circuit-specific properties.
    Together with expanded neuronal numbers, these circuit characteristics greatly
    enhanced the memory storage capacity of CA3. Our results reveal distinct microcircuit
    properties of the human hippocampus and begin to unravel the inner workings of
    our most complex organ. '
acknowledged_ssus:
- _id: Bio
- _id: PreCl
- _id: LifeSc
- _id: M-Shop
- _id: ScienComp
acknowledgement: We thank Florian Marr for excellent technical assistance, Christina
  Altmutter and Julia Flor for technical support, Alois Schlögl for programming, Todor
  Asenov for development of the transportation box for human brain tissue, Tim Vogels
  for guidance on simulations, Marcus Huber for mathematical advice, Walter Kaufmann
  for assistance with handling frozen tissue, and Eleftheria Kralli-Beller for manuscript
  editing. This research was supported by the Scientific Services Units (SSUs) of
  ISTA, and we are grateful for assistance from Christoph Sommer and the Imaging and
  Optics Facility, Preclinical Facility, Lab Support Facility, Miba Machine Shop,
  and Scientific Computing. We are particularly grateful to the patient donors for
  their support of this project and also acknowledge the excellent support of the
  Medical University of Vienna Department of Neurosurgery staff; Romana Hoeftberger
  and the Division of Neuropathology and Neurochemistry; Gregor Kasprian and the Division
  of Neuroradiology and Musculoskeletal Radiology; and Christoph Baumgartner, Martha
  Feucht, and Ekaterina Pataraia for their clinical care of the patients included
  in this study. We thank Laura Jonkman, the NABCA biobank, and postmortem brain sample
  donors for their support of this research. The project received funding from the
  European Research Council (ERC) under the European Union’s Horizon 2020 research
  and innovation programme (advanced grant no. 692692 to P.J. and Marie Skłodowska-Curie
  Actions Individual Fellowship no. 101026635 to J.F.W.), the Austrian Science Fund
  (FWF; grant PAT 4178023 to P.J. and grant DK W1232 to M.R.T. and J.G.D.), the Austrian
  Academy of Sciences (DOC fellowship 26137 to M.R.T.), and a NOMIS-ISTA fellowship
  (to A.N.-O.).
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Jake
  full_name: Watson, Jake
  id: 63836096-4690-11EA-BD4E-32803DDC885E
  last_name: Watson
  orcid: 0000-0002-8698-3823
- first_name: Victor M
  full_name: Vargas Barroso, Victor M
  id: 2F55A9DE-F248-11E8-B48F-1D18A9856A87
  last_name: Vargas Barroso
- first_name: Rebecca
  full_name: Morse, Rebecca
  id: ceb89ae7-dc8d-11ea-abe3-da3301d0eab4
  last_name: Morse
- first_name: Andrea C
  full_name: Navas Olivé, Andrea C
  id: 739d26c9-52e8-11ee-8d72-f14d3893b4ce
  last_name: Navas Olivé
  orcid: 0000-0002-9280-8597
- first_name: Mojtaba
  full_name: Tavakoli, Mojtaba
  id: 3A0A06F4-F248-11E8-B48F-1D18A9856A87
  last_name: Tavakoli
  orcid: 0000-0002-7667-6854
- first_name: Johann G
  full_name: Danzl, Johann G
  id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
  last_name: Danzl
  orcid: 0000-0001-8559-3973
- first_name: Matthias
  full_name: Tomschik, Matthias
  last_name: Tomschik
- first_name: Karl
  full_name: Rössler, Karl
  last_name: Rössler
- first_name: Peter M
  full_name: Jonas, Peter M
  id: 353C1B58-F248-11E8-B48F-1D18A9856A87
  last_name: Jonas
  orcid: 0000-0001-5001-4804
citation:
  ama: Watson J, Vargas Barroso VM, Morse R, et al. Human hippocampal CA3 uses specific
    functional connectivity rules for efficient associative memory. <i>Cell</i>. 2025;188(2):501-514.e18.
    doi:<a href="https://doi.org/10.1016/j.cell.2024.11.022">10.1016/j.cell.2024.11.022</a>
  apa: Watson, J., Vargas Barroso, V. M., Morse, R., Navas Olivé, A. C., Tavakoli,
    M., Danzl, J. G., … Jonas, P. M. (2025). Human hippocampal CA3 uses specific functional
    connectivity rules for efficient associative memory. <i>Cell</i>. Elsevier. <a
    href="https://doi.org/10.1016/j.cell.2024.11.022">https://doi.org/10.1016/j.cell.2024.11.022</a>
  chicago: Watson, Jake, Victor M Vargas Barroso, Rebecca Morse, Andrea C Navas Olivé,
    Mojtaba Tavakoli, Johann G Danzl, Matthias Tomschik, Karl Rössler, and Peter M
    Jonas. “Human Hippocampal CA3 Uses Specific Functional Connectivity Rules for
    Efficient Associative Memory.” <i>Cell</i>. Elsevier, 2025. <a href="https://doi.org/10.1016/j.cell.2024.11.022">https://doi.org/10.1016/j.cell.2024.11.022</a>.
  ieee: J. Watson <i>et al.</i>, “Human hippocampal CA3 uses specific functional connectivity
    rules for efficient associative memory,” <i>Cell</i>, vol. 188, no. 2. Elsevier,
    p. 501–514.e18, 2025.
  ista: Watson J, Vargas Barroso VM, Morse R, Navas Olivé AC, Tavakoli M, Danzl JG,
    Tomschik M, Rössler K, Jonas PM. 2025. Human hippocampal CA3 uses specific functional
    connectivity rules for efficient associative memory. Cell. 188(2), 501–514.e18.
  mla: Watson, Jake, et al. “Human Hippocampal CA3 Uses Specific Functional Connectivity
    Rules for Efficient Associative Memory.” <i>Cell</i>, vol. 188, no. 2, Elsevier,
    2025, p. 501–514.e18, doi:<a href="https://doi.org/10.1016/j.cell.2024.11.022">10.1016/j.cell.2024.11.022</a>.
  short: J. Watson, V.M. Vargas Barroso, R. Morse, A.C. Navas Olivé, M. Tavakoli,
    J.G. Danzl, M. Tomschik, K. Rössler, P.M. Jonas, Cell 188 (2025) 501–514.e18.
corr_author: '1'
date_created: 2025-01-26T23:01:49Z
date_published: 2025-01-23T00:00:00Z
date_updated: 2026-04-14T08:34:32Z
day: '23'
ddc:
- '570'
department:
- _id: JoDa
- _id: PeJo
- _id: GradSch
doi: 10.1016/j.cell.2024.11.022
ec_funded: 1
external_id:
  isi:
  - '001408395600001'
  pmid:
  - '39667938'
file:
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  date_created: 2025-01-27T08:46:33Z
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file_date_updated: 2025-01-27T08:46:33Z
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issue: '2'
language:
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month: '01'
oa: 1
oa_version: Published Version
page: 501-514.e18
pmid: 1
project:
- _id: 25B7EB9E-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '692692'
  name: Biophysics and circuit function of a giant cortical glutamatergic synapse
- _id: fc2be41b-9c52-11eb-aca3-faa90aa144e9
  call_identifier: H2020
  grant_number: '101026635'
  name: Synaptic computations of the hippocampal CA3 circuitry
- _id: 6285a163-2b32-11ec-9570-8e204ca2dba5
  grant_number: '26137'
  name: Studying Organelle Structure and Function at Nanoscale Resolution with Expansion
    Microscopy
- _id: 2548AE96-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: W1232
  name: Molecular Drug Targets
- _id: 8d9195e9-16d5-11f0-9cad-d075be887a1e
  grant_number: PAT 4178023
  name: Synaptic networks of human brain
- _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A
  name: NOMIS Fellowship Program
publication: Cell
publication_identifier:
  eissn:
  - 1097-4172
  issn:
  - 0092-8674
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
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    status: public
scopus_import: '1'
status: public
title: Human hippocampal CA3 uses specific functional connectivity rules for efficient
  associative memory
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: 188
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
_id: '20318'
abstract:
- lang: eng
  text: Lipid membranes and membrane deformations are a long-standing area of research
    in soft matter and biophysics. Computer simulations have complemented analytical
    and experimental approaches as one of the pillars in the field. However, setting
    up and using membrane simulations can come with barriers due to the multidisciplinary
    effort involved and the vast choice of existing simulations models. In this review,
    we introduce the non-expert reader to coarse-grained membrane simulations at the
    mesoscale. Firstly, we give a concise overview of the modelling approaches to
    study fluid membranes, together with guidance to more specialized references.
    Secondly, we provide a conceptual guide on how to develop mesoscale membrane simulations.
    Lastly, we construct a hands-on tutorial on how to apply mesoscale membrane simulations,
    by providing a pedagogical examination of membrane tether pulling, shape and mechanics
    of membrane tubes, and membrane fluctuations with three different membrane models,
    and discussing them in terms of their scope and how resource-intensive they are.
    To ease the reader's venture into the field, we provide a repository with ready-to-run
    tutorials.
acknowledgement: We thank Oded Farago, Angelo Cacciuto, Jeriann Beiter and Pietro
  Sillano for helpful discussions and a critical reading of the manuscript. MMB and
  AP acknowledge funding by the European Unions Horizon 2020 research and innovation
  programme under Marie Skłodowska-Curie Grant Agreement No. 101034413. FF acknowledges
  financial support by the NOMIS foundation. BM and AŠ acknowledge funding by ERC
  Starting Grant “NEPA” 802960. MA and AŠ acknowledge funding by the Volkswagen Foundation
  Grant Az 96727.
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Maitane
  full_name: Muñoz Basagoiti, Maitane
  id: 1a8a7950-82cd-11ed-bd4f-9624c913a607
  last_name: Muñoz Basagoiti
  orcid: 0000-0003-1483-1457
- first_name: Felix F
  full_name: Frey, Felix F
  id: a0270b37-8f1a-11ec-95c7-8e710c59a4f3
  last_name: Frey
  orcid: 0000-0001-8501-6017
- first_name: Billie
  full_name: Meadowcroft, Billie
  id: a4725fd6-932b-11ed-81e2-c098c7f37ae1
  last_name: Meadowcroft
  orcid: 0000-0003-3441-1337
- first_name: Miguel
  full_name: Santana de Freitas Amaral, Miguel
  id: 4f2d02dd-47a9-11ec-ad10-82820ed3f501
  last_name: Santana de Freitas Amaral
- first_name: Adam
  full_name: Prada, Adam
  id: a43ed60a-dd22-11ed-9bf7-b34133792ea9
  last_name: Prada
- first_name: Anđela
  full_name: Šarić, Anđela
  id: bf63d406-f056-11eb-b41d-f263a6566d8b
  last_name: Šarić
  orcid: 0000-0002-7854-2139
citation:
  ama: 'Muñoz Basagoiti M, Frey FF, Meadowcroft B, Santana de Freitas Amaral M, Prada
    A, Šarić A. A tutorial for mesoscale computer simulations of lipid membranes:
    Tether pulling, tubulation and fluctuations. <i>Soft Matter</i>. 2025;21(40):7736-7756.
    doi:<a href="https://doi.org/10.1039/d5sm00148j">10.1039/d5sm00148j</a>'
  apa: 'Muñoz Basagoiti, M., Frey, F. F., Meadowcroft, B., Santana de Freitas Amaral,
    M., Prada, A., &#38; Šarić, A. (2025). A tutorial for mesoscale computer simulations
    of lipid membranes: Tether pulling, tubulation and fluctuations. <i>Soft Matter</i>.
    Royal Society of Chemistry. <a href="https://doi.org/10.1039/d5sm00148j">https://doi.org/10.1039/d5sm00148j</a>'
  chicago: 'Muñoz Basagoiti, Maitane, Felix F Frey, Billie Meadowcroft, Miguel Santana
    de Freitas Amaral, Adam Prada, and Anđela Šarić. “A Tutorial for Mesoscale Computer
    Simulations of Lipid Membranes: Tether Pulling, Tubulation and Fluctuations.”
    <i>Soft Matter</i>. Royal Society of Chemistry, 2025. <a href="https://doi.org/10.1039/d5sm00148j">https://doi.org/10.1039/d5sm00148j</a>.'
  ieee: 'M. Muñoz Basagoiti, F. F. Frey, B. Meadowcroft, M. Santana de Freitas Amaral,
    A. Prada, and A. Šarić, “A tutorial for mesoscale computer simulations of lipid
    membranes: Tether pulling, tubulation and fluctuations,” <i>Soft Matter</i>, vol.
    21, no. 40. Royal Society of Chemistry, pp. 7736–7756, 2025.'
  ista: 'Muñoz Basagoiti M, Frey FF, Meadowcroft B, Santana de Freitas Amaral M, Prada
    A, Šarić A. 2025. A tutorial for mesoscale computer simulations of lipid membranes:
    Tether pulling, tubulation and fluctuations. Soft Matter. 21(40), 7736–7756.'
  mla: 'Muñoz Basagoiti, Maitane, et al. “A Tutorial for Mesoscale Computer Simulations
    of Lipid Membranes: Tether Pulling, Tubulation and Fluctuations.” <i>Soft Matter</i>,
    vol. 21, no. 40, Royal Society of Chemistry, 2025, pp. 7736–56, doi:<a href="https://doi.org/10.1039/d5sm00148j">10.1039/d5sm00148j</a>.'
  short: M. Muñoz Basagoiti, F.F. Frey, B. Meadowcroft, M. Santana de Freitas Amaral,
    A. Prada, A. Šarić, Soft Matter 21 (2025) 7736–7756.
corr_author: '1'
date_created: 2025-09-10T05:34:36Z
date_published: 2025-07-28T00:00:00Z
date_updated: 2025-12-30T10:16:52Z
day: '28'
ddc:
- '540'
department:
- _id: AnSa
doi: 10.1039/d5sm00148j
ec_funded: 1
external_id:
  arxiv:
  - '2502.09798'
  isi:
  - '001562846800001'
file:
- access_level: open_access
  checksum: 590bedad19b6f6d40a7ee036a056a6d9
  content_type: application/pdf
  creator: dernst
  date_created: 2025-12-30T10:16:40Z
  date_updated: 2025-12-30T10:16:40Z
  file_id: '20912'
  file_name: 2025_SoftMatter_MunozBasagoiti.pdf
  file_size: 4841140
  relation: main_file
  success: 1
file_date_updated: 2025-12-30T10:16:40Z
has_accepted_license: '1'
intvolume: '        21'
isi: 1
issue: '40'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '07'
oa: 1
oa_version: Published Version
page: 7736-7756
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
  call_identifier: H2020
  grant_number: '101034413'
  name: 'IST-BRIDGE: International postdoctoral program'
- _id: eba2549b-77a9-11ec-83b8-a81e493eae4e
  call_identifier: H2020
  grant_number: '802960'
  name: 'Non-Equilibrium Protein Assembly: from Building Blocks to Biological Machines'
- _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A
  name: NOMIS Fellowship Program
- _id: eba0f67c-77a9-11ec-83b8-cc8501b3e222
  grant_number: '96752'
  name: 'The evolution of trafficking: from archaea to eukaryotes'
publication: Soft Matter
publication_identifier:
  eissn:
  - 1744-6848
  issn:
  - 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling,
  tubulation and fluctuations'
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: 21
year: '2025'
...
---
OA_place: repository
OA_type: green
_id: '20531'
abstract:
- lang: eng
  text: Genetic drift is potentially an important component of selection for sex,
    as it is a source of statistical associations between alleles at selected loci.
    By increasing local drift, population structure may thus amplify the evolutionary
    advantage of sex. However, most previous models have focused either on haploid
    populations or on diploid populations without spatial structure. In this article,
    we use two- and three-locus analytical models and multilocus simulations to explore
    selection for sex in a diploid population structured according to the island model,
    in the presence of recurrent deleterious mutations. Our results show that selection
    generally favors an intermediate rate of sex that decreases as the direct cost
    of sex increases and increases moderately as the degree of population structure
    increases. Selection for sex is generated by multiple effects involving genetic
    associations within and between loci. When selection occurs at many loci, it is
    generally dominated by interference effects involving deleterious alleles at different
    loci, captured by our three-locus model. In our multilocus simulations, we observed
    an irreversible spread of asexual mutants under strong costs of sex, and when
    deleterious mutations are partially recessive. However, population structure may
    prevent this spread of asexual mutants when dispersal rates are sufficiently small.
acknowledgement: L.F. is funded by the NOMIS-ISTA Fellowship Program. We thank Colin
  Olito and two anonymous reviewers for helpful comments, and the bioinformatics and
  computing services at Roscoff’s Biological Station (Abims platform) and at Institute
  of Science and Technology Austria for computing time.
article_processing_charge: No
article_type: original
author:
- first_name: Louise
  full_name: Fouqueau, Louise
  id: 1676e173-8143-11ed-8927-fe165216a93f
  last_name: Fouqueau
  orcid: 0000-0003-0371-9339
- first_name: Denis
  full_name: Roze, Denis
  last_name: Roze
citation:
  ama: Fouqueau L, Roze D. Deleterious mutations and selection for sex in spatially
    structured, diploid populations. <i>Evolution</i>. 2025;79(10):2167-2180. doi:<a
    href="https://doi.org/10.1093/evolut/qpaf143">10.1093/evolut/qpaf143</a>
  apa: Fouqueau, L., &#38; Roze, D. (2025). Deleterious mutations and selection for
    sex in spatially structured, diploid populations. <i>Evolution</i>. Oxford University
    Press. <a href="https://doi.org/10.1093/evolut/qpaf143">https://doi.org/10.1093/evolut/qpaf143</a>
  chicago: Fouqueau, Louise, and Denis Roze. “Deleterious Mutations and Selection
    for Sex in Spatially Structured, Diploid Populations.” <i>Evolution</i>. Oxford
    University Press, 2025. <a href="https://doi.org/10.1093/evolut/qpaf143">https://doi.org/10.1093/evolut/qpaf143</a>.
  ieee: L. Fouqueau and D. Roze, “Deleterious mutations and selection for sex in spatially
    structured, diploid populations,” <i>Evolution</i>, vol. 79, no. 10. Oxford University
    Press, pp. 2167–2180, 2025.
  ista: Fouqueau L, Roze D. 2025. Deleterious mutations and selection for sex in spatially
    structured, diploid populations. Evolution. 79(10), 2167–2180.
  mla: Fouqueau, Louise, and Denis Roze. “Deleterious Mutations and Selection for
    Sex in Spatially Structured, Diploid Populations.” <i>Evolution</i>, vol. 79,
    no. 10, Oxford University Press, 2025, pp. 2167–80, doi:<a href="https://doi.org/10.1093/evolut/qpaf143">10.1093/evolut/qpaf143</a>.
  short: L. Fouqueau, D. Roze, Evolution 79 (2025) 2167–2180.
date_created: 2025-10-26T23:01:34Z
date_published: 2025-10-17T00:00:00Z
date_updated: 2025-12-01T15:03:54Z
day: '17'
department:
- _id: NiBa
doi: 10.1093/evolut/qpaf143
external_id:
  isi:
  - '001547542300001'
  pmid:
  - '40668071'
intvolume: '        79'
isi: 1
issue: '10'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1101/2025.01.22.634382
month: '10'
oa: 1
oa_version: Preprint
page: 2167-2180
pmid: 1
project:
- _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A
  name: NOMIS Fellowship Program
publication: Evolution
publication_identifier:
  eissn:
  - 1558-5646
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Deleterious mutations and selection for sex in spatially structured, diploid
  populations
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 79
year: '2025'
...
---
OA_place: publisher
_id: '17133'
abstract:
- lang: eng
  text: "An ideal quantum computer relies on qubits capable of performing fast gate
    operations and\r\nmaintaining strong interconnections while preserving their quantum
    coherence. Since the\r\ninception of experimental eforts toward building a quantum
    computer, the community has\r\nfaced challenges in engineering such a system.
    Among the various methods of implementing a\r\nquantum computer, superconducting
    qubits have shown fast gates close to tens of nanoseconds,\r\nwith the state-of-the-art
    reaching a coherence of a few milliseconds. However, achieving\r\nsimultaneously
    long lifetimes with fast qubit operations poses an inherent paradox. Qubits\r\nwith
    high coherence require isolation from the environment, while fast operation necessitates\r\nstrong
    coupling of the qubit. This thesis approaches this issue by proposing the idea
    of\r\nengineering superconducting qubits capable of transitioning between operating
    in a protected\r\nregime, where the qubit is completely isolated from the environment,
    and coupling to the\r\ncommunication channels as needed. In this direction, we
    use the geometric superinductor to\r\nscan the parameter space of rf-SQUID devices,
    searching for a regime where we can take the\r\nqubit protection to its extreme.\r\n\r\nThis
    leads us to the inductively shunted transmon (IST) regime, characterized by EJ
    /EC ≫ 1\r\nand EJ /EL ≫ 1, where the circuit potential exhibits a double well
    with a large barrier\r\nseparating the local ground states of each quantum well.
    In this regime, although it is\r\nanticipated that the two quantum wells would
    be isolated from each other, we observe single\r\nfuxon tunneling between them.
    The interplay of the cavity photons and the fuxon transition\r\nforms a rich physical
    system, containing resonance conditions that allow the preparation of the\r\nfuxon
    ground or excited states. This enables us to study the relaxation rate of such
    transition\r\nand show that it can be as large as 3.6 hours. Dynamically controlling
    the barrier height\r\nbetween the two quantum wells allows for controllable coupling,
    which scales exponentially,\r\nfor a qubit encoded in two fuxon states.\r\nThe
    0-π qubit is one of the very few known superconducting circuit types that ofers
    exponential\r\nprotection from both relaxation and dephasing simultaneously. However,
    this qubit is not\r\nexempt from the fact that such protection comes at the expense
    of complex readout and\r\ncontrol. In this thesis, we propose a way to controllably
    break the circuit symmetry, the\r\nkey reason for the protection, to momentarily
    restore the ability to control and manipulate\r\nthe qubit. An asymmetry in capacitances
    and inductances in the 0-π circuit is detrimental\r\nsince they lead to coupling
    of the protected state to the thermally occupied parasitic mode\r\nof the circuit.
    However, here we try to exploit a controlled asymmetry in Josephson energies\r\nand
    show that this can be used as a tunable coupler between the protected states.
    In the\r\nfuture, this should allow to perform gate operations by dynamically
    controlling the asymmetry\r\ninstead of driving the protected transition with
    microwave pulses. Therefore, we believe that\r\nthe proposed method can make the
    use of protected qubits more practical in experimental\r\nrealizations of quantum
    computing."
acknowledged_ssus:
- _id: NanoFab
- _id: M-Shop
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Farid
  full_name: Hassani, Farid
  id: 2AED110C-F248-11E8-B48F-1D18A9856A87
  last_name: Hassani
  orcid: 0000-0001-6937-5773
citation:
  ama: Hassani F. Superconducting qubits capable of dynamic switching between protected
    and high-speed control regimes. 2024. doi:<a href="https://doi.org/10.15479/at:ista:17133">10.15479/at:ista:17133</a>
  apa: Hassani, F. (2024). <i>Superconducting qubits capable of dynamic switching
    between protected and high-speed control regimes</i>. Institute of Science and
    Technology Austria. <a href="https://doi.org/10.15479/at:ista:17133">https://doi.org/10.15479/at:ista:17133</a>
  chicago: Hassani, Farid. “Superconducting Qubits Capable of Dynamic Switching between
    Protected and High-Speed Control Regimes.” Institute of Science and Technology
    Austria, 2024. <a href="https://doi.org/10.15479/at:ista:17133">https://doi.org/10.15479/at:ista:17133</a>.
  ieee: F. Hassani, “Superconducting qubits capable of dynamic switching between protected
    and high-speed control regimes,” Institute of Science and Technology Austria,
    2024.
  ista: Hassani F. 2024. Superconducting qubits capable of dynamic switching between
    protected and high-speed control regimes. Institute of Science and Technology
    Austria.
  mla: Hassani, Farid. <i>Superconducting Qubits Capable of Dynamic Switching between
    Protected and High-Speed Control Regimes</i>. Institute of Science and Technology
    Austria, 2024, doi:<a href="https://doi.org/10.15479/at:ista:17133">10.15479/at:ista:17133</a>.
  short: F. Hassani, Superconducting Qubits Capable of Dynamic Switching between Protected
    and High-Speed Control Regimes, Institute of Science and Technology Austria, 2024.
corr_author: '1'
date_created: 2024-06-11T18:20:05Z
date_published: 2024-06-11T00:00:00Z
date_updated: 2026-04-15T06:43:02Z
day: '11'
ddc:
- '530'
degree_awarded: PhD
department:
- _id: GradSch
- _id: JoFi
doi: 10.15479/at:ista:17133
file:
- access_level: open_access
  checksum: 258c353d47fa37ea63ea43b1e10a34a0
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  creator: fhassani
  date_created: 2024-06-12T07:53:19Z
  date_updated: 2024-06-20T11:52:22Z
  file_id: '17137'
  file_name: Thesis_main_final.pdf
  file_size: 28370759
  relation: main_file
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  checksum: deffa5d0db88093f74812fa71520d5e1
  content_type: text/x-tex
  creator: fhassani
  date_created: 2024-06-12T07:54:27Z
  date_updated: 2024-06-12T07:54:27Z
  file_id: '17138'
  file_name: Thesis_main.tex
  file_size: 445735
  relation: source_file
file_date_updated: 2024-06-20T11:52:22Z
has_accepted_license: '1'
keyword:
- Quantum information
- Qubits
- Superconducting devices
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-sa/4.0/
month: '06'
oa: 1
oa_version: Published Version
page: '161'
project:
- _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A
  name: NOMIS Fellowship Program
- _id: bdb108fd-d553-11ed-ba76-83dc74a9864f
  grant_number: F07105
  name: QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration
    of Superconducting Quantum Circuits
publication_identifier:
  isbn:
  - 978-3-99078-040-4
  issn:
  - 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
  record:
  - id: '13227'
    relation: part_of_dissertation
    status: public
  - id: '9928'
    relation: part_of_dissertation
    status: public
  - id: '8755'
    relation: part_of_dissertation
    status: public
status: public
supervisor:
- first_name: Johannes M
  full_name: Fink, Johannes M
  id: 4B591CBA-F248-11E8-B48F-1D18A9856A87
  last_name: Fink
  orcid: 0000-0001-8112-028X
title: Superconducting qubits capable of dynamic switching between protected and high-speed
  control regimes
tmp:
  image: /images/cc_by_nc_sa.png
  legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
  name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
    BY-NC-SA 4.0)
  short: CC BY-NC-SA (4.0)
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2024'
...
---
_id: '17207'
acknowledgement: "This research was funded by the Austrian Science Fund (FWF), project
  doi: 10.55776/P32896, Institutional Identifier: 501100002428, grant number: P32896
  and L.F. acknowledges the support of the NOMIS-ISTA Fellowship Program.\r\nWe would
  like to thank Nick Barton, Roger Butlin, Stuart Baird, Patrik Nosil, and Jason Sexton
  for their insightful comments on the earlier drafts, and to John Carchrae for his
  valuable contribution in refining phrasing and enhancing clarity. For open access
  purposes, the author has applied a CC BY public copyright license to any author-accepted
  manuscript version arising from this submission."
article_processing_charge: No
article_type: letter_note
author:
- first_name: Louise
  full_name: Fouqueau, Louise
  id: 1676e173-8143-11ed-8927-fe165216a93f
  last_name: Fouqueau
  orcid: 0000-0003-0371-9339
- first_name: Jitka
  full_name: Polechova, Jitka
  id: 3BBFB084-F248-11E8-B48F-1D18A9856A87
  last_name: Polechova
  orcid: 0000-0003-0951-3112
citation:
  ama: 'Fouqueau L, Polechova J. Eco-evolutionary dynamics in changing environments:
    Integrating theory with data. <i>Journal of evolutionary biology</i>. 2024;37(6):579-587.
    doi:<a href="https://doi.org/10.1093/jeb/voae067">10.1093/jeb/voae067</a>'
  apa: 'Fouqueau, L., &#38; Polechova, J. (2024). Eco-evolutionary dynamics in changing
    environments: Integrating theory with data. <i>Journal of Evolutionary Biology</i>.
    Oxford University Press. <a href="https://doi.org/10.1093/jeb/voae067">https://doi.org/10.1093/jeb/voae067</a>'
  chicago: 'Fouqueau, Louise, and Jitka Polechova. “Eco-Evolutionary Dynamics in Changing
    Environments: Integrating Theory with Data.” <i>Journal of Evolutionary Biology</i>.
    Oxford University Press, 2024. <a href="https://doi.org/10.1093/jeb/voae067">https://doi.org/10.1093/jeb/voae067</a>.'
  ieee: 'L. Fouqueau and J. Polechova, “Eco-evolutionary dynamics in changing environments:
    Integrating theory with data,” <i>Journal of evolutionary biology</i>, vol. 37,
    no. 6. Oxford University Press, pp. 579–587, 2024.'
  ista: 'Fouqueau L, Polechova J. 2024. Eco-evolutionary dynamics in changing environments:
    Integrating theory with data. Journal of evolutionary biology. 37(6), 579–587.'
  mla: 'Fouqueau, Louise, and Jitka Polechova. “Eco-Evolutionary Dynamics in Changing
    Environments: Integrating Theory with Data.” <i>Journal of Evolutionary Biology</i>,
    vol. 37, no. 6, Oxford University Press, 2024, pp. 579–87, doi:<a href="https://doi.org/10.1093/jeb/voae067">10.1093/jeb/voae067</a>.'
  short: L. Fouqueau, J. Polechova, Journal of Evolutionary Biology 37 (2024) 579–587.
date_created: 2024-07-07T22:01:04Z
date_published: 2024-06-28T00:00:00Z
date_updated: 2026-06-18T17:53:35Z
day: '28'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1093/jeb/voae067
external_id:
  isi:
  - '001258359900001'
  pmid:
  - '38941551'
intvolume: '        37'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1093/jeb/voae067
month: '06'
oa: 1
oa_version: Published Version
page: 579-587
pmid: 1
project:
- _id: c08d3278-5a5b-11eb-8a69-fdb09b55f4b8
  grant_number: P32896
  name: Causes and consequences of population fragmentation
- _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A
  name: NOMIS Fellowship Program
publication: Journal of evolutionary biology
publication_identifier:
  eissn:
  - 1420-9101
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Eco-evolutionary dynamics in changing environments: Integrating theory with
  data'
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: 37
year: '2024'
...
---
_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).
corr_author: '1'
das_tickbox: '1'
dataavailabilitystatement: "All original data generated for the study, including the
  MLP, the training set, simulation input files, intermediate data, PYTHON notebook,
  are in the SI repository https://github.com/BingqingCheng/highp-ch\r\nhttps://doi.org/10.5281/ZENODO.7578498"
date_created: 2023-03-05T23:01:04Z
date_published: 2023-02-27T00:00:00Z
date_updated: 2026-08-07T10:50:07Z
day: '27'
ddc:
- '540'
department:
- _id: BiCh
doi: 10.1038/s41467-023-36841-1
external_id:
  isi:
  - '000939678300002'
  pmid:
  - '36843123'
file:
- access_level: open_access
  checksum: 5ff61ad21511950c15abb73b18613883
  content_type: application/pdf
  creator: cchlebak
  date_created: 2023-03-07T10:58:00Z
  date_updated: 2023-03-07T10:58:00Z
  file_id: '12713'
  file_name: 2023_NatComm_Cheng.pdf
  file_size: 1946443
  relation: main_file
  success: 1
file_date_updated: 2023-03-07T10:58:00Z
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'
researchdata_availability: yes
scopus_import: '1'
status: public
supplementarymaterial: no
title: Thermodynamics of diamond formation from hydrocarbon mixtures in planets
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 14
year: '2023'
...
---
_id: '11143'
abstract:
- lang: eng
  text: 'Dravet syndrome is a neurodevelopmental disorder characterized by epilepsy,
    intellectual disability, and sudden death due to pathogenic variants in SCN1A
    with loss of function of the sodium channel subunit Nav1.1. Nav1.1-expressing
    parvalbumin GABAergic interneurons (PV-INs) from young Scn1a+/− mice show impaired
    action potential generation. An approach assessing PV-IN function in the same
    mice at two time points shows impaired spike generation in all Scn1a+/− mice at
    postnatal days (P) 16–21, whether deceased prior or surviving to P35, with normalization
    by P35 in surviving mice. However, PV-IN synaptic transmission is dysfunctional
    in young Scn1a+/− mice that did not survive and in Scn1a+/− mice ≥ P35. Modeling
    confirms that PV-IN axonal propagation is more sensitive to decreased sodium conductance
    than spike generation. These results demonstrate dynamic dysfunction in Dravet
    syndrome: combined abnormalities of PV-IN spike generation and propagation drives
    early disease severity, while ongoing dysfunction of synaptic transmission contributes
    to chronic pathology.'
acknowledgement: We would like to thank Bernardo Rudy, Joanna Mattis, and Laura Mcgarry
  for comments on a previous version of the manuscript; Xiaohong Zhang for expert
  technical support and mouse colony maintenance; Melody Cheng for assistance with
  generation of the graphical abstract; and Jennifer Kearney for the gift of Scn1a+/−
  mice. This work was supported by the National Institute of Neurological Disorders
  and Stroke of the National Institutes of Health under F31NS111803 (to K.M.G.) and
  K08NS097633 and R01NS110869 (to E.M.G.), the Dravet Syndrome Foundation (to A.S.),
  an ERC Consolidator Grant (SYNAPSEEK) (to T.P.V.), and the NOMIS Foundation through
  the NOMIS Fellowships program at IST Austria (to C.C.). The graphical abstract was
  prepared using BioRender software (BioRender.com).
article_number: '110580'
article_processing_charge: No
article_type: original
author:
- first_name: Keisuke
  full_name: Kaneko, Keisuke
  last_name: Kaneko
- first_name: Christopher
  full_name: Currin, Christopher
  id: e8321fc5-3091-11eb-8a53-83f309a11ac9
  last_name: Currin
  orcid: 0000-0002-4809-5059
- first_name: Kevin M.
  full_name: Goff, Kevin M.
  last_name: Goff
- first_name: Eric R.
  full_name: Wengert, Eric R.
  last_name: Wengert
- first_name: Ala
  full_name: Somarowthu, Ala
  last_name: Somarowthu
- first_name: Tim P
  full_name: Vogels, Tim P
  id: CB6FF8D2-008F-11EA-8E08-2637E6697425
  last_name: Vogels
  orcid: 0000-0003-3295-6181
- first_name: Ethan M.
  full_name: Goldberg, Ethan M.
  last_name: Goldberg
citation:
  ama: Kaneko K, Currin C, Goff KM, et al. Developmentally regulated impairment of
    parvalbumin interneuron synaptic transmission in an experimental model of Dravet
    syndrome. <i>Cell Reports</i>. 2022;38(13). doi:<a href="https://doi.org/10.1016/j.celrep.2022.110580">10.1016/j.celrep.2022.110580</a>
  apa: Kaneko, K., Currin, C., Goff, K. M., Wengert, E. R., Somarowthu, A., Vogels,
    T. P., &#38; Goldberg, E. M. (2022). Developmentally regulated impairment of parvalbumin
    interneuron synaptic transmission in an experimental model of Dravet syndrome.
    <i>Cell Reports</i>. Elsevier. <a href="https://doi.org/10.1016/j.celrep.2022.110580">https://doi.org/10.1016/j.celrep.2022.110580</a>
  chicago: Kaneko, Keisuke, Christopher Currin, Kevin M. Goff, Eric R. Wengert, Ala
    Somarowthu, Tim P Vogels, and Ethan M. Goldberg. “Developmentally Regulated Impairment
    of Parvalbumin Interneuron Synaptic Transmission in an Experimental Model of Dravet
    Syndrome.” <i>Cell Reports</i>. Elsevier, 2022. <a href="https://doi.org/10.1016/j.celrep.2022.110580">https://doi.org/10.1016/j.celrep.2022.110580</a>.
  ieee: K. Kaneko <i>et al.</i>, “Developmentally regulated impairment of parvalbumin
    interneuron synaptic transmission in an experimental model of Dravet syndrome,”
    <i>Cell Reports</i>, vol. 38, no. 13. Elsevier, 2022.
  ista: Kaneko K, Currin C, Goff KM, Wengert ER, Somarowthu A, Vogels TP, Goldberg
    EM. 2022. Developmentally regulated impairment of parvalbumin interneuron synaptic
    transmission in an experimental model of Dravet syndrome. Cell Reports. 38(13),
    110580.
  mla: Kaneko, Keisuke, et al. “Developmentally Regulated Impairment of Parvalbumin
    Interneuron Synaptic Transmission in an Experimental Model of Dravet Syndrome.”
    <i>Cell Reports</i>, vol. 38, no. 13, 110580, Elsevier, 2022, doi:<a href="https://doi.org/10.1016/j.celrep.2022.110580">10.1016/j.celrep.2022.110580</a>.
  short: K. Kaneko, C. Currin, K.M. Goff, E.R. Wengert, A. Somarowthu, T.P. Vogels,
    E.M. Goldberg, Cell Reports 38 (2022).
date_created: 2022-04-10T22:01:39Z
date_published: 2022-03-29T00:00:00Z
date_updated: 2025-06-11T14:00:11Z
day: '29'
ddc:
- '570'
department:
- _id: TiVo
doi: 10.1016/j.celrep.2022.110580
ec_funded: 1
external_id:
  isi:
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intvolume: '        38'
isi: 1
issue: '13'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 0aacfa84-070f-11eb-9043-d7eb2c709234
  call_identifier: H2020
  grant_number: '819603'
  name: Learning the shape of synaptic plasticity rules for neuronal architectures
    and function through machine learning.
- _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A
  name: NOMIS Fellowship Program
publication: Cell Reports
publication_identifier:
  eissn:
  - 2211-1247
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Developmentally regulated impairment of parvalbumin interneuron synaptic transmission
  in an experimental model of Dravet syndrome
tmp:
  image: /images/cc_by_nc_nd.png
  legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
  name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
    (CC BY-NC-ND 4.0)
  short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 38
year: '2022'
...
---
_id: '10530'
abstract:
- lang: eng
  text: "Cell dispersion from a confined area is fundamental in a number of biological
    processes,\r\nincluding cancer metastasis. To date, a quantitative understanding
    of the interplay of single\r\ncell motility, cell proliferation, and intercellular
    contacts remains elusive. In particular, the role\r\nof E- and N-Cadherin junctions,
    central components of intercellular contacts, is still\r\ncontroversial. Combining
    theoretical modeling with in vitro observations, we investigate the\r\ncollective
    spreading behavior of colonies of human cancer cells (T24). The spreading of these\r\ncolonies
    is driven by stochastic single-cell migration with frequent transient cell-cell
    contacts.\r\nWe find that inhibition of E- and N-Cadherin junctions decreases
    colony spreading and average\r\nspreading velocities, without affecting the strength
    of correlations in spreading velocities of\r\nneighboring cells. Based on a biophysical
    simulation model for cell migration, we show that the\r\nbehavioral changes upon
    disruption of these junctions can be explained by reduced repulsive\r\nexcluded
    volume interactions between cells. This suggests that in cancer cell migration,\r\ncadherin-based
    intercellular contacts sharpen cell boundaries leading to repulsive rather than\r\ncohesive
    interactions between cells, thereby promoting efficient cell spreading during
    collective\r\nmigration.\r\n"
acknowledgement: Funded by the Deutsche Forschungsgemeinschaft (DFG, German Research
  Foundation) - Project-ID 201269156 - SFB 1032 (Projects B8 and B12). D.B.B. is supported
  in part by a DFG fellowship within the Graduate School of Quantitative Biosciences
  Munich (QBM) and by the Joachim Herz Stiftung.
article_processing_charge: No
article_type: original
author:
- first_name: Themistoklis
  full_name: Zisis, Themistoklis
  last_name: Zisis
- first_name: David
  full_name: Brückner, David
  id: e1e86031-6537-11eb-953a-f7ab92be508d
  last_name: Brückner
  orcid: 0000-0001-7205-2975
- first_name: Tom
  full_name: Brandstätter, Tom
  last_name: Brandstätter
- first_name: Wei Xiong
  full_name: Siow, Wei Xiong
  last_name: Siow
- first_name: Joseph
  full_name: d’Alessandro, Joseph
  last_name: d’Alessandro
- first_name: Angelika M.
  full_name: Vollmar, Angelika M.
  last_name: Vollmar
- first_name: Chase P.
  full_name: Broedersz, Chase P.
  last_name: Broedersz
- first_name: Stefan
  full_name: Zahler, Stefan
  last_name: Zahler
citation:
  ama: Zisis T, Brückner D, Brandstätter T, et al. Disentangling cadherin-mediated
    cell-cell interactions in collective cancer cell migration. <i>Biophysical Journal</i>.
    2022;121(1):P44-60. doi:<a href="https://doi.org/10.1016/j.bpj.2021.12.006">10.1016/j.bpj.2021.12.006</a>
  apa: Zisis, T., Brückner, D., Brandstätter, T., Siow, W. X., d’Alessandro, J., Vollmar,
    A. M., … Zahler, S. (2022). Disentangling cadherin-mediated cell-cell interactions
    in collective cancer cell migration. <i>Biophysical Journal</i>. Elsevier. <a
    href="https://doi.org/10.1016/j.bpj.2021.12.006">https://doi.org/10.1016/j.bpj.2021.12.006</a>
  chicago: Zisis, Themistoklis, David Brückner, Tom Brandstätter, Wei Xiong Siow,
    Joseph d’Alessandro, Angelika M. Vollmar, Chase P. Broedersz, and Stefan Zahler.
    “Disentangling Cadherin-Mediated Cell-Cell Interactions in Collective Cancer Cell
    Migration.” <i>Biophysical Journal</i>. Elsevier, 2022. <a href="https://doi.org/10.1016/j.bpj.2021.12.006">https://doi.org/10.1016/j.bpj.2021.12.006</a>.
  ieee: T. Zisis <i>et al.</i>, “Disentangling cadherin-mediated cell-cell interactions
    in collective cancer cell migration,” <i>Biophysical Journal</i>, vol. 121, no.
    1. Elsevier, pp. P44-60, 2022.
  ista: Zisis T, Brückner D, Brandstätter T, Siow WX, d’Alessandro J, Vollmar AM,
    Broedersz CP, Zahler S. 2022. Disentangling cadherin-mediated cell-cell interactions
    in collective cancer cell migration. Biophysical Journal. 121(1), P44-60.
  mla: Zisis, Themistoklis, et al. “Disentangling Cadherin-Mediated Cell-Cell Interactions
    in Collective Cancer Cell Migration.” <i>Biophysical Journal</i>, vol. 121, no.
    1, Elsevier, 2022, pp. P44-60, doi:<a href="https://doi.org/10.1016/j.bpj.2021.12.006">10.1016/j.bpj.2021.12.006</a>.
  short: T. Zisis, D. Brückner, T. Brandstätter, W.X. Siow, J. d’Alessandro, A.M.
    Vollmar, C.P. Broedersz, S. Zahler, Biophysical Journal 121 (2022) P44-60.
date_created: 2021-12-10T09:48:19Z
date_published: 2022-01-04T00:00:00Z
date_updated: 2025-06-11T13:59:29Z
day: '04'
ddc:
- '570'
department:
- _id: EdHa
- _id: GaTk
doi: 10.1016/j.bpj.2021.12.006
external_id:
  isi:
  - '000740815400007'
  pmid:
  - '34890578'
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  date_created: 2022-07-29T10:17:10Z
  date_updated: 2022-07-29T10:17:10Z
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file_date_updated: 2022-07-29T10:17:10Z
has_accepted_license: '1'
intvolume: '       121'
isi: 1
issue: '1'
keyword:
- Biophysics
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: P44-60
pmid: 1
project:
- _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A
  name: NOMIS Fellowship Program
publication: Biophysical Journal
publication_identifier:
  issn:
  - 0006-3495
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Disentangling cadherin-mediated cell-cell interactions in collective cancer
  cell migration
tmp:
  image: /images/cc_by_nc_nd.png
  legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
  name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
    (CC BY-NC-ND 4.0)
  short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 121
year: '2022'
...
