---
_id: '12862'
abstract:
- lang: eng
  text: Despite the considerable progress of in vivo neural recording techniques,
    inferring the biophysical mechanisms underlying large scale coordination of brain
    activity from neural data remains challenging. One obstacle is the difficulty
    to link high dimensional functional connectivity measures to mechanistic models
    of network activity. We address this issue by investigating spike-field coupling
    (SFC) measurements, which quantify the synchronization between, on the one hand,
    the action potentials produced by neurons, and on the other hand mesoscopic “field”
    signals, reflecting subthreshold activities at possibly multiple recording sites.
    As the number of recording sites gets large, the amount of pairwise SFC measurements
    becomes overwhelmingly challenging to interpret. We develop Generalized Phase
    Locking Analysis (GPLA) as an interpretable dimensionality reduction of this multivariate
    SFC. GPLA describes the dominant coupling between field activity and neural ensembles
    across space and frequencies. We show that GPLA features are biophysically interpretable
    when used in conjunction with appropriate network models, such that we can identify
    the influence of underlying circuit properties on these features. We demonstrate
    the statistical benefits and interpretability of this approach in various computational
    models and Utah array recordings. The results suggest that GPLA, used jointly
    with biophysical modeling, can help uncover the contribution of recurrent microcircuits
    to the spatio-temporal dynamics observed in multi-channel experimental recordings.
acknowledgement: "We thank Britni Crocker for help with preprocessing of the data
  and spike sorting; Joachim Werner and Michael Schnabel for their excellent IT support;
  Andreas Tolias for help with the initial implantation’s of the Utah arrays.\r\nAll
  authors were supported by the Max Planck Society. M.B. was supported by the German\r\nFederal
  Ministry of Education and Research (BMBF) through the funding scheme received by\r\nthe
  Tübingen AI Center, FKZ: 01IS18039B. N.K.L. and V.K. acknowledge the support from
  the\r\nShanghai Municipal Science and Technology Major Project (Grant No. 2019SHZDZX02).
  The funders had no role in study design, data collection and analysis, decision
  to publish, or preparation of the manuscript. "
article_number: e1010983
article_processing_charge: No
article_type: original
author:
- first_name: Shervin
  full_name: Safavi, Shervin
  last_name: Safavi
- first_name: Theofanis I.
  full_name: Panagiotaropoulos, Theofanis I.
  last_name: Panagiotaropoulos
- first_name: Vishal
  full_name: Kapoor, Vishal
  last_name: Kapoor
- first_name: Juan F
  full_name: Ramirez Villegas, Juan F
  id: 44B06F76-F248-11E8-B48F-1D18A9856A87
  last_name: Ramirez Villegas
- first_name: Nikos K.
  full_name: Logothetis, Nikos K.
  last_name: Logothetis
- first_name: Michel
  full_name: Besserve, Michel
  last_name: Besserve
citation:
  ama: Safavi S, Panagiotaropoulos TI, Kapoor V, Ramirez Villegas JF, Logothetis NK,
    Besserve M. Uncovering the organization of neural circuits with Generalized Phase
    Locking Analysis. <i>PLoS Computational Biology</i>. 2023;19(4). doi:<a href="https://doi.org/10.1371/journal.pcbi.1010983">10.1371/journal.pcbi.1010983</a>
  apa: Safavi, S., Panagiotaropoulos, T. I., Kapoor, V., Ramirez Villegas, J. F.,
    Logothetis, N. K., &#38; Besserve, M. (2023). Uncovering the organization of neural
    circuits with Generalized Phase Locking Analysis. <i>PLoS Computational Biology</i>.
    Public Library of Science. <a href="https://doi.org/10.1371/journal.pcbi.1010983">https://doi.org/10.1371/journal.pcbi.1010983</a>
  chicago: Safavi, Shervin, Theofanis I. Panagiotaropoulos, Vishal Kapoor, Juan F
    Ramirez Villegas, Nikos K. Logothetis, and Michel Besserve. “Uncovering the Organization
    of Neural Circuits with Generalized Phase Locking Analysis.” <i>PLoS Computational
    Biology</i>. Public Library of Science, 2023. <a href="https://doi.org/10.1371/journal.pcbi.1010983">https://doi.org/10.1371/journal.pcbi.1010983</a>.
  ieee: S. Safavi, T. I. Panagiotaropoulos, V. Kapoor, J. F. Ramirez Villegas, N.
    K. Logothetis, and M. Besserve, “Uncovering the organization of neural circuits
    with Generalized Phase Locking Analysis,” <i>PLoS Computational Biology</i>, vol.
    19, no. 4. Public Library of Science, 2023.
  ista: Safavi S, Panagiotaropoulos TI, Kapoor V, Ramirez Villegas JF, Logothetis
    NK, Besserve M. 2023. Uncovering the organization of neural circuits with Generalized
    Phase Locking Analysis. PLoS Computational Biology. 19(4), e1010983.
  mla: Safavi, Shervin, et al. “Uncovering the Organization of Neural Circuits with
    Generalized Phase Locking Analysis.” <i>PLoS Computational Biology</i>, vol. 19,
    no. 4, e1010983, Public Library of Science, 2023, doi:<a href="https://doi.org/10.1371/journal.pcbi.1010983">10.1371/journal.pcbi.1010983</a>.
  short: S. Safavi, T.I. Panagiotaropoulos, V. Kapoor, J.F. Ramirez Villegas, N.K.
    Logothetis, M. Besserve, PLoS Computational Biology 19 (2023).
date_created: 2023-04-23T22:01:03Z
date_published: 2023-04-01T00:00:00Z
date_updated: 2023-08-01T14:15:16Z
day: '01'
ddc:
- '570'
department:
- _id: JoCs
doi: 10.1371/journal.pcbi.1010983
external_id:
  isi:
  - '000962668700002'
file:
- access_level: open_access
  checksum: edeb9d09f3e41ba7c0251308b9e372e7
  content_type: application/pdf
  creator: dernst
  date_created: 2023-04-25T08:59:18Z
  date_updated: 2023-04-25T08:59:18Z
  file_id: '12867'
  file_name: 2023_PLoSCompBio_Safavi.pdf
  file_size: 4737671
  relation: main_file
  success: 1
file_date_updated: 2023-04-25T08:59:18Z
has_accepted_license: '1'
intvolume: '        19'
isi: 1
issue: '4'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
publication: PLoS Computational Biology
publication_identifier:
  eissn:
  - 1553-7358
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
related_material:
  link:
  - relation: software
    url: https://github.com/shervinsafavi/gpla.git
scopus_import: '1'
status: public
title: Uncovering the organization of neural circuits with Generalized Phase Locking
  Analysis
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: 19
year: '2023'
...
---
_id: '12149'
abstract:
- lang: eng
  text: Editorial on the Research Topic
acknowledgement: This work was supported by a DFG grant ZA990/1 to DZ. This work was
  supported by the MSCA EU proposal 841301 - DREAM, European Commission; Horizon 2020
  - Research and Innovation Framework Programme to JFRV.
article_number: '1028154'
article_processing_charge: No
article_type: letter_note
author:
- first_name: Giuditta
  full_name: Gambino, Giuditta
  last_name: Gambino
- first_name: Rebecca
  full_name: Bhik-Ghanie, Rebecca
  last_name: Bhik-Ghanie
- first_name: Giuseppe
  full_name: Giglia, Giuseppe
  last_name: Giglia
- first_name: M. Victoria
  full_name: Puig, M. Victoria
  last_name: Puig
- first_name: Juan F
  full_name: Ramirez Villegas, Juan F
  id: 44B06F76-F248-11E8-B48F-1D18A9856A87
  last_name: Ramirez Villegas
- first_name: Daniel
  full_name: Zaldivar, Daniel
  last_name: Zaldivar
citation:
  ama: 'Gambino G, Bhik-Ghanie R, Giglia G, Puig MV, Ramirez Villegas JF, Zaldivar
    D. Editorial: Neuromodulatory ascending systems: Their influence at the microscopic
    and macroscopic levels. <i>Frontiers in Neural Circuits</i>. 2022;16. doi:<a href="https://doi.org/10.3389/fncir.2022.1028154">10.3389/fncir.2022.1028154</a>'
  apa: 'Gambino, G., Bhik-Ghanie, R., Giglia, G., Puig, M. V., Ramirez Villegas, J.
    F., &#38; Zaldivar, D. (2022). Editorial: Neuromodulatory ascending systems: Their
    influence at the microscopic and macroscopic levels. <i>Frontiers in Neural Circuits</i>.
    Frontiers Media. <a href="https://doi.org/10.3389/fncir.2022.1028154">https://doi.org/10.3389/fncir.2022.1028154</a>'
  chicago: 'Gambino, Giuditta, Rebecca Bhik-Ghanie, Giuseppe Giglia, M. Victoria Puig,
    Juan F Ramirez Villegas, and Daniel Zaldivar. “Editorial: Neuromodulatory Ascending
    Systems: Their Influence at the Microscopic and Macroscopic Levels.” <i>Frontiers
    in Neural Circuits</i>. Frontiers Media, 2022. <a href="https://doi.org/10.3389/fncir.2022.1028154">https://doi.org/10.3389/fncir.2022.1028154</a>.'
  ieee: 'G. Gambino, R. Bhik-Ghanie, G. Giglia, M. V. Puig, J. F. Ramirez Villegas,
    and D. Zaldivar, “Editorial: Neuromodulatory ascending systems: Their influence
    at the microscopic and macroscopic levels,” <i>Frontiers in Neural Circuits</i>,
    vol. 16. Frontiers Media, 2022.'
  ista: 'Gambino G, Bhik-Ghanie R, Giglia G, Puig MV, Ramirez Villegas JF, Zaldivar
    D. 2022. Editorial: Neuromodulatory ascending systems: Their influence at the
    microscopic and macroscopic levels. Frontiers in Neural Circuits. 16, 1028154.'
  mla: 'Gambino, Giuditta, et al. “Editorial: Neuromodulatory Ascending Systems: Their
    Influence at the Microscopic and Macroscopic Levels.” <i>Frontiers in Neural Circuits</i>,
    vol. 16, 1028154, Frontiers Media, 2022, doi:<a href="https://doi.org/10.3389/fncir.2022.1028154">10.3389/fncir.2022.1028154</a>.'
  short: G. Gambino, R. Bhik-Ghanie, G. Giglia, M.V. Puig, J.F. Ramirez Villegas,
    D. Zaldivar, Frontiers in Neural Circuits 16 (2022).
date_created: 2023-01-12T12:07:39Z
date_published: 2022-10-26T00:00:00Z
date_updated: 2023-08-04T09:01:06Z
day: '26'
ddc:
- '570'
department:
- _id: JoCs
doi: 10.3389/fncir.2022.1028154
ec_funded: 1
external_id:
  isi:
  - '000886671400001'
file:
- access_level: open_access
  checksum: 457aa00e1800847abb340853058531de
  content_type: application/pdf
  creator: dernst
  date_created: 2023-01-24T10:10:43Z
  date_updated: 2023-01-24T10:10:43Z
  file_id: '12357'
  file_name: 2022_FrontiersNeuralCircuits_Gambino.pdf
  file_size: 110031
  relation: main_file
  success: 1
file_date_updated: 2023-01-24T10:10:43Z
has_accepted_license: '1'
intvolume: '        16'
isi: 1
keyword:
- Cellular and Molecular Neuroscience
- Cognitive Neuroscience
- Sensory Systems
- Neuroscience (miscellaneous)
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 26BAE2E4-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '841301'
  name: 'The Brainstem-Hippocampus Network Uncovered: Dynamics, Reactivation and Memory
    Consolidation'
publication: Frontiers in Neural Circuits
publication_identifier:
  issn:
  - 1662-5110
publication_status: published
publisher: Frontiers Media
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Editorial: Neuromodulatory ascending systems: Their influence at the microscopic
  and macroscopic levels'
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 16
year: '2022'
...
---
_id: '8818'
abstract:
- lang: eng
  text: The hippocampus has a major role in encoding and consolidating long-term memories,
    and undergoes plastic changes during sleep1. These changes require precise homeostatic
    control by subcortical neuromodulatory structures2. The underlying mechanisms
    of this phenomenon, however, remain unknown. Here, using multi-structure recordings
    in macaque monkeys, we show that the brainstem transiently modulates hippocampal
    network events through phasic pontine waves known as pontogeniculooccipital waves
    (PGO waves). Two physiologically distinct types of PGO wave appear to occur sequentially,
    selectively influencing high-frequency ripples and low-frequency theta events,
    respectively. The two types of PGO wave are associated with opposite hippocampal
    spike-field coupling, prompting periods of high neural synchrony of neural populations
    during periods of ripple and theta instances. The coupling between PGO waves and
    ripples, classically associated with distinct sleep stages, supports the notion
    that a global coordination mechanism of hippocampal sleep dynamics by cholinergic
    pontine transients may promote systems and synaptic memory consolidation as well
    as synaptic homeostasis.
acknowledgement: We thank O. Eschenko and M. Constantinou for providing feedback on
  earlier versions of this work, and J. Werner and M. Schnabel for technical support
  during the development of this study. This research was supported by the Max Planck
  Society.
article_processing_charge: No
article_type: original
author:
- first_name: Juan F
  full_name: Ramirez Villegas, Juan F
  id: 44B06F76-F248-11E8-B48F-1D18A9856A87
  last_name: Ramirez Villegas
- first_name: Michel
  full_name: Besserve, Michel
  last_name: Besserve
- first_name: Yusuke
  full_name: Murayama, Yusuke
  last_name: Murayama
- first_name: Henry C.
  full_name: Evrard, Henry C.
  last_name: Evrard
- first_name: Axel
  full_name: Oeltermann, Axel
  last_name: Oeltermann
- first_name: Nikos K.
  full_name: Logothetis, Nikos K.
  last_name: Logothetis
citation:
  ama: Ramirez Villegas JF, Besserve M, Murayama Y, Evrard HC, Oeltermann A, Logothetis
    NK. Coupling of hippocampal theta and ripples with pontogeniculooccipital waves.
    <i>Nature</i>. 2021;589(7840):96-102. doi:<a href="https://doi.org/10.1038/s41586-020-2914-4">10.1038/s41586-020-2914-4</a>
  apa: Ramirez Villegas, J. F., Besserve, M., Murayama, Y., Evrard, H. C., Oeltermann,
    A., &#38; Logothetis, N. K. (2021). Coupling of hippocampal theta and ripples
    with pontogeniculooccipital waves. <i>Nature</i>. Springer Nature. <a href="https://doi.org/10.1038/s41586-020-2914-4">https://doi.org/10.1038/s41586-020-2914-4</a>
  chicago: Ramirez Villegas, Juan F, Michel Besserve, Yusuke Murayama, Henry C. Evrard,
    Axel Oeltermann, and Nikos K. Logothetis. “Coupling of Hippocampal Theta and Ripples
    with Pontogeniculooccipital Waves.” <i>Nature</i>. Springer Nature, 2021. <a href="https://doi.org/10.1038/s41586-020-2914-4">https://doi.org/10.1038/s41586-020-2914-4</a>.
  ieee: J. F. Ramirez Villegas, M. Besserve, Y. Murayama, H. C. Evrard, A. Oeltermann,
    and N. K. Logothetis, “Coupling of hippocampal theta and ripples with pontogeniculooccipital
    waves,” <i>Nature</i>, vol. 589, no. 7840. Springer Nature, pp. 96–102, 2021.
  ista: Ramirez Villegas JF, Besserve M, Murayama Y, Evrard HC, Oeltermann A, Logothetis
    NK. 2021. Coupling of hippocampal theta and ripples with pontogeniculooccipital
    waves. Nature. 589(7840), 96–102.
  mla: Ramirez Villegas, Juan F., et al. “Coupling of Hippocampal Theta and Ripples
    with Pontogeniculooccipital Waves.” <i>Nature</i>, vol. 589, no. 7840, Springer
    Nature, 2021, pp. 96–102, doi:<a href="https://doi.org/10.1038/s41586-020-2914-4">10.1038/s41586-020-2914-4</a>.
  short: J.F. Ramirez Villegas, M. Besserve, Y. Murayama, H.C. Evrard, A. Oeltermann,
    N.K. Logothetis, Nature 589 (2021) 96–102.
date_created: 2020-11-29T23:01:19Z
date_published: 2021-01-07T00:00:00Z
date_updated: 2023-08-04T11:13:08Z
day: '07'
department:
- _id: JoCs
doi: 10.1038/s41586-020-2914-4
external_id:
  isi:
  - '000591047800005'
  pmid:
  - '33208951'
intvolume: '       589'
isi: 1
issue: '7840'
language:
- iso: eng
month: '01'
oa_version: None
page: 96-102
pmid: 1
publication: Nature
publication_identifier:
  eissn:
  - '14764687'
  issn:
  - '00280836'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
  link:
  - relation: erratum
    url: https://doi.org/10.1038/s41586-020-03068-9
scopus_import: '1'
status: public
title: Coupling of hippocampal theta and ripples with pontogeniculooccipital waves
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 589
year: '2021'
...