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README.md

1024-channel electrophysiological recordings during resting state in V1 and V4 of macaque visual cortex

This respository contains the data associated to the publication "1024-channel electrophysiological recordings during resting state in V1 and V4 of macaque visual cortex" by Chen*, Morales-Gregorio* et al. Future updates of the dataset will be uploaded here.

Summary

Electrophysiological activity data was recorded from the visual cortex (V1, V4) of two rhesus macaques using 16 utah arrays, for a total of 1024 recording sites. The monkeys were instructed to perform several tasks:

  • Resting state (RS),
  • Receptive field mapping (RF) with sweeping bars,
  • Signal to noise ratio (SNR) estimation from visual stimulation with a checkerboard.

All data was recorded at the Netherlands Institute of Neuroscience and processed jointly with the INM-6 at Juelich research center.

The raw data constist on the continuous measure of extracellular potentials at a sampling frequency of 30 kHz The raw data was processed into two widely used analog signals, the local field potential (LFP) and the multiunit activity envelope (MUAe), with sampling rates of 500 Hz and 1 kHz respectively. Metadata about the recording system, animal behaviour during the recordings, data quality and receptive field locations was collected and compiled into a single .odml file per session, provided under the \data directory of this repository.

The following sessions and datafiles are available:

Subject Task type Date of recording Links to ressources
L Receptive Fields (RF) 26-06-2017 Raw files | MUAe | LFP
28-06-2017 Raw files | MUAe | LFP
Stimulus response (SNR)
25-07-2017 Raw files | MUAe | LFP
09-08-2017 Raw files | MUAe | LFP
10-08-2017 Raw files | MUAe | LFP
Resting State (RS) 25-07-2017 Raw files | Eye signals | MUAe | LFP
09-08-2017 Raw files | Eye signals | MUAe | LFP
10-08-2017 Raw files | Eye signals | MUAe | LFP
A Receptive Fields (RF) 28-08-2018 Raw files | MUAe | LFP
29-08-2018 Raw files | MUAe | LFP
Stimulus response (SNR)
14-08-2019 Raw files | MUAe | LFP
15-08-2019 Raw files | MUAe | LFP
16-08-2019 Raw files | MUAe | LFP
Resting State (RS) 14-08-2019 Raw files | Eye signals | MUAe | LFP
15-08-2019 Raw files | Eye signals | MUAe | LFP
16-08-2019 Raw files | Eye signals | MUAe | LFP

Note: The links in the table above point to the latest version of the data repository and not to the published instance.

Downloading the data

Using gin

Create an account on gin and download the gin client as described here. On your computer, log in using:

gin login

Clone the repository using:

gin get NIN/V1_V4_1024_electrode_resting_state_data

The cloning step can take a long time, due to the large amount of individual files. Please be patient.

Large data files will not be downloaded automatically, they will appear as git-annex links instead. We recommend downloading only the files you need, since the entire dataset is large. To get the contents of a certain file:

gin get-content <filename>

Downloaded large files will be locked (read-only). You must unlock the files using:

gin unlock <filename>

To remove the contents of a large file again, use:

gin lock <filename>
gin remove-content <filename>

Detailed description of the gin client can be found at the gin wiki. See the gin usage tutorial for advanced features.

Using the web browser

Download the files you want by clicking download in the gin web interface. Convenience summary tables of the data and sessions can be found in the summary above.

Citation policy

Cite this work by citing the original publication.

Contact information

For any inquiries contact the corresponding author(s) of the original publication.

License

Creative Commons License
The data and metadata in this work are licensed under a Creative Commons Attribution 4.0 International License.

Python and Matlab code in this repository are licensed under the BSD 3-clause license.

The matlab-based NPMK package provided within this repository is re-distributed under the BSD 3-clause license, in compliance with the original licensing terms.

datacite.yml
Title 1024-channel electrophysiological recordings in macaque V1 and V4 during resting state
Authors Chen,Xing;Department of Vision & Cognition, Netherlands Institute for Neuroscience, Meibergdreef 47, 1105 BA, Amsterdam, Netherlands;ORCID:0000-0002-3589-1750
Morales-Gregorio,Aitor;Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6) and JARA Institute Brain Structure-Function Relationships (INM-10), Jülich Research Centre, Jülich, Germany; and Institute of Zoology, University of Cologne, Cologne, Germany;ORCID:0000-0002-2403-928X
Sprenger,Julia;Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6) and JARA Institute Brain Structure-Function Relationships (INM-10), Jülich Research Centre, Jülich, Germany; and Theoretical Systems Neurobiology, RWTH Aachen University, Aachen, Germany; and Institut de Neurosciences de La Timone, CNRS & Aix-Marseille University, Marseille, France;ORCID:0000-0002-9986-7477
Kleinjohann,Alexander;Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6) and JARA Institute Brain Structure-Function Relationships (INM-10), Jülich Research Centre, Jülich, Germany; and Theoretical Systems Neurobiology, RWTH Aachen University, Aachen, Germany;ORCID:0000-0003-3776-4226
Sridhar,Shashwat;Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6) and JARA Institute Brain Structure-Function Relationships (INM-10), Jülich Research Centre, Jülich, Germany; and Theoretical Systems Neurobiology, RWTH Aachen University, Aachen, Germany;ORCID:0000-0002-8837-8555
van Albada,Sacha;Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6) and JARA Institute Brain Structure-Function Relationships (INM-10), Jülich Research Centre, Jülich, Germany; and Institute of Zoology, University of Cologne, Cologne, Germany;ORCID:0000-0003-0682-4855
Grün,Sonja;Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6) and JARA Institute Brain Structure-Function Relationships (INM-10), Jülich Research Centre, Jülich, Germany; and Theoretical Systems Neurobiology, RWTH Aachen University, Aachen, Germany;ORCID:0000-0003-2829-2220
Roelfsema,Pieter;Department of Vision & Cognition, Netherlands Institute for Neuroscience, Meibergdreef 47, 1105 BA, Amsterdam, Netherlands; Department of Integrative Neurophysiology, VU University, De Boelelaan 1085, 1081 HV, Amsterdam, Netherlands; and Department of Psychiatry, Academic Medical Center, Postbus 22660, 1100 DD, Amsterdam, Netherlands;ORCID:0000-0002-1625-0034
Description We provide electrophysiological recordings in Macaque V1 and V4 cortex with 16 Utah arrays in two subjects.
License CC BY 4.0 (https://creativecommons.org/licenses/by/4.0/)
References Chen, X., Morales-Gregorio, A., Sprenger, J., Kleinjohann, A., Sridhar, S., van Albada, S. J., Grün, S., Roelfsema, P. R. (2022). 1024-channel electrophysiological recordings in macaque V1 and V4 during resting state. Scientific Data Vol. 9, Article 77. [doi::10.1038/s41597-022-01180-1] (IsDescribedBy)
Chen, X., Wang, F., Fernandez, E., Roelfsema, P. R. (2020). Shape perception via a high-channel-count neuroprosthesis in monkey visual cortex. Science Vol. 370, Issue 6521, pp. 1191-1196. [doi:10.1126/science.abd7435] (IsReferencedBy)
Funding NWO, STW, P15-42
HBP, FPA (650003)
EU, ERC, 339490
EU H2020 Framework Programme for Research and Innovation, HBP SGA2, 785907
EU H2020 Framework Programme for Research and Innovation, HBP SGA3, 945539
DFG, 368482240/RTG 2416
Keywords Electrophysiology
Local Field Potential
Macaque
Multiunit activity
Neuroscience
Resting state
Synchrofact removal
Utah Array
Visual area 1 (V1)
Visual area 4 (V4)
Visual Cortex
Resource Type Dataset