Human_Amygdala_MUA_sEEG_FearVideo

Dataset of neurons and intracranial EEG from human amygdala during aversive dynamic visual stimulation

Summary

We present an electrophysiological dataset collected from the amygdalae of nine subjects attending a visual dynamic stimulation of emotional aversive content. The subjects were patients affected by epilepsy who underwent preoperative invasive monitoring in the mesial temporal lobe. Subjects were presented with dynamic visual sequences of fearful faces (aversive condition), interleaved with sequences of neutral landscapes (neutral condition).

The dataset contains the simultaneous recording of intracranial EEG (iEEG) and neuronal spike times and waveforms, and localization information for iEEG electrodes. Subject characteristics and trial information are provided. We technically validated this dataset and provide here the spike sorting quality metrics and the spectra of iEEG signals. This dataset allows the investigation of amygdalar response to dynamic aversive stimuli at multiple spatial scales, from the macroscopic EEG to the neuronal firing in the human brain.

Downloading the data

Using gin

Create an account on gin and download the gin client as described here. On your computer, run the gin-shell. Log in using

gin login

You will be prompted to enter your user name and password. Change the current path to the directory for downloading the repository.

Clone the repository using:

gin get USZ_NCH/Human_Amygdala_MUA_sEEG_FearVideo

Large data files will not be downloaded automatically. To get them, use

gin get-content <filename>

To download all large files, use

gin get-content .

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>

See here for detailed information on how to use gin.

Using git annex

Make sure git and git-annex are installed on your computer. Create an account on gin and upload your public SSH key to your gin profile. Then clone the repository using

git clone git@gin.g-node.org:/USZ_NCH/Human_Amygdala_MUA_sEEG_FearVideo.git

Large data files will not be downloaded automatically. To get them, use

git annex get <filename>

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

git annex unlock <filename>

To remove the contents of a large file again, use

git annex --force lock <filename>
git annex drop <filename>

See the git annex documentation for details.

Using the web browser

Download the latest release as a zip file by clicking on Releases on the main page at https://gin.g-node.org/USZ_NCH/Human_Amygdala_MUA_sEEG_FearVideo. This zip file will contain all small (text) files only, while large data files will not be downloaded automatically and an empty placeholder will be put in their place. To get the full content of such a large file , download these files individually as needed from the web interface by clicking on them in the repository browser.

Repository structure

Main directory

Contains Subject_Characteristics.pdf which describes subjects and NIX_File_Structure.pdf which describes the structure of the nix files.

Directory code_MATLAB

Contains MATLAB code for loading the data and generating the publication figures. Main_Load_NIX_Data.m contains code snippets for reading NIX data and task related information. Main_Plot_Figures.m uses the functions Figure_2.m and Figure_3.m to generate figures.

Required dependencies to run the script Main_Load_NIX_Data.m:

• Nix-mx v1.4.1

Required dependencies to run the script Main_Plot_Figures.m:

• Nix-mx v1.4.1
• Gramm
• FieldTrip

Directory data_NIX

Contains nix files for each session of the task. Each file is named with the format:
Data_Subject_<subject number>_Session_<session number>.h5

Updates

Updated versions of the data and codes will be provided at: https://gin.g-node.org/USZ_NCH/.

Support

For questions on the dataset or the task, contact Tommaso Fedele at tofedele@hse.ru.

Related Publications

• Fedele, T., Tzovara, A., Steiger, B., Hilfiker, P., Grunwald, T., Stieglitz, L., Jokeit, H., Sarnthein, J., 2020. The relation between neuronal firing, local field potentials and hemodynamic activity in the human amygdala in response to aversive dynamic visual stimuli. Neuroimage 213, 116705. https://doi.org/10.1016/j.neuroimage.2020.116705

Licensing

This work is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.

See LICENSE.txt for the full license.