Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
[Preprint]. 2023 Aug 30:arXiv:2306.15041v2.

A Comparison of Neuroelectrophysiology Databases

Priyanka Subash  1 , Alex Gray  1 , Misque Boswell  1 , Samantha L Cohen  1 , Rachael Garner  1 , Sana Salehi  1 , Calvary Fisher  1 , Samuel Hobel  1 , Satrajit Ghosh  2 , Yaroslav Halchenko  3 , Benjamin Dichter  4 , Russell A Poldrack  5 , Chris Markiewicz  5 , Dora Hermes  6 , Arnaud Delorme  7 , Scott Makeig  7 , Brendan Behan  8 , Alana Sparks  9 , Stephen R Arnott  10 , Zhengjia Wang  11 , John Magnotti  11 , Michael S Beauchamp  11 , Nader Pouratian  12 , Arthur W Toga  1 , Dominique Duncan  1
Affiliations

A Comparison of Neuroelectrophysiology Databases

Priyanka Subash et al. ArXiv. .

Update in

  • A comparison of neuroelectrophysiology databases.
    Subash P, Gray A, Boswell M, Cohen SL, Garner R, Salehi S, Fisher C, Hobel S, Ghosh S, Halchenko Y, Dichter B, Poldrack RA, Markiewicz C, Hermes D, Delorme A, Makeig S, Behan B, Sparks A, Arnott SR, Wang Z, Magnotti J, Beauchamp MS, Pouratian N, Toga AW, Duncan D. Subash P, et al. Sci Data. 2023 Oct 19;10(1):719. doi: 10.1038/s41597-023-02614-0. Sci Data. 2023. PMID: 37857685 Free PMC article. Review.

Abstract

As data sharing has become more prevalent, three pillars - archives, standards, and analysis tools - have emerged as critical components in facilitating effective data sharing and collaboration. This paper compares four freely available intracranial neuroelectrophysiology data repositories: Data Archive for the BRAIN Initiative (DABI), Distributed Archives for Neurophysiology Data Integration (DANDI), OpenNeuro, and Brain-CODE. The aim of this review is to describe archives that provide researchers with tools to store, share, and reanalyze both human and non-human neurophysiology data based on criteria that are of interest to the neuroscientific community. The Brain Imaging Data Structure (BIDS) and Neurodata Without Borders (NWB) are utilized by these archives to make data more accessible to researchers by implementing a common standard. As the necessity for integrating large-scale analysis into data repository platforms continues to grow within the neuroscientific community, this article will highlight the various analytical and customizable tools developed within the chosen archives that may advance the field of neuroinformatics.

PubMed Disclaimer

Conflict of interest statement

Competing Interests DABI Affiliated Researchers: Priyanka Subash, Alex Gray, Misque Boswell, Samantha L. Cohen, Rachael Garner, Sana Salehi, Calvary Fisher, Samuel Hobel, Nader Pouratian, Arthur W. Toga, and Dominique Duncan; DANDI and NWB Affiliated Researchers: Satrajit Ghosh, Yaroslav Halchenko, Benjamin Dichter; OpenNeuro Affiliated Researchers: Russell A. Poldrack, Chris Markiewicz; BIDS Affiliated Researchers: Dora Hermes; NEMAR Affiliated Researchers: Arnaud Delorme, Scott Makeig; Brain-CODE Affiliated Researchers: Brendan Behan, Alana Sparks; RAVE Affiliated Researchers: Zhengjia Wang, John Magnotti, Michael Beauchamp.

Figures

Fig. 1
Fig. 1
iEEG-BIDS folder structure. (a) BIDS structure contains folders for each subject and one folder for stimuli. Within a subject folder, an /anat/ folder contains structural images alongside iEEG data. (b)_ieeg.json file stores iEEG data containing information on acquisition systems and their parameters. (c) _channels.tsv file stores metadata about channel-specific information, such as hardware filters or electrophysiological units. (d) _events.tsv TSV file contains event timing data. (e) _electrodes.tsv files store electrode coordinates. (f) _coordsystem.json file stores the coordinate system information. (g) Other images relevant for iEEG, such as surface models and 2-D images can be stored in a systematic manner. Optional folders and labels, such as the session folder and space- label, are mostly left out of this example.
Fig. 2
Fig. 2
NWB Data Types.
Fig.3
Fig.3
DABI Architecture
Fig. 4
Fig. 4
DANDI Feature Architecture.
Fig. 5
Fig. 5
OpenNeuro Data Uploading Process Flow.
Fig. 6
Fig. 6
Brain-CODE Feature Architecture.
See this image and copyright information in PMC

References

    1. Kindling M. et al. The landscape of research data repositories in 2015: A re3data analysis. -Lib Mag. 23, 4 (2017).
    1. Simons N. & Richardson J. New content in digital repositories: The changing research landscape. (Elsevier, 2013).
    1. National Institutes of Health (NIH). Final NIH Policy for Data Management and Sharing. National Institutes of Health; https://grants.nih.gov/grants/guide/notice-files/NOT-OD-21-013.html (2023).
    1. National Institutes of Health (NIH). Rigor and Reproducibility. National Institutes of Health; https://www.nih.gov/research-training/rigor-reproducibility (2015).
    1. National Institutes of Health (NIH). Data Management and Sharing Policy | Data Sharing. National Institutes of Health; https://sharing.nih.gov/data-management-and-sharing-policy (2020).

Publication types

LinkOut - more resources