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SPARC Data Structure: Rationale and Design of a FAIR Standard for Biomedical Research Data

View ORCID ProfileAnita Bandrowski, View ORCID ProfileJeffrey S. Grethe, View ORCID ProfileAnna Pilko, View ORCID ProfileTom Gillespie, Gabi Pine, View ORCID ProfileBhavesh Patel, Monique Surles-Zeigler, View ORCID ProfileMaryann E. Martone
doi: https://doi.org/10.1101/2021.02.10.430563
Anita Bandrowski
aUniversity of California, San Diego, CA
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Jeffrey S. Grethe
aUniversity of California, San Diego, CA
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Anna Pilko
aUniversity of California, San Diego, CA
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Tom Gillespie
aUniversity of California, San Diego, CA
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Gabi Pine
aUniversity of California, San Diego, CA
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Bhavesh Patel
bCalifornia Medical Innovations Institute, San Diego, CA
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Monique Surles-Zeigler
aUniversity of California, San Diego, CA
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Maryann E. Martone
aUniversity of California, San Diego, CA
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  • For correspondence: mmartone@ucsd.edu
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Abstract

The NIH Common Fund’s Stimulating Peripheral Activity to Relieve Conditions (SPARC) initiative is a large-scale program that seeks to accelerate the development of therapeutic devices that modulate electrical activity in nerves to improve organ function. Integral to the SPARC program are the rich anatomical and functional datasets produced by investigators across the SPARC consortium that provide key details about organ-specific circuitry, including structural and functional connectivity, mapping of cell types and molecular profiling. These datasets are provided to the research community through an open data platform, the SPARC Portal. To ensure SPARC datasets are Findable, Accessible, Interoperable and Reusable (FAIR), they are all submitted to the SPARC portal following a standard scheme established by the SPARC Curation Team, called the SPARC Data Structure (SDS). Inspired by the Brain Imaging Data Structure (BIDS), the SDS has been designed to capture the large variety of data generated by SPARC investigators who are coming from all fields of biomedical research. Here we present the rationale and design of the SDS, including a description of the SPARC curation process and the automated tools for complying with the SDS, including the SDS validator and Software to Organize Data Automatically (SODA) for SPARC. The objective is to provide detailed guidelines for anyone desiring to comply with the SDS. Since the SDS are suitable for any type of biomedical research data, it can be adopted by any group desiring to follow the FAIR data principles for managing their data, even outside of the SPARC consortium. Finally, this manuscript provides a foundational framework that can be used by any organization desiring to either adapt the SDS to suit the specific needs of their data or simply desiring to design their own FAIR data sharing scheme from scratch.

Competing Interest Statement

AB, MM and JG have equity interest in SciCrunch.com, a tech start up out of UCSD that develops tools and services for reproducible science, including support for RRIDs. AB is the CEO of SciCrunch.com.

Footnotes

  • We have addressed some typos and added so information that was missed in the previous version.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted March 19, 2021.
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SPARC Data Structure: Rationale and Design of a FAIR Standard for Biomedical Research Data
Anita Bandrowski, Jeffrey S. Grethe, Anna Pilko, Tom Gillespie, Gabi Pine, Bhavesh Patel, Monique Surles-Zeigler, Maryann E. Martone
bioRxiv 2021.02.10.430563; doi: https://doi.org/10.1101/2021.02.10.430563
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SPARC Data Structure: Rationale and Design of a FAIR Standard for Biomedical Research Data
Anita Bandrowski, Jeffrey S. Grethe, Anna Pilko, Tom Gillespie, Gabi Pine, Bhavesh Patel, Monique Surles-Zeigler, Maryann E. Martone
bioRxiv 2021.02.10.430563; doi: https://doi.org/10.1101/2021.02.10.430563

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