FAIR Header Reference genome: a TRUSTworthy standard

Author:

Wright Adam12ORCID,Wilkinson Mark D34ORCID,Mungall Christopher5ORCID,Cain Scott12ORCID,Richards Stephen6ORCID,Sternberg Paul7ORCID,Provin Ellen8ORCID,Jacobs Jonathan L9ORCID,Geib Scott1011ORCID,Raciti Daniela7ORCID,Yook Karen7ORCID,Stein Lincoln12ORCID,Molik David C1213ORCID

Affiliation:

1. Adaptive Oncology Program , Ontario Institute for Cancer Research, , Toronto, ON M5G 0A3 , Canada

2. 661 University Avenue Suite 500 , Ontario Institute for Cancer Research, , Toronto, ON M5G 0A3 , Canada

3. Departamento de Biotecnolog’ıa-Biolog’ıa Vegetal , Escuela T’ecnica Superior de Ingenier’ıa Agron’omica, Alimentaria y de Biosistemas,Centro de Biotecnolog’ıa y Gen’omica de Plantas (CBGP, UPM-INIA/CSIC), , Madrid, ES , Spain

4. Universidad Polit’ecnica de Madrid (UPM) - Instituto Nacional de Investigaci’on y Tecnolog’ıa Agraria y Alimentaria (INIA/CSIC), Pozuelo de Alarc’on , Escuela T’ecnica Superior de Ingenier’ıa Agron’omica, Alimentaria y de Biosistemas,Centro de Biotecnolog’ıa y Gen’omica de Plantas (CBGP, UPM-INIA/CSIC), , Madrid, ES , Spain

5. Biosystems Data Science, Lawrence Berkeley National Laboratory , Building: 977, 1 Cyclotron Rd, Berkeley, CA 94720 , USA

6. Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza , MS: BCM226, Houston, TX 77030 , USA

7. Division of Biology and Biological Engineering 140-18, California Institute of Technology , Pasadena, CA 91125 , USA

8. Department of Horticultural Studies, Texas A&M University, HFSB 204, TAMU 2133, College Station , TX 77848 , USA

9. American Type Culture Collection, 10801 University Blvd , Manassas, VA 20110 , USA

10. Tropical Pest Genetics and Molecular Biology Research Unit , Daniel K. Inouye U.S. Pacific Basin Agricultural Research Center, United States Department of Agriculture, , 64 Nowelo St, Hilo HI 96720 , USA

11. Agricultural Research Service , Daniel K. Inouye U.S. Pacific Basin Agricultural Research Center, United States Department of Agriculture, , 64 Nowelo St, Hilo HI 96720 , USA

12. Arthropod-borne Animal Diseases Research Unit , Center for Grain and Animal Health Research United States Department of Agriculture, , 1515 College Ave, Manhattan, KS 66502 USA

13. Agricultural Research Service , Center for Grain and Animal Health Research United States Department of Agriculture, , 1515 College Ave, Manhattan, KS 66502 USA

Abstract

Abstract The lack of interoperable data standards among reference genome data-sharing platforms inhibits cross-platform analysis while increasing the risk of data provenance loss. Here, we describe the FAIR bioHeaders Reference genome (FHR), a metadata standard guided by the principles of Findability, Accessibility, Interoperability and Reuse (FAIR) in addition to the principles of Transparency, Responsibility, User focus, Sustainability and Technology. The objective of FHR is to provide an extensive set of data serialisation methods and minimum data field requirements while still maintaining extensibility, flexibility and expressivity in an increasingly decentralised genomic data ecosystem. The effort needed to implement FHR is low; FHR’s design philosophy ensures easy implementation while retaining the benefits gained from recording both machine and human-readable provenance.

Funder

Adaptive Oncology Programme at the Ontario Institute for Cancer Research

USDA Agricultural Research Service

Tropical Pest Genetics and Molecular Biology Research Unit

Arthropod borne Animal Diseases Research Unit

WormBase

Publisher

Oxford University Press (OUP)

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