Towards BioDBcore: A community-defined information specification for biological databases

Pascale Gaudet*, Amos Bairoch, Dawn Field, Susanna Assunta Sansone, Chris Taylor, Teresa K. Attwood, Alex Bateman, Judith A. Blake, Carol J. Bult, J. Michael Cherry, Rex L. Chisholm, Guy Cochrane, Charles E. Cook, Janan T. Eppig, Michael Y. Galperin, Robert Gentleman, Carole A. Goble, Takashi Gojobori, John M. Hancock, Douglas G. HoweTadashi Imanishi, Janet Kelso, David Landsman, Suzanna E. Lewis, Ilene Karsch-Mizrachi, Sandra Orchard, B. F.Francis Ouellette, Shoba Ranganathan, Lorna Richardson, Philippe Rocca-Serra, Paul N. Schofield, Damian Smedley, Christopher Southan, Tin Wee Tan, Tatiana Tatusova, Patricia L. Whetzel, Owen White, Chisato Yamasaki

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

29 Scopus citations


The present article proposes the adoption of a community-defined, uniform, generic description of the core attributes of biological databases, BioDBCore. The goals of these attributes are to provide a general overview of the database landscape, to encourage consistency and interoperability between resources and to promote the use of semantic and syntactic standards. BioDBCore will make it easier for users to evaluate the scope and relevance of available resources. This new resource will increase the collective impact of the information present in biological databases.

Original languageEnglish (US)
Pages (from-to)D7-D10
Issue numberSUPPL. 1
StatePublished - Jan 2011
Externally publishedYes

Bibliographical note

Funding Information:
1Swiss Institute of Bioinformatics, CMU, 1 Rue Michel Servet, 1211 Geneva 4, Switzerland, 2Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA, 3NERC Center for Ecology and Hydrology, Oxford, OX1 3SR, 4Oxford e-Research Centre, University of Oxford, Oxford, OX1 3QG, 5European Molecular Biology Laboratory (EMBL) Outstation, European Bioinformatics Institute (EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, 6Faculty of Life Sciences, The University of Manchester, Manchester M13 9PT, 7School of Computer Science, The University of Manchester, Manchester M13 9PT, 8Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK, 9The Jackson Laboratory, 600 Main Street, Bar Harbor, ME 04609, 10Department of Genetics, Stanford University, Stanford, California 94305-5120, 11NCBI, NLM, National Institutes of Health, Bethesda, MD 20894, 12Genentech, 1 DNA Way, South San Francisco, CA 94080, USA, 13DATABASE, The Journal of Biological Databases and Curation, Oxford University Press, Oxford OX2 6DP, UK, 14Biomedicinal Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-42 Aomi Koto-ku, Tokyo 135-0064, 15Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan, 16MRC Harwell, Mammalian Genetics Unit, Harwell Science and Innovation Campus, Oxfordshire, OX11 0RD, UK, 17The Zebrafish Model Organism Database, 5291 University of Oregon, Eugene, Oregon 97401-5291, USA, 18Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany, 19Genomics Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road 64R0121 Berkeley, California 94720, USA, 20Ontario Institute for Cancer Research, Suite 800, 101 College Street, Toronto, Ontario, M5G 0A3, Canada, 21Department of Chemistry and Biomolecular Sciences, Macquarie University, Sydney NSW 2109, Australia, 22Department of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore, Singapore, 23MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine, Western General Hospital, Edinburgh, EH4 2XU, 24Department of Physiology, Development and Neuroscience, University of Cambridge, Doning Street, Cambridge CB2 3EG, UK, 25ChrisDS Consulting, Göteborg, Sweden, 26Stanford Center for Biomedical Informatics Research, National Center for Biomedical Ontology, Stanford University, Stanford, CA, 94305 and 27Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21201, USA

ASJC Scopus subject areas

  • Genetics


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