A community-defined information
specification for biological databases
• Database name
• Main resource URL
• Contact information (e-mail; postal mail)
• Date resource established (year)
• Condi...
Working group
Pascale Gaudet,, Amos Bairoch, Dawn Field, Susanna-Assunta
Sansone, Chris Taylor,
Teresa K. Attwood,, Alex B...
Progress
• Formed a core group, with key players:
- International Society for Biocuration, BioSharing,
APBioNET, MIBBI, NA...
Publication
Towards BioDBcore: a community-defined information
specification for biological databases
- Editorial in the N...
http://biocurator.org/biodbcore.shtml
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Gaudet bio db-core

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Gaudet bio db-core

  1. 1. A community-defined information specification for biological databases
  2. 2. • Database name • Main resource URL • Contact information (e-mail; postal mail) • Date resource established (year) • Conditions of use (Free, or type of license) • Scope: data types captured, curation policy, standards used • Standards: MIs, Data formats, terminologies • Taxonomic coverage • Data accessibility/output options • Data release frequency • Versioning period and access to historical files • Documentation available • User support options • Data submission policy • Relevant publications • Resource's Wikipedia URL • Tools available Proposed core attributes include
  3. 3. Working group 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. Howe, Tadashi 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 D. Southan, Tin Wee Tan, Tatiana Tatusova, Patricia L. Whetzel, Owen White, and Chisato Yamasaki Started shortly after ISMB (July 2010 ) Paper has > 30 people from 27 institutions; group still growing
  4. 4. Progress • Formed a core group, with key players: - International Society for Biocuration, BioSharing, APBioNET, MIBBI, NAR Database issue, DATABASE journal, CASIMIR, Bioinformatics links directory, MODs and other databases • Established basic principles for the ‘guidelines’ • Looking at implemetation
  5. 5. Publication Towards BioDBcore: a community-defined information specification for biological databases - Editorial in the NAR 2011 issue - Also to be published in DATABASE
  6. 6. http://biocurator.org/biodbcore.shtml

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