BioDBCore


Annoucements

Overview

BioDBCore is a community-defined, uniform, generic description of the core attributes of biological databases. The BioDBCore checklist is overseen by the International Society for Biocuration (ISB) (http://biocurator.org/), in collaboration with the BioSharing forum. Biosharing


Motivation for BioDBCore

The world of public biological databases is constantly evolving, as attested by the ever-growing size of the annual NAR database issue, as well as by the creation of a new journal dedicated to databases and biocuration, DATABASE. As in any emerging field, standardization across the biological databases is still inadequate at many levels. To address this we propose the adoption of a community-defined, uniform, generic description of the core attributes of biological databases, which we will name BioDBCore.

The goals of the proposed BioDBCore checklist are to:

Proposed core attributes include

BioSharing has implemented a BioDBCore-compliant catalog also using papers submitted to Nucleic Acids Research, see http://www.biosharing.org/biodbcore. Entries are also linked to the BioSharing catalog of standards, where those are implemented by the database.

We encourage all of the database providers to either create or claim your BioDBCore entry and update it as appropriate.

We also welcome the submission of standards, including Reporting Guidelines, Terminology Artifacts or Exchange Formats: http://biosharing.org/standards.

We look forward to your contributions ! Please contact biosharing-contact-us@lists.sf.net (BioSharing) or intsocbio@gmail.com (the ISB helpdesk) with any questions or suggestions.

Long term vision and potential impact

The BioDBCore implementation will take place in three phases: 1) consultation with interested parties; 2) collaborative development of the minimal information list: to help establish requirements, some examples can be found on the BioDBCore page of the ISB, and moreover the APBioNet's BioDB100 initiative will be used to develop further working examples; and 3) in the longer term, completion of stable guidelines and their implementation as a public submission website that will allow data entry and easy update by database providers, in collaboration with the existing database collections and the BioSharing standards portal to reduce duplication of effort. Many of the members of the BioDBCore working group have experience and expertise in establishing such services.

Relevant resources

To participate in this initiative, please email intsocbio@gmail.com