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Proteomics researchers solidifying principles for data sharing.

Leaders in proteomics are pushing to develop a set of principles to guide data sharing in this field. A JPR paper, which resulted from the 2008 International Summit on Proteomics Data Release and Sharing Policy, held in Amsterdam, outlines the challenges facing such efforts. The initiative mirrors earlier efforts by the Human Genome Organization. Even before the Human Genome Project was completed, participating researchers agreed to deposit new sequence information as it was generated into a public database. That decision, codified as the Bermuda Principles at a 1996 meeting, ensured access by the broader scientific community as private, commercially oriented sequencing projects proceeded. The August 2008 summit gathered about 30 proteomics researchers, journal editors, and funding agency representatives. Participants determined that establishing guidelines on when to share depends on first figuring out what and how to share, according to the summit report. Rapidly evolving technology and the variety of proteomic data have made agreement on which format to use and how to build compatible databases difficult, until recently. “This is one of the big roadblocks in taking basic discoveries toward clinical utility,” says Henry Rodriguez, who directs the National Cancer Institute’s (NCI’s) Clinical Proteomic Technologies Initiative for Cancer and is the first author of the summit report. “Our goal should be in the next several years to establish the policies and mechanisms for an easy, streamlined process.” Some public databases for proteomic data exist, such as PRIDE at the European Bioinformatics Institute (EBI), PeptideAtlas at the Institute for Systems Biology, and the Global Proteome Machine Organization’s database. However, they differ in the formats and kinds of data deposited and whether they supply additional interpretation or annotation. At the same time, journals have been reluctant to require authors to submit their data to the databases upon publication—promoting