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Current status and new features of the Consensus Coding Sequence database

2013; Oxford University Press; Volume: 42; Issue: D1 Linguagem: Inglês

10.1093/nar/gkt1059

1362-4962

Catherine M. Farrell, Nuala A. O’Leary, Rachel Harte, Jane Loveland, Laurens Wilming, Craig Wallin, Mark Diekhans, Daniel Barrell, Stephen M. J. Searle, Bronwen Aken, Susan M. Hiatt, Adam Frankish, Marie‐Marthe Suner, Bhanu Rajput, Charles A. Steward, Garth Brown, Ruth Bennett, Michael R. Murphy, Wendy Wu, Mike Kay, Jennifer Hart, Jeena Rajan, Janet A. Weber, Catherine Snow, Lillian D. Riddick, Toby Hunt, David Webb, Mark Thomas, Pamela Tamez, Sanjida H Rangwala, Kelly M. McGarvey, Shashikant Pujar, Andrei Shkeda, Jonathan M. Mudge, José M. González, James Gilbert, Stephen J. Trevanion, Robert Baertsch, Jennifer Harrow, Tim Hubbard, James M. Ostell, David Haussler, Kim D. Pruitt,

Genomics and Chromatin Dynamics

The Consensus Coding Sequence (CCDS) project (http://www.ncbi.nlm.nih.gov/CCDS/) is a collaborative effort to maintain a dataset of protein-coding regions that are identically annotated on the human and mouse reference genome assemblies by the National Center for Biotechnology Information (NCBI) and Ensembl genome annotation pipelines. Identical annotations that pass quality assurance tests are tracked with a stable identifier (CCDS ID). Members of the collaboration, who are from NCBI, the Wellcome Trust Sanger Institute and the University of California Santa Cruz, provide coordinated and continuous review of the dataset to ensure high-quality CCDS representations. We describe here the current status and recent growth in the CCDS dataset, as well as recent changes to the CCDS web and FTP sites. These changes include more explicit reporting about the NCBI and Ensembl annotation releases being compared, new search and display options, the addition of biologically descriptive information and our approach to representing genes for which support evidence is incomplete. We also present a summary of recent and future curation targets.