Community annotation: Procedures, protocols, and supporting tools

  1. Christine G. Elsik1,3,
  2. Kim C. Worley2,3,4,
  3. Lan Zhang2,
  4. Natalia V. Milshina1,
  5. Huaiyang Jiang2,
  6. Justin T. Reese1,
  7. Kevin L. Childs1,
  8. Anand Venkatraman1,
  9. C. Michael Dickens1,
  10. George M. Weinstock2, and
  11. Richard A. Gibbs2
  1. 1Department of Animal Science, Texas A&M University, College Station, Texas 77843, USA;
  2. 2Human Genome Sequencing Center, Baylor College of Medicine, Houston, Texas 77030, USA
  1. 3 These authors contributed equally to this work.

Abstract

Investigators at the Baylor College of Medicine Human Genome Sequencing Center (BCM–HGSC) and BeeBase organized a community-wide effort to manually annotate the honey bee (Apis mellifera) genome. Although various strategies for manual annotation have been used in the past, the value of dispersed community annotation has not yet been demonstrated. Here we make a case for the merit of dispersed community annotation. We present annotation procedures, standard protocols, and tools used for sequence analysis, data submission, and data management. We also report lessons learned from this dispersed community annotation effort for a metazoan genome.

Footnotes

  • 4 Corresponding author.

    4 E-mail kworley{at}bcm.edu; fax (713) 798-6977.

  • [Supplemental material is available online at www.genome.org. The genome sequence is available under the accession numbers CM000054–CM000069 (for chromosome linkage groups) and AADG05* for contigs.]

  • Article published online before print. Article and publication date are at http://www.genome.org/cgi/doi/10.1101/gr.5580606.

  • Freely available online through the Genome Research Open Access option.

| Table of Contents
OPEN ACCESS ARTICLE

Preprint Server