File:GMOD GI poster 2010-3.pdf
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A Complete Community Genome Annotation System Using GMOD Tools
Poster by Scott Cain, Ed Lee, Carson Holt, Stephen Ficklin, Meg Staton, Lincoln Stein, and the GMOD Consortium. Presented by Scott Cain at Genome Informatics 2010.
Abstract
The costs associated with DNA sequencing have decreased considerably and the number of organisms being sequenced has increased accordingly. Several organizations, including ParameciumDB, GnpAnnot, AphidBase, and BeeBase, have implemented methods for community annotation using tools from the Generic Model Organism Database (GMOD) project. Here we present an example system based entirely on GMOD tools for community annotation implemented in a VMware virtual machine that could, with little extra effort, be used directly for annotating a nascent genome. The tools include Chado (a genomics database schema), GBrowse 2 (a web based genome browser), Apollo (a genome annotation tool), MAKER (a genome annotation pipeline), and Tripal (a Drupal-based content management system).
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