Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments
Haas, Brian U.
Salzberg, Steven L.
Allen, Jonathan E.
Buell, C Robin
Wortman, Jennifer R
Automated eukaryotic gene structure annotation using EVidenceModeler. B.J. Haas, S.L. Salzberg, et al. Genome Biology 2008, 9:R7.
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EVidenceModeler (EVM) is presented as an automated eukaryotic gene structure annotation tool that reports eukaryotic gene structures as a weighted consensus of all available evidence. EVM, when combined with the Program to Assemble Spliced Alignments (PASA), yields a comprehensive, configurable annotation system that predicts protein-coding genes and alternatively spliced isoforms. Our experiments on both rice and human genome sequences demonstrate that EVM produces automated gene structure annotation approaching the quality of manual curation.