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Genome Biol. 2008 Jan 11;9(1):R7. doi: 10.1186/gb-2008-9-1-r7.

Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments.

Author information

  • 1J Craig Venter Institute, The Institute for Genomic Research, Rockville, Maryland 20850, USA. bhaas@broad.mit.edu

Abstract

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.

PMID:
18190707
[PubMed - indexed for MEDLINE]
PMCID:
PMC2395244
Free PMC Article

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