TY - JOUR AU - Haas, Brian J. AU - Salzberg, Steven L. AU - Zhu, Wei AU - Pertea, Mihaela AU - Allen, Jonathan E. AU - Orvis, Joshua AU - White, Owen AU - Buell, C. Robin AU - Wortman, Jennifer R. PY - 2008 DA - 2008/01/11 TI - Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments JO - Genome Biology SP - R7 VL - 9 IS - 1 AB - 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. SN - 1474-760X UR - https://doi.org/10.1186/gb-2008-9-1-r7 DO - 10.1186/gb-2008-9-1-r7 ID - Haas2008 ER -