Automated Eukaryotic Gene Structure Annotation Using EVidenceModeler and the Program to Assemble Spliced Alignments

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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.

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PDF-file: 45 pages; size: 0.1 Mbytes

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Haas, B J; Salzberg, S L; Zhu, W; Pertea, M; Allen, J E; Orvis, J et al. December 10, 2007.

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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.

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PDF-file: 45 pages; size: 0.1 Mbytes

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  • Journal Name: Genome Biology, n/a, no. 9, January 11, 2008, r7; Journal Volume: 9; Journal Issue: 1

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  • Report No.: UCRL-JRNL-237232
  • Grant Number: W-7405-ENG-48
  • Office of Scientific & Technical Information Report Number: 941402
  • Archival Resource Key: ark:/67531/metadc893845

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  • December 10, 2007

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  • Sept. 27, 2016, 1:39 a.m.

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  • Dec. 6, 2016, 7:07 p.m.

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Haas, B J; Salzberg, S L; Zhu, W; Pertea, M; Allen, J E; Orvis, J et al. Automated Eukaryotic Gene Structure Annotation Using EVidenceModeler and the Program to Assemble Spliced Alignments, article, December 10, 2007; Livermore, California. (digital.library.unt.edu/ark:/67531/metadc893845/: accessed September 25, 2017), University of North Texas Libraries, Digital Library, digital.library.unt.edu; crediting UNT Libraries Government Documents Department.