Using native and syntenically mapped cDNA alignments to improve de novo gene finding

MOTIVATION: Computational annotation of protein coding genes in genomic DNA is a widely used and essential tool for analyzing newly sequenced genomes. However, current methods suffer from inaccuracy and do poorly with certain types of genes. Including additional sources of evidence of the existence and structure of genes can improve the quality of gene predictions. For many eukaryotic genomes, expressed sequence tags (ESTs) are available as evidence for genes. Related genomes that have been sequenced, annotated, and aligned to the target genome provide evidence of existence and structure of genes. RESULTS: We incorporate several different evidence sources into the gene finder AUGUSTUS. The sources of evidence…

• DA
  Deutscher Akademischer Austauschdienst
• BF
  Bundesministerium für Bildung und Forschung

  Award: 01AK803G
• NI
  National Institutes of Health

  Award: NO1-CO-12400
• NC
  National Cancer Institute

  Award: NO1-CO-12400