MCB100147, Genome Informatics for Animals and Plants

Abstract

Renewal of this XSEDE Genome Informatics for Animals and Plants project will facilitate the accurate discovery and reconstruction of animal and plant genes, in current and future genomics collaborations, including those by this author and those independently undertaken. Precision genomics is essential in medicine, environmental health, sustainable agriculture, and biological research. Yet popular genome informatics methods lag behind the high levels of accuracy and completeness in gene construction that are attainable with current RNA-seq data. EvidentialGene is a genome informatics pipeline for gene construction that has a measurably high accuracy and completeness rate, for insects, ticks and crustaceans to crop plants and trees, to fishes and other vertebrates. It uses big data from gene sequencers, generating bigger gene sets than alternate methods, then efficiently reduces those into accurate species gene sets using biological criteria of protein codes and orthology.