Development And Application Of Bioinformatics Method And Tool At Genome Level (from ReAS To WEGO)

With the development of biology technology, bioinformatcs tools play more and more important roles in the biology data mining, especially in the analysis of genome data. Here, I report the development and application of two bioinformatics tools, WEGO (web gene ontology annotation plot) and ReAS (recovery of ancestral sequences for transposable elements from the unassembled reads of a whole genome shotgun).Unified, structured vocabularies and classifications freely provided by the Gene Ontology (GO) Consortium are widely accepted in most of the large scale gene annotation projects. Three ontologies (molecular function, biological process and cellular component) were developed to represent common and basic biological information in annotation. Not only the original organizations SGD (Saccharomyces Genome Database), FlyBase and MGD (Mouse Genome Database), but also some additional model organism database groups are involved in the project, including TAIR (The Arabidopsis Information Resource), WormBase, RGD (Rat Genome Database), TIGR etc. . Consequently, many tools have been created for use with the GO ontologies. WEGO (Web Gene Ontology Annotation Plot) is a simple but useful tool for visualizing, comparing and plotting Gene Ontology annotation results. Different from other commercial software for creating chart, WEGO is designed to deal with the directed acyclic graph (DAG) structure of GO to facilitate histogram...