GOChase-II: correcting semantic inconsistencies from Gene Ontology-based annotations for gene products.

ABSTRACT:

Background

The Gene Ontology (GO) provides a controlled vocabulary for describing genes and gene products. In spite of the undoubted importance of GO, several drawbacks associated with GO and GO-based annotations have been introduced. We identified three types of semantic inconsistencies in GO-based annotations; semantically redundant, biological-domain inconsistent and taxonomy inconsistent annotations.

Methods

To determine the semantic inconsistencies in GO annotation, we used the hierarchical structure of GO graph and tree structure of NCBI taxonomy. Twenty seven biological databases were collected for finding semantic inconsistent annotation.

Results

The distributions and possible causes of the semantic inconsistencies were investigated using twenty seven biologic

SUBMITTER: Park YR 

PROVIDER: S-EPMC3044297 | biostudies-literature | 2011 Feb

REPOSITORIES: biostudies-literature