Prediction of Gene Ontology Annotations Based on Gene Functional Clustering

We propose an algorithm that predicts potentially missing Gene Ontology annotations, in order to speed up the time-consuming annotation curation process. The proposed method extends a previous work based on the singular value decomposition of the gene-term annotation matrix and incorporates gene clustering, based on gene functional similarity computed by means of the Gene Ontology annotations. We tested the prediction method by performing K-fold crossvalidation on the genomes of two organisms, Saccharomyces cerevisiae (SGD) and Drosophila melanogaster (FlyBase). Keywords-Annotation prediction; Singular Value Decomposition; gene similarity metrics

• Type: Journal
• Year: 2010
• Where: BIBE
• Authors: Marco Tagliasacchi, Roberto Sarati, Marco Masseroli
• Keywords: BIBE 2010, Bioinformatics, Gene Functional Similarity, Gene Ontology Annotations, Singular Value Decomposition