Inference of protein function and protein linkages in Mycobacterium tuberculosis based on prokaryotic genome organization: a combined computational approach

Michael Strong¹, Parag Mallick¹, Matteo Pellegrini², Michael J Thompson² and David Eisenberg¹

¹Howard Hughes Medical Institute, UCLA-DOE Institute for Genomics and Proteomics, Molecular Biology Institute, University of California, Los Angeles, Los Angeles, CA 90095-1570, USA

²Protein Pathways, 21111 Oxnard Street, Woodland Hills, CA 91367, USA

author email corresponding author email

Genome Biology 2003, 4:R59doi:10.1186/gb-2003-4-9-r59


Published:	29 August 2003

Subject areas: Genome studies, Bioinformatics, Methods, Microbiology and parasitology, Evolution

Abstract

The genome of Mycobacterium tuberculosis was analyzed using recently developed computational approaches to infer protein function and protein linkages. We evaluated and employed a method to infer genes likely to belong to the same operon, as judged by the nucleotide distance between genes in the same genomic orientation, and combined this method with those of the Rosetta Stone, Phylogenetic Profile and conserved Gene Neighbor computational methods for the inference of protein function.