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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*

Author Affiliations

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

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

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Genome Biology 2003, 4:R59  doi:10.1186/gb-2003-4-9-r59

Published: 29 August 2003


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.