Research article
Discovering functional linkages and uncharacterized cellular pathways using phylogenetic profile comparisons: a comprehensive assessment
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* Corresponding authors: Raja Jothi jothi@ncbi.nlm.nih.gov - Teresa M Przytycka przytyck@ncbi.nlm.nih.gov
National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA
BMC Bioinformatics 2007, 8:173 doi:10.1186/1471-2105-8-173
Published: 23 May 2007Additional files
Additional file 1:
Set of 155 bacterial-specific E. coli proteins. Phylogenetic profiles of 155 E. coli proteins, none of which had a homolog in any of the archaeal and eukaryotic genomes (e-value > 1e-2) used in this study. Red and blue colors indicate the presence (lower values in the profile) or absence (higher values in the profile) of a homolog, respectively. For example BLAST e-values 1e-10, 1e-5, 1e-3, 1e-2 and 1e-1 are represented as 0.03, 0.06, 0.10, 0.15, and 0.30, respectively, in profiles (see Materials and Methods).
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