Towards validating the hypothesis of phylogenetic profiling

Background: As the number of fully sequenced genome increases, the need is greater for bioinformatics to predict or annotate genes of a newly sequenced genome. Ever since Eisenberg and his colleagues introduced phylogenetic profiling for assigning or predicting protein functions using comparative genomic analysis, the approach has been used in predicting function of some prokaryotic genomes quite successfully. Very little work has been reported in functional prediction of eukaryotes such as mouse and Homo sapiens species from phylogenetic profiles. Results: We have proposed a general methodology for validating the hypothesis underlying phylogenetic profiling techniques, and have demonstrated it using eukaryotic target genomes such as Homo sapiens and mouse. The gene ontology is used as the gold standard for validating functional similarity among the genes in each cluster. We compute the functional cohesiveness of each cluster and the results appeared to be not encouraging towards find...

• Type: Journal
• Year: 2007
• Where: BMCBI
• Authors: Raja Loganantharaj, Mazen Atwi
• Keywords: BMCBI 2007, Genomes, Phylogenetic Profiles, Phylogenetic Profiling Techniques