Abstract
We present a simple method to obtain groups of homologous genes across multiple (k) organisms, called kGC. It takes all-against-all BLASTP comparisons as input and produces groups of homologous sequences as output. The algorithm is based on the identification of maximal cliques in graphs of sequences and paralogous groups. We have used our method on six Actinobacterial complete genomes and investigated the Pfam classification of the homologous groups with respect to the results produced by OrthoMCL. Although kGC is simpler, it presented similar results with respect to Pfam classification in reasonable time.
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Telles, G.P., Almeida, N.F., Brigido, M.M., Alvarez, P.A., Walter, M.E. (2011). kGC: Finding Groups of Homologous Genes across Multiple Genomes. In: Norberto de Souza, O., Telles, G.P., Palakal, M. (eds) Advances in Bioinformatics and Computational Biology. BSB 2011. Lecture Notes in Computer Science(), vol 6832. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-22825-4_12
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DOI: https://doi.org/10.1007/978-3-642-22825-4_12
Publisher Name: Springer, Berlin, Heidelberg
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