Clustering protein sequences with a novel metric transformed from sequence similarity scores and sequence alignments with neural

Background: The sequencing of the human genome has enabled us to access a comprehensive list of genes (both experimental and predicted) for further analysis. While a majority of the approximately 30000 known and predicted human coding genes are characterized and have been assigned at least one function, there remains a fair number of genes (about 12000) for which no annotation has been made. The recent sequencing of other genomes has provided us with a huge amount of auxiliary sequence data which could help in the characterization of the human genes. Clustering these sequences into families is one of the first steps to perform comparative studies across several genomes. Results: Here we report a novel clustering algorithm (CLUGEN) that has been used to cluster sequences of experimentally verified and predicted proteins from all sequenced genomes using a novel distance metric which is a neural network score between a pair of protein sequences. This distance metric is based on the pairw...

• Type: Journal
• Year: 2005
• Where: BMCBI
• Authors: Qicheng Ma, Gung-Wei Chirn, Richard Cai, Joseph D. Szustakowski, N. R. Nirmala
• Keywords: BMCBI 2005, Genomes, Protein, Protein Sequences