Computational Biology Research Center[CBRC]

Research Topics

■Pair-wise and multiple alignment of protein and genomic sequences
■Fast genome mapping and spliced alignment of transcripts for discovery and structural prediction of eukaryotic genes
■Analysis of function, structure, sequence, and evolution (FESS) relationships of cytochrome P450 gene superfamily

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Team Member

Osamu Gotoh

Invited Senior Research Scientist E-mail

website

Key Words

sequence analysis, sequence alignment, gene finding, comparative genomics, gene evolution, cytochrome P450

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Mariko Morita

AIST
Research Staff

website

E-mail

Key Words

gene finding, drug metabolism, cytochrome P450

Papers List

• ■Gotoh, O. (1992) Substrate recognition sites in cytochrome P450 family 2 (CYP2) proteins inferred from comparative analyses of amino acid and coding nucleotide sequences. J. Biol. Chem. 267, pp.83-90.
• ■Gotoh, O. (1996) Significant improvement in accuracy of multiple protein sequence alignments by iterative refinement as assessed by reference to structural alignments. J. Mol. Biol. 264, pp.823-838.
• ■Nakato, R. and Gotoh, O. (2010) Cgaln: fast and space-efficient whole-genome alignment. BMC Bioinformatics, 11, 224.
• ■Ichinose, N., Yada, T., Gotoh, O. (2012) A large-scale motif discovery using a DNA Gray code and equiprobable oligomers, Bioinformatics, 28, pp.25-31.
• ■Iwata, H. and Gotoh, O. (2012) Benchmarking spliced alignment programs including an extended version of spaln (spaln2) that incorporates additional species-specific features, Nucleic Acid Res., in press.