Interdisciplinary Life Science - PULSe Great research is a matter of choice

Daisuke Kihara

Daisuke Kihara Profile Picture

Associate Professor of Biological Sciences/Computer Science
Ph.D., Kyoto University (1999)

Contact Info:

Training Group(s):
Computational and Systems Biology
Biomolecular Structure and Biophysics

Current Research Interests:

Bioinformatics is beginning to have a large impact on the field of biology now that more and more structure, sequence, gene expression data, and pathway data have become available in the past decade. These large data enable us to employ comprehensive analysis of protein sequences/structures, genomes, and pathways. Our enthusiasm for scientific research comes from a desire to have a global view of protein folding; the relationship between protein function, sequence, and structure; and evolution of protein families, pathways, and organisms. Now complete genome sequences of more than few hundred organisms are available in public databases. Using these genome data, we can directly investigate evolution of organisms/protein families, gene transfer, or mechanism of coding principle of pathways in a genome. Linking protein tertiary structure information which comes from both experimental data and prediction will add another important aspect in our understanding. Therefore, in practical terms our main research interest is to develop computational methods to predict and analyze protein structure/function, pathway structure and their applications in genome-scale, or pathway/network scale. Ultimately, the purpose of the research is to aid drug design and pathway engineering.

Selected Publications:

ESG: Extended similarity group method for automated protein function prediction. Meghana Chitale, Troy Hawkins, Changsoon Park & Daisuke Kihara, Bioinformatics, 25: 1739-1745. (2009)

PFP: Automated prediction of gene ontology function annotations with confidence scores. Troy Hawkins, Meghana Chitale, Stan Luban & Daisuke KiharaProteins: Structure, Function, and Bioinformatics, 74: 566-582, (2009).

Rapid comparison of properties on protein surface. Lee Sael, David La, Bin Li, Raif Rustamov, & Daisuke Kihara. Proteins: Structure, Function, and Bioinformatics, 73: 1-10, (2008).

Fast protein tertiary structure retrieval based on global surface shape similarity. Lee Sael, Bin Li, David La, Yi Fang, Karthik Ramani, Raif Rustamov & Daisuke Kihara. Proteins: Structure, Function, and Bioinformatics, 72: 1259-1273. (2008).

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