Skip to main content


60% Biological Sciences, 40% Computer Science

HOCK 229

Associated website(s):

Web page in the Dept. of Computer Science , Kihara Lab , PULSe - Interdisciplinary Life Science , Publications



(Bioinformatics, computational biology) protein tertiary structure prediction/comparison, protein-protein docking, protein-ligand docking, protein function prediction, protein sequence analysis, metabolic/regulatory pathway analysis.


Our research area is bioinformatics; 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 210 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.


Ph.D., Kyoto University (Japan)

BS., The University of Tokyo (Japan)

Other Activities


American Institute for Medical and Biological Engineering (AIMBE) Fellow, 2021

Grant Reviews

• National Institutes of Health (NIH) ZRG1 F04B-T (Nov. 2020)
• NIH ZDA1 (Feb. 2020)
• NIH MSFD (Feb. 2020)
• NIH BDMA (Feb 2015, Feb 2017)
• NIH T32 Training Programs (Oct. 2018, Oct 2019)
• NIH P41 Research Resource (Feb. 2018)
• NIH Independence award (Dec. 2017)
• NIH, ZRG1, STTR/SBIR (June 2012, October 2012, March 2014, March 2015, November 2015, March 2016, March 2017)
• NIH, Challenge Grant, RC1 (June 2009)
• National Science Foundation (NSF), BIOL, Emerging Frontiers (May 2021)
• NSF, IIS panel (March 2021)
• NSF, IIBR panel (October 2020)
• NSF, Division of Biological Infrastructure (DBI) (September 2006, October 2009, January 2015)
• NSF, Molecular Cellular Biosciences (MCB) (February 2009, September 2009, March 2011, April 2011, November 2011, February 2017)
• NSF, Chemistry (March 2007, September 2007, February, 2008)
• NSF, Mathematical Sciences (December 2017)
• Department of Energy (DOE) (September 2021)
• Louisiana Board of Regents’ Research Competitiveness Subprogram, EPSCoR-style grants program (November, 2009, 2011, 2012, 2013)
• DTI COVID-19 (May 2020)

EU: European Research Council (September 2016)
UK: The Royal Society (October 2019), Biotechnology and Biological Science Research Council (BBSRC) (July 2012, July 2017, July 2018, May 2019, April 2021), Medical Research Council (MRC) (November 2016), The Wellcome Trust (September 2011)
Germany: German Research Foundation (March 2021)
France: French National Research Agency (March 2012; May 2019), AFM-TELETHON Scientific Council (January 2017)
Belgium: Fonds de la Recherche Scientifique, FNRS (Sept. 2021)
Czech: Czech Science Foundation (July 2020)
Switzerland: Swiss National Science Foundation (June 2019)
Poland: Foundation for Polish Science (September 2018), Polish National Science Centre (August 2011, April 2017, December 2017, June 2021)
Luxembourg: National Research Fund (FNR) (August 2010)
Netherlands: Netherlands Organization for Scientific Research (March, 2006)
Israel: Israeli Ministry of Science, Technology and Space (June 2017), US-Israel Binational Science Foundation (January 2018), Israel Science Foundation (March 2021)
United Arab Emirates (UAE University) (May 2021)
Qatar: Qatar National Research Fund (2012, 2014, 2015)
Singapore: Agency of Science, Research & Technology (A*STAR) (2010, 2011)
Saudi Arabia: KAUST Competitive Research Funding program (August 2020)

External Review

MRC Laboratory of Molecular Biology (LMB), University of Cambridge (December 2020)

Conference Program Committee

(out of 104 total, listing for 2021)
Program Committee

• International Symposium on Network Enabled Health Informatics,  Biomedicine and Bioinformatics, HI-BI-BI 2021, Hague, Netherlands, November 8-12, 2021
• Research in Computational Molecular Biology (RECOMB) 2022, UC San Diego, May 22-25, 2022
• Informatics In Biology, Medicine and Pharmacology (IIBMP) 2021, Tokyo Japan (online), September 27-29, 2021
• The 12th International Conference on Computational Systems-Biology and Bioinformatics (CSBio 2021), Virtual Conference, October 14-15, 2021
• Organization committee, Workshop in Mathematical and Computational Biology (WMCB2021), Purdue Fort Wayne, June 10-11, 2021
• 12th International Workshop on Biological Knowledge Discovery and Data Mining (BIOKDD2021), Linz, Austria September 27-30, 2021
• Steering Committee, Great Lakes Bioinformatics Conference (GLBIO) 2021 Virtual Conference, May 10-13, 2021
• Annual International Conference on Intelligent Systems for Molecular Biology (2021 ISMB/ECCB), online conference, July 25-29, 2021
• HiCOMB 2021 20th IEEE International Workshop on High Performance Computational Biology, Portland, Oregon, May 17, 2021
• Research in Computational Molecular Biology (RECOMB) 2021, Padova, Italy, Aug.29-Sep.1, 2021

Purdue University Biological Sciences, 915 Mitch Daniels Boulevard, West Lafayette, IN 47907

Main Office: (765) 494-4408   Business Office: (765) 494-4764  Contact Us

© 2024 Purdue University | An equal access/equal opportunity university | Copyright Complaints

Trouble with this page? Disability-related accessibility issue? Please contact the College of Science Webmaster.

Maintained by Science IT