Dr. Jianhua Ruan, Department of Computer Science, UTSA

Research Interests

Our research interests lie in the broad areas of bioinformatics and computational biology. We are interested in developing data-analytical methods and tools to make complex biological data more understandable and useful. We are also collaborating with biology labs in UTSA and UT Health Science Center - San Antonio to apply these methods to address theoretical and experimental questions in biology.

Specifically, we are currently developing algorithms in the following areas:

Research Support

Our research is supported by the following sources:

National Institutes of Health
National Institute of General Medical Sciences
"ARRA Award - Supplemental Funding: Computational Discovery and Analysis of Community Structures in Biological Networks"
$124,117, 2009/09/30-2011/08/31, PI

National Institutes of Health
National Institute of General Medical Sciences
"Computational Discovery and Analysis of Community Structures in Biological Networks"
$443,500, 2009/01/01-2012/12/31, PI

National Science Foundation
Division of Integrative Organismal Systems
"A combined biochemical, molecular and computational approach to understanding the regulation of gibberellin biosynthesis in Arabidopsis"
$150,000, 2009/09/01-2010/8/31, Co-PI
PI: Valerie Sponsel
National Institutes of Health - National Human Genome Research Institute
"Alternative splicing regulation in perspective: A global analysis of exon skipping"
$423,090, 2009/04/14-2011/02/28, Co-I
PI: Luiz Penalva

University of Texas at San Antonio
Faculty Research Award
"Graph-theoretical Approaches to Knowledge Discovery from Gene Expression Microarray Data"
$5,000, 2007-2008, PI

Representative publications

Complete listing

J. Ruan and W Zhang, Identifying network community structures with a high resolution, Physical Review E, 77:016104, 2008. link

J. Ruan and W. Zhang, A Bi-dimensional Regression Tree Approach to the Modeling of Gene Expression Regulation, Bioinformatics, 22(3):332-40, 2006. download

J. Ruan, G.D. Stormo and W. Zhang, An Iterated loop matching approach to the prediction of RNA secondary structures with pseudoknots, Bioinformatics, 20(1), 58-66, 2004. link

 

©2008 Jianhua Ruan