Center for Plant Cell Biology


Thomas GirkeThomas Girke

Associate Professor of Bioinformatics

Mailing Address:

Botany and Plant Sciences
Genomics Building /1207F
University of California
Riverside, CA 92521

Phone: (951) 905-5232
Fax: (951) 827-4437
Email: thomas.girke@ucr.edu


PhD 1998 Universitat Hamburg

College/Division Affiliation:

College of Natural and Agricultural Sciences

Center/Inst Affiliation(s):

Center for Plant Cell Biology
Center for Research in Intelligent Systems (CRIS)

Areas Of Expertise:

Bioinformatics; Cheminformatics; Drug informatics; Databases; Expression Data Analysis, Protein Function Predictions; Data Mining; Network Analysis and Systems Biology

Awards / Honors:

2005  Non-Senate Distinguished Research-Instruction Award at UCR
2001  Best Plant Physiology Paper of the Year Award for Publication: Plant Phys, 124:1570

Research Summary:

The research in my group focuses on the development of novel tools and algorithms for comparative genomics, data mining, cellular network analysis, quanitative systems modeling and drug discovery. One of our major projects is the development of predictive cheminformatics tools for the discovery of novel bioactive compounds for chemical genomics research and drug discovery. The publicly available ChemMine database is part of this effort. 

Another research focus of my group is the integration and modeling of large-scale 'omics' data from model organisms, such as gene expression profiling data, proteomics and regulatory network data. For these analyses we develop and utilize a variety of comparative genomics, network analysis and machine learning approaches.

Finally, my group develops and maintains a variety of research databases that are part of our Systomics Network.

Related Press Releases:

UCR March 30, 2011: UC Riverside Researcher Receives $9 Million USDA Grant to Study Potato and Tomato Disease

UCR February 24, 2009: UCR Scientists Identify Stem-Cell Genes that Help Form Plant Organs

UCR June 30, 2008: New Supercomputer at UCR Greatly Speeds Up Research in Computational Biology

UCR September 26, 2005: UC Riverside Recognizes Excellence in Teaching, Research and Collaboration

Selected Publications:

List of publications from HubMed

Lab Personnel:

Backman, Tyler
Programmer Analyst —   Cheminformatics and Drug Discovery
Sun, Ruobai (Rebecca)
Programmer Analyst —   Cheminformatics and Drug Discovery
Wang, Lei
Programmer —
Levchuk, Alex
Database and Linux Systems Administrator —
Cao, Yiqun (Eddie)
Graduate Student Researcher —  Algorithm, Cheminformatics and Bioinformatics
Horan, Kevin
Graduate Student Researcher—  Artificial Intelligence
Wang, Yan
Graduate Student Researcher —

More Information

General Campus Information

University of California, Riverside
900 University Ave.
Riverside, CA 92521
Tel: (951) 827-1012

Career OpportunitiesUCR Libraries
Campus StatusDirections to UCR

Center Information

Center for Plant Cell Biology
Botany & Plant Sciences Department
2150 Batchelor Hall

Tel: (951) 827-7177
Fax: (951) 827-5155
E-mail: genomics@ucr.edu