Thomas Girke

Thomas Girke
Director, Bioinformatics Facilities;
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


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.

Selected Publications:

List of publications from HubMed

Lab Personnel: +

Cao, Yiqun (Eddie)
Graduate Student Researcher — Cheminformatics and Drug Discovery
Charisi, Anna
Graduate Student Researcher — Cheminformatics and Drug Discovery
Horan, Kevin
Graduate Student Researcher — Artificial Intelligence