Trey Ideker, Ph.D.

Trey Ideker, PhD
Professor of Medicine 
Adjunct Professor of Bioengineering & Computer Science 
UC San Diego

Director, Cancer Cell Map Initiative 
Director, National Resource for Network Biology
Director, San Diego Center for Systems Biology

B.S. in Electrical Engineering and Computer Science, M.I.T. 1994
M.Eng. in Electrical Engineering and Computer Science, M.I.T. 1995
Ph.D. in Molecular Biotechnology, University of Washington 2001


About Dr. Trey Ideker

Trey Ideker, Ph.D. is a Professor in the Departments of Medicine, Bioengineering and Computer Science at UC San Diego, and Director or co-Director of three NIH-supported research centers: the NCI Cancer Cell Map Initiative, the NIGMS San Diego Center for Systems Biology, and the NIGMS National Resource for Network Biology. Dr. Ideker received Bachelor’s and Master’s degrees from MIT in Electrical Engineering and Computer Science and his Ph.D. from the University of Washington in Molecular Biology under the supervision of Dr. Leroy Hood.

Dr. Ideker’s research is led by the vision that given the right experimentation and analysis, it will be possible to automatically assemble maps of pathways just as we now assemble maps of genomes. During graduate work, he developed a general iterative framework for how biological systems can be systematically perturbed, interrogated and modeled. This framework laid the foundation for many studies in the discipline of Systems Biology. He demonstrated that biological networks could be integrated with gene expression to systematically map pathways and aligned, like sequences, to reveal conserved and divergent functions. He showed that the best biomarkers of disease are typically not single proteins but aggregates of proteins in networks. 

Dr. Ideker has founded influential bioinformatic tools including Cytoscape, a popular network analysis platform which has been cited >12,000 times. Ideker serves on the Editorial Boards for Cell, Cell Reports, Nature Scientific Data, EMBO Molecular Systems Biology, and PLoS Computational Biology and is a Fellow of AAAS and AIMBE. 

He was named one of the Top 10 Innovators of 2006 by Technology Review magazine and was the recipient of the 2009 Overton Prize from the International Society for Computational Biology. His work has been featured in news outlets such as The Scientist, San Diego Union-Tribune, Forbes magazine, NPR, and The New York Times.

About the Ideker Lab

The long-term objective of the Ideker Laboratory is to create artificially intelligent models of cancer and other diseases for translation of patient data to precision diagnosis and treatment. We seek to advance this goal by addressing fundamental questions in systems biology and bioinformatics, including: What are the genetic and molecular networks that promote cancer, and how can we best chart these? How do we use knowledge of these networks in intelligent systems for translation of genotype to phenotype?