I have a broad interest in quantitative analyses of biological systems at the molecular level.
Much of my work is to understand the principles that govern the transcriptional regulatory circuits that control animal development. I co-ordinate a large interdisciplinary collaboration that is developing methods to decode these networks: the Berkeley Drosophila Transcription Network Project (BDTNP). We are currently developing and experimentally testing computational models that explain the patterns of DNA binding and function of transcription factors in developing embryos. For more information see: http://bdtnp.lbl.gov/Fly-Net/.
A second area is to determine the range of other proteins that each protein interacts with in a cell. To address this question, I work with several groups to develop rigorous experimental and mathematical methods that can identify protein – protein interactions system wide more accurately than previously possible.
A third area is to understand the relative contributions of transcriptional vs post transcriptional control in eukaryotes. Here I work closely with statisticians to integrate various system wide data types in a way that minimizes the impact of measurement error. A recent Perspective summarizes ours and recent other studies: http://www.sciencemag.org/content/347/6226/1066.full.