Associate Professor of Computational Biology and Bioinformatics
Associate Professor, Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute
Affiliated Faculty Member, Harvard Stem Cell Institute
We develop computational biology methodologies for genomic data analysis and integration, with the aim to understand systems-level gene regulatory mechanisms. Since virtually all the cells in a living organism share the same genome, epigenetic information provides an essential role in regulating cell-type specific gene regulation. Our long-term goal is to systematically investigate the structure and dynamics the gene regulatory network and its role in maintenance of cell-type specificity. To this end, we have developed integrated approaches to identify the chromatin state organization, to determine the targeting mechanism for epigenetic factors, and to reconstruct the gene regulatory network from integration of multiple data-types. We have applied these approaches to stem cells and cancer biology. We actively participate in the ENCODE consortium. We collaborate closely with a number of basic scientists and clinical physicians at Harvard and affiliated hospitals.
Current projects include: (1) Developing methods for gene regulatory network inference by integrating genomic and epigenomic data; (2) Developing methods for characterizing the combinatorial chromatin state from ChIPseq data; (3) Developing methods for single-cell gene expression data analysis; (4) Developing methods for interrogating the connection between genomic and epigenomic variations; (5) Using systems biology approaches to characterize the gene regulatory networks underlying stem cell maintenance and cell-fate transition; (6) Using systems biology approach to characterize the biological functions of genetic variants associated with cancer and lung diseases. We collaborate closely with both basic biologists and clinicians in Harvard Medical School.
Ph.D., 1999, Mathematics, University of Maryland at College Park