My research goal is to further the understanding of transcriptional regulation, especially the identification and characterization of chromatin modifications that lead to modifications and transitions of gene activation, repression, and epigenetic inheritance.   My specific interests include statistical and bioinformatic analysis of multi-omics data (involving ChIP-, DNase-, ATAC-, and RNA- seq) and their interpretation.  These efforts will provide novel methods for elucidation of mechanisms underlying epigenetic regulation of gene expression in cancer and also will help to improve integration of clinical data involving cancer from patient samples.

Recently, I have developed a highly sophisticated algorithm for identifying short genomic regions (footprints) which enable analysis of transcriptional activities at the nucleotide resolution.  The algorithm has been implemented in Dnase2TF, a public domain software platform used by many biology groups for high-throughput analysis of digital genomic footprinting.   I collaborate widely at NIH and with the extramural scientific community and have several publications with groups at the University of Southern Denmark, the University of Washington, The Pennsylvania State University, the University of Bristol, etc.