Director & Professor, Biomedical Informatics Research Center, Laboratory for Pathogenesis of Clinical Drug Resistance and Persistence, San Diego State UniversityBiography
My work, has been focused on genetic and epigenetic basis for emergence of new phenotypes in Mycobacterium tuberculosis (M. tuberculosis). Within this realm, we have used a wide variety of approaches including long-read Whole Genome Sequencing (WGS), comparative genomics for genome-wide causal variant identification, metabolomic and regulatory network models, functional elucidation of genetic dark matter, genomic structural anomaly detection, phylogenomic analysis of bacterial species, identification of the role of epigenetic (methylome) variations in phenotypic changes, and machine learning for causal inference in genomics and epigenetics. During the past ten years, my laboratory has focused on applying these techniques to study clinical species of M. tuberculosis collected from various parts of the world (17 countries from far east, eastern Europe, and Africa) to better understand the causation and emergence of drug resistance, virulence, and persistence. Our work, for the past ten years, has been funded by NIAID.