Professor, Department of Medicine; Professor, Department of Human Genetics; Senior Fellow, Computation Institute; Senior Fellow, Institute for Genomics and Systems Biology, University of Chicago
My research is focused on computational analysis of complex human phenotypes in context of changes and perturbations of underlying molecular networks. The input data for these studies is supplied by large-scale mining of free text, computation over clinical records, and high-throughput systems biology experiments.
My main interest is in gaining an (asymptotic) understanding how phenotypes, such as human healthy diversity and maladies, are implemented at the level of genes and networks of interacting molecules.
To harvest as much information about known molecular interactions as possible, my group runs a large-scale text-mining effort aiming at analysis of a vast corpus of biomedical publications. Currently we can extract from text automatically about 500 distinct flavors of relations among biomedical entities (such as bind, activate, merystilate, and transport).
To sharpen our text-mining axes, we are actively designing related models and computational applications. Furthermore, in cooperation with our experimentally talented colleagues, we are striving to use text-mined networks to understand, interpret and refine high- or low-throughput experimental data. We are also computationally generating biological hypotheses that our generous collaborators are attempting to test experimentally.
My older passion is in developing and applying computational methods related to phylogenetics and evolutionary biology.