Our research focuses on tumor phylogenetics in the context of intra-tumor heterogeneity. We develop phylogeny inference algorithms to study the progression of a tumor from its initial stage, where a healthy cell acquires its first somatic mutation, to the final stages, where tumor cells metastasize and invade and colonize distant organs and tissues. In addition, we develop algorithms to reconstruct patterns of spread in disease outbreaks. More broadly, we are interested in the application of combinatorial optimization techniques to answers questions and solve problems in biology.
Apr 9, 2019: Congratulations to Aini and Yuanyuan for our accepted paper at ISMB/ECCB 2019! Sneak peek at RECOMB CCB.
Mar 21, 2019: I presented some of our work at CISS 2019.
Oct 14, 2018: I presented our work on non-uniqueness of solutions in phylogeny inference from mixed samples at RECOMB-CG 2018. Paper is available online.
Sep 14, 2018: I presented SPhyR at ECCB 2018, which is a method for tumor phylogeny estimation from single-cell DNA sequencing data using Dollo parsimony. Paper is out on Bioinformatics.
Aug 20, 2018: I presented our theoretical work on the Parsimonious Migration History problem at WABI.
Aug 9, 2018: Our paper on the hardness of the Parsimonious Migration History problem is available online.
Jul 19, 2018: I attended the AI in Medicine workshop at the Mayo Clinic in Rochester, MN (link for slides and poster).