Founder Professor of Computer Science
Fellow of the ISCB (International Society for Computational Biology), 2017
Fellow of the ACM (Association for Computing Machinery), 2015: For contributions to mathematical theory, algorithms, and software for large-scale molecular phylogenetics and historical linguistics
My research combines
mathematics, computer science,
statistics, in order to develop
algorithms with improved accuracy for
large-scale and complex estimation problems in
phylogenomics (genome-scale phylogeny estimation),
multiple sequence alignment,
I am a big fan of
Blue Waters, and have benefitted from two allocations.
Click here for the 2017 annual report for my Blue Waters allocation
on algorithms for big data phylogenomics, proteomics, and metagenomics.
Click here or
for more about my research and the students I work with,
and here for a brief biosketch.
Computational Phylogenetics: An introduction to designing methods for phylogeny estimation, published by Cambridge University Press (and available for purchase at Amazon and as an E-book at Google Play). Errata are posted as I find them. The image of the Monterey Cypress is there because of the NSF-funded CIPRES project, whose purpose was to develop the methods and computational infrastructure to improve large-scale phylogeny estimation. Why I wrote this book.
I dedicated the book to
my PhD advisor
who died in 1994; see
(published in the Journal of Computational Biology,
10 Jun 2009)
that I co-authored
with Dan Gusfield, David Shmoys, and Jan Karel Lenstra
Research Positions Available: I have openings in my group for graduate students (PhD or MS) to work on developing computational methods for large-scale multiple sequence alignment, phylogeny estimation, metagenomics, and even historical linguistics. Strong programming skills, mathematical intuition, and interest in collaboration are necessary. If you are already a graduate student at UIUC, please contact me directly. If you are interested in applying to UIUC for graduate school and would like to work with me, please read this first and then contact me. Unfortunately, I do not have any funding available for postdoctoral researchers. However, if you have your own source of funds and have published papers directly related to my research, I'll be glad to talk with you about working together. (If you are an undergraduate, please see this page.)
A day in the life of an SRO at NIH (not by me)
"Plus de détails, plus de détails, disait-il à son fils, il n'y a d'originalité et de vérité que dans les détails..." -- Stendhal, Lucien Leuwen (a quote much loved by my stepfather, Martin J. Klein, and an essential guide for all scholarship).
Click here for Google Scholar Citations (i10-index 145 and h-index 60).