Founder Professor of Engineering
Professor of the Departments of Computer Science and Bioengineering
Institute for Genomic Biology, Biocomplexity Theme
Affiliate in the departments of Mathematics, Statistics, Animal
Biology, and Entomology
PhD (Mathematics) University of California at Berkeley, 1991
B.S. (Mathematics) University of California at Berkeley, 1984
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
skills, mathematical intuition, and interest in collaboration
If you are already a graduate student at UIUC, please contact me
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.
Current Research and NSF Funding:
My research in
funded by three grants from
the National Science Foundation.
Multiple sequence alignment,
funded by NSF grant ABI-1458652,
beginning August 2015.
This project will develop
new methods for multiple sequence alignment,
building on our SATé, PASTA, and UPP methods.
funded by NSF grant III:AF:1513629.
is a collaborative
grant with the University of
Maryland, for new methods for metagenomic dataset analysis,
building on our TIPP method for
taxon identification of reads in a metagenomic sample.
Graph-Theoretic Algorithms to Improve
funded by NSF grant CCF-1535977.
I am the overall PI, and this
project is collaborative with
Satish Rao (UC Berkeley PI) and Chandra Chekuri (UIUC).
developing new theoretical computer
science and discrete algorithms for
improving the estimation
of large species and gene trees, and specifically enabling
statistical methods to scale to ultra-large datasets.
"Plus de détails, plus de détails, disait-il à son
n'y a d'originalité et de vérité que dans les
-- Stendhal, Lucien Leuwen (a quote much loved by my stepfather,
J. Klein, and an essential guide for all scholarship).
for Google Scholar Citations
(i10-index 122 and h-index 52).