Yufeng Wu

Assistant Professor
Computer Science and Engineering Department
University of Connecticut
371 Fairfield Road, Unit. 2155
Storrs, CT 06269, U.S.A.

Phone: +1 (860) 486-2234
Email: ywu (AT) engr.uconn.edu

PhD, University of California, Davis, 2007.

I am an assistant professor at Computer Science and Engineering Department, University of Connecticut. My research is on Algorithms in Computational Biology and Bioinformatics. I received my PhD in Computer Science from UC Davis under Dan Gusfield in June 2007.

Notice: I am looking for motivated graduate students to work with me on problems in Computational Biology. I prefer students who have background in algorirthms and also know some programming, and are interested in solving computational problems in biology. Feel free to contact me if you are interested.

Research Interests

I am broadly interested in solving computational problems in Computational Biology and Bioinformatics using combinatorial or probabilistic approaches. Currently, my research is focused on computational problems in population genomics, including:

Association mapping of complex diseases
Inferring genealogical networks from population-scale variation data

Courses

CSE 230: Introduction to Softtware Engineering, Spring 2008 [HuskyCT access]. Here is a copy of the Syllabus. Here is a list of selected course project.
CSE 300: Algorithms in Bioinformatics, Fall 2007.

Publications [Link]

Software

TMARG                 Software accompaniment for my RECOMB 2007 paper.

Recblock              Software accompaniment for our CPM 2007 paper.

GRMin                   GRMin is accompaniment for our CSB 2006 paper. GRMin computes lower bound on minimum recombination on genotypes (rather than haplotypes), while HapBound only allows haplotype input. Moreover, GRMin also provides functionality of computing the exact minimum recombination for a window of data and detecting recombination hotspots. (Available upon request.)

HapBound I wrote HapBound as accompaniment to our ISMB 2005 paper. To the best of knowledge, this is the currently best program computing lower bound on minimum number of recombinations for population-scale haplotype data.

HapBound-GC I wrote this extension of HapBound as accompaniment to our RECOMB 2006 paper. This program is the first program computing lower bound allowing gene conversions in addition to recombinations for haplotype data.