Research Interests

Algorithms for Biological Sequence Alignment

Seeds and stuff

extension to RNA and protein alignment

PhyloNet and PhyLAT (aligning alignments / to alignments)

short read alignment

Hardware Accelerators for Computational Biology

I'm a principal of the High Performance Computational Biology Group at Washington University. The HPCB pages describe a lot of my work and my interests in accelerating comp bio applications.

Mercury BLAST

Fundamental research issues

Miscellany

Operon finding

I wrote Dapple, a program for image analysis of DNA microarrays.

You might have come here looking for my old tutorial page on cDNA microarrays and comparative hybridization.