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Travis Wheeler

I'm a doctoral candidate in the computer science department at the University of Arizona. My advisors are John Kececioglu and Mike Sanderson.

I spend most of my academic time designing and implementing algorithms for problems motivated by data from molecular biology. Most of that time relates to multiple sequence alignment (see released software, Opal, AlignAlign, and a Mesquite Package ) and phylogeny inference. I'm also interested in motif finding (specifically related to gene regulation).

Curriculum Vitae: (pdf) (MS Word)

Good, J.M., Hayden, C.A., and Wheeler T.J. 2006. Adaptive protein evolution and regulatory divergence in Drosophila. Molecular Biology and Evolution, 23(6): 1101-1103. [link]

Hayden, C.A., Wheeler, T.J., and Jorgensen R.A. 2005. Evaluating and improving cDNA sequence quality with cQC. Bioinformatics, 21(24): 4414-4415. [link]

Cutter, A.D, Good, J.M., Pappas, C.T., Saunders, M.A., Starrett, D.M., Wheeler T.J. 2005. Transposable element orientation bias in the Drosophila melanogaster genome. Journal of Molecular Evolution, 61(6): 733-741. [link]

Maddison, D.R., Wheeler, T.J., and Maddison, W.P. 2006. Align: a Mesquite package for aligning sequence data. http://mesquiteproject.org

Starrett, D.M., Wheeler, T.J., and Kececioglu, J.D. 2005. AlignAlign: software for optimally aligning alignments. http://alignalign.cs.arizona.edu

Hayden, C.A. and Wheeler, T.J. 2005. cQC - cDNA Quality Control: A tool for resolving putative sequencing errors in single-pass cDNA, based on genomic sequence. Version 1.0. http://genomics.arizona.edu/software/cQC/

Contact info
Call me at 520-907-1181,
or send e-mail to:

Wheeler, Travis
University of Arizona
Department of Computer Science
Gould-Simpson Building, Room 931
Tucson, AZ, 85721
USA