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Probabilistic approaches to multiple alignment, phylogeny, and sequence analysis; information processing in biological systems; evolution; metagenomics.

• Yooseph S, Sutton G, Rusch DB, Halpern AL, Williamson SJ, et al. The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families. PLoS Biology Vol. 5, No. 3, e16 doi:10.1371/journal.pbio.0050016
• Lareau LF, Brooks AN, Soergel DAW, Meng Q, Brenner SE. (2007). The coupling of alternative splicing and nonsense-mediated mRNA decay. In Blencowe B and Graveley B, ed., Alternative splicing in the post-genomic era, Landes Bioscience.