Keith A. Baggerly, Ph.D.
1995, Rice University
UT M. D. Anderson Cancer Center
Bioinformatics and Computational Biology
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Keith A. Baggerly, Ph.D. 1995, Rice University UT M. D. Anderson Cancer Center |
Research Interests: Proteomics (mass spectrometry); microarrays; serial analysis of gene expression
My research focuses on the processing of high-throughput bioinformatics experiments. While most biological questions of interest center on the identification of genes or proteins that ahcnge in going from one group of individuals to another (e.g., cancer vs normal), there are a number of questions of experimental design and data preprocessing that need to be addressed first. We have worked on exploiting replication to get more stable estimates of differential expression on microarrays, using hierarchical models to get better estimates of differential expression with SAGE data, and on cleaning of proteomics spectra to render analyses more stable.
A tutorial in my lab would involve the analysis of a set of microarray or proteomics experiments.
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Baggerly KA, Coombes KR, Hess KR, Stivers DN, Abruzzo LV, Zhang W (2001) Identifying differentially expressed genes in cDNA microarray experiments. J Computational Biology 8(6):639-659.
Baggerly KA, Morris JS, Wang J, Gold D, Xiao LC, Coombes KR (2003) A comprehensive approach to the analysis of MALDI-TOF proteomics spectra from serum samples. Proteomics 3(9):1667-1672.
Baggerly KA, Deng L, Morris JS, Aldaz CM (2003) Differential expression in SAGE: Accounting for normal between-library variation. Bioinformatics 19(12):1477-1483.
Program Affiliations:
Program in Biomathematics
and Biostatistics