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Keith A. Baggerly, Ph.D.

Present Title & Affiliation

Primary Appointment

Professor, Department of Bioinformatics and Computational Biology, Division of Quantitative Sciences, The University of Texas MD Anderson Cancer Center, Houston, TX

Bio Statement

Access additonal information regarding Keith A. Baggerly's research and professional activities.

Education & Training

Degree-Granting Education

1994 Rice University, Houston, TX, PHD, Statistics
1993 Rice University, Houston, TX, MA, Statistics
1990 Rice University, Houston, TX, BA, Math/Math Statistics


Academic Appointments

Adjunct Associate Professor, Department of Statistics, Rice University, Houston, TX, 2004-2010

Selected Publications

Peer-Reviewed Original Research Articles

1. Richards KL, Zhang B, Sun M, Dong W, Churchill J, Bachinski LL, Wilson CD, Baggerly KA, Yin G, Hayes DN, Wistuba II, Krahe R. Methylation of the candidate biomarker TCF21 is very frequent across a spectrum of early-stage nonsmall cell lung cancers. Cancer 117(3):606-17, 2/2011. PMCID: PMC3023841.
2. Leek JT, Scharpf RB, Bravo HC, Simcha D, Langmead B, Johnson WE, Geman D, Baggerly K, Irizarry RA. Tackling the widespread and critical impact of batch effects in high-throughput data. Nat Rev Genet 11(10):733-739, 10/2010. e-Pub 9/2010. PMCID: PMC3880143.
3. Mazouni C, Baggerly, KA, Hawke D, Tsavachidis S, Andre F, Buzdar A, Martin P-M,Kobayashi R, Pusztai L. Evaluation of changes in serum protein profiles during neoadjuvant chemotherapy in HER2-positive breast cancer using an LC-MALDI-TOF / MS procedure. Proteomics 10:3525-32, 8/2010. PMID: 201000057.
4. Liedtke C, Wang J, Tordai A, Symmans WF, Hortobagyi GN, Kiesel L, Hess K, Baggerly KA, Coombes KR, Pusztai L. Clinical evaluation of chemotherapy response predictors developed from breast cancer cell lines. Breast Cancer Res Treat 121(2):301-9, 6/2010. e-Pub 7/2009. PMID: 19603265.
5. Vihola A, Bachinski LL, Sirito M, Olufemi SE, Hajibashi S, Baggerly KA, Raheem O, Haapasalo H, Suominen T, Holmlund-Hampf J, Paetau A, Cardani R, Meola G, Kalimo H, Edström L, Krahe R, Udd B. Differences in aberrant expression and splicing of sarcomeric proteins in the myotonic dystrophies DM1 and DM2. Acta Neuropathol. e-Pub 1/2010. PMID: 20066428.
6. Levin VA, Panchabhai SC, Shen L, Kornblau SM, Qiu Y, Baggerly KA. Different Changes in Protein and Phosphoprotein Levels Result from Serum Starvation of High-Grade Glioma and Adenocarcinoma Cell Lines. J Proteome Res 9(1):179-91, 1/2010. e-Pub 11/2009. PMID: 19894763.
7. Lee JK, Coutant C, Kim YC, Qi Y, Theodorescu D, Symmans WF, Baggerly K, Rouzier R, Pusztai L. Prospective Comparison of Clinical and Genomic Multivariate Predictors of Response to Neoadjuvant Chemotherapy in Breast Cancer. Clin Cancer Res 16(2):711-8, 1/2010. e-Pub 1/2010. PMCID: PMC2807997.
8. Morris JS, Baggerly KA, Gutstein HB, Coombes KR. Statistical contributions to proteomic research. Methods Mol Biol 641:143-66, 2010. PMCID: PMC3889133.
9. Cheung HC, Hai T, Zhu W, Baggerly KA, Tsavachidis S, Krahe R, Cote GJ. Splicing factors PTBP1 and PTBP2 promote proliferation and migration of glioma cell lines. Brain 132(Pt 8). e-Pub 6/8/2009. PMCID: PMC2724917.
10. Shahzad MM, Lu C, Lee JW, Stone RL, Mitra R, Mangala LS, Lu Y, Baggerly KA, Danes CG, Nick AM, Halder J, Kim HS, Vivas-Mejia P, Landen CN, Lopez-Berestein G, Coleman RL, Sood AK. Dual targeting of EphA2 and FAK in ovarian carcinoma. Cancer Biol Ther 8(11):1027-34, 6/2009. e-Pub 6/2009. PMCID: PMC2748749.
11. Neeley ES, Kornblau SM, Coombes KR, Baggerly KA. Variable slope normalization of reverse phase protein arrays. Bioinformatics 25(11):1384-9, 6/2009. e-Pub 3/2009. PMID: 19336447.
12. Richards KL, Zhang B, Baggerly KA, Colella S, Lang JC, Schuller DE, Krahe R. Genome-wide hypomethylation in head and neck cancer is more pronounced in HPV-negative tumors and is associated with genomic instability. PLoS One 4(3):e4941, 2009. e-Pub 3/2009. PMCID: PMC2654169.

Grant & Contract Support

Title: SPORE in Genitourinary Cancer (PC-B)
Funding Source: NIH/NCI
Role: CoCore Director
Principal Investigator: Colin Dinney
Duration: 9/19/2012 - 8/31/2017
Title: Clinical Translation of Therapeutic siRNA in Solid Malignancies
Funding Source: Cancer Prevention & Research Institute of Texas (CPRIT)
Role: Co-Investigator
Principal Investigator: Robert L. Coleman
Duration: 12/1/2011 - 11/30/2014
Title: Personalized Enhancement of Primary Ovarian Cancer Chemotherapy
Funding Source: Cancer Prevention & Research Institute of Texas (CPRIT)
Role: Core Leader
Principal Investigator: Robert C. Bast Jr.
Duration: 6/1/2011 - 5/31/2016
Title: Aurora Kinase A as a Biomarker for the Detection of Bladder Cancer
Funding Source: NIH/NCI
Role: Investigator
Principal Investigator: Bogdan Czerniak
Duration: 7/6/2010 - 5/31/2015
Title: Integrative Pipeline for Analysis & Translational Application of TCGA Data (GDAC)
Funding Source: NIH/NCI
Role: Project Director
Principal Investigator: John N Weinstein
Duration: 9/29/2009 - 7/31/2015
Title: SPORE in Genitourinary Cancer (PP-1)
Funding Source: NIH/NCI
Role: Biostatistician
Principal Investigator: Colin Dinney
Duration: 9/25/2001 - 8/31/2012
Title: University of Texas MD Anderson SPORE in Ovarian Cancer (PC-B)
Funding Source: NIH/NCI
Role: Core Leader
Principal Investigator: Robert C. Bast Jr
Duration: 9/30/1999 - 8/31/2015
Title: Cancer Center Support Grant - Bioinformatics Shared Resource (PP-SR22)
Funding Source: NIH/NCI
Role: Bioinformatician
Principal Investigator: Ronald DePinho
Duration: 9/4/1998 - 6/30/2018
Title: A Mutational Model for Childhood Cancer (PC-C)
Funding Source: NIH/NCI
Role: Co-Investigator
Principal Investigator: Louise C. Strong
Duration: 8/1/1997 - 9/30/2012

Last updated: 4/3/2015