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Katrina M. Waters, Ph.D.

Katrina M. Waters
Katrina M. Waters


Dr. Waters has a Ph.D. in Biochemistry and 10 years of experience in microarray and proteomic data analysis, data integration and biomarker discovery. She is currently a Senior Research Scientist in the Computational Biology & Bioinformatics Group at the Pacific Northwest National Laboratory (PNNL). Her research interests are focused the reconstruction of cell response networks from integrated gene and protein expression data to enable predictive mechanistic modeling of disease and toxicity pathways. Her current projects include pathway-based biomarker discovery for environmental exposure to lung toxicants, including disease susceptibility factors, and network modeling of lung inflammation through macrophage and epithelial cell paracrine communication.


  • Postdoc, Toxicology, CIIT Centers for Health Research, 1999-2001
  • Postdoc, Biochemistry, Mayo Graduate School of Medicine, 1997-1999
  • Ph.D., Biochemistry, University of Wisconsin, 1996
  • A.B., Chemistry, Ripon College, 1992

Honors and Awards

  • Outstanding Poster Travel Award, Gordon Conference on Toxicogenomics, June 2007
  • Plenary Poster Award, American Society for Bone and Mineral Research, June 1998
  • National Research Service Award, NCI Postdoctoral Fellowship, 1997-1999

Selected Publications

Waters KM, LM Masiello, RC Zangar, BJ Tarasevich, NJ Karin, RD Quesenberry, S Bandyopadhyay, JG Teeguarden, JG Pounds, and BD Thrall. 2009. "Macrophage responses to silica nanoparticles are highly conserved across particle sizes." Toxicological Sciences, 107:553-569; doi:10.1093/toxsci/kfn250.

Webb-Robertson BJ, WR Cannon, CS Oehmen, AR Shah, V Gurumoorthi, MS Lipton, and KM Waters. 2008. "A Support Vector Machine model for the prediction of proteotypic peptides for accurate mass and time proteomics." Bioinformatics. 24 (13), 1503-1509.

Jacobs JM, LE Kathmann, RD Quesenberry, KM Waters, DG Camp II, HS Wiley, RD Smith, and BD Thrall. 2008. "Proteome Analysis of the Mammary Cell Secretome: Identification of Extracellular Proteins Involved in Regulatory Functions." Journal of Proteome Research, 7(2), 558-569.

Rogers S, M Girolami, W Kolch, KM Waters, T Liu, BD Thrall, and HS Wiley. 2008. "Investigating the correspondence between transcriptomic and proteomic expression profiles using coupled cluster models." Bioinformatics, 24(24), 2894-2900.

Waters KM, R Tan, DC Genetos, S Verma, CE Yellowley, and NJ Karin. 2007. "DNA microarray analysis reveals a role for lysophosphatidic acid in the regulation of anti-inflammatory genes in MC3T3-E1 cells." Bone, 41, 833-841.

Contact Information

Systems Biology at PNNL

Research & Capabilities