Teri E. Klein, Ph.D.

  
300 Pasteur Dr, L301 MC: 5120  
Stanford, CA 94305-5120  
Telephone: (650) 736-0156  
Fax: (650) 725-3863 (goes to paper fax in my office)  
E-mail: teri.klein@stanford.edu  
WWW: http://helix-web.stanford.edu/people/klein/  
   
Stanford University  
Senior Scientist  
Project Director, PharmGKB  

 

  
Co-founder & Co-chair, Pacific Symposium on Biocomputing  
   


Education:

  • Ph.D., University of California, San Francisco, 1987
    • Medical Information Sciences
  • B.A., University of California, Santa Cruz, 1980
    • Chemistry/Biology

 

  

Research Interests		  

My research interests extend over the broad spectrum of pharmacogenetics, computational biology and bioinformatics. Applications include the development of a pharmcogenetics knowledge base, structure-function relationships, de novo modeling and the structural basis of disease. .

My current research areas involve the studies of the following:

  • development of an integrated knowledge base about how variation in human genetics leads to variation in our response to drugs
  • the stability of the collagen triple helix
  • the relationship and prediction of lethal mutations for the genetic collagenous disease Osteogenesis imperfecta
  • developing new tools for defining a three-dimensional scaffold which contains the essential structural moieties for funciton for a specific protein superfamily
  • develop structural and functional models of the TIGR gene for glaucoma.
 
   

Selected Publications (2001-2004)		  
    • S.D. Mooney, C.C. Huang, P.A. Kollman, T.E. Klein, “Computed Free Energy Differences Between Point Mutations in a Collagen-like Peptide,” Biopolymers 58:347-353, 2001.
    • T.E. Klein, J.T. Chang, K.L. Easton, R. Fergerson, M. Hewett, Z. Lin, Y. Liu, S. Liu, D.E. Oliver, D.L. Rubin, J.M. Stuart and R.B. Altman, “Integrating Genotype and Phenotype Information: An Overview of the PharmGKB Project,” The Pharmacogenomics Journal 1:167-170, 2001.
    • D.L. Rubin, M. Hewett, D.E. Oliver, T.E. Klein and R.B. Altman, " Automating data acquisition into ontologies from pharmacogenetics relational data sources using declarative object definitions and XML,” Pacific Symposium on Biocomputing 7:88-99, 2002.
    • D.E. Oliver, D.L. Rubin, J.M. Stuart, M. Hewett, T.E. Klein and R.B. Altman, "Ontology Development for a Pharmacogenetics Knowledge Base,” Pacific Symposium on Biocomputing 7:65-76, 2002.
    • M. Hewett M, D.E. Oliver, D.L. Rubin, K.L. Easton, J.M. Stuart, R.B. Altman and T.E. Klein, “PharmGKB: the Pharmacogenetics Knowledge Base," Nucleics Acids Research 1:163-165, 2002.
    • S.D. Mooney, P.A. Kollman and T.E. Klein, "Conformational Preferences of Substituted Prolines in the Collagen Triple Helix,” Biopolymers 64:57-62, 2002.
    • R.B. Altman and T.E. Klein, "Challenges for Biomedical Informatics and Pharmacogenenomics,” Annual Review of Pharmacology and Toxicology 42:113-133, 2002
    • R. Hewett, J. Leuchner, C. M. Teng, S.D. Mooney and T.E. Klein, “Compression-based Induction and Genome Data,” Proceedings of the 15th International FLAIRS Conference, May, Pensacola, FL, 2002.
    • S.D. Mooney and T.E. Klein, “The Functional Importance of Disease-Associated Mutation,” BMC Bioinformatics 2002, 3:24.
    • M.L. Green and T.E. Klein, “A multidomain TIGR/olfactomedin protein family with conserved structural similarityin the N-terminal region and conserved motifs in the C-terminal region," Mol Cell Proteomics 1:394-403, 2002.
    • S.D. Mooney, T.E. Klein. “Structural Models of Osteogenesis Imperfecta-associated Variants in the COL1A1 Gene.” Mol Cell Proteomics. 1:868-75, 2002.
    • R.B. Altman, D.A. Flockhart, S.T. Sherry, D.E. Oliver, D.L. Rubin, T.E. Klein. “Indexing pharmacogenetic knowledge on the World Wide Web.” Pharmacogenetics. 2003 Jan;13(1):3-5.
    • R. Hewett, J. Leuchner, S.D. Mooney and T.E. Klein, “An Analysis of Mutations in the COLIAI Gene with Second-Order Rule Induction," International Journal of Pattern Recognition and Artificial Intelligence, 17:721-7240, 2003.
    • S.D. Mooney, T.E. Klein, R.B. Altman, M.A. Trifiro, and B. Gottlieb, “A Functional Analysis of Disease-associated Mutations in the Androgen Receptor Gene," Nucleic Acids Research 31: e42 2003
    • M.P. Liang, D.R. Banatao, T.E. Klein, D.L. Brutlag, R.B. Altman, “WebFEATURE: An interactive web tool for identifying and visualizing functional sites on macromolecular structures”, Nucleic Acids Research 31:3324-3327, 2003.
    • D.R. Banatao, R.B. Altman and T.E. Klein. “Microenvironment analysis and identification of magnesium binding sites in RNA," Nucleic Acids Research 31:4450-4460, 2003.
    • S. Liu, S. Lin, M. Woon, T.E. Klein and R.B. Altman, “A Personalized and Automated dbSNP Surveillance System," Proceedings of the Computational Systems Bioinformatics (CSB ‘’03), 132-136, 2003.
    • D. R. Banatao, I.S. Gabashvili, T.E. Klein, R.B. Altman, “Computational screen for magnesium binding sites suggests ion-binding cores in ribosomal subunits," J. Mol. Biol. (in review).
    • R.J. Radmer and T.E. Klein, “The Severity of Osteogenesis Imperfecta and the Structure of a Collagen-like Peptide Modeling a Lethal Mutation Site," Biochemistry (in review).