Dr. Phil Bradley

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Fred Hutchinson Cancer Research Center
Program in Computational Biology
Public Health Sciences
Assistant MemberAppointed: 2007
Professional Headshot of Phil Bradley

Mailing Address

1100 Fairview Ave N
PO Box 19024
M1-B867
Seattle, Washington 98109-1024
United States

Contact Information

Phone: (206) 667-7041
Fax: (206) 667-1319
pbradley@fhcrc.org

Qualifications

Ph.D., Massachusetts Institute of Technology, Mathematics, 2001.
B.A., Rice University, Mathematics, 1995.

Expertise and Research Interests

My group's research is focused on developing predictive models of molecular recognition using high-resolution structural modeling. We are currently working to predict the specificity of protein-DNA and protein-peptide interactions. We develop and apply new algorithms for molecular modeling within the framework of the Rosetta software package, a set of tools for the prediction and design of protein structures and interactions.

Keywords

COS Keywords:

Biochemistry, Computational Biology, Molecular Recognition.

Honors and Awards

2009 Searle Scholar, Searle Scholars Program
2009 Sloan Research Fellow, Alfred P. Sloan Foundation

Previous Positions

2001-2007, Post-doctoral fellow, University of Washington, Department of Biochemistry

Publications

  • Qian B, Raman VS, Das R, Bradley P, McCoy AJ, Read RJ, Baker D (2007) High resolution protein structure prediction and the crystallographic phase problem, Nature, 450 (7167), 359-64
  • Wang C, Schueler-Furman O, Andre I, London N, Fleishman SJ, Bradley P, Qian B, Baker D (2007) RosettaDock in CAPRI rounds 6-12, Proteins, 69 (4), 758-63
  • Wang C, Bradley P, Baker D (2007) Protein-protein docking with backbone flexibility, J Mol Biol, 373 (2), 503-19
  • Andre I, Bradley P, Wang C, Baker D (2007) Prediction of the structure of symmetrical protein assemblies, Proc Natl Acad Sci U S A, 104 (45), 17656-61
  • Bradley P, Baker D (2006) Improved Beta-Protein Structure Prediction by Multi-level Optimization of Non-Local Strand Pairings and Local Backbone Conformation, Proteins: Structure, Function, and Genetics, 65 (4), 922-9
  • Bradley P, Malmstrom L, Qian B, Schonbrun J, Chivian D, Kim D, Meiler J, Misura KMS, Baker D (2005) Free modeling with Rosetta in CASP6, Proteins: Structure, Function, and Genetics, 61 (sup 7), 128-134
  • Schueler-Furman O, Wang C, Bradley P, Misura KMS, Baker D (2005) Progress in modeling of protein structures and interactions, Science, 310, 638-42
  • Bradley P, Misura KMS, Baker D (2005) Toward High-Resolution De Novo Structure Prediction for Small Proteins, Science, 309, 1868-71
  • Hazbun TR, Malmstrom L, Anderson S, Graczyk BJ, Fox B, Riffle M, Sundin BA, Aranda JD, McDonald WH, Chiu CH, Snydsman BE, Bradley P, Muller EG, Fields S, Baker D, Yates JR 3rd, Davis TN (2003) Assigning function to yeast proteins by integration of technologies, Mol Cell, 12, 1353-1365
  • Chivian D, Kim DE, Malmstrom L, Bradley P, Robertson T, Murphy P, Strauss CEM, Bonneau R, Rohl CA, Baker D (2003) Automated prediction of CASP5 structures using the Robetta server, Proteins: Structure, Function, and Genetics, 53, 524-533
  • Bradley P, Chivian D, Meiler J, Misura KMS, Rohl CA, Schief WR, Wedemeyer WJ, Schueler-Furman O, Murphy P, Schonbrun J, Strauss CEM, Baker D (2003) Rosetta predictions in CASP5: successes, failures, and prospects for complete automation, Proteins: Structure, Function, and Genetics, 53, 457-469
  • Bonneau R, Strauss CEM, Rohl C, Chivian D, Bradley P, Malmstrom L, Robertson T, Baker D (2002) De novo prediction of three-dimensional structures for major protein families., J Mol Biol, 322, 65-78
  • Bradley P, Kim PS, Berger B (2002) Trilogy: Discovery of sequence-structure patterns across diverse proteins, Proc Natl Acad Sci U S A, 99, 8500-05
  • Bradley P, Cowen L, Menke M, King J, Berger B (2001) BETAWRAP: successful prediction of parallel beta-helices from primary sequence reveals an association with many microbial pathogens, Proc Natl Acad Sci U S A, 98, 14819-24
  • Bradley P (2000) Moment maps and Jacobian modules, Annals of Global Analysis and Geometry, 18, 129-151

Profile Details

Last Updated: 7/30/2009

COS Expertise ID #1300415
Reference this profile directly: http://myprofile.cos.com/bradleyphil