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Douglas L. Brutlag
Email:
Phone:(650) 723-6593 Profile: http://med.stanford.edu/profiles/Douglas_Brutlag/
Alternate Contact: Academic Appointments
Appointment
Organization
Emeritus (Active) Professor
Member
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Curriculum Vitae PDF
Honors & Awards
Title
Organization
Date(s)
Teacher Scholar Award
Henry and Camille Dreyfus
1979
Best Computer Application in Science
Computerworld-Smithsonian Award
1992
Fellow
Guggenheim
1981
Fellow
American College of Medical Informatics
2001
Fellow
American Association for the Advancement of Science
1986
6 honors and awards: view full list
Professional Education
Degree
Awarding Institution
Field of Study
Year of Graduation
B.S.
California Inst. of Technology
Biology
1968
Ph.D.
Stanford University
Biochemistry
1972
Web Site Links
Research/Lab website:
Doug Brutlag's Research Group
Research Interests
My primary goal is to understand the flow of information from the genome to the phenotype of an organism. This includes predicting the structure and function of molecules from their primary sequence, predicting function from structure and finally simulating protein folding and protein-ligand docking. These goals are the same as the goals of molecular biology, however, we use primarily computational methods.
Ongoing projects include discovering sequence motifs from aligned sequences, predicting the function of newly sequenced genes and proteins, predicting protein secondary structure, superimposing proteins to search for structural motifs, and docking proteins and substrates.
The methods we use include multiple representations of sequence and structures, machine learning, robotic motion planning, databases, graph theory, statistics, probabilistic methods including Baysian models, Markov models, etc.
Ongoing projects include discovering sequence motifs from aligned sequences, predicting the function of newly sequenced genes and proteins, predicting protein secondary structure, superimposing proteins to search for structural motifs, and docking proteins and substrates.
The methods we use include multiple representations of sequence and structures, machine learning, robotic motion planning, databases, graph theory, statistics, probabilistic methods including Baysian models, Markov models, etc.
Community and International Work
- Presidential Advisor, Max Planck Institute, Germany More »
Publications
- Chiang TH, Apaydin MS, Brutlag DL, Hsu D, Latombe JC "Using stochastic roadmap simulation to predict experimental quantities in protein folding kinetics: folding rates and Phi-values." J Comput Biol 2007; 14: 5: 578-93 More »
- Saxonov S, Berg P, Brutlag DL "A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters." Proc Natl Acad Sci U S A 2006; More »
- Tellez AB, Crowder S, Spagnolo JF, Thompson AA, Peersen OB, Brutlag DL, Kirkegaard K "Nucleotide Channel of RNA-dependent RNA Polymerase used for Intermolecular Uridylylation of Protein Primer." J Mol Biol 2006; More »
- Fratkin E, Naughton BT, Brutlag DL, Batzoglou S "MotifCut: regulatory motifs finding with maximum density subgraphs." Bioinformatics 2006; 22: 14: e150-7 More »
- Ebert J, Brutlag D "Development and validation of a consistency based multiple structure alignment algorithm." Bioinformatics 2006; More »
94 publications: view full list
