☰ Computational Biology Tree

Douglas L. Brutlag

Affiliations:

Stanford University, Palo Alto, CA

Area:

Bioinformatics

Website:

http://cmgm.stanford.edu/~brutlag/index.html

Google:

"Douglas Brutlag"

Bio:

http://cmgm.stanford.edu/biochem/CVs/Brutlag%20CV.pdf

Cross-listing: Chemistry Tree

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Parents

Arthur Kornberg	grad student	1972	Stanford
Jim Peacock	post-doc	1972-1974	Commonwealth Scientific and Industrial Research Organisation (FlyTree)

Children

Timothy Mark Nelson	grad student	1980	Stanford (Plant Biology Tree)
Xiaole Liu	grad student	2002	Stanford (Chemistry Tree)
Scott C. Schmidler	grad student	2002	Stanford (Chemistry Tree)
Mehmet S. Apaydin	grad student	2004	Stanford (Chemistry Tree)
Jessica Ebert	grad student	2005	Stanford (Chemistry Tree)
Brian T. Naughton	grad student	2006	Stanford (Chemistry Tree)
Serge Saxonov	grad student	2006	Stanford (Chemistry Tree)
Craig Nevill-Manning	post-doc	1996-1998	Stanford (Chemistry Tree)

Collaborators

BETA: Related publications

Publications

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Chiang TH, Apaydin MS, Brutlag DL, et al. (2007) Using stochastic roadmap simulation to predict experimental quantities in protein folding kinetics: folding rates and phi-values. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 14: 578-93
Huang X, Brutlag DL. (2007) Dynamic use of multiple parameter sets in sequence alignment. Nucleic Acids Research. 35: 678-86
Naughton BT, Fratkin E, Batzoglou S, et al. (2006) A graph-based motif detection algorithm models complex nucleotide dependencies in transcription factor binding sites. Nucleic Acids Research. 34: 5730-9
Fratkin E, Naughton BT, Brutlag DL, et al. (2006) MotifCut: regulatory motifs finding with maximum density subgraphs. Bioinformatics (Oxford, England). 22: e150-7
Ebert J, Brutlag D. (2006) Development and validation of a consistency based multiple structure alignment algorithm. Bioinformatics (Oxford, England). 22: 1080-7
Saxonov S, Berg P, Brutlag DL. (2006) A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters. Proceedings of the National Academy of Sciences of the United States of America. 103: 1412-7
Tellez AB, Crowder S, Spagnolo JF, et al. (2006) Nucleotide channel of RNA-dependent RNA polymerase used for intermolecular uridylylation of protein primer. Journal of Molecular Biology. 357: 665-75
Chiang TH, Apaydin MS, Brutlag DL, et al. (2006) Predicting experimental quantities in protein folding kinetics using stochastic roadmap simulation Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 3909: 410-424
Bertaccini EJ, Shapiro J, Brutlag DL, et al. (2005) Homology modeling of a human glycine alpha 1 receptor reveals a plausible anesthetic binding site. Journal of Chemical Information and Modeling. 45: 128-35
Su QJ, Lu L, Saxonov S, et al. (2005) eBLOCKs: enumerating conserved protein blocks to achieve maximal sensitivity and specificity. Nucleic Acids Research. 33: D178-82

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