Douglas L. Brutlag

Publication Activity (10 Years)

Years Active: 1982-2007
Publications (10 Years): 0

Publications

Tsung-Han Chiang, Mehmet Serkan Apaydin, Douglas L. Brutlag, David Hsu, Jean-Claude Latombe
Using Stochastic Roadmap Simulation to Predict Experimental Quantities in Protein Folding Kinetics: Folding Rates and Phi-Values. J. Comput. Biol. 14 (5) (2007)
Tsung-Han Chiang, Mehmet Serkan Apaydin, Douglas L. Brutlag, David Hsu, Jean-Claude Latombe
Predicting Experimental Quantities in Protein Folding Kinetics Using Stochastic Roadmap Simulation. RECOMB (2006)
Eugene Fratkin, Brian T. Naughton, Douglas L. Brutlag, Serafim Batzoglou
MotifCut: regulatory motifs finding with maximum density subgraphs. ISMB (Supplement of Bioinformatics) (2006)
Jessica Ebert, Douglas L. Brutlag
Development and validation of a consistency based multiple structure alignment algorithm. Bioinform. 22 (9) (2006)
Qiaojuan Jane Su, Lin Lu, Serge Saxonov, Douglas L. Brutlag
eBLOCKs: enumerating conserved protein blocks to achieve maximal sensitivity and specificity. Nucleic Acids Res. 33 (Database-Issue) (2005)
Edward J. Bertaccini, Jessica Shapiro, Douglas L. Brutlag, James R. Trudell
Homology Modeling of a Human Glycine Alpha 1 Receptor Reveals a Plausible Anesthetic Binding Site. J. Chem. Inf. Model. 45 (1) (2005)
Haidong Wang, Eran Segal, Asa Ben-Hur, Daphne Koller, Douglas L. Brutlag
Identifying Protein-Protein Interaction Sites on a Genome-Wide Scale. NIPS (2004)
Mike P. Liang, Olga G. Troyanskaya, Alain Laederach, Douglas L. Brutlag, Russ B. Altman
Computational functional genomics. IEEE Signal Process. Mag. 21 (6) (2004)
Yueyi Liu, Liping Wei, Serafim Batzoglou, Douglas L. Brutlag, Jun S. Liu, Xiaole Shirley Liu
A suite of web-based programs to search for transcriptional regulatory motifs. Nucleic Acids Res. 32 (Web-Server-Issue) (2004)
Jessica Shapiro, Douglas L. Brutlag
FoldMiner and LOCK 2: protein structure comparison and motif discovery on the web. Nucleic Acids Res. 32 (Web-Server-Issue) (2004)
Mike P. Liang, Douglas L. Brutlag, Russ B. Altman
Automated Construction of Structural Motifs for Predicting Functional Sites on Protein Structures. Pacific Symposium on Biocomputing (2003)
Mike P. Liang, D. Rey Banatao, Teri E. Klein, Douglas L. Brutlag, Russ B. Altman
WebFEATURE: an interactive web tool for identifying and visualizing functional sites on macromolecular structures. Nucleic Acids Res. 31 (13) (2003)
Mehmet Serkan Apaydin, Douglas L. Brutlag, Carlos Guestrin, David Hsu, Jean-Claude Latombe, Chris Varma
Stochastic Roadmap Simulation: An Efficient Representation and Algorithm for Analyzing Molecular Motion. J. Comput. Biol. 10 (3/4) (2003)
Asa Ben-Hur, Douglas L. Brutlag
Remote homology detection: a motif based approach. ISMB (Supplement of Bioinformatics) (2003)
Mike P. Liang, Douglas L. Brutlag, Russ B. Altman
Automatic Construction of 3D Structural Motifs for Protein Function Prediction. CSB (2003)
Steven P. Bennett, Lin Lu, Douglas L. Brutlag
3MATRIX and 3MOTIF: a protein structure visualization system for conserved sequence motifs. Nucleic Acids Res. 31 (13) (2003)
Steven P. Bennett, Craig G. Nevill-Manning, Douglas L. Brutlag
3MOTIF: visualizing conserved protein sequence motifs in the protein structure database. Bioinform. 19 (4) (2003)
Douglas L. Brutlag, Mehmet Serkan Apaydin, Carlos Guestrin, David Hsu, Chris Varma, Amit Pal Singh, Jean-Claude Latombe
Using robotics to fold proteins and dock ligands. ECCB (2002)
Mehmet Serkan Apaydin, Douglas L. Brutlag, Carlos Guestrin, David Hsu, Jean-Claude Latombe
Stochastic roadmap simulation: an efficient representation and algorithm for analyzing molecular motion. RECOMB (2002)
Mehmet Serkan Apaydin, Douglas L. Brutlag, Carlos Guestrin, David Hsu, Jean-Claude Latombe
Stochastic Conformational Roadmaps for Computing Ensemble Properties of Molecular Motion. WAFR (2002)
Mehmet Serkan Apaydin, Carlos Guestrin, Chris Varma, Douglas L. Brutlag, Jean-Claude Latombe
Stochastic roadmap simulation for the study of ligand-protein interactions. ECCB (2002)
X. Liu, Douglas L. Brutlag, Jun S. Liu
BioProspector: Discovering Conserved DNA Motifs in Upstream Regulatory Regions of Co-Expressed Genes. Pacific Symposium on Biocomputing (2001)
Jimmy Y. Huang, Douglas L. Brutlag
The EMOTIF database. Nucleic Acids Res. 29 (1) (2001)
Mehmet Serkan Apaydin, Amit Pal Singh, Douglas L. Brutlag, Jean-Claude Latombe
Capturing Molecular Energy Landscapes with Probabilistic Conformational Roadmaps. ICRA (2001)
Thomas D. Wu, Craig G. Nevill-Manning, Douglas L. Brutlag
Fast probabilistic analysis of sequence function using scoring matrices. Bioinform. 16 (3) (2000)
Scott C. Schmidler, Jun S. Liu, Douglas L. Brutlag
Bayesian Segmentation of Protein Secondary Structure. J. Comput. Biol. 7 (1-2) (2000)
Thomas D. Wu, Craig G. Nevill-Manning, Douglas L. Brutlag
Minimal-Risk Scoring Matrices for Sequence Analysis. J. Comput. Biol. 6 (2) (1999)
Amit Pal Singh, Jean-Claude Latombe, Douglas L. Brutlag
A Motion Planning Approach to Flexible Ligand Binding. ISMB (1999)
Thomas C. Rindfleisch, Douglas L. Brutlag
Viewpoint: Directions for Clinical Research and Genomic Research into the Next Decade: Implications for Informatics. J. Am. Medical Informatics Assoc. 5 (5) (1998)
Thomas D. Wu, Scott C. Schmidler, Trevor Hastie, Douglas L. Brutlag
Regression Analysis of Multiple Protein Structures. J. Comput. Biol. 5 (3) (1998)
Thomas D. Wu, Trevor Hastie, Scott C. Schmidler, Douglas L. Brutlag
Regression analysis of multiple protein structures. RECOMB (1998)
Amit Pal Singh, Douglas L. Brutlag
Hierarchical Protein Structure Superposition Using Both Secondary Structure and Atomic Representations. ISMB (1997)
Craig G. Nevill-Manning, Komal S. Sethi, Thomas D. Wu, Douglas L. Brutlag
Enumerating and Ranking Discrete Motifs. ISMB (1997)
Thomas D. Wu, Douglas L. Brutlag
Discovering Empirically Conserved Amino Acid Substitution Groups in Databases of Protein Families. ISMB (1996)
Thomas D. Wu, Douglas L. Brutlag
Identification of Protein Motifs Using Conserved Amino Acid Properties and Partitioning Techniques. ISMB (1995)
Tod M. Klingler, Douglas L. Brutlag
Discovering Side-Chain Correlations In alpha-Helices. ISMB (1994)
Dalit Naor, Douglas L. Brutlag
On Near-Optimal Alignments of Biological Sequences. J. Comput. Biol. 1 (4) (1994)
Douglas L. Brutlag, Jean-Pierre Dautricourt, Ron Diaz, Jeff Fier, Bruce Moxon, Richard Stamm
: An Implementation of the Smith-Waterman Sequence Comparison Algorithm on a Massively Parallel Computer. Comput. Chem. 17 (2) (1993)
Dalit Naor, Douglas L. Brutlag
On Suboptimal Alignments of Biological Sequences. CPM (1993)
Tod M. Klingler, Douglas L. Brutlag
Detection of Correlations in tRNA Sequences with Structural Implications. ISMB (1993)
Douglas L. Brutlag, A. R. Galper, D. H. Millis
Knowledge-based simulation of DNA metabolism: prediction of enzyme action. Comput. Appl. Biosci. 7 (1) (1991)
Douglas L. Brutlag, Jean-Pierre Dautricourt, S. Maulik, J. Relph
Improved sensitivity of biological sequence database searches. Comput. Appl. Biosci. 6 (3) (1990)
Dennis H. Smith, Douglas L. Brutlag, Peter Friedland, Laurence H. Kedes
BIONET: national computer resource for molecular biology. Nucleic Acids Res. 14 (1) (1986)
R. M. Abarbanel, Paul R. Wieneke, E. Mansfield, David A. Jaffe, Douglas L. Brutlag
Rapid searches for complex patterns in biological molecules. Nucleic Acids Res. 12 (1) (1984)
René Bach, Peter Friedland, Douglas L. Brutlag, Laurence H. Kedes
MAXAMIZE. A DNA sequencing strategy advisor. Nucleic Acids Res. 10 (1) (1982)
Douglas L. Brutlag, J. Clayton, Peter Friedland, Laurence H. Kedes
SEQ: a nucleotide sequence analysis and recombination system. Nucleic Acids Res. 10 (1) (1982)
Peter Friedland, Laurence H. Kedes, Douglas L. Brutlag, Yumi Iwasaki, René Bach
GENESIS, a knowledge-based genetic engineering simulation system for representation of genetic data and experiment planning. Nucleic Acids Res. 10 (1) (1982)