2007 | ||
---|---|---|
46 | EE | 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. Journal of Computational Biology 14(5): 578-593 (2007) |
2006 | ||
45 | EE | Eugene Fratkin, Brian T. Naughton, Douglas L. Brutlag, Serafim Batzoglou: MotifCut: regulatory motifs finding with maximum density subgraphs. ISMB (Supplement of Bioinformatics) 2006: 156-157 |
44 | EE | 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: 410-424 |
43 | EE | Jessica Ebert, Douglas L. Brutlag: Development and validation of a consistency based multiple structure alignment algorithm. Bioinformatics 22(9): 1080-1087 (2006) |
2005 | ||
42 | EE | 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. Journal of Chemical Information and Modeling 45(1): 128-135 (2005) |
41 | EE | Qiaojuan Jane Su, Lin Lu, Serge Saxonov, Douglas L. Brutlag: eBLOCKs: enumerating conserved protein blocks to achieve maximal sensitivity and specificity. Nucleic Acids Research 33(Database-Issue): 178-182 (2005) |
2004 | ||
40 | EE | Haidong Wang, Eran Segal, Asa Ben-Hur, Daphne Koller, Douglas L. Brutlag: Identifying Protein-Protein Interaction Sites on a Genome-Wide Scale. NIPS 2004 |
39 | Yueyi Liu, Liping Wei, Serafim Batzoglou, Douglas L. Brutlag, Jun S. Liu, X. Shirley Liu: A suite of web-based programs to search for transcriptional regulatory motifs. Nucleic Acids Research 32(Web-Server-Issue): 204-207 (2004) | |
38 | Jessica Shapiro, Douglas L. Brutlag: FoldMiner and LOCK 2: protein structure comparison and motif discovery on the web. Nucleic Acids Research 32(Web-Server-Issue): 536-541 (2004) | |
2003 | ||
37 | EE | Mike P. Liang, Douglas L. Brutlag, Russ B. Altman: Automatic Construction of 3D Structural Motifs for Protein Function Prediction. CSB 2003: 613-614 |
36 | EE | Asa Ben-Hur, Douglas L. Brutlag: Remote homology detection: a motif based approach. ISMB (Supplement of Bioinformatics) 2003: 26-33 |
35 | EE | 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: 204-215 |
34 | Steven P. Bennett, Craig G. Nevill-Manning, Douglas L. Brutlag: 3MOTIF: visualizing conserved protein sequence motifs in the protein structure database. Bioinformatics 19(4): 541-542 (2003) | |
33 | EE | 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. Journal of Computational Biology 10(3/4): 257-281 (2003) |
32 | 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 Research 31(13): 3324-3327 (2003) | |
31 | Steven P. Bennett, Lin Lu, Douglas L. Brutlag: 3MATRIX and 3MOTIF: a protein structure visualization system for conserved sequence motifs. Nucleic Acids Research 31(13): 3328-3332 (2003) | |
2002 | ||
30 | 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: 18-26 | |
29 | 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: 74-74 | |
28 | EE | 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: 12-21 |
2001 | ||
27 | Mehmet Serkan Apaydin, Amit Pal Singh, Douglas L. Brutlag, Jean-Claude Latombe: Capturing Molecular Energy Landscapes with Probabilistic Conformational Roadmaps. ICRA 2001: 932-939 | |
26 | EE | 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: 127-138 |
25 | Jimmy Y. Huang, Douglas L. Brutlag: The EMOTIF database. Nucleic Acids Research 29(1): 202-204 (2001) | |
2000 | ||
24 | Thomas D. Wu, Craig G. Nevill-Manning, Douglas L. Brutlag: Fast probabilistic analysis of sequence function using scoring matrices. Bioinformatics 16(3): 233-244 (2000) | |
23 | Scott C. Schmidler, Jun S. Liu, Douglas L. Brutlag: Bayesian Segmentation of Protein Secondary Structure. Journal of Computational Biology 7(1-2): 233-248 (2000) | |
1999 | ||
22 | Thomas Lengauer, Reinhard Schneider, Peer Bork, Douglas L. Brutlag, Janice I. Glasgow, Hans-Werner Mewes, Ralf Zimmer: Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology, August 6-10, 1999, Heidelberg, Germany AAAI 1999 | |
21 | Amit Pal Singh, Jean-Claude Latombe, Douglas L. Brutlag: A Motion Planning Approach to Flexible Ligand Binding. ISMB 1999: 252-261 | |
20 | Thomas D. Wu, Craig G. Nevill-Manning, Douglas L. Brutlag: Minimal-Risk Scoring Matrices for Sequence Analysis. Journal of Computational Biology 6(2): 219-236 (1999) | |
1998 | ||
19 | EE | Thomas D. Wu, Trevor Hastie, Scott C. Schmidler, Douglas L. Brutlag: Regression analysis of multiple protein structures. RECOMB 1998: 276-284 |
18 | Thomas D. Wu, Scott C. Schmidler, Trevor Hastie, Douglas L. Brutlag: Regression Analysis of Multiple Protein Structures. Journal of Computational Biology 5(3): 585-596 (1998) | |
1997 | ||
17 | Craig G. Nevill-Manning, Komal S. Sethi, Thomas D. Wu, Douglas L. Brutlag: Enumerating and Ranking Discrete Motifs. ISMB 1997: 202-209 | |
16 | Amit Pal Singh, Douglas L. Brutlag: Hierarchical Protein Structure Superposition Using Both Secondary Structure and Atomic Representations. ISMB 1997: 284-293 | |
1996 | ||
15 | Thomas D. Wu, Douglas L. Brutlag: Discovering Empirically Conserved Amino Acid Substitution Groups in Databases of Protein Families. ISMB 1996: 230-240 | |
1995 | ||
14 | Thomas D. Wu, Douglas L. Brutlag: Identification of Protein Motifs Using Conserved Amino Acid Properties and Partitioning Techniques. ISMB 1995: 402-410 | |
1994 | ||
13 | Russ B. Altman, Douglas L. Brutlag, Peter D. Karp, Richard H. Lathrop, David B. Searls: Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, August 14-17, 1994, Stanford University, Stanford, California, USA AAAI 1994 | |
12 | Tod M. Klingler, Douglas L. Brutlag: Discovering Side-Chain Correlations In alpha-Helices. ISMB 1994: 236-243 | |
11 | Dalit Naor, Douglas L. Brutlag: On Near-Optimal Alignments of Biological Sequences. Journal of Computational Biology 1(4): 349- (1994) | |
1993 | ||
10 | Dalit Naor, Douglas L. Brutlag: On Suboptimal Alignments of Biological Sequences. CPM 1993: 179-196 | |
9 | Tod M. Klingler, Douglas L. Brutlag: Detection of Correlations in tRNA Sequences with Structural Implications. ISMB 1993: 225-233 | |
8 | EE | Douglas L. Brutlag, Jean-Pierre Dautricourt, Ron Diaz, Jeff Fier, Bruce Moxon, Richard Stamm: BLAZETM: An Implementation of the Smith-Waterman Sequence Comparison Algorithm on a Massively Parallel Computer. Computers & Chemistry 17(2): 203-207 (1993) |
1991 | ||
7 | Douglas L. Brutlag, A. R. Galper, D. H. Millis: Knowledge-based simulation of DNA metabolism: prediction of enzyme action. Computer Applications in the Biosciences 7(1): 9-19 (1991) | |
1990 | ||
6 | Douglas L. Brutlag, Jean-Pierre Dautricourt, S. Maulik, J. Relph: Improved sensitivity of biological sequence database searches. Computer Applications in the Biosciences 6(3): 237-245 (1990) | |
1986 | ||
5 | Dennis H. Smith, Douglas L. Brutlag, Peter Friedland, Laurence H. Kedes: BIONET: national computer resource for molecular biology. Nucleic Acids Research 14(1): 17-20 (1986) | |
1984 | ||
4 | R. M. Abarbanel, Paul R. Wieneke, E. Mansfield, David A. Jaffe, Douglas L. Brutlag: Rapid searches for complex patterns in biological molecules. Nucleic Acids Research 12(1): 263-280 (1984) | |
1982 | ||
3 | Douglas L. Brutlag, J. Clayton, Peter Friedland, Laurence H. Kedes: SEQ: a nucleotide sequence analysis and recombination system. Nucleic Acids Research 10(1): 279-294 (1982) | |
2 | R. Bach, Peter Friedland, Douglas L. Brutlag, Laurence H. Kedes: MAXAMIZE. A DNA sequencing strategy advisor. Nucleic Acids Research 10(1): 295-304 (1982) | |
1 | Peter Friedland, Laurence H. Kedes, Douglas L. Brutlag, Yumi Iwasaki, R. Bach: GENESIS, a knowledge-based genetic engineering simulation system for representation of genetic data and experiment planning. Nucleic Acids Research 10(1): 323-340 (1982) |