Russ B. Altman

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2011
93CAMPAIGN: an open-source library of GPU-accelerated data clustering algorithms. Kai J. Kohlhoff, Marc H. Sosnick, William T. Hsu, Vijay S. Pande, Russ B. Altman. Bioinformatics (27): 2321-2322 (2011). Web SearchBibTeXDownload
92Bioinformatics challenges for personalized medicine. Guy Haskin Fernald, Emidio Capriotti, Roxana Daneshjou, Konrad J. Karczewski, Russ B. Altman. Bioinformatics (27): 2323 (2011). Web SearchBibTeXDownload
91Genome Analysis. Guy Haskin Fernald, Emidio Capriotti, Roxana Daneshjou, Konrad J. Karczewski, Russ B. Altman. Bioinformatics [ISMB/ECCB] (27): 1741-1748 (2011). Web SearchBibTeXDownload
90Fast Flexible Modeling of RNA Structure Using Internal Coordinates. Samuel Coulbourn Flores, Michael Sherman, Christopher M. Bruns, Peter Eastman, Russ B. Altman. IEEE/ACM Trans. Comput. Biology Bioinform. (8): 1247-1257 (2011). Web SearchBibTeXDownload
892010 Translational bioinformatics year in review. Russ B. Altman, Katharine S. Miller. JAMIA (18): 358-366 (2011). Web SearchBibTeXDownload
88Structural insights into Pre-Translocation Ribosome Motions. Samuel Coulbourn Flores, Russ B. Altman. Pacific Symposium on Biocomputing 2011, 205-216. Web SearchBibTeXDownload
2010
87Content-based microarray search using differential expression profiles. Jesse M. Engreitz, Alexander A. Morgan, Joel Dudley, Rong Chen, Rahul Thathoo, Russ B. Altman, Atul J. Butte. BMC Bioinformatics (11): 603 (2010). Web SearchBibTeXDownload
86Editorial: Current progress in Bioinformatics 2010. Russ B. Altman. Briefings in Bioinformatics (11): 1-2 (2010). Web SearchBibTeXDownload
85The utility of general purpose versus specialty clinical databases for research: Warfarin dose estimation from extracted clinical variables. Hersh Sagreiya, Russ B. Altman. Journal of Biomedical Informatics (43): 747-751 (2010). Web SearchBibTeXDownload
84Using text to build semantic networks for pharmacogenomics. Adrien Coulet, Nigam H. Shah, Yael Garten, Mark A. Musen, Russ B. Altman. Journal of Biomedical Informatics (43): 1009-1019 (2010). Web SearchBibTeXDownload
83Independent component analysis: Mining microarray data for fundamental human gene expression modules. Jesse M. Engreitz, Bernie J. Daigle Jr., Jonathan J. Marshall, Russ B. Altman. Journal of Biomedical Informatics (43): 932-944 (2010). Web SearchBibTeXDownload
82Predicting RNA Structure by Multiple Template Homology Modeling. Samuel Flores, Yaqi Wan, Rick Russell, Russ B. Altman. Pacific Symposium on Biocomputing 2010, 216-227. Web SearchBibTeXDownload
81Extraction of Genotype-Phenotype-Drug Relationships from Text: From Entity Recognition to Bioinformatics Application. Adrien Coulet, Nigam H. Shah, Lawrence Hunter, Chitta Baral, Russ B. Altman. Pacific Symposium on Biocomputing 2010, 485-487. Web SearchBibTeXDownload
80Improving the Prediction of Pharmacogenes Using Text-Derived Gene-Drug Relationships. Yael Garten, Nicholas P. Tatonetti, Russ B. Altman. Pacific Symposium on Biocomputing 2010, 305-314. Web SearchBibTeXDownload
2009
79Knowledge-based instantiation of full atomic detail into coarse-grain RNA 3D structural models. Magdalena A. Jonikas, Randall J. Radmer, Russ B. Altman. Bioinformatics (25): 3259-3266 (2009). Web SearchBibTeXDownload
78Pharmspresso: a text mining tool for extraction of pharmacogenomic concepts and relationships from full text. Yael Garten, Russ B. Altman. BMC Bioinformatics (10) (2009). Web SearchBibTeXDownload
77Towards a Cytokine-Cell Interaction Knowledgebase of the Adaptive Immune System. Shai Shen-Orr, Ofir Goldberger, Yael Garten, Yael Rosenberg-Hasson, Patricia A. Lovelace, David Hirschberg, Russ B. Altman, Mark M. Davis, Atul J. Butte. Pacific Symposium on Biocomputing 2009, 439-450. Web SearchBibTeXDownload
2008
76MScanner: a classifier for retrieving Medline citations. Graham L. Poulter, Daniel L. Rubin, Russ B. Altman, Cathal Seoighe. BMC Bioinformatics (9) (2008). Web SearchBibTeXDownload
75M-BISON: Microarray-based integration of data sources using networks. Bernie J. Daigle Jr., Russ B. Altman. BMC Bioinformatics (9) (2008). Web SearchBibTeXDownload
74Text mining for pharmacogenomics. Russ B. Altman. DTMBIO 2008, 1-2. Web SearchBibTeXDownload
73Efficient Algorithms to Explore Conformation Spaces of Flexible Protein Loops. Ankur Dhanik, Ankur Dhanik, Nathan Marz, Ryan Propper, Charles Kou, Guanfeng Liu, Henry van den Bedem, Jean-Claude Latombe, Inbal Halperin-Landsberg, Russ B. Altman. IEEE/ACM Trans. Comput. Biology Bioinform. (5): 534-545 (2008). Web SearchBibTeXDownload
72The pharmacogenetics and pharmacogenomics knowledge base: accentuating the knowledge. Tina Hernandez-Boussard, Michelle Whirl Carrillo, Joan M. Hebert, Li Gong, Ryan Owen, Mei Gong, Winston Gor, Feng Liu, Chuong Truong, Ryan Whaley, Mark Woon, Tina Zhou, Russ B. Altman, Teri E. Klein. Nucleic Acids Research (36): 913-918 (2008). Web SearchBibTeXDownload
71Combining Molecular Dynamics and Machine Learning to Improve Protein Function Recognition. Dariya S. Glazer, Randall J. Radmer, Russ B. Altman. Pacific Symposium on Biocomputing 2008, 332-343. Web SearchBibTeXDownload
2007
70Combining Simulation and Machine Learning to Recognize Function in 4D. Russ B. Altman. BIBM 2007, 3. Web SearchBibTeXDownload
69Clustering protein environments for function prediction: finding PROSITE motifs in 3D. Sungroh Yoon, Jessica C. Ebert, Eui-Young Chung, Giovanni De Micheli, Russ B. Altman. BMC Bioinformatics (8) (2007). Web SearchBibTeXDownload
68Current progress in bioinformatics 2007. Russ B. Altman. Briefings in Bioinformatics (8): 277-278 (2007). Web SearchBibTeXDownload
67Biomedical informatics training at Stanford in the 21st century. Russ B. Altman, Teri E. Klein. Journal of Biomedical Informatics (40): 55-58 (2007). Web SearchBibTeXDownload
66Extracting Subject Demographic Information From Abstracts of Randomized Clinical Trial Reports. Rong Xu, Yael Garten, Kaustubh S. Supekar, Amar K. Das, Russ B. Altman, Alan M. Garber. MedInfo 2007, 550-554. Web SearchBibTeXDownload
2006
65Annual Progress in Bioinformatics 2006. Russ B. Altman. Briefings in Bioinformatics (7): 209-210 (2006). Web SearchBibTeXDownload
64Physics-based simulation of biological structures. Scott L. Delp, F. Clayton Anderson, Russ B. Altman. ISBI 2006, 802-805. Web SearchBibTeXDownload
63Choosing Snps Using Feature Selection. Tu Minh Phuong, Zhen Lin, Russ B. Altman. J. Bioinformatics and Computational Biology (4): 241-258 (2006). Web SearchBibTeXDownload
2005
62Editorial: Annual progress in bioinformatics. Russ B. Altman. Briefings in Bioinformatics (6): 4-5 (2005). Web SearchBibTeXDownload
61Challenges in Creating an Infrastructure for Physics-Based Simulation of Biological Structures. Russ B. Altman. CSB 2005, 3. Web SearchBibTeXDownload
60Choosing SNPs Using Feature Selection. Tu Minh Phuong, Zhen Lin, Russ B. Altman. CSB 2005, 301-309. Web SearchBibTeXDownload
59Research Paper: Using Petri Net Tools to Study Properties and Dynamics of Biological Systems. Mor Peleg, Daniel L. Rubin, Russ B. Altman. JAMIA (12): 181-199 (2005). Web SearchBibTeXDownload
58Application of Information Technology: A Statistical Approach to Scanning the Biomedical Literature for Pharmacogenetics Knowledge. Daniel L. Rubin, Caroline F. Thorn, Teri E. Klein, Russ B. Altman. JAMIA (12): 121-129 (2005). Web SearchBibTeXDownload
57Biomedical term mapping databases. Jonathan D. Wren, Jeffrey T. Chang, James Pustejovsky, Eytan Adar, Harold R. Garner, Russ B. Altman. Nucleic Acids Research (33): 289-293 (2005). Web SearchBibTeXDownload
2004
56GAPSCORE: finding gene and protein names one word at a time. Jeffrey T. Chang, Hinrich Schütze, Russ B. Altman. Bioinformatics (20): 216-225 (2004). Web SearchBibTeXDownload
55Tools for loading MEDLINE into a local relational database. Diane E. Oliver, Gaurav Bhalotia, Ariel S. Schwartz, Russ B. Altman, Marti A. Hearst. BMC Bioinformatics (5): 146 (2004). Web SearchBibTeXDownload
54Editorial: Building successful biological databases. Russ B. Altman. Briefings in Bioinformatics (5): 4 (2004). Web SearchBibTeXDownload
2003
53MutDB: annotating human variation with functionally relevant data. Sean D. Mooney, Russ B. Altman. Bioinformatics (19): 1858-1860 (2003). Web SearchBibTeXDownload
52Knowledge acquisition, consistency checking and concurrency control for Gene Ontology (GO). Iwei Yeh, Peter D. Karp, Natalya Fridman Noy, Russ B. Altman. Bioinformatics (19): 241-248 (2003). Web SearchBibTeXDownload
51A literature-based method for assessing the functional coherence of a gene group. Soumya Raychaudhuri, Russ B. Altman. Bioinformatics (19): 396-401 (2003). Web SearchBibTeXDownload
50A Personalized and Automated dbSNP Surveillance System. Shuo Liu, Steve Lin, Mark Woon, Teri E. Klein, Russ B. Altman. CSB 2003, 132-136. Web SearchBibTeXDownload
49Automatic Construction of 3D Structural Motifs for Protein Function Prediction. Mike P. Liang, Douglas L. Brutlag, Russ B. Altman. CSB 2003, 613-614. Web SearchBibTeXDownload
48Recognizing Complex, Asymmetric Functional Sites in Protein Structures Using a Bayesian Scoring Function. Liping Wei, Russ B. Altman. J. Bioinformatics and Computational Biology (1): 119-138 (2003). Web SearchBibTeXDownload
47Inclusion of Textual Documentation in the Analysis of Multidimensional Data Sets: Application to Gene Expression Data. Soumya Raychaudhuri, Hinrich Schütze, Russ B. Altman. Machine Learning (52): 119-145 (2003). Web SearchBibTeXDownload
46WebFEATURE: an interactive web tool for identifying and visualizing functional sites on macromolecular structures. Mike P. Liang, D. Rey Banatao, Teri E. Klein, Douglas L. Brutlag, Russ B. Altman. Nucleic Acids Research (31): 3324-3327 (2003). Web SearchBibTeXDownload
45Complexities of Managing Biomedical Information. Russ B. Altman. OMICS (7): 127-130 (2003). Web SearchBibTeXDownload
44Automated Construction of Structural Motifs for Predicting Functional Sites on Protein Structures. Mike P. Liang, Douglas L. Brutlag, Russ B. Altman. Pacific Symposium on Biocomputing 2003, 204-215. Web SearchBibTeXDownload
43Special Paper - Introduction. Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein. Pacific Symposium on Biocomputing 2003, 636-637. Web SearchBibTeXDownload
42Edinburgh-Stanford TREC-2003 Genomics Track. Miles Osborne, Mark Cuminskey, Gail Sinclair, Matthew Smillie, Bonnie L. Webber, Jeffrey T. Chang, Nipun Mehra, Veronica Rotemberg, Russ B. Altman. TREC 2003, 622-630. Web SearchBibTeXDownload
2002
41Modelling biological processes using workflow and Petri Net models. Mor Peleg, Iwei Yeh, Russ B. Altman. Bioinformatics (18): 825-837 (2002). Web SearchBibTeXDownload
40Nonparametric methods for identifying differentially expressed genes in microarray data. Olga G. Troyanskaya, Mitchell E. Garber, Patrick O. Brown, David Botstein, Russ B. Altman. Bioinformatics (18): 1454-1461 (2002). Web SearchBibTeXDownload
39Emerging scientific applications in data mining. Jiawei Han, Russ B. Altman, Vipin Kumar, Heikki Mannila, Daryl Pregibon. Commun. ACM (45): 54-58 (2002). Cited by 47Web SearchBibTeXDownload
38Representing genetic sequence data for pharmacogenomics: an evolutionary approach using ontological and relational models. Daniel L. Rubin, Farhad Shafa, Diane E. Oliver, Micheal Hewett, Russ B. Altman. ISMB 2002, 207-215. Web SearchBibTeX
37PharmGKB: the Pharmacogenetics Knowledge Base. Micheal Hewett, Diane E. Oliver, Daniel L. Rubin, Katrina L. Easton, Joshua M. Stuart, Russ B. Altman, Teri E. Klein. Nucleic Acids Research (30): 163-165 (2002). Web SearchBibTeXDownload
36Automating Data Acquisition into Ontologies from Pharmacogenetics Relational Data Sources Using Declarative Object Definitions and XML. Daniel L. Rubin, Micheal Hewett, Diane E. Oliver, Teri E. Klein, Russ B. Altman. Pacific Symposium on Biocomputing 2002, 88-99. Web SearchBibTeXDownload
35Ontology Development for a Pharmacogenetics Knowledge Base. Diane E. Oliver, Daniel L. Rubin, Joshua M. Stuart, Micheal Hewett, Teri E. Klein, Russ B. Altman. Pacific Symposium on Biocomputing 2002, 65-76. Web SearchBibTeXDownload
2001
34Missing value estimation methods for DNA microarrays. Olga G. Troyanskaya, Michael Cantor, Gavin Sherlock, Patrick O. Brown, Trevor Hastie, Robert Tibshirani, David Botstein, Russ B. Altman. Bioinformatics (17): 520-525 (2001). Web SearchBibTeXDownload
33Challenges for Intelligent Systems in Biology. Russ B. Altman, Alfonso Valencia, Satoru Miyano, Shoba Ranganathan. IEEE Intelligent Systems (16): 14-20 (2001). Web SearchBibTeXDownload
32Constrained Global Optimization for Estimating Molecular Structure from Atomic Distances. Glenn A. Williams, Jonathan M. Dugan, Russ B. Altman. Journal of Computational Biology (8): 523-548 (2001). Web SearchBibTeX
31Challenges for knowledge discovery in biology. Russ B. Altman. KDD 2001, 2. Web SearchBibTeXDownload
30Including Biological Literature Improves Homology Search. Jeffrey T. Chang, Soumya Raychaudhuri, Russ B. Altman. Pacific Symposium on Biocomputing 2001, 374-383. Web SearchBibTeXDownload
29Using Metacomputing Tools to Facilitate Large Scale Analyses of Biological Databases. Allison Waugh, Glenn A. Williams, Liping Wei, Russ B. Altman. Pacific Symposium on Biocomputing 2001, 360-371. Web SearchBibTeXDownload
28ViewFeature: Integrated Feature Analysis and Visualization. D. Rey Banatao, Conrad C. Huang, Patricia C. Babbitt, Russ B. Altman, Teri E. Klein. Pacific Symposium on Biocomputing 2001, 240-250. Web SearchBibTeXDownload
2000
27Pattern Recognition of Genomic Features with Microarrays: Site Typing of Mycobacterium Tuberculosis Strains. Soumya Raychaudhuri, Joshua M. Stuart, Xuemin Liu, Peter M. Small, Russ B. Altman. ISMB 2000, 286-295. Web SearchBibTeX
1999
26AI in Medicine: The Spectrum of Challenges from Managed Care to Molecular Medicine. Russ B. Altman. AI Magazine (20): 67-77 (1999). Web SearchBibTeXDownload
25Using imperfect secondary structure predictions to improve molecular structure computations. Cheng Che Chen, Jaswinder Pal Singh, Russ B. Altman. Bioinformatics (15): 53-65 (1999). Web SearchBibTeXDownload
24RiboWeb: An Ontology-Based System for Collaborative Molecular Biology. Russ B. Altman, Michael Bada, Xiaoqian J. Chai, Michelle Whirl Carrillo, Richard O. Chen, Neil F. Abernethy. IEEE Intelligent Systems (14): 68-76 (1999). Web SearchBibTeX
23Biomolecular Structure Estimation: A Case Study of Irregular Hierarchical Parallelism. Cheng Che Chen, Jaswinder Pal Singh, Russ B. Altman. PPSC 1999. Web SearchBibTeX
1998
22A curriculum for bioinformatics: the time is ripe. Russ B. Altman. Bioinformatics (14): 549-550 (1998). Web SearchBibTeXDownload
21Reuse, CORBA, and knowledge-based systems. John H. Gennari, Heyning Cheng, Russ B. Altman, Mark A. Musen. Int. J. Hum.-Comput. Stud. (49): 523-546 (1998). Web SearchBibTeXDownload
20A Surface Measure for Probabilistic Structural Computations. Jeanette P. Schmidt, Cheng Che Chen, Jonathan L. Cooper, Russ B. Altman. ISMB 1998, 148-156. Web SearchBibTeX
19Hierarchical Organization of Molecular Structure Computations. Cheng Che Chen, Jaswinder Pal Singh, Russ B. Altman. Journal of Computational Biology (5): 409-422 (1998). Web SearchBibTeX
18Sophia: Providing Basic Knowledge Services with a Common DBMS. Neil F. Abernethy, Russ B. Altman. KRDB 1998, 1.1-1.6. Web SearchBibTeXDownload
17The hierarchical organization of molecular structure computations. Cheng Che Chen, Jaswinder Pal Singh, Russ B. Altman. RECOMB 1998, 51-59. Web SearchBibTeXDownload
1997
16RIBOWEB: Linking Structural Computations to a Knowledge Base of Published Experimental Data. Richard O. Chen, Ramon M. Felciano, Russ B. Altman. ISMB 1997, 84-87. Web SearchBibTeX
15Standardized Representations of the Literature: Combining Diverse Sources of Ribosomal Data. Russ B. Altman, Neil F. Abernethy, Richard O. Chen. ISMB 1997, 15-24. Web SearchBibTeX
1996
14Constraining volume by matching the moments of a distance distribution. Cheng Che Chen, Richard O. Chen, Russ B. Altman. Computer Applications in the Biosciences (12): 319-326 (1996). Web SearchBibTeXDownload
1995
13Using a measure of structural variation to define a core for the globins. Mark Gerstein, Russ B. Altman. Computer Applications in the Biosciences (11): 633-644 (1995). Web SearchBibTeXDownload
12A probabilistic approach to determining biological structure: integrating uncertain data sources. Russ B. Altman. Int. J. Hum.-Comput. Stud. (42): 593-616 (1995). Web SearchBibTeXDownload
11Characterizing Oriented Protein Structural Sites Using Biochemical Properties. Steven C. Bagley, Liping Wei, Carol Cheng, Russ B. Altman. ISMB 1995, 12-20. Web SearchBibTeX
10Reuse with PROTÉgÉ-II: From Elevators to Ribosomes. John H. Gennari, Russ B. Altman, Mark A. Musen. SSR 1995, 72-80. Web SearchBibTeX
1994
9Constraint Satisfaction Techniques for Modeling Large Complexes: Application to the Central Domain of 16S Ribosomal RNA. Russ B. Altman, Bryn Weiser, Harry F. Noller. ISMB 1994, 10-18. Web SearchBibTeX
8Finding an Average Core Structure: Application to the Globins. Russ B. Altman, Mark Gerstein. ISMB 1994, 19-27. Web SearchBibTeX
7Parallel protein structure determination from uncertain data. Cheng Che Chen, Jaswinder Pal Singh, William B. Poland, Russ B. Altman. SC 1994, 570-579. Web SearchBibTeXDownload
6Probabilistic Constraint Satisfaction with Non-Gaussian Noise. Russ B. Altman, Cheng Che Chen, William B. Poland, Jaswinder Pal Singh. UAI 1994, 15-22. Web SearchBibTeXDownload
1993
5Probabilistic Structure Calculations: A Three-Dimensional tRNA Structure from Sequence Correlation Data. Russ B. Altman. ISMB 1993, 12-20. Web SearchBibTeX
4A Probabilistic Algorithm for Calculating Structure: Borrowing from Simulated Annealing. Russ B. Altman. UAI 1993, 23-31. Web SearchBibTeXDownload
1988
3Heuristic refinement method for the derivation of protein solution structures: validation on cytochrome b562. James F. Brinkley, Russ B. Altman, Bruce S. Duncan, Bruce G. Buchanan, Oleg Jardetzky. Journal of Chemical Information and Computer Sciences (28): 194-210 (1988). Web SearchBibTeXDownload
1987
2Partial Compilation of Strategic Knowledge. Russ B. Altman, Bruce G. Buchanan. AAAI 1987, 399-404. Web SearchBibTeX
1986
1PROTEAN: Deriving Protein Structure from Constraints. Barbara Hayes-Roth, Bruce G. Buchanan, Olivier Lichtarge, Mike Hewitt, Russ B. Altman, James F. Brinkley, Craig Cornelius, Bruce S. Duncan, Oleg Jardetzky. AAAI 1986, 904-909. Web SearchBibTeX
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References
1. ^ KDD-2002: Tutorials - Retrieved 2010-11-12 - details
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