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ORCIDRuss B. Altman
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- affiliation: Stanford University, CA, USA
- award: Presidential Early Career Award for Scientists and Engineers
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2020 – today
- 2024
[j124]Daniel N. Sosa, Georgiana Neculae, Julien Fauqueur, Russ B. Altman:
Elucidating the semantics-topology trade-off for knowledge inference-based pharmacological discovery. J. Biomed. Semant. 15(1): 5 (2024)- [c86]Gautam Machiraju, Alexander Derry, Arjun D. Desai, Neel Guha, Amir-Hossein Karimi, James Zou, Russ B. Altman, Christopher Ré, Parag Mallick:
Prospector Heads: Generalized Feature Attribution for Large Models & Data. ICML 2024 - [i11]Gautam Machiraju, Alexander Derry
, Arjun D. Desai, Neel Guha, Amir-Hossein Karimi, James Zou, Russ B. Altman, Christopher Ré, Parag Mallick:
Prospector Heads: Generalized Feature Attribution for Large Models & Data. CoRR abs/2402.11729 (2024) - [i10]Kaixuan Huang, Yuanhao Qu, Henry Cousins, William A. Johnson, Di Yin, Mihir Shah, Denny Zhou, Russ B. Altman, Mengdi Wang, Le Cong:
CRISPR-GPT: An LLM Agent for Automated Design of Gene-Editing Experiments. CoRR abs/2404.18021 (2024) - [i9]Abdoul Jalil Djiberou Mahamadou, Lea Goetz, Russ B. Altman:
Individual Fairness Through Reweighting and Tuning. CoRR abs/2405.01711 (2024) - [i8]Abdoul Jalil Djiberou Mahamadou, Aloysius Ochasi, Russ B. Altman:
Data Ethics in the Era of Healthcare Artificial Intelligence in Africa: An Ubuntu Philosophy Perspective. CoRR abs/2406.10121 (2024) - [i7]Aloysius Ochasi, Abdoul Jalil Djiberou Mahamadou, Russ B. Altman:
Justice in Healthcare Artificial Intelligence in Africa. CoRR abs/2406.10653 (2024) - 2023
- [j123]Henry Cousins, Taryn Hall, Yinglong Guo, Luke Tso, Kathy T. H. Tzeng, Le Cong, Russ B. Altman:
Gene set proximity analysis: expanding gene set enrichment analysis through learned geometric embeddings, with drug-repurposing applications in COVID-19. Bioinform. 39(1) (2023) - [j122]Lu Yang, Sheng Wang, Russ B. Altman:
POPDx: an automated framework for patient phenotyping across 392 246 individuals in the UK Biobank study. J. Am. Medical Informatics Assoc. 30(2): 245-255 (2023) - [j121]Daniel N. Sosa, Rogier Hintzen, Betty Xiong, Alex de Giorgio, Julien Fauqueur, Mark Davies, Jake Lever, Russ B. Altman:
Associating biological context with protein-protein interactions through text mining at PubMed scale. J. Biomed. Informatics 145: 104474 (2023) - [c85]Daniel N. Sosa, Malavika Suresh, Christopher Potts, Russ B. Altman:
Detecting Contradictory COVID-19 Drug Efficacy Claims from Biomedical Literature. ACL (2) 2023: 694-713 - [d3]Alexander Derry, Russ B. Altman:
Data for PARSE (Derry & Altman 2023). Zenodo, 2023
- 2022
- [j120]Margaret G. Guo, Daniel N. Sosa, Russ B. Altman:
Challenges and opportunities in network-based solutions for biological questions. Briefings Bioinform. 23(1) (2022) - [j119]Daniel N. Sosa, Russ B. Altman:
Contexts and contradictions: a roadmap for computational drug repurposing with knowledge inference. Briefings Bioinform. 23(4) (2022) - [j118]Tianyun Liu, Shiyin Wang, Michael Wornow, Russ B. Altman:
Construction of disease-specific cytokine profiles by associating disease genes with immune responses. PLoS Comput. Biol. 18(4) (2022) - [d2]Alexander Derry, Russ B. Altman:
Data for COLLAPSE: A representation learning framework for identification and characterization of protein structural sites. Zenodo, 2022 - [i6]Lu Yang, Sheng Wang, Russ B. Altman:
POPDx: An Automated Framework for Patient Phenotyping across 392, 246 Individuals in the UK Biobank Study. CoRR abs/2208.11223 (2022) - [i5]Daniel N. Sosa, Malavika Suresh, Christopher Potts, Russ B. Altman:
Detecting Contradictory COVID-19 Drug Efficacy Claims from Biomedical Literature. CoRR abs/2212.09867 (2022) - 2021
- [j117]Emily R. Flynn, Annie Chang, Russ B. Altman:
Large-scale labeling and assessment of sex bias in publicly available expression data. BMC Bioinform. 22(1): 168 (2021) - [j116]Daniel N. Sosa, Binbin Chen, Amit Kaushal, Adam Lavertu, Jake Lever, Stefano E. Rensi, Russ B. Altman:
Repurposing biomedical informaticians for COVID-19. J. Biomed. Informatics 115: 103673 (2021) - [j115]Mike Wong, Paul Previde, Jack Cole, Brook Thomas, Nayana Laxmeshwar, Emily K. Mallory, Jake Lever, Dragutin Petkovic, Russ B. Altman, Anagha Kulkarni:
Search and visualization of gene-drug-disease interactions for pharmacogenomics and precision medicine research using GeneDive. J. Biomed. Informatics 117: 103732 (2021) - [j114]Lichy Han, Zahra N. Sayyid, Russ B. Altman:
Modeling drug response using network-based personalized treatment prediction (NetPTP) with applications to inflammatory bowel disease. PLoS Comput. Biol. 17(2) (2021) - [c84]Andre Kumar, Rachael C. Aikens, Jason Horn, Lisa Shieh, Mark A. Musen, Michael T. M. Baiocchi, Russ B. Altman, Mary K. Goldstein, Steven M. Asch, Jonathan H. Chen:
Randomized user testing of recommender system clinical decision support. AMIA 2021 - [c83]Raphael J. L. Townshend, Martin Vögele, Patricia Suriana, Alexander Derry, Alexander S. Powers, Yianni Laloudakis, Sidhika Balachandar, Bowen Jing, Brandon M. Anderson, Stephan Eismann, Risi Kondor, Russ B. Altman, Ron O. Dror:
ATOM3D: Tasks on Molecules in Three Dimensions. NeurIPS Datasets and Benchmarks 2021 - [c82]Gregory McInnes, Russ B. Altman:
Drug Response Pharmacogenetics for 200, 000 UK Biobank Participants. PSB 2021 - [d1]Alexander Derry, Kristy A. Carpenter, Russ B. Altman:
Data for "Training data composition affects performance of protein structure analysis algorithms" by A. Derry, K. A. Carpenter, & R. B. Altman. Zenodo, 2021 - [i4]Rishi Bommasani, Drew A. Hudson, Ehsan Adeli, Russ B. Altman, Simran Arora, Sydney von Arx, Michael S. Bernstein, Jeannette Bohg, Antoine Bosselut, Emma Brunskill, Erik Brynjolfsson, Shyamal Buch, Dallas Card, Rodrigo Castellon, Niladri S. Chatterji, Annie S. Chen, Kathleen Creel, Jared Quincy Davis, Dorottya Demszky, Chris Donahue, Moussa Doumbouya, Esin Durmus, Stefano Ermon, John Etchemendy, Kawin Ethayarajh, Li Fei-Fei, Chelsea Finn, Trevor Gale, Lauren E. Gillespie, Karan Goel, Noah D. Goodman, Shelby Grossman, Neel Guha, Tatsunori Hashimoto, Peter Henderson, John Hewitt, Daniel E. Ho, Jenny Hong, Kyle Hsu, Jing Huang, Thomas Icard, Saahil Jain, Dan Jurafsky, Pratyusha Kalluri, Siddharth Karamcheti, Geoff Keeling, Fereshte Khani, Omar Khattab, Pang Wei Koh, Mark S. Krass, Ranjay Krishna, Rohith Kuditipudi, et al.:
On the Opportunities and Risks of Foundation Models. CoRR abs/2108.07258 (2021) - 2020
- [j113]Emily K. Mallory, Matthieu de Rochemonteix, Alexander Ratner, Ambika Acharya, Christopher Ré, Roselie A. Bright, Russ B. Altman:
Extracting chemical reactions from text using Snorkel. BMC Bioinform. 21(1): 217 (2020) - [j112]Kun-Hsing Yu, Feiran Wang, Gerald J. Berry, Christopher Ré, Russ B. Altman, Michael Snyder, Isaac S. Kohane:
Classifying non-small cell lung cancer types and transcriptomic subtypes using convolutional neural networks. J. Am. Medical Informatics Assoc. 27(5): 757-769 (2020) - [j111]Andre Kumar, Rachael C. Aikens, Jason Hom, Lisa Shieh, Jonathan Chiang, David Morales, Divya Saini, Mark A. Musen, Michael T. M. Baiocchi, Russ B. Altman, Mary K. Goldstein, Steven M. Asch, Jonathan H. Chen:
OrderRex clinical user testing: a randomized trial of recommender system decision support on simulated cases. J. Am. Medical Informatics Assoc. 27(12): 1850-1859 (2020) - [j110]Sheng Wang, Emily R. Flynn, Russ B. Altman:
Gaussian embedding for large-scale gene set analysis. Nat. Mach. Intell. 2(7): 387-395 (2020) - [j109]Gregory McInnes, Rachel Dalton, Katrin Sangkuhl, Michelle Whirl Carrillo, Seung-been Lee, Philip S. Tsao, Andrea Gaedigk, Russ B. Altman, Erica L. Woodahl:
Transfer learning enables prediction of CYP2D6 haplotype function. PLoS Comput. Biol. 16(11): 1008399 (2020) - [c81]Daniel N. Sosa, Alexander Derry, Margaret G. Guo, Eric Wei, Connor Brinton, Russ B. Altman:
A Literature-Based Knowledge Graph Embedding Method for Identifying Drug RepurposingOpportunities in Rare Diseases. PSB 2020: 463-474 - [c80]Jake Lever, Julia M. Barbarino, Li Gong, Rachel Huddart, Katrin Sangkuhl, Ryan Whaley, Michelle Whirl Carrillo, Mark Woon, Teri E. Klein, Russ B. Altman:
PGxMine: Text Mining for Curation of PharmGKB. PSB 2020: 611-622 - [c79]Yash Pershad, Margaret G. Guo, Russ B. Altman:
Pathway and Network Embedding Methods for Prioritizing Psychiatric Drugs. PSB 2020: 671-682 - [e25]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Marylyn D. Ritchie, Tiffany Murray, Teri E. Klein:
Biocomputing 2021: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 3-7, 2021. WorldScientific 2020, ISBN 9789811232695 [contents] - [i3]Raphael J. L. Townshend, Martin Vögele, Patricia Suriana, Alexander Derry, Alexander S. Powers, Yianni Laloudakis, Sidhika Balachandar, Brandon M. Anderson, Stephan Eismann, Risi Kondor, Russ B. Altman, Ron O. Dror:
ATOM3D: Tasks On Molecules in Three Dimensions. CoRR abs/2012.04035 (2020)
2010 – 2019
- 2019
- [j108]Yu-Chen Lo, Tianyun Liu, Kari M. Morrissey, Satoko Kakiuchi-Kiyota, Adam R. Johnson, Fabio Broccatelli, Yu Zhong, Amita Joshi, Russ B. Altman:
Computational analysis of kinase inhibitor selectivity using structural knowledge. Bioinform. 35(2): 235-242 (2019) - [j107]Wen Torng, Russ B. Altman:
High precision protein functional site detection using 3D convolutional neural networks. Bioinform. 35(9): 1503-1512 (2019) - [j106]Jennifer L. Wilson, Mike Wong, Ajinkya Chalke, Nicholas Stepanov, Dragutin Petkovic, Russ B. Altman:
PathFXweb: a web application for identifying drug safety and efficacy phenotypes. Bioinform. 35(21): 4504-4506 (2019) - [j105]Adam Lavertu, Russ B. Altman:
RedMed: Extending drug lexicons for social media applications. J. Biomed. Informatics 99 (2019) - [j104]Wen Torng, Russ B. Altman:
Graph Convolutional Neural Networks for Predicting Drug-Target Interactions. J. Chem. Inf. Model. 59(10): 4131-4149 (2019) - [c78]Kun-Hsing Yu, Feiran Wang, Gerald J. Berry, Christopher Ré, Russ B. Altman, Michael Snyder, Isaac S. Kohane:
Classifying Non-Small Cell Lung Cancer Histopathology Types and Transcriptomic Subtypes using Convolutional Neural Networks. AMIA 2019 - [c77]Sheng Wang, Emily R. Flynn, Russ B. Altman:
GRep: Gene Set Representation via Gaussian Embedding. RECOMB 2019: 318-319 - [e24]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Marylyn D. Ritchie, Teri E. Klein:
Biocomputing 2019: Proceedings of the Pacific Symposium, The Big Island of Hawaii, Hawaii, USA, January 3-7, 2019. 2019 [contents] - 2018
- [j103]Lichy Han, Mateusz Maciejewski, Christoph Brockel, William Gordon, Scott B. Snapper, Joshua R. Korzenik, Lovisa Afzelius, Russ B. Altman:
A probabilistic pathway score (PROPS) for classification with applications to inflammatory bowel disease. Bioinform. 34(6): 985-993 (2018) - [j102]Bethany Percha, Russ B. Altman:
A global network of biomedical relationships derived from text. Bioinform. 34(15): 2614-2624 (2018) - [j101]Weizhuang Zhou, Russ B. Altman:
Data-driven human transcriptomic modules determined by independent component analysis. BMC Bioinform. 19(1): 327:1-327:25 (2018) - [j100]Bethany Percha, Yuhao Zhang, Selen Bozkurt, Daniel L. Rubin, Russ B. Altman, Curtis P. Langlotz:
Expanding a radiology lexicon using contextual patterns in radiology reports. J. Am. Medical Informatics Assoc. 25(6): 679-685 (2018) - [j99]Jennifer L. Wilson, Rebecca Racz, Tianyun Liu, Oluseyi Adeniyi, Jielin Sun, Anuradha Ramamoorthy, Michael Pacanowski, Russ B. Altman:
PathFX provides mechanistic insights into drug efficacy and safety for regulatory review and therapeutic development. PLoS Comput. Biol. 14(12) (2018) - [c76]Kun-Hsing Yu, Gerald J. Berry, Daniel L. Rubin, Christopher Ré, Russ B. Altman, Michael Snyder:
Unraveling the Molecular Basis of Lung Adenocarcinoma Dedifferentiation and Prognosis by Integrating Omics and Histopathology. AMIA 2018 - [c75]Emily K. Mallory, Ambika Acharya, Stefano E. Rensi, Peter J Turnbaugh, Roselie A. Bright, Russ B. Altman:
Chemical reaction vector embeddings: towards predicting drug metabolism in the human gut microbiome. PSB 2018: 56-67 - [c74]Dragutin Petkovic, Russ B. Altman, Mike Wong, Arthur Vigil:
Improving the explainability of Random Forest classifier - user centered approach. PSB 2018: 204-215 - [c73]Paul Previde, Brook Thomas, Mike Wong, Emily K. Mallory, Dragutin Petkovic, Russ B. Altman, Anagha Kulkarni:
GeneDive: A gene interaction search and visualization tool to facilitate precision medicine. PSB 2018: 590-601 - [e23]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Marylyn D. Ritchie, Teri E. Klein:
Biocomputing 2018: Proceedings of the Pacific Symposium, The Big Island of Hawaii, Hawaii, USA, January 3-7, 2018. 2018 [contents] - 2017
- [j98]Weizhuang Zhou, Lichy Han, Russ B. Altman:
Imputing gene expression to maximize platform compatibility. Bioinform. 33(4): 522-528 (2017) - [j97]Wen Torng, Russ B. Altman:
3D deep convolutional neural networks for amino acid environment similarity analysis. BMC Bioinform. 18(1): 302 (2017) - [j96]Jonathan H. Chen, Muthuraman Alagappan, Mary K. Goldstein, Steven M. Asch, Russ B. Altman:
Decaying relevance of clinical data towards future decisions in data-driven inpatient clinical order sets. Int. J. Medical Informatics 102: 71-79 (2017) - [j95]Jonathan H. Chen, Mary K. Goldstein, Steven M. Asch, Lester W. Mackey, Russ B. Altman:
Predicting inpatient clinical order patterns with probabilistic topic models vs conventional order sets. J. Am. Medical Informatics Assoc. 24(3): 472-480 (2017) - [j94]Lichy Han, Robert Ball, Carol A. Pamer, Russ B. Altman, Scott Proestel:
Development of an automated assessment tool for MedWatch reports in the FDA adverse event reporting system. J. Am. Medical Informatics Assoc. 24(5): 913-920 (2017) - [j93]Stefano E. Rensi, Russ B. Altman:
Shallow Representation Learning via Kernel PCA Improves QSAR Modelability. J. Chem. Inf. Model. 57(8): 1859-1867 (2017) - [c72]Kun-Hsing Yu, Ce Zhang, Gerald J. Berry, Russ B. Altman, Christopher Ré, Daniel L. Rubin, Michael Snyder:
Predicting Non-Small Cell Lung Cancer Diagnosis and Prognosis by Fully Automated Microscopic Pathology Image Features. AMIA 2017 - [c71]Muthuraman Alagappan, Mary K. Goldstein, Steven M. Asch, Russ B. Altman, Jonathan H. Chen:
Decaying Relevance of Clinical Data when Predicting Future Decisions. CRI 2017 - [e22]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Marylyn D. Ritchie, Teri E. Klein:
Biocomputing 2017: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 3-7, 2017. 2017 [contents] - 2016
- [j92]Russ B. Altman:
Current Progress in Bioinformatics 2016. Briefings Bioinform. 17(1): 1 (2016) - [j91]Emily K. Mallory, Ce Zhang, Christopher Ré, Russ B. Altman:
Large-scale extraction of gene interactions from full-text literature using DeepDive. Bioinform. 32(1): 106-113 (2016) - [j90]Sara Hillenmeyer, Lea K. Davis, Eric R. Gamazon, Edwin H. Cook Jr., Nancy J. Cox, Russ B. Altman:
STAMS: STRING-assisted module search for genome wide association studies and application to autism. Bioinform. 32(24): 3815-3822 (2016) - [j89]Jonathan H. Chen, Tanya Podchiyska, Russ B. Altman:
OrderRex: clinical order decision support and outcome predictions by data-mining electronic medical records. J. Am. Medical Informatics Assoc. 23(2): 339-348 (2016) - [j88]Steven C. Bagley, Russ B. Altman:
Computing disease incidence, prevalence and comorbidity from electronic medical records. J. Biomed. Informatics 63: 108-111 (2016) - [j87]Steven C. Bagley, Marina Sirota, Richard O. Chen, Atul J. Butte, Russ B. Altman:
Constraints on Biological Mechanism from Disease Comorbidity Using Electronic Medical Records and Database of Genetic Variants. PLoS Comput. Biol. 12(4) (2016) - [c70]Jonathan H. Chen, Mary K. Goldstein, Steven M. Asch, Russ B. Altman:
Usability of an Automated Recommender System for Clinical Order Entry. AMIA 2016 - [c69]Jonathan H. Chen, Mary K. Goldstein, Steven M. Asch, Lester W. Mackey, Russ B. Altman:
Automated Organization of Electronic Health Record Data by Probabilistic Topic Modeling to Inform Clinical Decision Making. CRI 2016 - [c68]Anthony E. Solomonides, Russ B. Altman, Joshua C. Denny, Larry Ozeran, Jessica D. Tenenbaum:
The Many Meanings of Precision Medicine. CRI 2016 - [c67]Jonathan H. Chen, Mary K. Goldstein, Steven M. Asch, Russ B. Altman:
Dynamically Evolving Clinical Practices and Implications for Predicting Medical Decisions. PSB 2016: 195-206 - [c66]Yong Fuga Li, Fuxiao Xin, Russ B. Altman:
Separating the Causes and Consequences in Disease Transcriptome. PSB 2016: 381-392 - [e21]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein, Marylyn D. Ritchie:
Biocomputing 2016: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 4-8, 2016. 2016 [contents] - 2015
- [j86]Omri Mugzach, Mor Peleg, Steven C. Bagley, Stephen J. Guter, Edwin H. Cook Jr., Russ B. Altman:
An ontology for Autism Spectrum Disorder (ASD) to infer ASD phenotypes from Autism Diagnostic Interview-Revised data. J. Biomed. Informatics 56: 333-347 (2015) - [j85]Tianyun Liu, Russ B. Altman:
Relating Essential Proteins to Drug Side-Effects Using Canonical Component Analysis: A Structure-Based Approach. J. Chem. Inf. Model. 55(7): 1483-1494 (2015) - [j84]Weizhuang Zhou, Grace W. Tang, Russ B. Altman:
High Resolution Prediction of Calcium-Binding Sites in 3D Protein Structures Using FEATURE. J. Chem. Inf. Model. 55(8): 1663-1672 (2015) - [j83]Amanda Miguel, Jen Hsin, Tianyun Liu, Grace W. Tang, Russ B. Altman, Kerwyn Casey Huang:
Variations in the Binding Pocket of an Inhibitor of the Bacterial Division Protein FtsZ across Genotypes and Species. PLoS Comput. Biol. 11(3) (2015) - [j82]Bethany Percha, Russ B. Altman:
Learning the Structure of Biomedical Relationships from Unstructured Text. PLoS Comput. Biol. 11(7) (2015) - [c65]Darla Hewett, Michelle Whirl Carrillo, Lawrence E. Hunter, Russ B. Altman, Teri E. Klein:
A Twentieth Anniversary Tribute to PSB. Pacific Symposium on Biocomputing 2015: 1-7 - [c64]Kristine A. Pattin, Anna C. Greene, Russ B. Altman, Kevin Bretonnel Cohen, Elizabeth Wethington, Carsten Görg, Lawrence E. Hunter, Spencer V. Muse, Predrag Radivojac, Jason H. Moore:
Training the Next Generation of Quantitative Biologists in the Era of Big Data. Pacific Symposium on Biocomputing 2015: 488-492 - [e20]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein, Marylyn D. Ritchie:
Biocomputing 2015: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 4-8, 2015. 2015 [contents] - 2014
- [j81]Andrey Rzhetsky, Steven C. Bagley, Kanix Wang, Christopher S. Lyttle, Edwin H. Cook Jr., Russ B. Altman, Robert D. Gibbons:
Environmental and State-Level Regulatory Factors Affect the Incidence of Autism and Intellectual Disability. PLoS Comput. Biol. 10(3) (2014) - [j80]Grace W. Tang, Russ B. Altman:
Knowledge-based Fragment Binding Prediction. PLoS Comput. Biol. 10(4) (2014) - [c63]Jonathan H. Chen, Russ B. Altman:
"Doctors who ordered this also ordered..." Automated physician order recommendations and outcome predictions by data-mining electronic medical records. AMIA 2014 - [c62]Roxana Daneshjou, Zachary Zappala, Kimberly R. Kukurba, Sean M. Boyle, Kelly E. Ormond, Teri E. Klein, Michael Snyder, Carlos D. Bustamante, Russ B. Altman, Stephen B. Montgomery:
PATH-SCAN: A Reporting Tool for Identifying Clinically Actionable Variants. Pacific Symposium on Biocomputing 2014: 229-240 - [c61]Kristine A. Pattin, Anna C. Greene, Russ B. Altman, Lawrence E. Hunter, David A. Ross, James A. Foster, Jason H. Moore:
Building the Next Generation of Quantitative Biologists. Pacific Symposium on Biocomputing 2014: 417-421 - [e19]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein, Marylyn D. Ritchie:
Biocomputing 2014: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 3-7, 2014. 2014 [contents] - 2013
- [j79]Ryen W. White, Nicholas P. Tatonetti, Nigam H. Shah, Russ B. Altman, Eric Horvitz:
Web-scale pharmacovigilance: listening to signals from the crowd. J. Am. Medical Informatics Assoc. 20(3): 404-408 (2013) - [j78]Nicholas P. Tatonetti, Joshua C. Denny, Russ B. Altman:
Correspondence: Response to 'Use of an algorithm for identifying hidden drug-drug interactions in adverse event reports' by Gooden et al. J. Am. Medical Informatics Assoc. 20(3): 591 (2013) - [j77]Guy Haskin Fernald, Russ B. Altman:
Using Molecular Features of Xenobiotics to Predict Hepatic Gene Expression Response. J. Chem. Inf. Model. 53(10): 2765-2773 (2013) - [j76]Kai J. Kohlhoff, Vijay S. Pande, Russ B. Altman:
K-Means for Parallel Architectures Using All-Prefix-Sum Sorting and Updating Steps. IEEE Trans. Parallel Distributed Syst. 24(8): 1602-1612 (2013) - [c60]Omri Mugzach, Mor Peleg, Steven C. Bagley, Russ B. Altman:
Expanding the Autism Ontology to DSM-IV Criteria. AMIA 2013 - [c59]Bethany Percha, Russ B. Altman:
Inferring the semantic relationships of words within an ontology using random indexing: applications to pharmacogenomics. AMIA 2013 - [e18]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Tiffany Murray, Teri E. Klein:
Biocomputing 2013: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 3-7, 2013. World Scientific Publishing 2013, ISBN 978-1-62748-016-1 [contents] - [i2]Russ B. Altman, Cheng Che Chen, William B. Poland, Jaswinder Pal Singh:
Probabilistic Constraint Satisfaction with Non-Gaussian Noise. CoRR abs/1302.6780 (2013) - [i1]Russ B. Altman:
A Probabilistic Algorithm for Calculating Structure: Borrowing from Simulated Annealing. CoRR abs/1303.1456 (2013) - 2012
- [j75]Russ B. Altman:
Editorial: Current progress in Bioinformatics 2012. Briefings Bioinform. 13(4): 393-394 (2012) - [j74]Fabio Rinaldi, Simon Clematide, Yael Garten, Michelle Whirl Carrillo, Li Gong, Joan M. Hebert, Katrin Sangkuhl, Caroline F. Thorn, Teri E. Klein, Russ B. Altman:
Using ODIN for a PharmGKB revalidation experiment. Database J. Biol. Databases Curation 2012 (2012) - [j73]Nicholas P. Tatonetti, Guy Haskin Fernald, Russ B. Altman:
A novel signal detection algorithm for identifying hidden drug-drug interactions in adverse event reports. J. Am. Medical Informatics Assoc. 19(1): 79-85 (2012) - [j72]Scott L. Delp, Joy P. Ku, Vijay S. Pande, Michael A. Sherman, Russ B. Altman:
Simbios: an NIH national center for physics-based simulation of biological structures. J. Am. Medical Informatics Assoc. 19(2): 186-189 (2012) - [j71]Adrien Coulet, K. Bretonnel Cohen, Russ B. Altman:
The state of the art in text mining and natural language processing for pharmacogenomics. J. Biomed. Informatics 45(5): 825-826 (2012) - [j70]Russ B. Altman:
Introduction to Translational Bioinformatics Collection. PLoS Comput. Biol. 8(12) (2012) - [j69]Konrad J. Karczewski, Roxana Daneshjou, Russ B. Altman:
Chapter 7: Pharmacogenomics. PLoS Comput. Biol. 8(12) (2012) - [c58]Konrad J. Karczewski, Robert P. Tirrell, Pablo Cordero, Nicholas P. Tatonetti, Joel T. Dudley, Keyan Salari, Michael Snyder, Russ B. Altman, Stuart K. Kim:
Interpretome: A Freely Available, Modular, and Secure Personal Genome Interpretation Engine. Pacific Symposium on Biocomputing 2012: 339-350 - [c57]Bethany Percha, Yael Garten, Russ B. Altman:
Discovery and Explanation of Drug-Drug Interactions via Text Mining. Pacific Symposium on Biocomputing 2012: 410-421 - [c56]Marylyn D. Ritchie, Nancy J. Cox, Cheng Cheng, Scott Weiss, Teri E. Klein, Russ B. Altman:
Systems Pharmacogenomics-Bridging the Gap. Pacific Symposium on Biocomputing 2012: 442 - [e17]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Tiffany Murray, Teri E. Klein:
Biocomputing 2012: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 3-7, 2012. World Scientific Publishing 2012, ISBN 978-1-61839-811-6 [contents] - 2011
- [j68]Guy Haskin Fernald, Emidio Capriotti, Roxana Daneshjou, Konrad J. Karczewski, Russ B. Altman:
Genome Analysis. Bioinform. 27(13): 1741-1748 (2011) - [j67]Kai J. Kohlhoff, Marc H. Sosnick, William T. Hsu, Vijay S. Pande, Russ B. Altman:
CAMPAIGN: an open-source library of GPU-accelerated data clustering algorithms. Bioinform. 27(16): 2321-2322 (2011) - [j66]Guy Haskin Fernald, Emidio Capriotti, Roxana Daneshjou, Konrad J. Karczewski, Russ B. Altman:
Bioinformatics challenges for personalized medicine. Bioinform. 27(16): 2323 (2011) - [j65]Adrien Coulet, Yael Garten, Michel Dumontier, Russ B. Altman, Mark A. Musen, Nigam H. Shah:
Integration and publication of heterogeneous text-mined relationships on the Semantic Web. J. Biomed. Semant. 2(S-2): S10 (2011) - [j64]Emidio Capriotti, Russ B. Altman:
Improving the prediction of disease-related variants using protein three-dimensional structure. BMC Bioinform. 12(S-4): S3 (2011) - [j63]Russ B. Altman, Katharine S. Miller:
2010 Translational bioinformatics year in review. J. Am. Medical Informatics Assoc. 18(4): 358-366 (2011) - [j62]Tianyun Liu, Russ B. Altman:
Using Multiple Microenvironments to Find Similar Ligand-Binding Sites: Application to Kinase Inhibitor Binding. PLoS Comput. Biol. 7(12) (2011) - [j61]Samuel Coulbourn Flores, Michael A. Sherman, Christopher M. Bruns, Peter K. Eastman, Russ B. Altman:
Fast Flexible Modeling of RNA Structure Using Internal Coordinates. IEEE ACM Trans. Comput. Biol. Bioinform. 8(5): 1247-1257 (2011) - [c55]Samuel Coulbourn Flores, Russ B. Altman:
Structural insights into Pre-Translocation Ribosome Motions. Pacific Symposium on Biocomputing 2011: 205-216 - [e16]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Tiffany Murray, Teri E. Klein:
Biocomputing 2011: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, 3-7 January 2011. World Scientific Publishing 2011, ISBN 978-981-4335-04-1 [contents] - 2010
- [j60]Russ B. Altman:
Editorial: Current progress in Bioinformatics 2010. Briefings Bioinform. 11(1): 1-2 (2010) - [j59]Jesse M. Engreitz, Alexander A. Morgan, Joel Dudley, Rong Chen, Rahul Thathoo, Russ B. Altman, Atul J. Butte:
Content-based microarray search using differential expression profiles. BMC Bioinform. 11: 603 (2010) - [j58]Nicholas P. Tatonetti, Joel Dudley, Hersh Sagreiya, Atul J. Butte, Russ B. Altman:
An integrative method for scoring candidate genes from association studies: application to warfarin dosing. BMC Bioinform. 11(S-9): S9 (2010) - [j57]Hersh Sagreiya, Russ B. Altman:
The utility of general purpose versus specialty clinical databases for research: Warfarin dose estimation from extracted clinical variables. J. Biomed. Informatics 43(5): 747-751 (2010) - [j56]Jesse M. Engreitz, Bernie J. Daigle Jr., Jonathan J. Marshall, Russ B. Altman:
Independent component analysis: Mining microarray data for fundamental human gene expression modules. J. Biomed. Informatics 43(6): 932-944 (2010) - [j55]Adrien Coulet, Nigam H. Shah, Yael Garten, Mark A. Musen, Russ B. Altman:
Using text to build semantic networks for pharmacogenomics. J. Biomed. Informatics 43(6): 1009-1019 (2010) - [j54]Bernie J. Daigle Jr., Alicia Deng, Tracey McLaughlin, Samuel W. Cushman, Margaret C. Cam, Gerald Reaven, Philip S. Tsao, Russ B. Altman:
Using Pre-existing Microarray Datasets to Increase Experimental Power: Application to Insulin Resistance. PLoS Comput. Biol. 6(3) (2010) - [c54]Samuel Flores, Yaqi Wan, Rick Russell, Russ B. Altman:
Predicting RNA Structure by Multiple Template Homology Modeling. Pacific Symposium on Biocomputing 2010: 216-227 - [c53]Yael Garten, Nicholas P. Tatonetti, Russ B. Altman:
Improving the Prediction of Pharmacogenes Using Text-Derived Gene-Drug Relationships. Pacific Symposium on Biocomputing 2010: 305-314 - [c52]Adrien Coulet, Nigam H. Shah, Lawrence Hunter, Chitta Baral, Russ B. Altman:
Extraction of Genotype-Phenotype-Drug Relationships from Text: From Entity Recognition to Bioinformatics Application. Pacific Symposium on Biocomputing 2010: 485-487 - [e15]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Tiffany Murray, Teri E. Klein:
Biocomputing 2010: Proceedings of the Pacific Symposium, Kamuela, Hawaii, USA, 4-8 January 2010. World Scientific Publishing 2010, ISBN 978-981-4295-29-1 [contents]
2000 – 2009
- 2009
- [j53]Magdalena A. Jonikas, Randall J. Radmer, Russ B. Altman:
Knowledge-based instantiation of full atomic detail into coarse-grain RNA 3D structural models. Bioinform. 25(24): 3259-3266 (2009) - [j52]Yael Garten, Russ B. Altman:
Pharmspresso: a text mining tool for extraction of pharmacogenomic concepts and relationships from full text. BMC Bioinform. 10(S-2) (2009) - [c51]Robert G. Turcott, Hersh Sagreiya, Euan A. Ashley, Russ B. Altman, Amar K. Das:
A General Framework for Dose Optimization. AMIA 2009 - [c50]Shai Shen-Orr, Ofir Goldberger, Yael Garten, Yael Rosenberg-Hasson, Patricia A. Lovelace, David L. Hirschberg, Russ B. Altman, Mark M. Davis, Atul J. Butte:
Towards a Cytokine-Cell Interaction Knowledgebase of the Adaptive Immune System. Pacific Symposium on Biocomputing 2009: 439-450 - [e14]Doheon Lee, Russ B. Altman, Min Song, Jun Huan:
Proceeding of the 3rd International Workshop on Data and Text Mining in Bioinformatics, DTMBIO 2009, Hong Kong, China, November 6, 2009. ACM 2009, ISBN 978-1-60558-803-2 [contents] - [e13]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Tiffany Murray, Teri E. Klein:
Biocomputing 2009: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, 5-9 January 2009. 2009, ISBN 978-981-283-692-2 [contents] - 2008
- [j51]Bernie J. Daigle Jr., Russ B. Altman:
M-BISON: Microarray-based integration of data sources using networks. BMC Bioinform. 9 (2008) - [j50]Graham L. Poulter, Daniel L. Rubin, Russ B. Altman, Cathal Seoighe:
MScanner: a classifier for retrieving Medline citations. BMC Bioinform. 9 (2008) - [j49]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:
The pharmacogenetics and pharmacogenomics knowledge base: accentuating the knowledge. Nucleic Acids Res. 36(Database-Issue): 913-918 (2008) - [j48]Jeanette P. Schmidt, Scott L. Delp, Michael A. Sherman, Charles A. Taylor, Vijay S. Pande, Russ B. Altman:
The Simbios National Center: Systems Biology in Motion. Proc. IEEE 96(8): 1266-1280 (2008) - [j47]Peggy Yao, Ankur Dhanik, Nathan Marz, Ryan Propper, Charles Kou, Guanfeng Liu, Henry van den Bedem, Jean-Claude Latombe, Inbal Halperin-Landsberg, Russ B. Altman:
Efficient Algorithms to Explore Conformation Spaces of Flexible Protein Loops. IEEE ACM Trans. Comput. Biol. Bioinform. 5(4): 534-545 (2008) - [c49]Russ B. Altman:
Text mining for pharmacogenomics. DTMBIO 2008: 1-2 - [c48]Dariya S. Glazer, Randall J. Radmer, Russ B. Altman:
Combining Molecular Dynamics and Machine Learning to Improve Protein Function Recognition. Pacific Symposium on Biocomputing 2008: 332-343 - [e12]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Tiffany Murray, Teri E. Klein:
Biocomputing 2008, Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, 4-8 January 2008. World Scientific 2008, ISBN 978-981-277-608-2 [contents] - 2007
- [j46]Russ B. Altman:
Current progress in bioinformatics 2007. Briefings Bioinform. 8(5): 277-278 (2007) - [j45]Sungroh Yoon, Jessica C. Ebert, Eui-Young Chung, Giovanni De Micheli, Russ B. Altman:
Clustering protein environments for function prediction: finding PROSITE motifs in 3D. BMC Bioinform. 8(S-4) (2007) - [j44]Russ B. Altman, Teri E. Klein:
Biomedical informatics training at Stanford in the 21st century. J. Biomed. Informatics 40(1): 55-58 (2007) - [j43]Lawrence Hunter, Russ B. Altman, Philip E. Bourne:
The International Society for Computational Biology 10th Anniversary. PLoS Comput. Biol. 3(6) (2007) - [c47]Russ B. Altman:
Combining Simulation and Machine Learning to Recognize Function in 4D. BIBM 2007: 3 - [c46]Rong Xu, Yael Garten, Kaustubh S. Supekar, Amar K. Das, Russ B. Altman, Alan M. Garber:
Extracting Subject Demographic Information From Abstracts of Randomized Clinical Trial Reports. MedInfo 2007: 550-554 - [e11]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Tiffany Murray, Teri E. Klein:
Biocomputing 2007, Proceedings of the Pacific Symposium, Maui, Hawaii, USA, 3-7 January 2007. World Scientific 2007, ISBN 981-270-417-5 [contents] - 2006
- [j42]Russ B. Altman:
Annual Progress in Bioinformatics 2006. Briefings Bioinform. 7(3): 209-210 (2006) - [j41]Tu Minh Phuong, Zhen Lin, Russ B. Altman:
Choosing Snps Using Feature Selection. J. Bioinform. Comput. Biol. 4(2): 241-258 (2006) - [j40]Nicola Cannata, Emanuela Merelli, Russ B. Altman:
Correction: Time to Organize the Bioinformatics Resourceome. PLoS Comput. Biol. 2(2) (2006) - [c45]Scott L. Delp, F. Clayton Anderson, Russ B. Altman:
Physics-based simulation of biological structures. ISBI 2006: 802-805 - [e10]Russ B. Altman, Tiffany Murray, Teri E. Klein, A. Keith Dunker, Lawrence Hunter:
Biocomputing 2006, Proceedings of the Pacific Symposium, Maui, Hawaii, USA, 3-7 January 2006. World Scientific 2006, ISBN 981-256-463-2 [contents] - 2005
- [j39]Russ B. Altman:
Editorial: Annual progress in bioinformatics. Briefings Bioinform. 6(1): 4-5 (2005) - [j38]Daniel L. Rubin, Caroline F. Thorn, Teri E. Klein, Russ B. Altman:
Application of Information Technology: A Statistical Approach to Scanning the Biomedical Literature for Pharmacogenetics Knowledge. J. Am. Medical Informatics Assoc. 12(2): 121-129 (2005) - [j37]Mor Peleg, Daniel L. Rubin, Russ B. Altman:
Research Paper: Using Petri Net Tools to Study Properties and Dynamics of Biological Systems. J. Am. Medical Informatics Assoc. 12(2): 181-199 (2005) - [j36]Jonathan D. Wren, Jeffrey T. Chang, James Pustejovsky, Eytan Adar, Harold R. Garner, Russ B. Altman:
Biomedical term mapping databases. Nucleic Acids Res. 33(Database-Issue): 289-293 (2005) - [j35]Nicola Cannata, Emanuela Merelli, Russ B. Altman:
Time to Organize the Bioinformatics Resourceome. PLoS Comput. Biol. 1(7) (2005) - [c44]Russ B. Altman:
Challenges in Creating an Infrastructure for Physics-Based Simulation of Biological Structures. CSB 2005: 3 - [c43]Tu Minh Phuong, Zhen Lin, Russ B. Altman:
Choosing SNPs Using Feature Selection. CSB 2005: 301-309 - [c42]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein:
Preface. Pacific Symposium on Biocomputing 2005 - [e9]Russ B. Altman, Tiffany A. Jung, Teri E. Klein, A. Keith Dunker, Lawrence Hunter:
Biocomputing 2005, Proceedings of the Pacific Symposium, Hawaii, USA, 4-8 January 2005. World Scientific 2005, ISBN 981-256-046-7 [contents] - 2004
- [j34]Russ B. Altman:
Editorial: Building successful biological databases. Briefings Bioinform. 5(1): 4 (2004) - [j33]Jeffrey T. Chang, Hinrich Schütze, Russ B. Altman:
GAPSCORE: finding gene and protein names one word at a time. Bioinform. 20(2): 216-225 (2004) - [j32]Diane E. Oliver, Gaurav Bhalotia, Ariel S. Schwartz, Russ B. Altman, Marti A. Hearst:
Tools for loading MEDLINE into a local relational database. BMC Bioinform. 5: 146 (2004) - [j31]Charles P. Friedman, Russ B. Altman, Isaac S. Kohane, Kathleen A. McCormick, Perry L. Miller, Judy G. Ozbolt, Edward H. Shortliffe, Gary D. Stormo, M. Cleat Szczepaniak, David Tuck, Jeffrey J. Williamson:
White Paper: Training the Next Generation of Informaticians: The Impact of "BISTI" and Bioinformatics - A Report from the American College of Medical Informatics. J. Am. Medical Informatics Assoc. 11(3): 167-172 (2004) - [j30]Mike P. Liang, Olga G. Troyanskaya, Alain Laederach, Douglas L. Brutlag, Russ B. Altman:
Computational functional genomics. IEEE Signal Process. Mag. 21(6): 62-69 (2004) - [c41]Mor Peleg, Samson W. Tu, Abhijit Manindroo, Russ B. Altman:
Modeling and Analyzing Biomedical Processes using Workflow/Petri Net Models and Tools. MedInfo 2004: 74-78 - [c40]Daniel L. Rubin, Michelle Whirl Carrillo, Mark Woon, John Conroy, Teri E. Klein, Russ B. Altman:
A Resource to Acquire and Summarize Pharmacogenetics Knowledge in the Literature. MedInfo 2004: 793-797 - [c39]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein:
Preface. Pacific Symposium on Biocomputing 2004 - [e8]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Tiffany A. Jung, Teri E. Klein:
Biocomputing 2004, Proceedings of the Pacific Symposium, Hawaii, USA, 6-10 January 2004. World Scientific 2004, ISBN 981-238-598-3 [contents] - 2003
- [j29]Iwei Yeh, Peter D. Karp, Natalya Fridman Noy, Russ B. Altman:
Knowledge acquisition, consistency checking and concurrency control for Gene Ontology (GO). Bioinform. 19(2): 241-248 (2003) - [j28]Soumya Raychaudhuri, Russ B. Altman:
A literature-based method for assessing the functional coherence of a gene group. Bioinform. 19(3): 396-401 (2003) - [j27]Sean D. Mooney, Russ B. Altman:
MutDB: annotating human variation with functionally relevant data. Bioinform. 19(14): 1858-1860 (2003) - [j26]Liping Wei, Russ B. Altman:
Recognizing Complex, Asymmetric Functional Sites in Protein Structures Using a Bayesian Scoring Function. J. Bioinform. Comput. Biol. 1(1): 119-138 (2003) - [j25]Soumya Raychaudhuri, Hinrich Schütze, Russ B. Altman:
Inclusion of Textual Documentation in the Analysis of Multidimensional Data Sets: Application to Gene Expression Data. Mach. Learn. 52(1-2): 119-145 (2003) - [j24]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): 3324-3327 (2003) - [j23]Russ B. Altman:
Complexities of Managing Biomedical Information. OMICS 7(1): 127-130 (2003) - [c38]Shuo Liu, Steve Lin, Mark Woon, Teri E. Klein, Russ B. Altman:
A Personalized and Automated dbSNP Surveillance System. CSB 2003: 132-136 - [c37]Mike P. Liang, Douglas L. Brutlag, Russ B. Altman:
Automatic Construction of 3D Structural Motifs for Protein Function Prediction. CSB 2003: 613-614 - [c36]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein:
Preface. Pacific Symposium on Biocomputing 2003 - [c35]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 - [c34]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein:
Special Paper - Introduction. Pacific Symposium on Biocomputing 2003: 636-637 - [c33]Miles Osborne, Mark Cuminskey, Gail Sinclair, Matthew Smillie, Bonnie L. Webber, Jeffrey T. Chang, Nipun Mehra, Veronica Rotemberg, Russ B. Altman:
Edinburgh-Stanford TREC-2003 Genomics Track. TREC 2003: 622-630 - [e7]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein:
Proceedings of the 8th Pacific Symposium on Biocomputing, PSB 2003, Lihue, Hawaii, USA, January 3-7, 2003. 2003 [contents] - 2002
- [j22]Mor Peleg, Iwei Yeh, Russ B. Altman:
Modelling biological processes using workflow and Petri Net models. Bioinform. 18(6): 825-837 (2002) - [j21]Olga G. Troyanskaya, Mitchell E. Garber, Patrick O. Brown, David Botstein, Russ B. Altman:
Nonparametric methods for identifying differentially expressed genes in microarray data. Bioinform. 18(11): 1454-1461 (2002) - [j20]Jiawei Han, Russ B. Altman, Vipin Kumar, Heikki Mannila, Daryl Pregibon:
Emerging scientific applications in data mining. Commun. ACM 45(8): 54-58 (2002) - [j19]Jeffrey T. Chang, Hinrich Schütze, Russ B. Altman:
Research Paper: Creating an Online Dictionary of Abbreviations from MEDLINE. J. Am. Medical Informatics Assoc. 9(6): 612-620 (2002) - [j18]Micheal Hewett, Diane E. Oliver, Daniel L. Rubin, Katrina L. Easton, Joshua M. Stuart, Russ B. Altman, Teri E. Klein:
PharmGKB: the Pharmacogenetics Knowledge Base. Nucleic Acids Res. 30(1): 163-165 (2002) - [j17]Mor Peleg, Irene S. Gabashvili, Russ B. Altman:
Qualitative models of molecular function: linking genetic polymorphisms of tRNA to their functional sequelae. Proc. IEEE 90(12): 1875-1886 (2002) - [c32]Zhen Lin, Micheal Hewett, Russ B. Altman:
Using binning to maintain confidentiality of medical data. AMIA 2002 - [c31]Daniel L. Rubin, Farhad Shafa, Diane E. Oliver, Micheal Hewett, Russ B. Altman:
Representing genetic sequence data for pharmacogenomics: an evolutionary approach using ontological and relational models. ISMB 2002: 207-215 - [c30]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein:
Preface. Pacific Symposium on Biocomputing 2002 - [c29]Diane E. Oliver, Daniel L. Rubin, Joshua M. Stuart, Micheal Hewett, Teri E. Klein, Russ B. Altman:
Ontology Development for a Pharmacogenetics Knowledge Base. Pacific Symposium on Biocomputing 2002: 65-76 - [c28]Daniel L. Rubin, Micheal Hewett, Diane E. Oliver, Teri E. Klein, Russ B. Altman:
Automating Data Acquisition into Ontologies from Pharmacogenetics Relational Data Sources Using Declarative Object Definitions and XML. Pacific Symposium on Biocomputing 2002: 88-99 - [e6]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein:
Proceedings of the 7th Pacific Symposium on Biocomputing, PSB 2002, Lihue, Hawaii, USA, January 3-7, 2002. 2002 [contents] - 2001
- [j16]Olga G. Troyanskaya, Michael N. Cantor, Gavin Sherlock, Patrick O. Brown, Trevor Hastie, Robert Tibshirani, David Botstein, Russ B. Altman:
Missing value estimation methods for DNA microarrays. Bioinform. 17(6): 520-525 (2001) - [j15]Russ B. Altman, Alfonso Valencia, Satoru Miyano, Shoba Ranganathan:
Challenges for Intelligent Systems in Biology. IEEE Intell. Syst. 16(6): 14-20 (2001) - [j14]Glenn A. Williams, Jonathan M. Dugan, Russ B. Altman:
Constrained Global Optimization for Estimating Molecular Structure from Atomic Distances. J. Comput. Biol. 8(5): 523-547 (2001) - [c27]Russ B. Altman:
Challenges for knowledge discovery in biology. KDD 2001: 2 - [c26]D. Rey Banatao, Conrad C. Huang, Patricia C. Babbitt, Russ B. Altman, Teri E. Klein:
ViewFeature: Integrated Feature Analysis and Visualization. Pacific Symposium on Biocomputing 2001: 240-250 - [c25]Allison Waugh, Glenn A. Williams, Liping Wei, Russ B. Altman:
Using Metacomputing Tools to Facilitate Large Scale Analyses of Biological Databases. Pacific Symposium on Biocomputing 2001: 360-371 - [c24]Jeffrey T. Chang, Soumya Raychaudhuri, Russ B. Altman:
Including Biological Literature Improves Homology Search. Pacific Symposium on Biocomputing 2001: 374-383 - [e5]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein:
Proceedings of the 6th Pacific Symposium on Biocomputing, PSB 2001, Hawaii, USA, January 3-7, 2001. 2001 [contents] - 2000
- [j13]Russ B. Altman:
Viewpoint: The Interactions Between Clinical Informatics and Bioinformatics: A Case Study. J. Am. Medical Informatics Assoc. 7(5): 439-443 (2000) - [c23]Isaac S. Kohane, Russ B. Altman:
The new peer review. AMIA 2000 - [c22]Soumya Raychaudhuri, Joshua M. Stuart, Xuemin Liu, Peter M. Small, Russ B. Altman:
Pattern Recognition of Genomic Features with Microarrays: Site Typing of Mycobacterium Tuberculosis Strains. ISMB 2000: 286-295 - [e4]Philip E. Bourne, Michael Gribskov, Russ B. Altman, Nancy Jensen, Debra A. Hope, Thomas Lengauer, Julie C. Mitchell, Eric D. Scheeff, Chris Smith, Shawn Strande, Helge Weissig:
Proceedings of the Eighth International Conference on Intelligent Systems for Molecular Biology, August 19-23, 2000, La Jolla / San Diego, CA, USA. AAAI 2000, ISBN 1-57735-115-0 [contents]
1990 – 1999
- 1999
- [j12]Russ B. Altman:
AI in Medicine: The Spectrum of Challenges from Managed Care to Molecular Medicine. AI Mag. 20(3): 67-77 (1999) - [j11]Cheng Che Chen, Jaswinder Pal Singh, Russ B. Altman:
Using imperfect secondary structure predictions to improve molecular structure computations. Bioinform. 15(1): 53-65 (1999) - [j10]Neil F. Abernethy, Julie J. Wu, Micheal Hewett, Russ B. Altman:
Sophia: a flexible, Web-based knowledge server. IEEE Intell. Syst. 14(4): 79-85 (1999) - [j9]Russ B. Altman, Michael Bada, Xiaoqian J. Chai, Michelle Whirl Carrillo, Richard O. Chen, Neil F. Abernethy:
RiboWeb: An Ontology-Based System for Collaborative Molecular Biology. IEEE Intell. Syst. 14(5): 68-76 (1999) - [j8]Richard O. Chen, Russ B. Altman:
Model Formulation: Automated Diagnosis of Data-Model Conflicts Using Metadata. J. Am. Medical Informatics Assoc. 6(5): 374-392 (1999) - [c21]Cheng Che Chen, Jaswinder Pal Singh, Russ B. Altman:
Biomolecular Structure Estimation: A Case Study of Irregular Hierarchical Parallelism. PP 1999 - [e3]Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein:
Proceedings of the 4th Pacific Symposium on Biocomputing, PSB 1999, The Orchid at Mauna Lani, Big Island of Hawaii, USA, January 4-9, 1999. 1999 [contents] - 1998
- [j7]Russ B. Altman:
A curriculum for bioinformatics: the time is ripe. Bioinform. 14(7): 549-550 (1998) - [j6]John H. Gennari, Heyning Cheng, Russ B. Altman, Mark A. Musen:
Reuse, CORBA, and knowledge-based systems. Int. J. Hum. Comput. Stud. 49(4): 523-546 (1998) - [j5]Cheng Che Chen, Jaswinder Pal Singh, Russ B. Altman:
Hierarchical Organization of Molecular Structure Computations. J. Comput. Biol. 5(3): 409-422 (1998) - [c20]Russ B. Altman:
Bioinformatics in support of molecular medicine. AMIA 1998 - [c19]Lawrence S. Hon, Neil F. Abernethy, Vladimir Brusic, Jenny Chai, Russ B. Altman:
MHCWeb: converting a WWW database into a knowledge-based collaborative environment. AMIA 1998 - [c18]Xuemin Liu, Russ B. Altman:
Updating a bibliography using the related articles function within PubMed. AMIA 1998 - [c17]Ramon M. Felciano, Russ B. Altman:
Graphical style sheets: towards reusable representations of biomedical graphics. CHI Conference Summary 1998: 48-49 - [c16]Jeanette P. Schmidt, Cheng Che Chen, Jonathan L. Cooper, Russ B. Altman:
A Surface Measure for Probabilistic Structural Computations. ISMB 1998: 148-156 - [c15]Neil F. Abernethy, Russ B. Altman:
Sophia: Providing Basic Knowledge Services with a Common DBMS. KRDB 1998: 1.1-1.6 - [c14]Cheng Che Chen, Jaswinder Pal Singh, Russ B. Altman:
The hierarchical organization of molecular structure computations. RECOMB 1998: 51-59 - 1997
- [c13]Russ B. Altman, Neil F. Abernethy, Richard O. Chen:
Standardized Representations of the Literature: Combining Diverse Sources of Ribosomal Data. ISMB 1997: 15-24 - [c12]Richard O. Chen, Ramon M. Felciano, Russ B. Altman:
RIBOWEB: Linking Structural Computations to a Knowledge Base of Published Experimental Data. ISMB 1997: 84-87 - 1996
- [j4]Cheng Che Chen, Richard O. Chen, Russ B. Altman:
Constraining volume by matching the moments of a distance distribution. Comput. Appl. Biosci. 12(4): 319-326 (1996) - [c11]Cheng Che Chen, Jaswinder Pal Singh, Russ B. Altman:
Parallel Hierarchical Molecular Structure Estimation. SC 1996: 1 - 1995
- [j3]Mark Gerstein, Russ B. Altman:
Using a measure of structural variation to define a core for the globins. Comput. Appl. Biosci. 11(6): 633-644 (1995) - [j2]Russ B. Altman:
A probabilistic approach to determining biological structure: integrating uncertain data sources. Int. J. Hum. Comput. Stud. 42(6): 593-616 (1995) - [c10]Steven C. Bagley, Liping Wei, Carol Cheng, Russ B. Altman:
Characterizing Oriented Protein Structural Sites Using Biochemical Properties. ISMB 1995: 12-20 - [c9]John H. Gennari, Russ B. Altman, Mark A. Musen:
Reuse with PROTÉgÉ-II: From Elevators to Ribosomes. SSR 1995: 72-80 - [e2]Christopher J. Rawlings, Dominic A. Clark, Russ B. Altman, Lawrence Hunter, Thomas Lengauer, Shoshana J. Wodak:
Proceedings of the Third International Conference on Intelligent Systems for Molecular Biology, Cambridge, United Kingdom, July 16-19, 1995. AAAI 1995, ISBN 0-929280-83-0 [contents] - 1994
- [c8]Russ B. Altman, Bryn Weiser, Harry F. Noller:
Constraint Satisfaction Techniques for Modeling Large Complexes: Application to the Central Domain of 16S Ribosomal RNA. ISMB 1994: 10-18 - [c7]Russ B. Altman, Mark Gerstein:
Finding an Average Core Structure: Application to the Globins. ISMB 1994: 19-27 - [c6]Cheng Che Chen, Jaswinder Pal Singh, William B. Poland, Russ B. Altman:
Parallel protein structure determination from uncertain data. SC 1994: 570-579 - [c5]Russ B. Altman, Cheng Che Chen, William B. Poland, Jaswinder Pal Singh:
Probabilistic Constraint Satisfaction with Non-Gaussian Noise. UAI 1994: 15-22 - [e1]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, ISBN 0-929280-68-7 [contents] - 1993
- [c4]Russ B. Altman:
Probabilistic Structure Calculations: A Three-Dimensional tRNA Structure from Sequence Correlation Data. ISMB 1993: 12-20 - [c3]Russ B. Altman:
A Probabilistic Algorithm for Calculating Structure: Borrowing from Simulated Annealing. UAI 1993: 23-31
1980 – 1989
- 1988
- [j1]James F. Brinkley, Russ B. Altman, Bruce S. Duncan, Bruce G. Buchanan, Oleg Jardetzky:
Heuristic refinement method for the derivation of protein solution structures: validation on cytochrome b562. J. Chem. Inf. Comput. Sci. 28(4): 194-210 (1988) - 1987
- [c2]Russ B. Altman, Bruce G. Buchanan:
Partial Compilation of Strategic Knowledge. AAAI 1987: 399-404 - 1986
- [c1]Barbara Hayes-Roth, Bruce G. Buchanan, Olivier Lichtarge, Mike Hewitt, Russ B. Altman, James F. Brinkley, Craig Cornelius, Bruce S. Duncan, Oleg Jardetzky:
PROTEAN: Deriving Protein Structure from Constraints. AAAI 1986: 904-909
Coauthor Index
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Citation data
Add a list of citing articles from and to record detail pages.
load citations from opencitations.net
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OpenAlex data
Load additional information about publications from 
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last updated on 2025-01-31 23:40 CET by the dblp team
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