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Publications by Atul J. Butte, M.D., Ph.D.

There are 43 publications that list Atul J. Butte as an author.

BMIR-2008-1306
Ontology-driven Indexing of Public Datasets for Translational Bioinformatics
N. H. Shah, A. P. Chiang, A. J. Butte, R. Chen, M. A. Musen
American Medical Informatics Association Symposium on Translational Bioinformatics, San Francisco, CA, March 10-12, 2008. Published in 2008
BMIR-2008-1303
The Ultimate Model Organism
A. J. Butte
Science, 320, 5874, 325-327. Published in 2008
BMIR-2008-1293
Novel Integration of Hopsital Electronic Medical Records and Gene Expression Measurements to Identify Genetic Markers of Maturation
D. P. Chen, S. C. Weber, P. S. Constantinou, T. A. Ferris, H. J. Lowe, A. J. Butte
Pacific Symposium on Biocomputing, Big Island, Hawaii, 13, 243-254. Published in 2008
BMIR-2008-1292
Enabling Integrative Genomic Analysis of High-Impact Human Diseases through Text Mining
J. Dudley, A. J. Butte
Pacific Symposium on Biocomputing, Big Island, Hawaii, 13, 580-591. Published in 2008
BMIR-2007-1297
Methodologies for Extracting Functional Pharmacogenomic Experiments from International Repository
Y. Lin, A. P. Chiang, P. Yao, R. Chen, A. J. Butte, R. S. Lin
AMIA Annual Symposium, Chicago, IL, 463-467. Published in 2007
BMIR-2007-1296
Clinical Arrays of Laboratory Measures, or “Clinarrays”, Built from an Electronic Health Record Enable Disease Subtyping by Severity
D. P. Chen, S. C. Weber, P. S. Constantinou, T. A. Ferris, H. J. Lowe, A. J. Butte
AMIA Annual Symposium, Chicago, IL, 115-119. Published in 2007
BMIR-2007-1295
AILUN: reannotating gene expression data automatically
R. Chen, L. Li, A. J. Butte
Nature Methods, 4, 11, 879. Published in 2007
BMIR-2007-1285
AILUN: reannotating gene expression data automatically
R. Chen, A. J. Butte
Nature Methods, 4, 11, 879. Published in 2007
BMIR-2007-1281
Evaluation and Integration of 49 Genome-wide Experiments and the Prediction of Previously Unknown Obesity-related Genes
S. B. English, A. J. Butte
Bioinformatics, Epub. Published in 2007
BMIR-2006-1232
Finding Disease-Related Genomic Experiments Within an International Repository: First Steps in Translational Bioinformatics
A. J. Butte, R. Chen
Annual Symposium of the American Medical Informatics Association, Washington, D.C., 106-10. Published in 2006
BMIR-2006-1093
Multiplexed Protein Array Platforms for Analysis of Autoimmune Diseases
I. Balboni, S. M. Chan, M. Kattah, J. Tenenbaum, A. J. Butte, P. J. Utz
Annual Review of Immunology, 24, 391-418. Published in 2006
BMIR-2006-1090
Creation and implications of a phenome-genome network
A. J. Butte, I. S. Kohane
Nature Biotechnology, 24, 1, 55 - 62. Published in 2006
BMIR-2005-1087
Systematic survey reveals general applicability of "guilt-by-association" within gene coexpression networks.
C. J. Wolfe, I. S. Kohane, A. J. Butte
BMC Bioinformatics, 6, 227. Published in 2005
BMIR-2005-1083
Genome-wide analysis of host responses to the Pseudomonas aeruginosa yields synergistic effects
J. K. Ichikawa, A. J. Butte, R. Jackson, M. C. Wolfgang, S. B. English, S. Lory
Cellular Microbiology, 7, 11, 1635-1646. Published in 2005
BMIR-2005-1057
A Computational Model to Define the Molecular Causes of Type 2 Diabetes Mellitus
J. Pollard, A. J. Butte, S. Hoberman, M. Joshi, J. Levy, J. Pappo
Diabetes Technology & Therapeutics, 7, 2, 323-336. Published in 2005
BMIR-2005-1029
Prediction of preadipocyte differentiation by gene expression reveals role of insulin receptor substrates and necdin
Y. Tseng, A. J. Butte, E. Kokkotou, V. K. Yechoor, C. M. Taniguchi, K. M. Kriauciunas, A. M. Cypess, M. Niinobe, K. Yoshikawa, M. E. Patti, C. Kahn
Nature Cell Biology, 7, 6, 601-614. Published in 2005
BMIR-2004-1045
Conserved mechanisms across development and tumorigenesis revealed by a mouse development perspective of human cancers
A. T. Kho, Q. Zhao, Z. Cai, A. J. Butte, J. Y. Kim, S. L. Pomeroy, D. H. Rowitch, I. S. Kohane
Genes & Development, 18, 6, 629-640. Published in 2004
BMIR-2004-1043
Genome-scale expression profiling of Hutchinson-Gilford progeria syndrome reveals widespread transcriptional misregulation leading to mesodermal/mesenchymal defects and accelerated atherosclerosis
A. B. Csoka, S. B. English, C. P. Simkevich, D. G. Ginzinger, A. J. Butte, G. P. Schatten, F. G. Rothman, J. M. Sedivy
Aging Cell, 3, 4, 235-43. Published in 2004
BMIR-2004-1030
Quantifying the relationship between co-expression, co-regulation and gene function
D. J. Allocco, I. S. Kohane, A. J. Butte
BMC Bioinformatics, 5, 18. Published in 2004
BMIR-2003-1054
Computerized Recruiting for Clinical Trials in Real Time
D. L. Weiner, A. J. Butte, P. L. Hibberd, G. R. Fleisher
Annals of Emergency Medicine, 41, 2, 242-246. Published in 2003
BMIR-2003-1050
Coordinated reduction of genes of oxidative metabolism in humans with insulin resistance and diabetes: Potential role of PGC1 and NRF1
M. E. Patti, A. J. Butte, S. Crunkhorn, K. Cusi, R. Berria, S. Kashyap, Y. Miyazaki, I. S. Kohane, M. Costello, R. Saccone, E. J. Landaker, A. B. Goldfine, E. Mun, R. DeFronzo, J. Finlayson, C. Kahn, L. J. Mandarino
Proceedings of the National Academy of Sciences, PNAS, 100, 14, 8466-8471. Published in 2003
BMIR-2003-1048
Reproducibility of gene expression across generations of Affymetrix microarrays
A. Nimgaonkar, D. Sanoudou, A. J. Butte, J. N. Haslett, H. M. Kunkel, A. H. Beggs, I. S. Kohane
BMC Bioinformatics, 4, 1-12. Published in 2003
BMIR-2003-1047
PGAGENE: integrating quantitative gene-specific results from the NHLBI Programs for Genomic Applications
K. Y. Lee, I. S. Kohane, A. J. Butte
Bioinformatics, 19, 6, 778-779. Published in 2003
BMIR-2002-1077
Automated Assessments in Health Care Quality
A. J. Butte
Improving the Quality of Primary Care, 32, 50-62. Published in 2002
BMIR-2002-1049
Comparing expression profiles of genes with similar promoter regions
P. J. Park, A. J. Butte, I. S. Kohane
Bioinformatics, 18, 12, 1576-1584. Published in 2002
BMIR-2002-1046
Analysis of matched mRNA measurements from two different microarray technologies
W. P. Kuo, T. Jenssen, A. J. Butte, L. Ohno-Machado, I. S. Kohane
Bioinformatics, 18, 3, 405-12. Published in 2002
BMIR-2002-1036
Comparing the Similarity of Time-Series Gene Expression Using Signal Processing Metrics
A. J. Butte, L. Bao, B. Y. Reis, T. W. Watkins, I. S. Kohane
Journal of Biomedical Informatics, 34, 396-405. Published in 2002
BMIR-2002-1034
The Use and Analysis of Microarray Data
A. J. Butte
Nature Reviews: Drug Discovery, 1, 12, 951-960. Published in 2002
BMIR-2001-1053
The Personal Internetworked Notary and Guardian
A. Riva, K. D. Mandl, D. Oh, D. J. Nigrin, A. J. Butte, P. Szolovits, I. S. Kohane
International Journal of Medical Informatics, 60, 27-40. Published in 2001
BMIR-2001-1052
Extracting Knowledge from Dynamics in Gene Expression
B. Y. Reis, A. J. Butte, I. S. Kohane
Journal of Biomedical Informatics, 34, 15-27. Published in 2001
BMIR-2001-1042
Challenges in bioinformatics: infrastructure, models and analytics
A. J. Butte
Trends in Biotechnology, 19, 5, 159-160. Published in 2001
BMIR-2001-1041
Determining Significant Fold Differences in Gene Expression Analysis
A. J. Butte, J. Ye, G. Niederfellner, K. Rett, H. U. Häring, M. F. White, I. S. Kohane
Pacific Symposium on Biocomputing, 6-17. Published in 2001
BMIR-2001-1038
Strict interpretation of vaccination guidelines with computerized algorithms and improper timing of administered doses
A. J. Butte, J. S. Shaw, H. Bernstein
The Pediatric Infectious Disease Journal, 20, 6, 561-565. Published in 2001
BMIR-2001-1037
Further defining housekeeping, or "maintenance," genes Focus on "A compendium of gene expression in normal human tissues"
A. J. Butte, V. J. Dzau, S. B. Glueck
Physiol Genomics, 7, 95-96. Published in 2001
BMIR-2000-1044
Severe Hypothyroidism Caused by Type 3 Iodothyronine Deiodinase in Infantile Hemangiomas
S. A. Huang, H. M. Tu, J. W. Harney, M. Venihaki, A. J. Butte, H. P. Kozakewich, S. J. Fishman, P. R. Larson
The New England Journal of Medicine, 343, 3, 185-189. Published in 2000
BMIR-2000-1040
Mutual Information Relevance Networks: Functional Genomic Clustering Using Pairwise Entropy Measurements
A. J. Butte, I. S. Kohane
Pacific Symposium on Biocomputing, 418-29. Published in 2000
BMIR-2000-1039
Discovering functional relationships between RNA expression and chemotherapeutic susceptibility using relevance networks
A. J. Butte, P. Tamayo, D. Slonim, T. R. Golub, I. S. Kohane
Proceedings of the National Academy of Sciences, PNAS, 97, 22, 12182-6. Published in 2000
BMIR-2000-1032
Enrolling Patients Into Clinical Trials Faster Using RealTime Recuiting
A. J. Butte, D. A. Weinstein, I. S. Kohane
Proceedings of the American Medical Informatics Association Symposium, 111-5. Published in 2000
BMIR-1999-1035
Unsupervised Knowledge Discovery in Medical Databases Using Relevance Networks
A. J. Butte, I. S. Kohane
Proceedings of the American Medical Informatics Association Symposium, 111-5. Published in 1999
BMIR-1994-1055
Tyrosine kinase-deficient mutant human insulin receptors (Met1153-->Ile) overexpressed in transfected rat adipose cells fail to mediate translocation
M. J. Quon, M. Guerre-Millo, M. Zarnowski, A. J. Butte, M. Em, S. W. Cushman, S. I. Taylor
Proceedings of the National Academy of Sciences, 91, 12, 5587-5591. Published in 1994
BMIR-1994-1051
Insulin Receptor Substrate 1 Mediates the Stimulatory Effect of Insulin on GLUT4 Translocation in Transfected Rat Adipose Cells
M. J. Quon, A. J. Butte, M. Zarnowski, G. Sesti, S. W. Cushman, S. I. Taylor
The Journal of Biological Chemistry, 269, 45, 27920-27924. Published in 1994
BMIR-1993-1075
Derivation of Scale-Independent Parameter Which Characterizes Genetic Sequence Comparisons
P. B. DePetrillo, A. J. Butte
Computers and Biomedical Research: An International Journal, 26, 6, 517-540. Published in 1993
BMIR-1992-1076
A Computer-Simulated "Wet" Laboratory
B. Rotman, A. J. Butte
Biochemical Education, 20, 3, 139-141. Published in 1992



 

Stanford School of Medicine