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2012
ATARiS: Computational quantification of gene suppression phenotypes from multi-sample RNAi screens.Shao, DD, Tsherniak A., Gopal S., Weir BA, Tamayo P., Stransky N., Schumacher SE, Zack TI, Beroukhim R., Garraway LA, Margolin AA, Root DE, Hahn WC, and Mesirov J. P. Genome research, 2012/12/26, (2012) Read More / View Supplemental Materials
Abstract
β-Catenin-Driven Cancers Require a YAP1 Transcriptional Complex for Survival and Tumorigenesis.Rosenbluh, J., Nijhawan D., Cox AG, Li X., Neal JT, Schafer EJ, Zack TI, Wang X., Tsherniak A., Schinzel AC, Shao DD, Schumacher SE, Weir BA, Vazquez F., Cowley GS, Root DE, Mesirov J. P., Beroukhim R., Kuo CJ, Goessling W., et al. Cell, 2012/12/21, Volume 151, Issue 7, p.1457-73, (2012) Read More / View Supplemental Materials
Abstract
Addendum: The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity.Barretina, J., Caponigro G., Stransky N., Venkatesan K., Margolin AA, Kim S., Wilson CJ, Lehár J., Kryukov GV, Sonkin D., Reddy A., Liu M., Murray L., Berger MF, Monahan JE, Morais P., Meltzer J., Korejwa A., Jané-Valbuena J., Mapa FA, et al. Nature, 2012/12/13, Volume 492, Issue 7428, p.290, (2012) Read More / View Supplemental Materials
The limitations of simple gene set enrichment analysis assuming gene independence.Tamayo, P., Steinhardt G., Liberzon A., and Mesirov J. P. Statistical methods in medical research, 2012/10/14, (2012) Read More / View Supplemental Materials
Abstract
An RNA profile identifies two subsets of multiple sclerosis patients differing in disease activity.Ottoboni, L., Keenan BT, Tamayo P., Kuchroo M., Mesirov J. P., Buckle GJ, Khoury SJ, Hafler DA, Weiner HL, and De Jager PL Science translational medicine, 2012/09/26, Volume 4, Issue 153, p.153ra131, (2012) Read More / View Supplemental Materials
Abstract
Cancer vulnerabilities unveiled by genomic loss.Nijhawan, D., Zack TI, Ren Y., Strickland MR, Lamothe R., Schumacher SE, Tsherniak A., Besche HC, Rosenbluh J., Shehata S., Cowley GS, Weir BA, Goldberg AL, Mesirov J. P., Root DE, Bhatia SN, Beroukhim R., and Hahn WC Cell, 2012/08/17, Volume 150, Issue 4, p.842-54, (2012) Read More / View Supplemental Materials
Abstract
Targeted Tumor-Penetrating siRNA Nanocomplexes for Credentialing the Ovarian Cancer Oncogene ID4.Ren, Y., Cheung HW, von Maltzhan G., Agrawal A., Cowley GS, Weir BA, Boehm JS, Tamayo P., Karst AM, Liu JF, Hirsch MS, Mesirov J. P., Drapkin R., Root DE, Lo J., Fogal V., Ruoslahti E., Hahn WC, and Bhatia SN Science translational medicine, 2012/08/15, Volume 4, Issue 147, p.147ra112, (2012) Read More / View Supplemental Materials
Abstract
Medulloblastoma exome sequencing uncovers subtype-specific somatic mutations.Pugh, TJ, Weeraratne SD, Archer TC, Pomeranz Krummel DA, Auclair D., Bochicchio J., Carneiro MO, Carter SL, Cibulskis K., Erlich RL, Greulich H., Lawrence MS, Lennon NJ, McKenna A., Meldrim J., Ramos AH, Ross MG, Russ C., Shefler E., Sivachenko A., et al. Nature, 2012/08/02, Volume 488, Issue 7409, p.106-10, (2012) Read More / View Supplemental Materials
Abstract
The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity.Barretina, J., Caponigro G., Stransky N., Venkatesan K., Margolin AA, Kim S., Wilson CJ, Lehár J., Kryukov GV, Sonkin D., Reddy A., Liu M., Murray L., Berger MF, Monahan JE, Morais P., Meltzer J., Korejwa A., Jané-Valbuena J., Mapa FA, et al. Nature, 2012/03/28, Volume 483, Issue 7391, p.603-7, (2012) Read More / View Supplemental Materials
Abstract
2011
Systematic investigation of genetic vulnerabilities across cancer cell lines reveals lineage-specific dependencies in ovarian cancer.Cheung, HW, Cowley GS, Weir BA, Boehm JS, Rusin S., Scott JA, East A., Ali LD, Lizotte PH, Wong TC, Jiang G., Hsiao J., Mermel CH, Getz G., Barretina J., Gopal S., Tamayo P., Gould J., Tsherniak A., Stransky N., et al. Proceedings of the National Academy of Sciences of the United States of America, 2011/07/26, Volume 108, Issue 30, p.12372-7, (2011) Read More / View Supplemental Materials
Abstract
Molecular signatures database (MSigDB) 3.0.Liberzon, A., Subramanian A., Pinchback R., Thorvaldsdóttir H., Tamayo P., and Mesirov J. P. Bioinformatics (Oxford, England), 2011/06/15, Volume 27, Issue 12, p.1739-40, (2011) Read More / View Supplemental Materials
Abstract
Integrative genomic analysis of medulloblastoma identifies a molecular subgroup that drives poor clinical outcome.Cho, YJ, Tsherniak A., Tamayo P., Santagata S., Ligon A., Greulich H., Berhoukim R., Amani V., Goumnerova L., Eberhart CG, Lau CC, Olson JM, Gilbertson RJ, Gajjar A., Delattre O., Kool M., Ligon K., Meyerson M., Mesirov J. P., and Pomeroy SL Journal of clinical oncology : official journal of the American Society of Clinical Oncology, 2011/04/10, Volume 29, Issue 11, p.1424-30, (2011) Read More / View Supplemental Materials
Abstract
Predicting relapse in patients with medulloblastoma by integrating evidence from clinical and genomic features.Tamayo, P., Cho YJ, Tsherniak A., Greulich H., Ambrogio L., Schouten-van Meeteren N., Zhou T., Buxton A., Kool M., Meyerson M., Pomeroy SL, and Mesirov J. P. Journal of clinical oncology : official journal of the American Society of Clinical Oncology, 2011/04/10, Volume 29, Issue 11, p.1415-23, (2011) Read More / View Supplemental Materials
Abstract
Integrative genomics viewer.Robinson, JT, Thorvaldsdóttir H., Winckler W., Guttman M., Lander E. S., Getz G., and Mesirov J. P. Nature biotechnology, 2011/01/01, Volume 29, Issue 1, p.24-6, (2011) Read More / View Supplemental Materials
2010
Computer science. Accessible reproducible research.Mesirov, J. P. Science (New York, N.Y.), 2010/01/22, Volume 327, Issue 5964, p.415-6, (2010) Read More / View Supplemental Materials
Integrated genomic analysis identifies clinically relevant subtypes of glioblastoma characterized by abnormalities in PDGFRA, IDH1, EGFR, and NF1.Verhaak, RG, Hoadley KA, Purdom E., Wang V., Qi Y., Wilkerson MD, Miller CR, Ding L., Golub T., Mesirov J. P., Alexe G., Lawrence M., O'Kelly M., Tamayo P., Weir BA, Gabriel S., Winckler W., Gupta S., Jakkula L., Feiler HS, et al. Cancer cell, 2010/01/19, Volume 17, Issue 1, p.98-110, (2010) Read More / View Supplemental Materials
Abstract
2009
Systematic RNA interference reveals that oncogenic KRAS-driven cancers require TBK1.Barbie, DA, Tamayo P., Boehm JS, Kim SY, Moody SE, Dunn IF, Schinzel AC, Sandy P., Meylan E., Scholl C., Fröhling S., Chan EM, Sos ML, Michel K., Mermel C., Silver SJ, Weir BA, Reiling JH, Sheng Q., Gupta PB, et al. Nature, 2009/11/05, Volume 462, Issue 7269, p.108-12, (2009) Read More / View Supplemental Materials
Abstract
Automated high-dimensional flow cytometric data analysis.Pyne, S., Hu X., Wang K., Rossin E., Lin TI, Maier LM, Baecher-Allan C., McLachlan GJ, Tamayo P., Hafler DA, De Jager PL, and Mesirov J. P. Proceedings of the National Academy of Sciences of the United States of America, 2009/05/26, Volume 106, Issue 21, p.8519-24, (2009) Read More / View Supplemental Materials
Abstract
Prediction of high-responding peptides for targeted protein assays by mass spectrometry.Fusaro, VA, Mani D. R., Mesirov J. P., and Carr SA Nature biotechnology, 2009/02/01, Volume 27, Issue 2, p.190-8, (2009) Read More / View Supplemental Materials
Abstract
2008
Using GenePattern for gene expression analysis.Kuehn, H., Liberzon A., Reich M., and Mesirov J. P. Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.], 2008/06/01, Volume Chapter 7, p.Unit 7.12, (2008) Read More / View Supplemental Materials
Abstract
2007
GSEA-P: a desktop application for Gene Set Enrichment Analysis.Subramanian, A., Kuehn H., Gould J., Tamayo P., and Mesirov J. P. Bioinformatics (Oxford, England), 2007/12/01, Volume 23, Issue 23, p.3251-3, (2007) Read More / View Supplemental Materials
Abstract
Subclass mapping: identifying common subtypes in independent disease data sets.Hoshida, Y., Brunet JP, Tamayo P., Golub T. R., and Mesirov J. P. PloS one, 2007/11/21, Volume 2, Issue 11, p.e1195, (2007) Read More / View Supplemental Materials
Abstract
High expression of lymphocyte-associated genes in node-negative HER2+ breast cancers correlates with lower recurrence rates.Alexe, G., Dalgin GS, Scanfeld D., Tamayo P., Mesirov J. P., Delisi C., Harris L., Barnard N., Martel M., Levine AJ, Ganesan S., and Bhanot G. Cancer research, 2007/11/15, Volume 67, Issue 22, p.10669-76, (2007) Read More / View Supplemental Materials
Abstract
Efficient mapping of mendelian traits in dogs through genome-wide association.Karlsson, EK, Baranowska I., Wade CM, Salmon Hillbertz NH, Zody MC, Anderson N., Biagi TM, Patterson N., Pielberg GR, Kulbokas EJ 3rd, Comstock KE, Keller ET, Mesirov J. P., von Euler H., Kämpe O., Hedhammar A., Lander E. S., Andersson G., Andersson L., and Lindblad-Toh K. Nature genetics, 2007/11/01, Volume 39, Issue 11, p.1321-8, (2007) Read More / View Supplemental Materials
Abstract
Comment on "The consensus coding sequences of human breast and colorectal cancers".Getz, G., Höfling H., Mesirov J. P., Golub T. R., Meyerson M., Tibshirani R., and Lander E. S. Science (New York, N.Y.), 2007/09/14, Volume 317, Issue 5844, p.1500, (2007) Read More / View Supplemental Materials
Abstract
Metagene projection for cross-platform, cross-species characterization of global transcriptional states.Tamayo, P., Scanfeld D., Ebert BL, Gillette MA, Roberts CW, and Mesirov J. P. Proceedings of the National Academy of Sciences of the United States of America, 2007/04/03, Volume 104, Issue 14, p.5959-64, (2007) Read More / View Supplemental Materials
Abstract
Breast cancer stratification from analysis of micro-array data of micro-dissected specimens.Alexe, G., Dalgin GS, Scanfeld D., Tamayo P., Mesirov J. P., Ganesan S., Delisi C., and Bhanot G. Genome informatics. International Conference on Genome Informatics, 2007/01/01, Volume 18, p.130-40, (2007) Read More / View Supplemental Materials
Abstract
2006
Comparative gene marker selection suite.Gould, J., Getz G., Monti S., Reich M., and Mesirov J. P. Bioinformatics (Oxford, England), 2006/08/01, Volume 22, Issue 15, p.1924-5, (2006) Read More / View Supplemental Materials
Abstract
Combo: a whole genome comparative browser.Engels, R., Yu T., Burge C., Mesirov J. P., DeCaprio D., and Galagan JE Bioinformatics (Oxford, England), 2006/07/15, Volume 22, Issue 14, p.1782-3, (2006) Read More / View Supplemental Materials
Abstract
2005
Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.Subramanian, A., Tamayo P., Mootha VK, Mukherjee S., Ebert BL, Gillette MA, Paulovich A., Pomeroy SL, Golub T. R., Lander E. S., and Mesirov J. P. Proceedings of the National Academy of Sciences of the United States of America, 2005/10/25, Volume 102, Issue 43, p.15545-50, (2005) Read More / View Supplemental Materials
Abstract
GeneCruiser: a web service for the annotation of microarray data.Liefeld, T., Reich M., Gould J., Zhang P., Tamayo P., and Mesirov J. P. Bioinformatics (Oxford, England), 2005/09/15, Volume 21, Issue 18, p.3681-2, (2005) Read More / View Supplemental Materials
Abstract
Assembly of polymorphic genomes: algorithms and application to Ciona savignyi.Vinson, JP, Jaffe DB, O'Neill K., Karlsson EK, Stange-Thomann N., Anderson S., Mesirov J. P., Satoh N., Satou Y., Nusbaum C., Birren B., Galagan JE, and Lander E. S. Genome research, 2005/08/01, Volume 15, Issue 8, p.1127-35, (2005) Read More / View Supplemental Materials
Abstract
Improving genome annotations using phylogenetic profile anomaly detection.Mikkelsen, TS, Galagan JE, and Mesirov J. P. Bioinformatics (Oxford, England), 2005/02/15, Volume 21, Issue 4, p.464-70, (2005) Read More / View Supplemental Materials
Abstract
2004
GeneCluster 2.0: an advanced toolset for bioarray analysisReich, M., Ohm K., Angelo M., Tamayo P., and Mesirov J. P. Bioinformatics (Oxford, England), 2004/07/22/, Volume 20, Issue 11, p.1797 - 8, (2004) Read More / View Supplemental Materials
Abstract
GeneCluster 2.0: an advanced toolset for bioarray analysis.Reich, M., Ohm K., Angelo M., Tamayo P., and Mesirov J. P. Bioinformatics (Oxford, England), 2004/07/22, Volume 20, Issue 11, p.1797-8, (2004) Read More / View Supplemental Materials
Abstract
Metagenes and molecular pattern discovery using matrix factorization.Brunet, JP, Tamayo P., Golub T. R., and Mesirov J. P. Proceedings of the National Academy of Sciences of the United States of America, 2004/03/23, Volume 101, Issue 12, p.4164-9, (2004) Read More / View Supplemental Materials
Abstract
2001
Multiclass cancer diagnosis using tumor gene expression signaturesRamaswamy, S., Tamayo P., Rifkin R., Mukherjee S., Yeang C. H., Angelo M., Ladd C., Reich M., Latulippe E., Mesirov J. P., Poggio T., Gerald W., Loda M., Lander E. S., and Golub T. R. Proceedings of the National Academy of Sciences of the United States of America, 2001/12/18/, Volume 98, Issue 26, p.15149 - 54, (2001) Read More / View Supplemental Materials
Abstract
Chemosensitivity prediction by transcriptional profilingStaunton, J. E., Slonim D. K., Coller H. A., Tamayo P., Angelo M. J., Park J., Scherf U., Lee J. K., Reinhold W. O., Weinstein J. N., Mesirov J. P., Lander E. S., and Golub T. R. Proceedings of the National Academy of Sciences of the United States of America, 2001/09/11/, Volume 98, Issue 19, p.10787 - 92, (2001) Read More / View Supplemental Materials
Abstract
1999
Molecular classification of cancer: class discovery and class prediction by gene expression monitoringGolub, T. R., Slonim D. K., Tamayo P., Huard C., Gaasenbeek M., Mesirov J. P., Coller H., Loh M. L., Downing J. R., Caligiuri M. A., Bloomfield C. D., and Lander E. S. Science (New York, N.Y.), 1999/10/15/, Volume 286, Issue 5439, p.531 - 7, (1999) Read More / View Supplemental Materials
Abstract
  • Showing 1-39 of 39 Results