Inconsistency in large pharmacogenomic studies
作者： Benjamin Haibe-Kains , Nehme El-Hachem , Nicolai Juul Birkbak , Andrew C Jin , Andrew H Beck
DOI: 10.1038/NATURE12831
关键词: Outcome measures 、 Pharmacogenetics 、 Human genetics 、 Drug response 、 Medicine 、 Genomic data 、 Neoplasm genetics 、 Bioinformatics 、 Inhibitory concentration 50 、 Pharmacogenomics
摘要: Two large-scale pharmacogenomic studies were published recently in this journal. Genomic data are well correlated between studies; however, the measured drug response highly discordant. Although source of inconsistencies remains uncertain, it has potential implications for using these outcome measures to assess gene-drug associations or select anticancer drugs on basis their reported results.
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John N. Weinstein, Drug discovery: Cell lines battle cancer. Nature. ,vol. 483, pp. 544- 545 ,(2012) , 10.1038/483544A
Dan M. Roden, Alfred L. George Jr, The genetic basis of variability in drug responses Nature Reviews Drug Discovery. ,vol. 1, pp. 37- 44 ,(2002) , 10.1038/NRD705
Takao Yamori, Panel of human cancer cell lines provides valuable database for drug discovery and bioinformatics Cancer Chemotherapy and Pharmacology. ,vol. 52, pp. 74- 79 ,(2003) , 10.1007/S00280-003-0649-1
Jordi Barretina, Giordano Caponigro, Nicolas Stransky, Kavitha Venkatesan, Adam A Margolin, Sungjoon Kim, Christopher J Wilson, Joseph Lehár, Gregory V Kryukov, Dmitriy Sonkin, Anupama Reddy, Manway Liu, Lauren Murray, Michael F Berger, John E Monahan, Paula Morais, Jodi Meltzer, Adam Korejwa, Judit Jané-Valbuena, Felipa A Mapa, Joseph Thibault, Eva Bric-Furlong, Pichai Raman, Aaron Shipway, Ingo H Engels, Jill Cheng, Guoying K Yu, Jianjun Yu, Peter Aspesi, Melanie De Silva, Kalpana Jagtap, Michael D Jones, Li Wang, Charles Hatton, Emanuele Palescandolo, Supriya Gupta, Scott Mahan, Carrie Sougnez, Robert C Onofrio, Ted Liefeld, Laura MacConaill, Wendy Winckler, Michael Reich, Nanxin Li, Jill P Mesirov, Stacey B Gabriel, Gad Getz, Kristin Ardlie, Vivien Chan, Vic E Myer, Barbara L Weber, Jeff Porter, Markus Warmuth, Peter Finan, Jennifer L Harris, Matthew Meyerson, Todd R Golub, Michael P Morrissey, William R Sellers, Robert Schlegel, Levi A Garraway, None, The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity Nature. ,vol. 483, pp. 603- 607 ,(2012) , 10.1038/NATURE11003
Robert H. Shoemaker, The NCI60 human tumour cell line anticancer drug screen Nature Reviews Cancer. ,vol. 6, pp. 813- 823 ,(2006) , 10.1038/NRC1951
S Asburner, CA Ball, JA Blake, D Botstein, H Butler, JM Cherry, AP Davis, K Dolinski, SS Dwight, JT Eppig, MA Harris, DP Hill, L Issel‐Tarver, A Kasarskis, S Lewis, JC Matese, JE Richardson, M Ringwald, GM Rubin, G Sherlock, Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nature Genetics. ,vol. 25, pp. 25- 29 ,(2000) , 10.1038/75556
Simon Papillon-Cavanagh, Nicolas De Jay, Nehme Hachem, Catharina Olsen, Gianluca Bontempi, Hugo JWL Aerts, John Quackenbush, Benjamin Haibe-Kains, Comparison and validation of genomic predictors for anticancer drug sensitivity. Journal of the American Medical Informatics Association. ,vol. 20, pp. 597- 602 ,(2013) , 10.1136/AMIAJNL-2012-001442
M. N. McCall, B. M. Bolstad, R. A. Irizarry, Frozen robust multiarray analysis (fRMA) Biostatistics. ,vol. 11, pp. 242- 253 ,(2010) , 10.1093/BIOSTATISTICS/KXP059
Mathew J Garnett, Elena J Edelman, Sonja J Heidorn, Chris D Greenman, Anahita Dastur, King Wai Lau, Patricia Greninger, I Richard Thompson, Xi Luo, Jorge Soares, Qingsong Liu, Francesco Iorio, Didier Surdez, Li Chen, Randy J Milano, Graham R Bignell, Ah T Tam, Helen Davies, Jesse A Stevenson, Syd Barthorpe, Stephen R Lutz, Fiona Kogera, Karl Lawrence, Anne McLaren-Douglas, Xeni Mitropoulos, Tatiana Mironenko, Helen Thi, Laura Richardson, Wenjun Zhou, Frances Jewitt, Tinghu Zhang, Patrick O’Brien, Jessica L Boisvert, Stacey Price, Wooyoung Hur, Wanjuan Yang, Xianming Deng, Adam Butler, Hwan Geun Choi, Jae Won Chang, Jose Baselga, Ivan Stamenkovic, Jeffrey A Engelman, Sreenath V Sharma, Olivier Delattre, Julio Saez-Rodriguez, Nathanael S Gray, Jeffrey Settleman, P Andrew Futreal, Daniel A Haber, Michael R Stratton, Sridhar Ramaswamy, Ultan McDermott, Cyril H Benes, None, Systematic identification of genomic markers of drug sensitivity in cancer cells Nature. ,vol. 483, pp. 570- 575 ,(2012) , 10.1038/NATURE11005
A. Subramanian, P. Tamayo, V. K. Mootha, S. Mukherjee, B. L. Ebert, M. A. Gillette, A. Paulovich, S. L. Pomeroy, T. R. Golub, E. S. Lander, J. P. Mesirov, Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles Proceedings of the National Academy of Sciences of the United States of America. ,vol. 102, pp. 15545- 15550 ,(2005) , 10.1073/PNAS.0506580102