PharmacoGx: an R package for analysis of large pharmacogenomic datasets

• DOI: 10.1093/bioinformatics/btv723
• Publication Date: 2015-12-13T07:12:30Z
• Authors: Petr Smirnov; Zhaleh Safikhani; Nehme El-Hachem; Dong Wang; Adrian She; Catharina Olsen; Mark Freeman; Heather Selby; Deena M.A. Gendoo; Patrick Grossmann; Andrew H. Beck; Hugo J.W.L. Aerts; Mathieu Lupien; Anna Goldenberg; Benjamin Haibe-Kains
• Keywords: Pharmacogenomics; R package; Drug response; Cancer cell lines; Realization (probability)

Pharmacogenomics holds great promise for the development of biomarkers drug response and design new therapeutic options, which are key challenges in precision medicine. However, such data scattered lack standards efficient access analysis, consequently preventing realization full potential pharmacogenomics. To address these issues, we implemented PharmacoGx, an easy-to-use, open source package integrative analysis multiple pharmacogenomic datasets. We demonstrate utility our comparing large sensitivity datasets, as Genomics Drug Sensitivity Cancer Cell Line Encyclopedia. Moreover, show how to use easily perform Connectivity Map analysis. With increasing availability drug-related data, will avenues research meta-analysis data.PharmacoGx is R can be installed on any system. The available from CRAN its code [e-mail] or [e-mail] at Bioinformatics online.