2015
DOI: 10.1038/nature15736
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Pharmacogenomic agreement between two cancer cell line data sets

Abstract: Large cancer cell line collections broadly capture the genomic diversity of human cancers and provide valuable insight into anti-cancer drug response. Here we show substantial agreement and biological consilience between drug sensitivity measurements and their associated genomic predictors from two publicly available large-scale pharmacogenomics resources: The Cancer Cell Line Encyclopedia and the Genomics of Drug Sensitivity in Cancer databases.

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Cited by 345 publications
(166 citation statements)
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“…Pearson correlation ( r ) coefficients of adjusted AUC IC50 calculated by this study (blue bars) were matched to the similar analyses performed by Haibe-Kains et al [5] (red bars, unadjusted AUC, Spearman correlation (ρ)), and Stransky et al [6] (green bars, unadjusted AUC, r ). B. CCLE and CTRP correlations ( r, adjusted AUC IC50 ).…”
Section: Resultsmentioning
confidence: 70%
See 2 more Smart Citations
“…Pearson correlation ( r ) coefficients of adjusted AUC IC50 calculated by this study (blue bars) were matched to the similar analyses performed by Haibe-Kains et al [5] (red bars, unadjusted AUC, Spearman correlation (ρ)), and Stransky et al [6] (green bars, unadjusted AUC, r ). B. CCLE and CTRP correlations ( r, adjusted AUC IC50 ).…”
Section: Resultsmentioning
confidence: 70%
“…This resulted in the expected poor agreement between the two datasets. To account for the analytical differences, Stransky et al capped IC 50 at a maximal drug concentration tested by the GDSC study (Supplementary Table S1) [6]. This produced a large number of capped IC 50 values, which are not supported by the experimental data for the 15 drugs shared by the two databases (Supplementary Table S2), and overestimated the correlation between IC 50 values.…”
Section: Resultsmentioning
confidence: 99%
See 1 more Smart Citation
“…Expression data of cell lines were downloaded from Cancer Cell Line Encyclopedia (CCLE) 46,47 and were normalized by Robust Multiarray Averaging (RMA) method. Probesets annotation and differential gene expression were carried out as described above.…”
Section: Methodsmentioning
confidence: 99%
“…Our observations that FCM displayed differential effects depending on what cell line was used, could explain differences observed in the literature when comparing normal fibroblasts to carcinoma-associated fibroblasts. According to the Cancer Cell Line Encyclopedia (CCLE) [149,150] Cisplatin is a recognized cornerstone in the treatment of lung cancer.…”
Section: Fcm Protects Against Cisplatin-induced Deathmentioning
confidence: 99%