We trained TARGETS drug response models using Elastic-Net regression in the publicly available Genomics of Drug Sensitivity in Cancer (GDSC) database. Models were then validated on additional in-vitro data from the Cancer Cell Line Encyclopedia (CCLE), and on clinical samples from The Cancer ...
Analysis via the GDSC database disclosed a substantial association between HS6ST2 mRNA expression and predicted response to 78 anticancer treatments (Supplementary Table S1). The expression of HS6ST2 was positively linked with drug sensitivity in most malignancies, such as PIK-93, I-BET-762, BIX...
Currently, the Genomics of Drug Sensitivity in Cancer (GDSC) database provides the most comprehensive results of cell line comparison-based studies (Garnett et al., 2012, Iorio et al., 2016, Yang et al., 2013). Query of this database showed that with regard to tumor suppressors, only a...
scDEAL transfers the well-trained Es and P to predict single-cell drug responses from the scRNA-seq data. Abbreviations: deep transfer learning (DTL), Genomics of Drug Sensitivity in Cancer (GDSC), Cancer Cell Line Encyclopedia CCLE. Full size image Bulk and scRNA-seq data were preprocessed ...
Alterations in cancer genomes strongly influence clinical responses to treatment and in many instances are potent biomarkers for response to drugs. The Genomics of Drug Sensitivity in Cancer (GDSC) database(www.cancerRxgene.org) is the largest public resource for information on drug sensitivity in ...
Sensitivity in Cancer (GDSC) database suggested that the basal expressions 120 of the above genes correlate with the response of BC cells to HER2 and/or EGFR targeted therapies. We selected 27 genes from the larger panel of 519 genes for experimental verification and 16 of these were ...
Here we use base editing at scale to investigate genetic mechanisms of acquired resistance to molecularly targeted cancer therapies, identifying VUS conferring drug resistance and drug sensitization in cancer cells. We classify cancer variants modulating drug sensitivity into four functional classes, thus ...
Drug sensitivity analysis Alterations in the cancer genome strongly influence the clinical response to therapy and are in many cases effective biomarkers of response to drug therapy. The Genomics of Drug Sensitivity in Cancer (GDSC) database [45] (www.cancerRxgene.org) is the largest public resou...
We used the Genomics of Drug Sensitivity in Cancer (GDSC) dataset, which includes ICPicco et al., 2019;Yang et al., 2013), to assess whether our dynamic models accurately predicted drug sensitivity. We used machine learning to predict the IC50Figure 4A). The static predictors, describing the...
Pioneers of these large-scale genomic and drug screening datasets include the NCI-60 database8, Cancer Cell Line Encyclopedia (CCLE)9, Genomics of Drug Sensitivity in Cancer (GDSC)10, and the Cancer Therapeutic Response Portal (CTRP)11. These datasets have helped assess the sensitivity of many...