CPADS: a web tool for comprehensive pancancer analysis of drug sensitivity.

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Accurate analysis of drug sensitivity for specific cancers can guide healthcare professionals in prescribing drugs, leading to improved patient survival and quality of life. However, there is a lack of web-based tools that offer comprehensive visualization and analysis of pancancer drug sensitivity. We gathered cancer drug sensitivity data from publicly available databases (GEO, TCGA and GDSC) and developed a web tool called Comprehensive Pancancer Analysis of Drug Sensitivity (CPADS) using Shiny. CPADS currently includes transcriptomic data from over 29 000 samples, encompassing 44 types of cancer, 288 drugs and more than 9000 gene perturbations. It allows easy execution of various analyses related to cancer drug sensitivity. With its large sample size and diverse drug range, CPADS offers a range of analysis methods, such as differential gene expression, gene correlation, pathway analysis, drug analysis and gene perturbation analysis. Additionally, it provides several visualization approaches. CPADS significantly aids physicians and researchers in exploring primary and secondary drug resistance at both gene and pathway levels. The integration of drug resistance and gene perturbation data also presents novel perspectives for identifying pivotal genes influencing drug resistance. Access CPADS at https://smuonco.shinyapps.io/CPADS/ or https://robinl-lab.com/CPADS.", "claims": [{"id": "claim-method", "statement": "Comparisons between two groups of variables were performed using the Wilcoxon rank sum test, and all correlation coefficients were calculated by Spearman’s method and/or Pearson’s method.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:38770717", "locator": "sections[12] \"Statistical analysis\" paragraph 2", "quote": "Comparisons between two groups of variables were performed using the Wilcoxon rank sum test, and all correlation coefficients were calculated by Spearman’s method and/or Pearson’s method."}], "state": "complete"}, {"id": "claim-data-access", "statement": "R Studio is a widely used language and environment for statistical computing (https://www.r-project.org/). Shiny, an open-source collaboration program, can be found on the GitHub repository (https://github.com/rstudio/shiny). 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