This case study shows how to use sPCA to explore the multidrug dataset from the National Cancer Institute. The data includes ABC transporter expression across 60 cancer cell lines. sPCA helps reduce noise and highlight the most relevant transporters driving variation. Follow along to learn how to tune the model and interpret the results with clear visualisations.
More on sPCA
Download R script
Data used on this page:multidrug
Key functions used on this page:spca()tune.pca()tune.spca()plotIndiv()plotVar()biplot()
References:
1. Szakács G., Annereau J.-P., Lababidi S., Shankavaram U., Arciello A., Bussey K.J., Reinhold W., Guo Y., Kruh G.D., Reimers M., Weinstein J.N. and Gottesman M.M. (2004) Predicting drug sensitivity and resistance: Profiling ABC transporter genes in cancer cells. Cancer Cell 4, pp 147-166.