Issue with Drug sensitivity AUC (CTD^2)

Issues and Bugs
1

Hi,

I am encountering an issue while downloading the Drug Sensitivity AUC (CTD^2) file from the custom download section. Specifically, the values in the file do not appear to be AUC scores, as they fall outside the expected range of 0 to 1.

Could you please advise where I can access the matrix containing the actual AUC values?

Thank you,
Alessandro

2

Hi Alessandro - can you describe the unexpected values? Are they greater than 1, or negative? If they are greater than 1, that is possible if for example the compound is causing cell growth.

3

The value reported in the Drug Sensitivity AUC (CTD^2) file are positive values grater than 1. However this file should report Area Under the Curve (AUC) values which they typically range from 0 and 1. Correct AUC files are available for the SANGER and PRISM datasets (which I am currently using) but not for CTD. It does not look like the AUC matrix for the CTD dataset has been uploaded. Can you please help me with that?

Thanks!

4

Yep, this is confusing when you first use the CTRP data. The data are the actual AUCs, but it scaled weirdly. In the original CTRP publication from 2013, they decided to scale the AUCs by multiplying the AUC by the maximum dose. I think this was to allow for comparison across drugs because not all drugs were tested at the same dose range. You can undo the scaling by dividing by the maximum drug concentration.

If you are using the AUC data as a continuous variable, you don’t have to undo the scaling though. You can also find recalculated data online as well. I work at the Huang Lab at the University of Minnesota and we refitted the dose response curves and you can find that at our website.

You can find some more information at this post