Dear DepMap Team,
Couple of weeks ago, I was able to access and download phospho-proteomics data from the DepMap interface, for classical signalling nodes, such as EGFR, AKT, MAPK… etc for which the phospho-status on few key residues was available in every cell line. However now it seems that the data are not accessible anymore, do you know what happened ?
Many thanks,
Charly
Hi Charly,
Could you provide more details on what datasets you are trying to download and how?
In 24Q4, we created a “harmonized” version of proteomic datasets where all matrices are indexed by the same identifier (uniprot ID). This allows users to make more direct comparisons between different datasets, however, we do realize that a small portion of proteins had to be dropped to achieve this harmonization.
While these harmonized datasets are being displayed in the data explorer, all the original files containing all the PTM information are still available in the “Downloads” page. If you navigate to Downloads > All Data and search the file names of interest, you should still be able to access them.
Hope this helps,
Simone
