I am new to this tool and am trying to identify compensatory mechanisms for my gene of interest. When ever I try to look at expression, it only shows different cell lines. How can I look at upregulated genes in response to KO of my gene of interest?
In the DepMap, we are only collecting the effect on viability due to knocking out a gene. It sounds like you’re interested in the change to expression due to knocking out a gene, but that is not data that we collect in our current assay.
We do have expression data for most cell lines, but that was collected pre-perturbation. The only we readout we have post-perturbation is viabilitiy.