Download numbers for fraction calculation of essentiality in Xyz/1054 cell lines

Q&A
1

Hi there
thanks for the fantastic work and this highly valuable resource.

I would like to perform fraction calculations for essentially of a list of roughly 700 genes.
e.g.

CRISPR (DepMap 21Q4 Public+Score, Chronos): 900/1054

Fraction 0.854

Either I am blind or a list containing those values is not existing?
I tried to reproduce those number with a manual thresholding but those differ slightly between individual genes?

Sorry, probably those numbers are very easy to find.

Thanks
Kind regards
Jonas

2

Hi Jonas,

Dependency is determined by probability rather than phenotype strength. You can download the matrix of probabilities of dependency from the Downloads page under Achilles_/CRISPR_gene_dependency (you’ll need to go to All Downloads).

3

Hi Joshua,
thanks for taking the time to understand and answer.

You are referring to the: Achilles_gene_dependency.csv, right? I can see the values range from 0 to 1.
Is there a specific threshold/cut-off you apply? Alternatively, I could also just apply my own and state this in the context of the manuscript I am working on.

Thanks

Best
Jonas

4

Hi Jonas, 0.5 (50% probability) is the cutoff.