CRISPR Screen Hit Analysis for Target ID

Challenge

Identifying high-confidence gene targets from a genome-wide knockout screen in a cancer cell line, out of tens of thousands of genes screened.

Approach

MAGeCK-based hit calling with custom QC and pathway enrichment, layered on public DepMap CRISPR screen data.

What we found

A short list of genes cleared our significance and QC thresholds. Those thresholds aren't published alongside the figure yet — see the caveat on the metric above.

Limits of this demonstration

This is an R&D demonstration on public DepMap data, not a client engagement. No repo or notebook is linked yet, which is why the metric above is flagged TODO-VERIFY. None of these hits have been validated in an orthogonal assay; this is a computational shortlist, not a confirmed target list.