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Large public collections of cancer cell lines profiled for their genomes, drug sensitivity and gene dependencies, the reference data behind much of modern target discovery.
The Cancer Cell Line Encyclopedia and the Genomics of Drug Sensitivity in Cancer project characterised about a thousand cell lines by sequencing, expression and drug response, and the Dependency Map (DepMap) added genome-wide CRISPR knockout screens that reveal which genes each line needs to survive. These resources identified synthetic lethal targets such as WRN in microsatellite-unstable cancers and PRMT5 in MTAP-deleted tumours, and they anchor machine-learning models of drug response.
Cell lines are profiled by sequencing and expression, treated with drug libraries, and screened with pooled CRISPR guides; dependencies emerge where knockout selectively kills lines with a given genotype.
Query for this technology: (TITLE:"Cancer cell line encyclopedias and dependency maps" OR ABSTRACT:"Cancer cell line encyclopedias and dependency maps") AND (cancer OR tumor OR tumour OR oncology OR carcinoma OR lymphoma OR leukemia OR leukaemia OR myeloma OR sarcoma OR melanoma OR glioma). Results are unfiltered search hits about Cancer cell line encyclopedias and dependency maps, not a curated reading list.
Shares Synthetic lethality approaches, CRISPR functional genomics.
Shares WRN helicase (MSI-high cancers), PRMT5 (MTAP-deleted cancers), Synthetic lethality approaches, CRISPR functional genomics.
Shares Synthetic lethality approaches, CRISPR functional genomics, Patient-derived organoids.
Shares CRISPR functional genomics, Patient-derived organoids.
Shares Synthetic lethality approaches, CRISPR functional genomics.
Shares Synthetic lethality approaches, CRISPR functional genomics.
Shares CRISPR functional genomics, Patient-derived organoids.
Shares CRISPR functional genomics, Patient-derived organoids.
Open-source projects that implement or serve this technology, from OnCo's own catalogue: licence and last activity as the repository reported them on the day of the fetch. Listing is not endorsement; check the licence before reuse and the validation before clinical use.
The pipelines that process the sequencing behind each DepMap release.
A Bioconductor package for analysing large pharmacogenomic datasets such as GDSC and CCLE, from the Haibe-Kains lab.
The code behind the Cancer Dependency Map portal, where CRISPR screens and drug sensitivities across cancer cell lines are explored openly.
The SIB knowledge resource on cell lines, including every cancer cell line with its identity, problems and cross-references.
An R package that predicts drug response in patient tumours from cell-line screening data.