Query DepMap Chronos CRISPR scores and gene effects for cancer cell lines.
npx skills add https://github.com/swaruplab/operon --skill depmap-swaruplab
Please help me install this Agent Skill. Skill: depmap Source: https://github.com/swaruplab/operon/tree/main/src-tauri/protocols/depmap Command: npx skills add https://github.com/swaruplab/operon --skill depmap-swaruplab
DepMap provides comprehensive gene dependency and drug sensitivity data across hundreds of cancer cell lines; this skill helps researchers quickly query and interpret Chronos CRISPR scores, gene effects, and biomarkers to identify vulnerabilities and validate targets.
Query Chronos gene effect scores for a target gene across all DepMap cell lines.
High-intent search queries and answers about installing and using this skill.
To identify cancer cell line gene dependencies, query DepMap data for Chronos CRISPR scores using Python with requests and pandas to fetch, merge, and analyze the gene effect score matrices across hundreds of cancer cell lines.
Synthetic lethal exploration identifies selective gene dependencies where cancer cells die without partner genes. DepMap Chronos CRISPR scores reveal these vulnerabilities across lineages, enabling target validation and biomarker discovery for specific cancer types.
Yes, you can cross-reference DepMap drug sensitivity data with mutation and CNA data. This requires local data handling with Python to merge cell line metadata and score matrices, enabling compound sensitivity analyses and biomarker discovery workflows.
Yes, retrieving DepMap sample info and cell line metadata requires Python with requests and pandas libraries. This environment allows you to access DepMap endpoints, fetch the data locally, and merge it with Chronos gene effect scores for analysis.
A limitation of using DepMap Chronos scores is that analysis requires local data handling to fetch and merge large score matrices. Additionally, dependency data is constrained to available cancer cell lines, which may not fully represent all tumor heterogeneity across diverse cancer types.
fuzzy-dynamicsAnalyze Chronos gene dependency scores across DepMap cell lines.
felixboehmQuery DepMap for gene dependency scores and drug sensitivity data.
mkurmanAnalyze DepMap CRISPR Chronos scores and gene-effect data for cancer cell line dependencies.
biomaps-infraQuery DepMap for cancer cell line gene dependency and drug sensitivity data.
