depmap
Query the Cancer Dependency Map (DepMap) for cancer cell line gene dependency scores (CRISPR Chronos), drug sensitivity data, and gene effect profiles. Use for identifying cancer-specific vulnerabilities, synthetic lethal interactions, and validating oncology drug targets.
npx skills add LeonChaoX/qinyan-academic-skills --skill depmap --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# DepMap — Cancer Dependency Map ## Overview The Cancer Dependency Map (DepMap) project, run by the Broad Institute, systematically characterizes genetic dependencies across hundreds of cancer cell lines using genome-wide CRISPR knockout screens (DepMap CRISPR), RNA interference (RNAi), and compound sensitivity assays (PRISM). DepMap data is essential for: - Identifying which genes are essential for specific cancer types - Finding cancer-selective dependencies (therapeutic targets) - Validating oncology drug targets - Discovering synthetic lethal interactions **Key resources:** - DepMap Portal: https://depmap.org/portal/ - DepMap data downloads: https://depmap.org/portal/download/all/ - Python package: `depmap` (or access via API/downloads) - API: https://depmap.org/portal/api/ ## When to Use This Skill Use DepMap when: - **Target validation**: Is a gene essential for survival in cancer cell lines with a specific mutation (e.g., KRAS-mutant)? - **Biomarker discovery**: What genomic features predict sensitivity to knockout of a gene? - **Synthetic lethality**: Find genes that are selectively essential when another gene is mutated/deleted - **Drug sensitivity**: What cell line featur
- Overview
- When to Use This Skill
- Core Concepts
- Dependency Scores
- Cell Line Annotations
- Core Capabilities
- 1. DepMap API
- 2. Gene Dependency Scores
- 3. Download-Based Analysis (Recommended for Large Queries)
- 4. Identifying Selective Dependencies
- 5. Biomarker Analysis (Gene Effect vs. Mutation)
- 6. Co-Essentiality Analysis
- Query Workflows
- Workflow 1: Target Validation for a Cancer Type
What does the depmap skill do?
Query the Cancer Dependency Map (DepMap) for cancer cell line gene dependency scores (CRISPR Chronos), drug sensitivity data, and gene effect profiles. Use for identifying cancer-specific vulnerabilities, synthetic lethal interactions, and validating oncology drug targets.
How do I install it?
Run `npx skills add LeonChaoX/qinyan-academic-skills --skill depmap --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From LeonChaoX/qinyan-academic-skills, a repository with 759 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.