Agent skill · research science · k-dense-ai
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.
Why this skill is useful
Provides specific API commands and data handling patterns for querying cancer gene dependency scores that are not widely known.
What it needs
Requires pandas, requests installed locally. About 5k tokens when loaded. Last updated 2026-08-03. 32,849 stars on the source repository.
What this skill does
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 features predict response to a compound? Pan-cancer essentiality: Is a gene broadly essential across all cancer types (bad target) or selectively essential? Correlation analysis: Which pairs of genes have correlated dependency profiles (co-essentiality)? Core Concepts Dependency Scores Score Range Meaning ------- ------- --------- Chronos (CRISPR) ~ -3 to 0+ More negative = more essential. Common essential threshold: −1. …
How to use it
Reference it in AdaL, Claude Code, Cursor or any coding agent — nothing to install:
@skills k-dense-ai/depmap