Can I use this for drug resistance research?

Yes, the skill provides specific access to drug resistance mutation data with clinical annotations to support precision medicine research.

What file formats can I download using this skill?

The skill facilitates the download and processing of TSV, CSV, and VCF formats, typically provided in gzip compressed format for efficiency.

Does this skill require a COSMIC account?

Yes, users must register at the COSMIC website. Academic access is free with registration, while commercial users require a license from QIAGEN.

Which genome assemblies are supported?

The skill supports both GRCh38 (the current standard) and GRCh37 (legacy) reference genomes for all mutation data.

How do I handle the large file sizes in COSMIC?

The included Python scripts provide progress bars for large downloads and use efficient streaming to handle files that can often reach several gigabytes.

COSMIC Cancer Database

Name: COSMIC Cancer Database
Author: K-Dense-AI

byK-Dense-AI

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2,188

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Data Science & ML

Integrates the world's most comprehensive cancer mutation database into your research workflow to query somatic mutations, signatures, and gene census data.

The COSMIC Database skill provides seamless access to the Catalogue of Somatic Mutations in Cancer, the premier global resource for exploring human cancer genomics. It enables researchers and bioinformaticians to programmatically download and analyze curated datasets including the Cancer Gene Census, mutational signatures, structural variants, and drug resistance mutations. By bridging the gap between raw genomic data and actionable research insights, this skill streamlines precision oncology workflows and genomic pipeline integration directly within the Claude environment.

Key Features

01Direct integration with Python data tools like Pandas and Pysam

022,188 GitHub stars

03Access to expert-curated Cancer Gene Census for 700+ genes

04Retrieval of mutational signature profiles including SBS, DBS, and ID

05Support for both GRCh38 and GRCh37 genome assemblies

06Programmatic download of comprehensive somatic mutation datasets

Use Cases

01Analyzing mutational signatures to identify underlying cancer-causing processes

02Automating cancer mutation data extraction for bioinformatics pipelines

03Filtering genomic variants against known cancer gene lists for precision oncology

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add k-dense-ai/claude-scientific-skills cosmic-database

For use in Claude.ai and ChatGPT

Download Skill