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Ensembl Database

Listed
drshailesh88·vlatest·database

Access and query Ensembl genome data (gene annotations, variants, expression) via drshailesh88's specialized AI agent.

Repository

Install on your platform

Showing Claude Code. One command installs this skill into any of the agents below.

  1. 1

    Run this in your project

    terminal
    $ npx skills add drshailesh88/integrated_content_os --skill ensembl-database -a claude-code

  2. Uses the open-source skills CLI and needs Node.js. Add -g to install it for your user instead of this project.

What we know about this skill

Publisher

drshailesh88

Taken from the source listing. We haven't verified who controls this account.

Install target

Live repository

Not pinned. Installing fetches whatever the repository holds at the time you run the command.

No human has reviewed this code. The checks below are a static scan of the files at one commit — nobody has run this skill or judged whether it works. A skill runs with whatever access you give your agent, so read the source before you install it.

Automated safety checks

scanned

This skill failed 1 of 6 checks. A failure is not proof of bad intent; it means something in the code needs a human to look at it before you run it.

  • No undeclared network calls: failed

    Contacts 2 hosts that are neither well-known infrastructure nor declared in the skill's frontmatter: grch37.rest.ensembl.org, rest.ensembl.org.

    Every host the skill dials — from its scripts, its config endpoints or the commands it tells the agent to run — is either well-known package and API infrastructure or declared in its own frontmatter. Links in documentation are not counted.

    Hosts contacted

    rest.ensembl.orgundeclaredgrch37.rest.ensembl.orgundeclared

    What it found

    • skills/scientific/ensembl-database/scripts/ensembl_query.py:22contacts rest.ensembl.org
      def __init__(self, server: str = "https://rest.ensembl.org", rate_limit: int = 15):
    • skills/scientific/ensembl-database/scripts/ensembl_query.py:356contacts rest.ensembl.org
      server = "https://rest.ensembl.org"
    • skills/scientific/ensembl-database/scripts/ensembl_query.py:358contacts grch37.rest.ensembl.org
      server = "https://grch37.rest.ensembl.org"

  • Declares what it does: passed

    SKILL.md parses and declares a name and a description.

    SKILL.md exists, its frontmatter parses, and it declares a name and a description.

  • No obfuscated payloads: passed

    No encoded or obfuscated payloads.

    No base64, hex or compressed blob is decoded and then executed, and no encoded shell commands.

  • No credential access: passed

    Reads no keys, tokens, keychains or credential files.

    Neither the code nor the SKILL.md instructions read SSH keys, cloud credentials, keychains, token stores, browser cookie databases or dotfiles that hold secrets.

  • No pipe-to-shell installers: passed

    No pipe-to-shell or download-and-run installers.

    No `curl … | sh` pattern, in the code or in the instructions, that runs code fetched at run time.

  • Pinned to a commit: passed

    Scanned drshailesh88/integrated_content_os at 9e61937ad2.

    The exact upstream commit SHA that was scanned is recorded, so the result refers to specific bytes.

Commit
9e61937ad2
Manifest
skills/scientific/ensembl-database/SKILL.md
Scanned
3 files, 1,059 lines
This is a static scan, not a review. It reads the skill's files; it does not run them, and it cannot tell you whether the skill is any good or whether the code does what its description says. A skill runs with whatever access you give your agent.
What each check looks for →

About this skill

What it does

This skill allows you to query the Ensembl database, a comprehensive resource for genomic data. It can retrieve information about genes, transcripts, variants, and other genetic features. The skill provides access to curated annotations and experimental data associated with these elements, enabling detailed analyses of genomes.

When to use it

  • Researching specific gene function or variant effects: Investigate the known roles and consequences of particular genetic sequences.
  • Identifying potential drug targets: Explore genomic regions involved in disease pathways for therapeutic intervention.
  • Analyzing genomic data from research projects: Extract relevant information about genes, transcripts, and variants to support your findings.
  • Building custom bioinformatics tools: Integrate Ensembl data into applications requiring detailed genomic information.

Key capabilities

  • Gene retrieval
  • Transcript annotation access
  • Variant querying
  • Access to curated annotations
  • Experimental data integration

Example prompts

  • "What is the function of gene BRCA1 in humans?"
  • "Find all transcripts associated with the ENSG0000013961 gene."
  • "Show me variants within a 5kb region around the TSS of the TP53 gene."

Tips & gotchas

The Ensembl database is vast; be specific in your queries to avoid overwhelming results. Familiarity with genomic terminology and Ensembl identifiers (e.g., ENSGIDs) will improve query precision.