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Metabolomics Workbench Database

Listed
drshailesh88·vlatest·database

Access and query Dr. Shailesh's curated metabolomics data workbench for compound IDs, pathways, and experimental details.

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 metabolomics-workbench-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 1 host that is neither well-known infrastructure nor declared in the skill's frontmatter: www.metabolomicsworkbench.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

    www.metabolomicsworkbench.orgundeclared

    What it found (3 of 68)

    • skills/scientific/metabolomics-workbench-database/SKILL.md:33contacts www.metabolomicsworkbench.org
      response = requests.get('https://www.metabolomicsworkbench.org/rest/compound/pubchem_cid/5281365/all/json')
    • skills/scientific/metabolomics-workbench-database/SKILL.md:36contacts www.metabolomicsworkbench.org
      response = requests.get('https://www.metabolomicsworkbench.org/rest/compound/regno/11/png')
    • skills/scientific/metabolomics-workbench-database/SKILL.md:39contacts www.metabolomicsworkbench.org
      response = requests.get('https://www.metabolomicsworkbench.org/rest/compound/regno/11/name/json')

  • 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/metabolomics-workbench-database/SKILL.md
Scanned
2 files, 693 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 provides access to the Metabolomics Workbench database, a public repository for metabolomics data. It allows users to query and retrieve experimental datasets, sample metadata, and associated analytical results. The database contains diverse metabolomic studies across various biological applications and instrument platforms.

When to use it

  • Literature Review: Quickly find metabolomics datasets relevant to specific research topics or diseases.
  • Data Integration: Combine data from Metabolomics Workbench with your own experimental results for comparative analysis.
  • Reproducibility Studies: Access raw data and analytical pipelines to reproduce published findings.
  • Secondary Data Analysis: Explore existing datasets for new insights or validation of hypotheses.

Key capabilities

  • Access to Metabolomics Workbench database content.
  • Querying experimental datasets.
  • Retrieval of sample metadata.
  • Access to associated analytical results.

Example prompts

  • "Find metabolomics studies related to Alzheimer's disease."
  • "Retrieve the sample metadata for dataset ID HMDBXXXXX."
  • "Show me all datasets acquired using LC-MS."

Tips & gotchas

  • Familiarity with Metabolomics Workbench data structure and terminology is helpful.
  • The database contains a large volume of data; specific queries are recommended to narrow results.