Can I search for metabolites using mass-to-charge (m/z) values?

Yes, the skill supports m/z searches across the Metabolomics Workbench and RefMet databases with customizable ion adducts and mass tolerances.

Does this skill help with standardized nomenclature?

Yes, it utilizes the RefMet database to match common metabolite names to standardized systematic names and hierarchical classifications.

What data formats are supported?

The skill primarily retrieves data in machine-readable JSON format, but also supports human-readable tab-delimited text and PNG images for molecular structures.

What is the Metabolomics Workbench skill?

It is a specialized capability for Claude AI that allows it to interact with the NIH Metabolomics Workbench REST API to retrieve biological research data and chemical information.

How many studies are accessible through this skill?

Users can access metadata and experimental results from over 4,200 studies, with nearly 3,800 publicly available for immediate analysis.

Metabolomics Workbench Database

Name: Metabolomics Workbench Database
Author: BbgnsurfTech

byBbgnsurfTech

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数据科学与机器学习

Connects Claude to the NIH Metabolomics Workbench for comprehensive access to metabolite data, study metadata, and mass spectrometry search capabilities.

This skill empowers Claude to programmatically access the NIH Common Fund-sponsored Metabolomics Workbench, providing a gateway to over 4,200 metabolomics studies and the RefMet standardized nomenclature database. It enables researchers to retrieve molecular structures, experimental datasets, and biomarker information across multiple analytical platforms like GC-MS, LC-MS, and NMR. By facilitating complex queries for m/z values, gene-metabolite associations, and specific study parameters through the MetStat context, it streamlines the workflow for metabolomics research, data analysis, and biomarker discovery within the Claude environment.

主要功能

01Standardized metabolite nomenclature using the RefMet database

02Access to over 4,200 metabolomics studies and experimental datasets

03Precursor ion mass searches (m/z) with specific adduct and tolerance settings

043 GitHub stars

05Filtering studies by analytical method, species, sample source, and disease state

06Retrieval of molecular structures and cross-referenced chemical identifiers

使用场景

01Identifying unknown compounds from mass spectrometry m/z values and experimental data

02Automating the retrieval of large-scale experimental datasets for meta-analysis

03Cross-referencing metabolites with associated genes and proteins for pathway analysis

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add bbgnsurftech/claude-skills-collection metabolomics-workbench-database

For use in Claude.ai and ChatGPT

Download Skill