query-kegg

Query the KEGG REST API for biological pathways, genes, and compounds.

1|Updated Mar 12, 2026

Search Tags:#bioinformatics #metabolism #signaling #gene #pathway #kegg

Ready to run

npx skills add https://github.com/yf8578/clawomics --skill query-kegg-yf8578

💬 Prompt for ChatGPT / Claude Chat▼

Please help me install this Agent Skill.
Skill: query-kegg
Source: https://github.com/yf8578/clawomics/tree/main/skills/query-kegg
Command: npx skills add https://github.com/yf8578/clawomics --skill query-kegg-yf8578

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires requests, and includes scripts (resource) and references (resource) components.

What problem does it solve?

This Skill allows users to query the KEGG database for information on biological pathways, genes, and compounds, making complex biological data more accessible.

Core Features & Use Cases

Pathway Discovery: Find biological pathways related to specific keywords (e.g., "apoptosis", "metabolism").
Gene Information: Retrieve details about genes within specific pathways or search for genes by name.
Pathway Gene Lists: Obtain a list of genes associated with a particular KEGG pathway ID.
Use Case: A researcher wants to understand the metabolic pathways involved in a specific disease. They can use this Skill to search for relevant pathways and identify key genes within them.

Quick Start

Use the query-kegg skill to find pathways related to 'glycolysis'.

Frequently Asked Questions about query-kegg

High-intent search queries and answers about installing and using this skill.

FAQPage Schema

How do I find biological pathways in KEGG using specific keywords like apoptosis or metabolism?▼

To find biological pathways, you can query the KEGG REST API using keywords like 'apoptosis' or 'metabolism' to discover relevant pathway IDs. This allows you to identify specific metabolic or signaling pathways for further molecular biology research.

Can I retrieve a list of genes associated with a specific KEGG pathway ID?▼

Yes, you can retrieve a list of genes associated with a specific KEGG pathway ID. By querying the KEGG database with a pathway ID, you obtain a comprehensive gene list to identify key genes involved in that biological pathway.

How do I get detailed gene information from the KEGG database for bioinformatics research?▼

You can get detailed gene information from the KEGG database by searching for genes by name or retrieving details for genes within specific pathways. This facilitates bioinformatics research by providing molecular insights into gene functions across organisms.

Does this KEGG query tool support organism-specific searches and ID conversions?▼

Yes, the tool supports organism-specific queries and ID conversions. You can target your KEGG REST API searches to specific organisms and convert identifiers to facilitate cross-database bioinformatics analysis.

What is the best way to explore KEGG compounds and gene lists for disease research?▼

To explore KEGG compounds and gene lists for disease research, query the KEGG REST API for relevant pathways and retrieve associated genes. This helps researchers understand the metabolic pathways and key genes involved in specific diseases.

Do I need Python requests to query biological pathways and genes from KEGG?▼

Yes, you need the Python requests library to query biological pathways and genes from KEGG. The Skill uses requests to interact with the KEGG REST API, enabling you to retrieve pathway IDs, gene details, and compound information.