Query PrimeKG to search nodes, fetch neighbors, and analyze disease context.
npx skills add https://github.com/JosephWoodall/noosphere --skill primekg-josephwoodall
Please help me install this Agent Skill. Skill: primekg Source: https://github.com/JosephWoodall/noosphere/tree/main/.agent/skills/primekg Command: npx skills add https://github.com/JosephWoodall/noosphere --skill primekg-josephwoodall
PrimeKG is a knowledge graph that consolidates biomedical data; this skill enables researchers to query and retrieve genes, drugs, diseases, phenotypes, and related relationships from PrimeKG to support discovery and analysis.
Run search_nodes('Alzheimer', node_type='disease') to find a disease and then call get_neighbors on its ID to see related genes and drugs.
High-intent search queries and answers about installing and using this skill.
Query a biomedical knowledge graph by searching nodes by name and type, then retrieve direct neighbors to map gene-disease and drug-disease relationships. You can analyze disease contexts and potential drug repurposing paths using Python scripts.
To analyze disease context for drug repurposing, fetch disease neighbors to see related genes and drugs. This network pharmacology approach reveals mechanistic insights and potential drug-disease paths for discovery workflows.
You can search PrimeKG for phenotypes and genes using Python scripts. The search_nodes function filters by node name and type, allowing you to identify specific biomedical entities within the knowledge graph dataset.
You need pandas installed to retrieve multiscale biological data and relationships from the knowledge graph. It serves as the required dependency for running the Python scripts that query and structure the dataset.
After identifying a disease in a biomedical dataset, use the get_neighbors function on its ID to retrieve related drugs and genes. This fetches direct neighbors and evidence to help understand relationships within the local disease context.
Limitations when searching for biomedical insights across multiscale relationships depend on the PrimeKG dataset's coverage. The skill retrieves direct neighbors and evidence, meaning analysis is constrained to the consolidated data within the knowledge graph.
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