ncats-arax
Category: scientific-databases · License: MIT · Version: 1.0 · Includes scripts
Tags: biomedical knowledge graph, NCATS Translator, drug repurposing, biomedical research
When to use it
Queries the NCATS Translator ARAX production API for bounded, typed, provenance-rich one-hop and endpoint-pinned two-hop biomedical knowledge-graph relationships. Use for Biolink-constrained RTX-KG2 lookup, explicit selected-provider ARAX federation, separate entity normalization, qualifier-aware graph traversal, and inspection of TRAPI edge bindings, publications, and knowledge-source provenance. Do not use for inference, ranking, open-ended pathfinding, clinical guidance, or sensitive queries.Example requests
Ask your agent in plain language, for example:- “Use ARAX to find what genes are connected to imatinib. Just one hop, keep it small.”
- “I’m putting together a figure for our review on cystic fibrosis. I have MONDO:0009061 and NCBIGene:1080 (CFTR) saved in ids.txt. Can you query ARAX for a path Disease -> ? -> Gene through one intermediate node, with both ends pinned? Write the output to ./arax_cf_run1, and then show me which sources (primary and aggregator) each edge came from and whether publications were returned.”
- “I want to see what the Translator ARAX service and a couple of specific providers, say RTX-KG2 and one other that I’ll pick, each say about relationships of a known gene, side by side, without it guessing for me. How should we do that?”
Install
/plugin marketplace add KalarisLabs/research-agent-skills and install the whole scientific-databases category with /plugin install scientific-databases@research-agent-skills.