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ClinGen Linked Data Hub

ClinGen Linked Data Hub (LDH) links CAids, genes, PMC articles, and exact text or table selectors. BioMCP uses it only as an optional post-retrieval identity observation for variant articles --verify-identity; it never discovers, removes, or ranks article candidates.

It is a source of auditable linkage facts, not a measure of literature coverage or scientific evidence strength.

What BioMCP exposes

  • variant articles --verify-identity can add a typed clingen_ldh_annotation linkage to an article identity observation.
  • LDH requires an applicable CAR CAid and an already-known matching PMCID.
  • Missing coverage, malformed LDH data, outages, or bounded-work exhaustion leave the candidate available and unverified; they do not prove absence.
  • BioMCP bounds each item to one medium lookup, five matching PMC candidates, two annotations per candidate, and ten direct annotation requests.

Example commands

biomcp variant articles 'BRAF V600E' --verify-identity

Verify already retrieved article candidates for one named variant.

biomcp --json variant articles 'ATM c.1066-6T>G' --verify-identity

Inspect typed identity observations and their linkage provenance.

biomcp --json variant articles --input variants.json --verify-identity

Verify each of up to ten structured variant identities from a JSON array.

The JSON identity projection retains the source, selector, CAid, gene, PMCID, and provenance for a confirmed LDH annotation. Ordinary verification covers only the requested visible page. --confirmed-only verifies up to 50 ranked candidates before filtering and pagination; it reports incomplete when that bound leaves candidates unverified.

API access

No BioMCP API key required.

Official source