@pipeworx/gnomad

Connect: https://gateway.pipeworx.io/gnomad/mcp · Install: one-click buttons

Tools: 5

gnomAD MCP — Genome Aggregation Database (Broad Institute) public GraphQL endpoint. Population allele frequencies + variant pathogenicity annotations. Keyless.

Tools

• variant(variant_id, dataset?) — by chr-pos-ref-alt (e.g. 1-55051215-G-A) or rsid
• gene(gene_symbol_or_id, dataset?) — variants in / near a gene
• region(chrom, start, stop, dataset?) — variants in a genomic region
• transcript(transcript_id, dataset?) — variants in / near a transcript
• search(query) — gene / variant search (autocomplete)

dataset defaults to gnomad_r4 (most recent release). Other valid: gnomad_r3, gnomad_r2_1, gnomad_sv_r4, etc.

Data source

https://gnomad.broadinstitute.org/api

Tools

• variant — Variant by chr-pos-ref-alt (e.g. “1-55051215-G-A”) or rsid (e.g. “rs1801133”). Coordinates must match the dataset’s genome build: the default gnomad_r4 is GRCh38, so a GRCh37/hg19 position will not be
• gene — Gene info + variants. Accepts gene symbol (e.g. “BRCA1”) or Ensembl gene id.
• region — Variants in a genomic region (≤25kb recommended). You MUST say which genome build your start/stop are in via assembly — there is no default, because a position is valid in both builds and a wrong gues
• transcript — Fetch gnomAD variant data for an Ensembl transcript (ENST…), returning transcript coordinates, gene symbol, chromosome position, and per-variant allele counts (ac/an) from exome and genome datasets.
• search — Autocomplete-style search across gnomAD genes and variants by free-text query; returns matching Ensembl gene IDs with symbols, and matching variant IDs (an rsid resolves here). Use to resolve a partia