Connect Gnomad Genetics and your agent gets 7 tools, among them gnomad_dataframe_describe, gnomad_dataframe_query, gnomad_get_coverage. It answers at https://gnomad-genetics.caseyjhand.com/mcp over streamable HTTP, and it listed its tools to an anonymous client, so no sign-in was needed for that. Our probes reached it 6 of 6 times since 11 September 2026; the last check, on 21 October 2026, succeeded.
Ancestry allele frequencies, LoF constraint, variant lists, and coverage from gnomAD, with ClinVar.
Description as the publisher wrote it.
| Tool | What it does |
|---|---|
gnomad_dataframe_describe | List the tables staged on a canvas and their columns (name and type) so you can write correct SQL for gnomad_dataframe_query. Use the canvas_id returned by gnomad_list_gene_variants or gnomad_search_clinvar. Returns one entry per table with Inputs: canvas_id |
gnomad_dataframe_query | Run a read-only SQL SELECT against a canvas table staged by gnomad_list_gene_variants (table gene_variants) or gnomad_search_clinvar (table clinvar_variants). Use the canvas_id and table_name those tools returned to rank by allele frequency Inputs: canvas_id, sql |
gnomad_get_coverage | Fetch gnomAD sequencing-coverage summary across a gene, transcript, or region — mean and median read depth, plus the mean fraction of samples covered at each depth threshold (1× through 100×), separated by exome and genome track. Use this t Inputs: gene, transcript_id, region, coverage_source, dataset, reference_genome |
gnomad_get_gene_constraint | Fetch gnomAD loss-of-function constraint for a gene — pLI (probability of LoF intolerance; >0.9 intolerant), LOEUF (oe_lof_upper, the headline metric; <0.6 intolerant in v4, <0.35 in v2) plus its lower bound, observed/expected ratios for Lo Inputs: gene, dataset, reference_genome |
gnomad_get_variant | Fetch the full gnomAD population record for one or more variants — allele count/number/frequency overall and broken down per genetic-ancestry group, homozygote and hemizygote counts, quality flags, transcript consequence, in-silico predicto Inputs: variants, dataset, reference_genome |
gnomad_list_gene_variants | List every gnomAD variant in a gene, transcript, or region with allele frequencies and predicted consequences, optionally filtered to one consequence class (lof, missense, synonymous, other) and/or a maximum allele frequency. The full resul Inputs: gene, transcript_id, region, consequence_class, max_af, canvas_id |
gnomad_search_clinvar | Search ClinVar (NCBI E-utilities) for a gene and return its classified variants — clinical significance, review status with a 0–4 star rating, associated conditions, molecular consequences, and submission counts — turning the variant-level Inputs: gene, clinical_significance, min_review_stars, canvas_id |
Every block below points at https://gnomad-genetics.caseyjhand.com/mcp. Pick your client and copy.
claude mcp add --transport http gnomad-genetics https://gnomad-genetics.caseyjhand.com/mcp
{
"mcpServers": {
"gnomad-genetics": {
"command": "npx",
"args": ["-y", "mcp-remote", "https://gnomad-genetics.caseyjhand.com/mcp"]
}
}
}{
"mcpServers": {
"gnomad-genetics": {
"url": "https://gnomad-genetics.caseyjhand.com/mcp"
}
}
}{
"servers": {
"gnomad-genetics": {
"type": "http",
"url": "https://gnomad-genetics.caseyjhand.com/mcp"
}
}
}{
"context_servers": {
"gnomad-genetics": {
"url": "https://gnomad-genetics.caseyjhand.com/mcp"
}
}
}{
"mcpServers": {
"gnomad-genetics": {
"serverUrl": "https://gnomad-genetics.caseyjhand.com/mcp"
}
}
}{
"mcpServers": {
"gnomad-genetics": {
"url": "https://gnomad-genetics.caseyjhand.com/mcp"
}
}
}name: Gnomad Genetics
version: 0.0.1
schema: v1
mcpServers:
- name: Gnomad Genetics
type: streamable-http
url: https://gnomad-genetics.caseyjhand.com/mcp{
"mcpServers": {
"gnomad-genetics": {
"httpUrl": "https://gnomad-genetics.caseyjhand.com/mcp"
}
}
}{
"mcpServers": {
"gnomad-genetics": {
"type": "http",
"url": "https://gnomad-genetics.caseyjhand.com/mcp"
}
}
}{
"mcpServers": {
"gnomad-genetics": {
"url": "https://gnomad-genetics.caseyjhand.com/mcp"
}
}
}goose://extension?url=https%3A%2F%2Fgnomad-genetics.caseyjhand.com%2Fmcp&type=streamable_http&id=gnomad-genetics&name=Gnomad%20Genetics
It answered our last check on 21 October 2026 in 572 ms. Over 6 checks since 11 September 2026 it answered 6. Status here comes from Neuronto's own probes, not from the publisher.
7, as returned by the server's own tools/list on 13 September 2026: gnomad_dataframe_describe, gnomad_dataframe_query, gnomad_get_coverage, gnomad_get_gene_constraint, gnomad_get_variant, gnomad_list_gene_variants, gnomad_search_clinvar.
It answered our last check on 21 October 2026 in 572 ms. Over 6 checks since 11 September 2026 it answered 6.
Put the server under mcpServers in ~/.cursor/mcp.json with the URL https://gnomad-genetics.caseyjhand.com/mcp. The exact JSON is above, with the same setup for Claude Code, Claude Desktop, VS Code, Windsurf, Zed, Gemini CLI and the rest.
It listed its tools to an anonymous client, so reading the tool list needs no key. Individual tools can still ask for credentials in their own inputs.
Publisher: io.github.cyanheads. Endpoint host: gnomad-genetics.caseyjhand.com. ARD identifier: urn:air:io.github.cyanheads:mcp:gnomad-genetics-mcp-server.
First indexed 10 September 2026. The tools are exactly what the server returned; nothing on this page
is inferred from its name. Ranking in Neuronto search is never for sale.