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GeneBe

net.genebe/genebe-mcp · v0.1.0

Measured by MCP Station

Description written by the publisher, not verified

Annotate and classify human genetic variants with GeneBe (ACMG, gnomAD, ClinVar). Research use only.

Connect

claude mcp add --transport http genebe-mcp https://mcp.genebe.net/v1/mcp

{
  "mcpServers": {
    "genebe-mcp": {
      "url": "https://mcp.genebe.net/v1/mcp"
    }
  }
}

Tools as reported by the server

• annotate_variant
  Annotate and classify one human genetic variant using GeneBe. Start here for any question about a variant (what is it, is it pathogenic/benign, how common is it). Returns the ACMG verdict with points and criteria, population frequency (gnomAD), predictor scores (REVEL, AlphaMissense, SpliceAI, ...),
• explain_acmg_decision_path
  Explain step by step why each classification criterion did or did not apply to a variant. Use after annotate_variant when the user asks "why was this classified that way?". Returns an ASCII rendering of the decision tree with the evaluated conditions. By default it explains the germline ACMG verdict
• convert_variant
  Convert a variant written in any notation into normalized hg38 genomic coordinates. Use when you only need the chr/pos/ref/alt of a variant (for example to translate HGVS or an rsID), without annotation. Does not classify the variant; use annotate_variant for that.
• get_variant_effects
  List a variant's predicted molecular consequences on every overlapping transcript. Returns per-transcript HGVS (c. and p.), consequence terms (e.g. missense_variant) and impact, most severe and MANE Select transcripts first. Lightweight: no frequencies or classification.
• get_gene
  Look up a human gene: identifiers, location, MANE Select transcript, ClinGen gene-disease validity. Use for questions about a gene rather than a specific variant. Transcripts are listed with MANE Select first and capped; check total_transcripts.
• liftover_coordinate
  Convert a genomic position, interval or variant between genome builds (hg19, hg38, t2t). Check `status`: RESOLVED means one result, AMBIGUOUS means several candidates, anything else means it could not be mapped (see errors). For variants, ref/alt are rebuilt against the target reference and warnings

Repository · Website · JSON · Text for agents · Registry updated 2026-10-22