_ registry / mcp streamable-http · checked 42m ago

GeneBe

https://mcp.genebe.net

Registry code: 6c403807d07bc5a0

api record

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

Read-only, no account required. Verdicts come from GeneBe's transparent, points-based ACMG classification,

endpoint
https://mcp.genebe.net/v1/mcp
protocol
streamable-http ·2025-06-18
authentication
none observed
public key
none — nobody has proven they own this listing · is it yours? claim it
karma
0 · newcomer
_ is it live, free and safe measured by this hub
Is GeneBe live?
Yes — it answered the hub's last check (checked 42m ago). It answered 100% of checks over the last 30 days.
Is GeneBe free to use?
Yes — the hub reached it with no key and no payment.
What tools does GeneBe have?
6 tools: get_variant_effects, get_gene, liftover_coordinate, explain_acmg_decision_path, annotate_variant, convert_variant.
Is GeneBe safe to connect?
The hub found no text in its card or tool descriptions aimed at the agent reading them. It measures what the server answers, not its code — grant it only the access its tools need.
reachable
live
uptime, 30 days
100%

90 days 100%· all time 100%

latency
246ms

last good check

priced tools
0

of 6 tools

_ answered our checks, 90 days 1 checks · signed record
  • unknown → live
_ usage and payments 30 days

Calls placed through this hub's router, from its own receipts. Every caller and every payer counts the same; the chain total is counted from three payers.

accounts
0

through this hub

calls served
0

successful

paid through this hub
0 USDC

what callers paid

inferred, not observed

Access was read off the card rather than seen on the wire: inferred: the handshake, the tool list and a call without arguments went through with no key and no payment asked; no tool was run

_ what it can do 6 tools
6 never probed 0 of 6 classified

Price is per tool, not per server. An agent whose handshake is open can hold tools that demand a key or a payment, and one figure for the whole agent sends callers into a wall.

  • get_variant_effects unknown never probed

    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.

    mcp-tool

    {
  "type": "object",
  "title": "get_variant_effectsArguments",
  "required": [
    "variant"
  ],
  "properties": {
    "genome": {
      "enum": [
        "hg19",
        "hg38",
        "t2t"
      ],
      "type": "string",
      "title": "Genome",
      "default": "hg38",
      "description": "Genome build of coordinate input."
    },
    "variant": {
      "type": "string",
      "title": "Variant",
      "description": "The variant, in any notation accepted by annotate_variant."
    }
  }
}
    arguments 25 lines
  • get_gene unknown never probed

    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.

    mcp-tool

    {
  "type": "object",
  "title": "get_geneArguments",
  "required": [
    "gene"
  ],
  "properties": {
    "gene": {
      "type": "string",
      "title": "Gene",
      "description": "Gene symbol (BRCA1), alias, HGNC id (HGNC:1100), 'entrez:672' or Ensembl id (ENSG...)."
    },
    "include_transcripts": {
      "type": "boolean",
      "title": "Include Transcripts",
      "default": true,
      "description": "Also list the gene's transcripts."
    }
  }
}
    arguments 20 lines
  • liftover_coordinate unknown never probed

    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 such as REF_MISMATCH may apply.

    mcp-tool

    {
  "type": "object",
  "title": "liftover_coordinateArguments",
  "required": [
    "query",
    "from_genome",
    "to_genome"
  ],
  "properties": {
    "query": {
      "type": "string",
      "title": "Query",
      "description": "A position ('chr8:141310715'), an interval ('chr8:141310715-141310716') or a variant ('chr2-23423-A-C', HGVS, rsID)."
    },
    "to_genome": {
      "enum": [
        "hg19",
        "hg38",
        "t2t"
      ],
      "type": "string",
      "title": "To Genome",
      "description": "Genome build to convert to."
    },
    "from_genome": {
      "enum": [
        "hg19",
        "hg38",
        "t2t"
      ],
      "type": "string",
      "title": "From Genome",
      "description": "Genome build of the input."
    }
  }
}
    arguments 36 lines
  • explain_acmg_decision_path unknown 42m ago

    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 that annotate_variant returns; the somatic trees 'oncogenicity' (2022) and 'acgs-uk-onco' (2025) can be requested explicitly. Research use only.

    mcp-tool

    {
  "type": "object",
  "title": "explain_acmg_decision_pathArguments",
  "required": [
    "variant"
  ],
  "properties": {
    "tree": {
      "type": "string",
      "title": "Tree",
      "default": "germline",
      "description": "Decision tree: 'germline' (default), 'oncogenicity' or 'acgs-uk-onco'."
    },
    "genome": {
      "enum": [
        "hg19",
        "hg38",
        "t2t"
      ],
      "type": "string",
      "title": "Genome",
      "default": "hg38",
      "description": "Genome build of coordinate input."
    },
    "variant": {
      "type": "string",
      "title": "Variant",
      "description": "The variant, in any notation accepted by annotate_variant."
    },
    "version": {
      "type": "string",
      "title": "Version",
      "default": "2019",
      "description": "Tree version: germline 2019 (default), oncogenicity 2022, acgs-uk-onco 2025."
    }
  }
}
    arguments 37 lines
  • annotate_variant unknown 42m ago

    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, ...), ClinVar status, transcript consequences, and links to the GeneBe page to cite. Research use only; not a diagnosis.

    mcp-tool

    {
  "type": "object",
  "title": "annotate_variantArguments",
  "required": [
    "variant"
  ],
  "properties": {
    "genome": {
      "enum": [
        "hg19",
        "hg38",
        "t2t"
      ],
      "type": "string",
      "title": "Genome",
      "default": "hg38",
      "description": "Genome build of coordinate input. Ignored for HGVS/rsID."
    },
    "variant": {
      "type": "string",
      "title": "Variant",
      "description": "The variant. Accepts 'chr-pos-ref-alt' (6-160585140-T-G), HGVS with transcript (NM_005577.4:c.4195A>C), rsID (rs41272110), SPDI, or 'GENE p.Thr1399Pro'."
    },
    "transcript": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "null"
        }
      ],
      "title": "Transcript",
      "default": null,
      "description": "Force this transcript for the classification, e.g. NM_000546.6"
    },
    "gene_symbol": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "null"
        }
      ],
      "title": "Gene Symbol",
      "default": null,
      "description": "Force this gene for the classification, e.g. TP53"
    }
  }
}
    arguments 51 lines
  • convert_variant unknown 42m ago

    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.

    mcp-tool

    {
  "type": "object",
  "title": "convert_variantArguments",
  "required": [
    "variant"
  ],
  "properties": {
    "variant": {
      "type": "string",
      "title": "Variant",
      "description": "HGVS (NM_007294.4:c.3756_3759del), rsID (rs429358), SPDI (NC_000007.14:11324573:C:T), 'chr-pos-ref-alt', or 'GENE p.Thr1700Ile'."
    },
    "input_genome": {
      "enum": [
        "hg19",
        "hg38",
        "t2t"
      ],
      "type": "string",
      "title": "Input Genome",
      "default": "hg38",
      "description": "Genome build of positional input (hg19 input is lifted to hg38)."
    }
  }
}
    arguments 25 lines
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card completeness
100%

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