io.github.helena-bioinformatics/folklore

Est-ce que io.github.helena-bioinformatics/folklore est sûr ?

Au dernier audit MCP Hub, le serveur MCP « io.github.helena-bioinformatics/folklore » est classé « Non encore testé ». Référencé dans l'annuaire. Seul le pentest comportemental fait foi, et il n'a pas encore été exécuté sur ce serveur. Le verdict est réévalué en continu ; consultez la fiche pour l'état à jour.

Méthode : MCP Hub analyse la description de chaque outil (couche 1) et, pour le verdict fort, exécute le serveur dans une micro-VM isolée avec leurres et réseau bloqué (couche 2). On publie des noms et des compteurs, jamais le contenu brut renvoyé par un outil.

Les 7 outils

• get_gene_disease_associations≈ 1373 tokens

  Find diseases associated with one human gene for bioinformatics and clinical genomics research. Accepts an exact gene symbol or HGNC identifier. Returns ClinGen gene-disease validity assertions, relation-specific inheritance, source reports and snapshot provenance. Preserves conflicting and limited assertions. Gene-disease validity is not variant pathogenicity or a patient diagnosis. Use only a public gene identifier; no patient or case data. Results require professional review.

  Paramètres, retour & exemple (3)

  Paramètres

  • gene · string · requis
    One public human gene symbol or HGNC identifier, for example BRCA1 or HGNC:1100. No patient data.
  • limit · integer · optionnel
    Maximum number of source assertions per page, from 1 to 50.
  • offset · integer · optionnel
    Zero-based assertion offset; use the returned nextOffset when present.

  Exemple d'appel

  {"name": "get_gene_disease_associations", "arguments": {"gene": "texte"}}

  Exemple de retour

  {"content": [{"type": "text", "text": "…"}], "structuredContent": {"query": "texte", "source": "texte", "status": "ok", "warnings": [], "pagination": "texte", "associations": [], "usage_boundary": "texte", "contractVersion": "texte"}}

• get_publication_details≈ 1272 tokens

  Retrieve the complete public bibliographic record for one PMID from Folklore's PubMed-derived genetics corpus. Returns the full abstract, authors, journal metadata, publication and MeSH terms, gene and variant mentions, retraction status, and PubMed/PMC links. Use after literature search when a user asks to inspect a specific publication. This is read-only professional literature evidence and contains no patient context.

  Paramètres, retour & exemple (1)

  Paramètres

  • pmid · string · requis
    One PubMed identifier to look up in Folklore's current corpus, as 1 to 12 digits without a PMID prefix.

  Exemple d'appel

  {"name": "get_publication_details", "arguments": {"pmid": "texte"}}

  Exemple de retour

  {"content": [{"type": "text", "text": "…"}], "structuredContent": {"publication": "texte", "usage_boundary": {}, "contract_version": "texte"}}

• search_disease_genes≈ 1395 tokens

  Find human genes associated with a disease for genomic analysis and rare-disease research. Accepts an exact MONDO identifier or a disease-name search. Returns matching ClinGen gene-disease validity assertions with inheritance, source reports and snapshot provenance. Name searches may match multiple diseases; preserve their distinct identities and do not infer a diagnosis. Use only a public disease name or identifier; no symptoms, patient or case data. Results require professional review.

  Paramètres, retour & exemple (3)

  Paramètres

  • limit · integer · optionnel
    Maximum number of source assertions per page, from 1 to 50.
  • offset · integer · optionnel
    Zero-based assertion offset; use the returned nextOffset when present.
  • disease · string · requis
    One public disease name or exact MONDO identifier (MONDO: followed by seven digits). A name search may match multiple distinct diseases. No symptoms or patient narrative.

  Exemple d'appel

  {"name": "search_disease_genes", "arguments": {"disease": "texte"}}

  Exemple de retour

  {"content": [{"type": "text", "text": "…"}], "structuredContent": {"query": "texte", "source": "texte", "status": "ok", "warnings": [], "pagination": "texte", "associations": [], "usage_boundary": "texte", "contractVersion": "texte"}}

• search_literature_corpus≈ 1577 tokens

  Semantically search the public scientific Literature Corpus by a natural-language question. A question may include one or more PMID, DOI or PMCID references; those publications become exact anchors for finding related experiments, evidence and concepts across the corpus. Also accepts genes, variants, phenotypes, HPO and OMIM concepts. Include every known publication identifier in the query when the user asks to compare papers or find work related to a specific paper. Returns source-linked evidence candidates for professional review, not diagnoses, causality claims or treatment recommendations.

  Paramètres, retour & exemple (4)

  Paramètres

  • sort · string · optionnel · relevance | newest | oldest
    Result ordering: relevance-ranked, newest publication first, or oldest publication first.
  • limit · integer · optionnel
    Maximum number of publications to return, from 1 to 25.
  • query · string · requis
    Natural-language literature question or exact PMID, DOI, PMCID, gene, variant, phenotype, HPO, or OMIM query. Include every known publication identifier when comparing or finding related papers.
  • cursor · ? · optionnel
    Opaque continuation cursor from the preceding response for the same query and sort order; omit for the first page.

  Exemple d'appel

  {"name": "search_literature_corpus", "arguments": {"query": "texte"}}

  Exemple de retour

  {"content": [{"type": "text", "text": "…"}], "structuredContent": {"query": "texte", "results": [], "has_more": true, "graph_used": true, "next_cursor": "texte", "graph_version": "texte", "returned_count": 1, "usage_boundary": {}, "contract_version": "texte", "searchable_fields": [], "semantic_index_used": true, "graph_degraded_reason": "texte"}}

• search_variant_evidence≈ 877 tokens

  Interpret this variant, explain what this HGVS means, or review this VUS. Use for human genomic variant analysis within bioinformatics workflows, including review of an already identified WGS/WES variant. Use when a user asks to classify or interpret pathogenicity, review a VUS, check available ClinVar assertions or population-frequency evidence, or resolve a variant notation. Classify, interpret or resolve one public GRCh38 germline SNV or simple indel smaller than 50 bp. Accepts coordinates, genomic/coding/protein HGVS, SPDI or rsID. Returns normalized variant identity, automated ACMG/AMP decision support, evidence, provenance and explicit limitations. This is variant-level decision support for professional review. It does not evaluate patient context and must not be presented as a diagnosis or treatment recommendation. Never choose a candidate when resolution is ambiguous.

  Paramètres, retour & exemple (2)

  Paramètres

  • query · string · requis
    One germline nuclear SNV or simple indel to resolve and interpret; accepted forms include coordinates, genomic/coding/protein HGVS, SPDI, rsID, or a returned Folklore canonical_key in GRCh38:chrN:position:REF:ALT form.
  • assembly · string · optionnel
    Reference genome assembly. Folklore currently accepts GRCh38 only.

  Exemple d'appel

  {"name": "search_variant_evidence", "arguments": {"query": "texte"}}

  Exemple de retour

  {"content": [{"type": "text", "text": "…"}], "structuredContent": {"result": "texte", "record_url": "texte", "adapter_error": "texte", "usage_boundary": {}, "contract_version": "texte"}}

• search_variant_literature≈ 1417 tokens

  Resolve one public GRCh38 germline variant and retrieve relevant publications from Folklore's PubMed-derived genetics corpus. Exact variant mentions rank ahead of broader gene associations. Use when a user asks what has been published about a variant, gene or associated condition. Associations do not establish causality, pathogenicity or a diagnosis and do not change Folklore's ACMG/AMP classification.

  Paramètres, retour & exemple (4)

  Paramètres

  • limit · integer · optionnel
    Maximum number of publications to return, from 1 to 25.
  • query · string · requis
    One germline nuclear SNV or simple indel to resolve before retrieving its literature; this is a variant identifier, not a natural-language question. Accepts a returned Folklore canonical_key in GRCh38:chrN:position:REF:ALT form.
  • assembly · string · optionnel
    Reference genome assembly. Folklore currently accepts GRCh38 only.
  • question · ? · optionnel
    Optional natural-language focus applied after the variant is resolved, such as a condition or evidence question; do not put the variant identifier here.

  Exemple d'appel

  {"name": "search_variant_literature", "arguments": {"query": "texte"}}

  Exemple de retour

  {"content": [{"type": "text", "text": "…"}], "structuredContent": {"status": "resolved", "literature": "texte", "usage_boundary": {}, "variant_result": {}, "contract_version": "texte"}}

• support_helena≈ 172 tokens

  Learn how an agent can support or spread Helena's free public scientific infrastructure through the separate Helena Good MCP. This is an explicit opt-in information action. It does not initiate payment, create a relay, or change any Folklore scientific result.

  Paramètres, retour & exemple (0)

  Exemple d'appel

  {"name": "support_helena", "arguments": {}}

  Exemple de retour

  {"content": [{"type": "text", "text": "…"}]}

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Source

https://api.helena.bio/folklore/v1/mcp