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Oliver's mTOR Atlas

io.github.open-mtor-atlas/mtor-atlas · v1.3.3

Measured by MCP Station

Description written by the publisher, not verified

Evidence-labelled mTOR research: studies, entities, pathway claims, contradictions, open questions.

Connect

claude mcp add --transport http mtor-atlas https://mtor-atlas-mcp.mtor-atlas.workers.dev/mcp

{
  "mcpServers": {
    "mtor-atlas": {
      "url": "https://mtor-atlas-mcp.mtor-atlas.workers.dev/mcp"
    }
  }
}

Tools as reported by the server

• atlas_about
  Dataset version, corpus snapshot date, counts, evidence-code legend and how to cite the dataset. When the Atlas does not report the contested and conflicting counts itself, derived_counts adds them, computed from the relations, so they can be compared with find_contradictions.
• search_studies
  Search the curated studies by keywords, optionally filtered by evidence code, a linked entity (gene, drug, disease...) and year range. Searches title, finding, authors (author-list form "Sabatini DM" and full names of profiled authors), PMID, DOI, PMCID, linked entities and their synonyms, journal,
• get_study
  Full record for one study by Atlas ID (e.g. "SAB1994"), PMID, DOI or PMCID: abstract excerpt, extracted findings, linked entities, the relations it supports or contradicts, related open questions.
• search_entities
  Find genes/proteins, complexes, drugs, diseases, processes, nutrients and outcomes by name or synonym. Each result says where it matched (match_field: name, synonym or description); use match="name" to leave out description-only hits.
• get_entity
  One entity (gene/protein, complex, drug, disease, process...) with its linked studies as short cards (first studies_limit) and every pathway relation it takes part in as a one-line claim. Accepts an id, a name or a synonym.
• find_relations
  Signed, evidence-linked pathway relations (claims such as "Rheb activates mTORC1"). Filter by an entity on either end, by source/target, effect, contested status or minimum strength of the best supporting evidence.
• get_relation
  One pathway relation by ID (e.g. "RHEB-MTORC1"): mechanism, boundary conditions, confidence, supporting and conflicting studies.
• evidence_between
  Direct curated relations between two entities (either direction) with full cards for the supporting and conflicting studies. Answers questions such as "what is the evidence that A acts on B?". A study that repeats within the answer is sent in full once and afterwards as a short card with full_card_i
• find_contradictions
  Relations the Atlas marks as contested or that carry conflicting studies, with both sides of the evidence. status says which; breakdown splits the total. A contested relation with no conflicting study listed is flagged conflicting_studies_missing; relations named in its note or boundary are shown in
• list_questions
  The Atlas's open questions (evidence gaps with testable hypotheses) and frontier questions. Paged. By default still_open is shortened at a sentence boundary (still_open_truncated); get_question has the full text, or pass brief=false.
• get_question
  One open or frontier question by ID (e.g. "H1", "F2"): the gap, what changed, what is still open, how it could be tested, linked studies.
• search_authors
  People in the Atlas by full name ("Claudio De Virgilio"), author-list form ("De Virgilio C"), ORCID or lab. results are authors with a profile page (full name, ORCID, lab, their study IDs); in_author_lists are matching names in study author lists without a profile.
• get_author
  One profiled author by profile id ("claudio-de-virgilio"), full name, author-list form or ORCID: lab, role, profile URL and short cards of their studies in the Atlas.

Tool changes

• 2026-10-18: atlas_about, search_studies, get_study, search_entities, get_entity, find_relations, get_relation, evidence_between, find_contradictions, list_questions, get_question, search_authors
• 2026-10-16: atlas_about, search_studies, get_study, search_entities, get_entity, find_relations, get_relation, evidence_between, find_contradictions, list_questions, get_question, search_authors

Repository · Website · JSON · Text for agents · Registry updated 2026-10-17