MCP server for Oliver's mTOR Atlas: evidence-labelled mTOR studies, entities, signed pathway relations with supporting and conflicting evidence, and open questions.
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atlas_aboutDataset version, corpus snapshot date, counts, evidence-code legend and how to cite the dataset.Dataset version, corpus snapshot date, counts, evidence-code legend and how to cite the dataset.
No input schema was published for this tool.
search_studiesSearch the curated studies by keywords (title, finding, authors, journal, model system), optionally filtered by evidence code, a linked entity (gene, drug, disease...) and year range. Returns summary records with evidence codes and URLs.Search the curated studies by keywords (title, finding, authors, journal, model system), optionally filtered by evidence code, a linked entity (gene, drug, disease...) and year range. Returns summary records with evidence codes and URLs.
No input schema was published for this tool.
get_studyFull record for one study by Atlas ID (e.g. "SAB1994"): abstract excerpt, extracted findings, linked entities, the relations it supports or contradicts, related open questions.Full record for one study by Atlas ID (e.g. "SAB1994"): abstract excerpt, extracted findings, linked entities, the relations it supports or contradicts, related open questions.
No input schema was published for this tool.
search_entitiesFind genes/proteins, complexes, drugs, diseases, processes, nutrients and outcomes by name or synonym.Find genes/proteins, complexes, drugs, diseases, processes, nutrients and outcomes by name or synonym.
No input schema was published for this tool.
get_entityOne 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.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.
No input schema was published for this tool.
find_relationsSigned, 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.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.
No input schema was published for this tool.
get_relationOne pathway relation by ID (e.g. "RHEB-MTORC1"): mechanism, boundary conditions, confidence, supporting and conflicting studies.One pathway relation by ID (e.g. "RHEB-MTORC1"): mechanism, boundary conditions, confidence, supporting and conflicting studies.
No input schema was published for this tool.
evidence_betweenDirect 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?".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?".
No input schema was published for this tool.
find_contradictionsRelations the Atlas marks as contested or that carry conflicting studies, with both sides of the evidence. Optionally limited to one entity.Relations the Atlas marks as contested or that carry conflicting studies, with both sides of the evidence. Optionally limited to one entity.
No input schema was published for this tool.
list_questionsThe Atlas's open questions (evidence gaps with testable hypotheses) and frontier questions.The Atlas's open questions (evidence gaps with testable hypotheses) and frontier questions.
No input schema was published for this tool.
get_questionOne 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.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.
No input schema was published for this tool.
11 of 11 tools published a description.
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MCP server for Oliver's mTOR Atlas: evidence-labelled mTOR studies, entities, signed pathway relations with supporting and conflicting evidence, and open questions.
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The crawl stopped at the depth-4 limit. Anything below that level was never resolved.
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36 more resolved packages are not drawn here (display cap: 24). Every dependency carrying an advisory is drawn regardless of the cap. Full inventory (CycloneDX SBOM)
53 declared dependencies never landed in the tree. They are missing from Forge's resolution, not from the package.
+41 more not listed. The counts by reason above cover all of them.
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