io.github.open-mtor-atlas/mtor-atlas

pkg:npm:mtor-atlas-mcp

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

transport:: remote + stdio
credential class:: open
repo:: https://github.com/open-mtor-atlas/atlas

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Tools

atlas_about
Dataset version, corpus snapshot date, counts, evidence-code legend and how to cite the dataset.
shallow
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?".
shallow
find_contradictions
Relations the Atlas marks as contested or that carry conflicting studies, with both sides of the evidence. Optionally limited to one entity.
shallow
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.
shallow
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.
shallow
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.
shallow
get_relation
One pathway relation by ID (e.g. "RHEB-MTORC1"): mechanism, boundary conditions, confidence, supporting and conflicting studies.
shallow
get_study
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.
shallow
list_questions
The Atlas's open questions (evidence gaps with testable hypotheses) and frontier questions.
shallow
search_entities
Find genes/proteins, complexes, drugs, diseases, processes, nutrients and outcomes by name or synonym.
shallow
search_studies
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.
shallow

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