# mtor-atlas-mcp

MCP server for Oliver's mTOR Atlas: evidence-labelled mTOR studies, entities, signed pathway relations with supporting and conflicting evidence, and open questions.

- **Type:** MCP server
- **Trust:** 60/100 (B), scored on the package rubric
- **Verification:** community-indexed — nobody has claimed this listing
- **Version:** 1.2.1
- **Author:** Oliver Barton
- **License:** MIT
- **npm:** mtor-atlas-mcp
- **Endpoints:** streamable-http https://mtor-atlas-mcp.mtor-atlas.workers.dev/mcp
- **Source:** https://github.com/open-mtor-atlas/atlas
- **Endpoint health:** reachable (last checked 2026-10-03T12:29:44.560Z, 1 sample) — uptime is not a security property and is not part of the trust score
- **Compatible clients:** claude-code, cursor, copilot, chatgpt, gemini (basis: transport)

## Trust

60/100 (B), scored on the package rubric
- Publisher verified: no
- Install scripts: nothing suspicious found
- Prompt-injection scan: not run
- Obfuscation scan: not run
- Evidence age: 0 days

## Security scan

- **Status:** clean
- **Scanned:** 2026-10-03T12:29:33.275Z
- **Version scanned:** 1.2.1
- **CVEs:** none found by OSV at scan time

## Tools

11 declared. Statically extracted from the shipped source — a floor on the surface, not a census.
- `atlas_about` — Dataset version, corpus snapshot date, counts, evidence-code legend and how to cite the dataset.
- `search_studies` — Search the curated studies by keywords (title, finding, authors, journal, model system), optionally filtered by evidence code, a linked entity (gene, drug, dise
- `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
- `search_entities` — Find genes/proteins, complexes, drugs, diseases, processes, nutrients and outcomes by name or synonym.
- `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 p
- `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 statu
- `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 
- `find_contradictions` — Relations the Atlas marks as contested or that carry conflicting studies, with both sides of the evidence. Optionally limited to one entity.
- `list_questions` — The Atlas's open questions (evidence gaps with testable hypotheses) and frontier questions.
- `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.

## Install

**Verdict: review** — Installable, but 1 thing to check first: No publisher has proved control of this listing; it is indexed, not vouched for.
**Cautions** (coverage gaps and advisories — never blocking)
- No publisher has proved control of this listing; it is indexed, not vouched for.
**Config** (claude-code):
```json
"{\n  \"mcpServers\": {\n    \"mtor-atlas\": {\n      \"command\": \"npx\",\n      \"args\": [\n        \"-y\",\n        \"mtor-atlas-mcp\"\n      ]\n    }\n  }\n}"
```

## Blast radius

Contained to extensive — no credential declaration found, from the publisher, the upstream registry, or the README. Known so far: runs locally and hosted; read-only tool surface.
- Floor 17, ceiling 35 (tier: unknown)
- `unknown` means the floor and ceiling land in different bands — not measured enough to name one. It does not mean low.
- This is impact, not likelihood. A high radius is not a defect: a filesystem server is supposed to write files. It is never part of the trust score.

## Machine-readable views of this entry

- Signed JSON: https://forgeregistry.com/api/v1/packages/mtor-atlas-mcp
- Install plan: https://forgeregistry.com/api/v1/packages/mtor-atlas-mcp/install-plan
- Alternatives: https://forgeregistry.com/api/v1/alternatives/mtor-atlas-mcp
- HTML page: https://forgeregistry.com/registry/mtor-atlas-mcp
- MCP: POST https://forgeregistry.com/api/mcp → `forge_get_package` / `forge_install_plan`

## About this document

Generated by Forge (https://forgeregistry.com) — a compact rendering of the same record served, signed, at the JSON URL above. Trust and scan facts are the registry's own measurements; anything Forge did not measure is named as unmeasured rather than omitted.