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Oliver's mTOR Atlas

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

Source code Website Documentation

Install

Add this to your client's MCP configuration (Claude Desktop: claude_desktop_config.json; Cursor: .cursor/mcp.json; VS Code and others use the same "mcpServers" shape).

Remote (streamable-http)
Claude Code 
claude mcp add --transport http oliver-s-mtor-atlas 'https://mtor-atlas-mcp.mtor-atlas.workers.dev/mcp'
JSON configuration (Claude Desktop, Cursor, VS Code) 
{
    "mcpServers": {
        "oliver-s-mtor-atlas": {
            "type": "http",
            "url": "https://mtor-atlas-mcp.mtor-atlas.workers.dev/mcp"
        }
    }
}
NPM package mtor-atlas-mcp
Claude Code 
claude mcp add oliver-s-mtor-atlas -e 'ATLAS_API_BASE=<ATLAS_API_BASE>' -- npx -y mtor-atlas-mcp@1.3.3
JSON configuration (Claude Desktop, Cursor, VS Code) 
{
    "mcpServers": {
        "oliver-s-mtor-atlas": {
            "command": "npx",
            "args": [
                "-y",
                "mtor-atlas-mcp@1.3.3"
            ],
            "env": {
                "ATLAS_API_BASE": "<ATLAS_API_BASE>"
            }
        }
    }
}

Environment variables

  • ATLAS_API_BASE Optional. Base URL (or local folder) of the Atlas API. Defaults to https://mtor-atlas.org/api/v1

Documentation

From the project's README on GitHub, refreshed weekly. Links open on GitHub.

Contents
  1. Oliver's mTOR Atlas
  2. What's inside
  3. Evidence grading
  4. About this project
  5. Programmatic access
  6. Citing this dataset
  7. License

Oliver's mTOR Atlas

A curated, evidence-graded database of mTOR pathway research in which every claim carries its source, the conditions it was measured under, and the point where it stops holding. Studies are labelled by the kind of study behind them - from synthesis of human data down to mechanistic and in-vitro work - and traced back to their primary source, alongside a knowledge-graph view of genes, diseases, and interventions and a layer of open questions naming what the evidence does not yet resolve.

Live site: https://mtor-atlas.org

What's inside

  • 400+ hand-curated primary studies on the mTOR signaling pathway (mTORC1/mTORC2, autophagy, rapamycin and related interventions), each labelled by the kind of study behind it and linked back to its DOI/PubMed record.
  • A knowledge-graph view connecting genes, diseases, and interventions.
  • An "open questions" layer - evidence gaps identified across the corpus, each paired with a proposed testable experiment.
  • A citation-grounded research assistant that answers pathway questions using only the indexed corpus, with links back to source studies.

Evidence grading

Studies are hand-selected from PubMed / Europe PMC and labelled by study design, not by quality, importance, or citation count:

  • S - synthesis of human data (systematic review / meta-analysis)
  • H - human study (clinical trial or observational)
  • A - animal model
  • M - molecular / in-vitro (mechanistic)
  • R - review

These codes ran A-D until September 2026. They were renamed because a lettered ladder reads as a quality grade, which it never was, and because the old bottom tier merged primary mechanistic work with narrative reviews - two different kinds of claim. The change was prompted by an external critique from a researcher in the field; the underlying data was not re-graded, only the labels shown to readers.

A mechanistic paper is not "worse" than a trial. The code says what kind of claim a study can support, not how good it is.

About this project

Built and maintained independently by Oliver, a high-school student, together with his father Petr. Not affiliated with any lab, company, or institution. Feedback on the evidence grading, missing studies, or anything that looks wrong is very welcome - please open an issue. See CONTRIBUTING.md.

Programmatic access

Citing this dataset

If you use this dataset, please cite it via its Zenodo record: https://doi.org/10.5281/zenodo.22059963

A single page with all identifiers, registrations (bio.tools, FAIRsharing, GitHub, ORCID) and a ready-to-use citation is at https://mtor-atlas.org/data/.

License

This repository is dual-licensed, because it contains two different kinds of thing:

  • Curated content and data - the study records, evidence grades, curated prose, gap hypotheses, and everything under atlas_data/ and the generated pages - are licensed under CC BY 4.0 (see LICENSE): https://creativecommons.org/licenses/by/4.0/
  • Source code - the Python generators, validation and verification scripts, and site JavaScript - is licensed under the MIT License (see LICENSE-CODE).

If you reuse the data, attribute it. If you reuse the code, MIT terms apply.

Frequently asked questions

What is Oliver's mTOR Atlas?

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

How do I install Oliver's mTOR Atlas?

It runs as a remote server. In Claude Code: claude mcp add --transport http oliver-s-mtor-atlas 'https://mtor-atlas-mcp.mtor-atlas.workers.dev/mcp'. For other clients, paste the JSON configuration from this page into their MCP settings.

Does Oliver's mTOR Atlas need an API key?

Its registry entry lists no required key or secret. Some features may still need an account with the service it connects to.

Is Oliver's mTOR Atlas open source?

Yes. Its code is on GitHub under the CC-BY-4.0 license.

Who maintains Oliver's mTOR Atlas?

It is published by open-mtor-atlas. AI.tn lists it but does not maintain or endorse it.

From the official MCP Registry. Listing is not an endorsement: review a server's code and permissions before giving it access to your data.