GeneBe

Name: GeneBe
Author: genebe-net

by genebe-netversion 0.1.0i★ –iRuns in the cloud

Registry namenet.genebe/genebe-mcp

Install

Overview

Description from the maker (original English)

Annotate and classify human genetic variants with GeneBe (ACMG, gnomAD, ClinVar). Research use only.

PopNx MCP’s three pillars

These three are never merged into one score: opinions, measurements and popularity are different things.

User voiceiNo reviews yetReviews open together with accounts in a later step
Our basic checksi1 of 1 passedChecked from public information; code not scanned yet
UsageiNot measured yet★ –

What you can do with it

We have not written a plain-language summary for this one yet. Below are the facts we read from the registry.

Connection: Runs in the cloud
Transport: Streamable HTTP
Category: Search & AI memory

Install

Pick the AI app you use, then copy the settings.

Before you install

Basic checks: 1 of 1 passed
Runs on the maker’s server: what you ask it goes through their server.
The registry lists no key to fill in.

You need

Runs in the cloudNothing to install; it connects over the internet

Which app do you use?

ClaudeClaude CodeCursorVS CodeChatGPT

Pick your app above. We remember it, so next time the button says “Install in …”.

Works in Claude on the web, desktop and mobile:

Open Settings → Connectors
Press Add custom connector
Paste the address below and press Add
If it asks you to sign in, sign in with the maker

https://mcp.genebe.net/v1/mcp

Run this in your terminal

claude mcp add --transport http genebe https://mcp.genebe.net/v1/mcp

Open in Cursor

Or copy the settings yourself

Paste into .cursor/mcp.json in your project, or ~/.cursor/mcp.json

{
  "mcpServers": {
    "genebe": {
      "url": "https://mcp.genebe.net/v1/mcp"
    }
  }
}

Your browser asks to open the app, then the app shows the settings and asks you to confirm. Key values are left empty for you to fill in.

Open in VS Code

Or copy the settings yourself

Paste into .vscode/mcp.json in your project

{
  "servers": {
    "genebe": {
      "type": "http",
      "url": "https://mcp.genebe.net/v1/mcp"
    }
  }
}

Your browser asks to open the app, then the app shows the settings and asks you to confirm. Key values are left empty for you to fill in.

ChatGPT connects only to servers on the internet:

Open ChatGPT on the web → Settings → Connectors (Apps)
Press Create or Add (some plans need Developer mode under Advanced first)
Paste the address below, give it a name and save
If it asks you to sign in, sign in with the maker

https://mcp.genebe.net/v1/mcp

Menu names can differ slightly by plan and over time.

Your choice stays on this device in a cookie; no account needed.

These settings are generated from the maker’s registry entry. If the README says otherwise, follow the README.

What it can do

We have not read this server’s tool list yet; we check endpoints in rotation.

Basic checksi

We check information anyone can see; we have not read the code. Checks that do not apply are left out of the count. · Checked Nov 7, 2026

✓ Pass
Maker matches the repo
The registry name was verified against the domain genebe.net (the registry checks domain ownership)
… Not checked yet
Still maintained
We have not read this repo from GitHub yet
… Not checked yet
Has a licence
We have not read this repo from GitHub yet
… Not checked yet
Endpoint responds
Not checked yet; we check endpoints in rotation
… Not checked yet
Sign-in with OAuth
Not checked yet; we check endpoints in rotation
… Not checked yet
No hidden instructions in tool descriptions
Not checked yet; we read the tool list when we check the endpoint

Compared with others in Search & AI memoryi

More stars than 0% of the other 7249 servers in this category
Published to the registry more recently than 71% of the other 7249 servers in this category
Basic checks equal to or better than 100% of the other 7249 servers in this category

Compared with every active server in this category in the registry. Stars count only when the publisher owns the repo.

Common questions

Is GeneBe safe?

It passed 1 of 1 applicable basic checks. We have not read the code. Before adding a key or token, see what access the server asks for and use a key with only the permissions you need.

What keys or codes does it need?

The registry does not list a required key, though some servers ask you to sign in on first use.

Does it run on my computer or in the cloud?

It runs in the maker’s cloud. Connect over the internet with nothing to install, but what you send passes through the maker’s servers.

Is it still maintained?

The GitHub repo last changed –, and the latest version (0.1.0) reached the registry 15 days ago.

Which apps can use it?

Apps that support MCP, such as Claude Desktop, Claude Code, Cursor and VS Code. It connects by URL, so apps that accept remote MCP servers work too, such as ChatGPT in developer mode.

What can I use instead?

In the same category: Context7, Codebase Memory, Exa

Alternatives

Servers in the same category from other makers, sorted by stars.

Reading a card:★ GitHub starsiThree pillars: reviews · checks · usageiUpdated = latest version published to the registryi

Context7

by upstash

Feeds AI the latest docs for libraries and frameworks before it answers, so code it writes does not use outdated, removed functions.

Computer or cloud★ 64,224MITUpdated today

Install

Codebase Memory

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Codebase knowledge graph for AI agents — 162 languages, sub-ms queries, 99% fewer tokens.

Runs on your computer★ 48,148MITUpdated 20 days ago

Install

Exa

by exa-labs

Connect AI agents to Exa for web search, content fetching, and multi-step research.

Runs in the cloud★ 5,213MITUpdated last month

Install

README from the maker

Open the README

Copied from the maker’s repo as written. PopNx MCP has not reviewed or endorsed it. HTML, images and scripts are removed. Links lead off this site.

🧬 GeneBe MCP

Give your AI assistant real variant-interpretation data instead of guesses.

Annotate and classify human genetic variants (ACMG, gnomAD, ClinVar, in-silico predictors) from Claude, Cursor, VS Code and any other MCP client, powered by GeneBe.

https://mcp.genebe.net/v1/mcp

Why

Language models are bad at remembering the clinical status of a specific variant. They sound confident and are often wrong. GeneBe MCP lets the assistant look the variant up and answer from data: a transparent, points-based ACMG classification with every criterion explained, together with population frequencies, predictor scores, ClinVar and transcript consequences.

*"Is NM_005577.4:c.4195A>C benign?"*

*"What is chr6-160585140-T-G? Explain why it is classified that way."*

*"Convert rs41272110 to hg38 and list its consequences on each transcript."*

For example, chr6-160585140-T-G (rs41272110, *LPA*) comes back as Benign, −9 points with criteria BA1 and BP4, plus the data behind them and a link to the GeneBe page.

What you get

Any notation in: genomic coordinates, HGVS, rsID or SPDI; hg19, hg38 and T2T supported through liftover.
Verdict you can audit: ACMG classification with points and the reasoning for each criterion, not a black-box label.
Evidence in one call: gnomAD frequencies, in-silico predictors, ClinVar, per-transcript consequences (HGVS c./p., impact), gene details with MANE Select and ClinGen gene–disease validity.
Compact answers: large lists are capped, so one call costs roughly 1–3k tokens, and every result also carries structured data that follows the tool's output schema.
Links back to GeneBe, so the human can check the source.

Connect in a minute

No sign-up, no API key. The server is remote; you only add its URL.

Claude Code

claude mcp add --transport http genebe https://mcp.genebe.net/v1/mcp

Claude (web and desktop)

Settings → Connectors → *Add custom connector*, then enter https://mcp.genebe.net/v1/mcp.

ChatGPT

Open chatgpt.com/plugins, click Add (+) → Add custom MCP, and enter https://mcp.genebe.net/v1/mcp.

Cursor

Add to ~/.cursor/mcp.json:

{ "mcpServers": { "genebe": { "url": "https://mcp.genebe.net/v1/mcp" } } }

VS Code

Add to .vscode/mcp.json:

{ "servers": { "genebe": { "type": "http", "url": "https://mcp.genebe.net/v1/mcp" } } }

Any other client / try it with curl

Any client that supports remote MCP over Streamable HTTP works. Try it from a terminal:

curl -s -X POST https://mcp.genebe.net/v1/mcp \

-H 'Content-Type: application/json' -H 'Accept: application/json, text/event-stream' \ -d '{"jsonrpc":"2.0","id":1,"method":"tools/call","params":{"name":"annotate_variant","arguments":{"variant":"chr6-160585140-T-G"}}}'

More examples: USAGE.md.

Tools

Tool	What it does
`annotate_variant`	Start here. Any notation → ACMG verdict, points and criteria, frequencies, predictor scores, ClinVar, consequences, GeneBe links
`explain_acmg_decision_path`	Why each classification criterion applied, in plain text
`convert_variant`	HGVS / rsID / SPDI → hg38 coordinates
`get_variant_effects`	Per-transcript consequences (HGVS c./p., impact)
`get_gene`	Gene identifiers, location, MANE Select, ClinGen gene–disease validity, transcripts
`liftover_coordinate`	Positions, intervals or variants between hg19 / hg38 / t2t

The default genome build is hg38.

Trust and privacy

Read-only. No tool changes anything, anywhere.
No account, no key needed to use the hosted server.
Single variants only. No patient data, no VCF files, no samples are sent or stored.
Nothing is stored and variant input is not logged by the MCP server.
Transparent classification. Results come from GeneBe's points-based ACMG implementation; the reasoning is returned with the verdict, so you and the assistant can check it.
Open source under the MIT license; you can read exactly what the server does, or run your own copy.
Research use only. This is not a medical device and not a diagnosis. Classifications must be reviewed by a qualified specialist before any clinical use.

Roadmap

Today GeneBe MCP answers questions about single variants. We plan to grow it into a workspace your assistant can use on your own data. None of the items below is available yet, and the order may change.

Sign-in, so the assistant can act on your GeneBe account
Your own samples: view and edit sample details and annotations
Search your cohort: find a variant across your own set of samples
Upload samples from the assistant
Supervise computations: start analyses, follow their progress and read the results

Ideas or requests? Open an issue or write to us via genebe.net.

Data sources

Results combine data from GeneBe, gnomAD, ClinVar, UniProt, ClinGen and dbNSFP predictors. Please check each source's license terms before redistributing the data.

Contributing and self-hosting

Want to run your own instance or change the code? See DEVELOPMENT.md. Issues and pull requests are welcome.

Made by the GeneBe team · MIT · Research use only

GeneBe

Overview

PopNx MCP’s three pillars

What you can do with it

Install

Before you install

What it can do

Basic checksi

Maker matches the repo

Still maintained

Has a licence

Endpoint responds

Sign-in with OAuth

No hidden instructions in tool descriptions

Compared with others in Search & AI memoryi

Common questions

Alternatives

Context7

Codebase Memory

Exa

README from the maker

🧬 GeneBe MCP

Why

What you get

Connect in a minute

Tools

Trust and privacy

Roadmap

Data sources

Contributing and self-hosting