Model Context Protocol moderate risk

Biothings

Biothings MCP server provides a standardized interface for accessing and manipulating biomedical data via the Model Context Protocol.

Connections & Capabilities

Connects To

GitHubDocker

Capabilities

readwrite

Quickstart

Install

npx @modelcontextprotocol/inspector --config mcp-config.json --server biothings-mcp

Exposed MCP Tools (5)

safe

GeneTools

Provides access to gene annotation and query services.

Read-only access to gene information.

safe

VariantTools

Provides access to variant annotation and query services.

Read-only access to variant information.

safe

ChemTools

Provides access to chemical compound annotation and query services.

Read-only access to chemical information.

safe

TaxonTools

Provides access to taxonomic information.

Read-only access to taxonomic data.

moderate

DownloadTools

Provides file download and sequence analysis capabilities.

Allows writing files to the local file system.

Safety Assessment

The Biothings MCP server is generally safe for read-only operations. The risk increases when using the download tools due to potential write access and the lack of authentication. Exercise caution when using the file saving features and consider implementing additional security measures in production environments.

Read-only access to biomedical data sources by default
Strong typing and validation through biothings-typed-client
No authentication required for basic usage
Output directory for file saving can be specified

Local file saving capabilities introduce potential write access
Unrestricted access to Entrez databases via download tools
Potential for denial-of-service if download tools are abused
Lack of authentication and authorization mechanisms