#bioinformatics

BioMCP: Biomedical Model Context Protocol

genomoncology

BioMCP: Biomedical Model Context Protocol

Encode Toolkit

ammawla

MCP server and Claude Plugin for a full ENCODE Project genomic data and analysis toolkit — search, download, track, and analyze functional genomics experiments

biothings-mcp

longevity-genie

MCP (Model Context Protocol) server for biothings

Pdb Mcp Server

Augmented-Nature

A Model Context Protocol (MCP) server that provides access to the Protein Data Bank (PDB) - the worldwide repository of information about the 3D structures of proteins, nucleic acids, and complex assemblies.

BioRxiv MCP Server

JackKuo666

🔍 Enable AI assistants to search and access bioRxiv papers through a simple MCP interface.

Unofficial UniProt MCP Server

Augmented-Nature

A comprehensive Model Context Protocol (MCP) server providing advanced access to the UniProt protein database.

Natural language-driven spatial transcriptomics analysis via MCP. Integrates 60+ analytical methods across 15 categories including preprocessing, visualization, spatial statistics, cell communication, deconvolution, and trajectory analysis.

Wet-lab triage for AI binder-design agents. Submit computational protein designs, get back yeast-display enrichment and called hits.

Unofficial Ensembl MCP Server

Augmented-Nature

A comprehensive Model Context Protocol (MCP) server that provides access to the Ensembl REST API for genomic data, comparative genomics, and biological annotations.

🧬 Ensembl API MCP Server

effieklimi

A full-featured Model Context Protocol (MCP) server that exposes Ensembl’s REST API. Built using the TypeScript MCP SDK

This MCP server provides a programmatic interface to the Genome Aggregation Database (gnomAD) API, supporting multiple API versions (v2.1.1, v3.1.2, v4.1.0).

A comprehensive Model Context Protocol (MCP) server that provides access to the AlphaFold Protein Structure Database through a rich set of tools and resources for protein structure prediction analysis.

bio-mcp-servers

kleonai

A compilation for all the available bio agent

50+ biomedical databases unified behind one MCP

longevity-mcp

longevity-genie

Bio MCP server that deals with longevity databases (open-genes, genage and so on)