#bioinformatics

MCP server and Claude Plugin for a full ENCODE Project genomic data and analysis toolkit — search, download, track, and analyze functional genomics experiments Search ENCODE, cross-reference 14 databases, run 7 analysis pipelines, and generate publication-ready methods — all from natural language in Claude Code. Start from ENCODE but go everywhere: discover histone peaks, cross-reference with GWAS variants, check ClinVar pathogenicity, pull GTEx expression, analyze TF binding motifs from JASPAR, run pipelines, and generate publication-ready methods with full provenance — in one conversation.

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.

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

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.

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.

A comprehensive Model Context Protocol (MCP) server providing advanced access to the UniProt protein database. This server offers 26 specialized bioinformatics tools enabling AI assistants and MCP clients to perform sophisticated protein research, comparative genomics, structural biology analysis, and systems biology investigations directly through UniProt's REST API.

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

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

A compilation for all the available bio agent

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

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

Explore the Unofficial UniProt MCP Server, your gateway to advanced protein analysis with 26 specialized tools. Join the community and enhance your research capabilities today! 🐙🌟

MCP (Model Context Protocol) server for biothings

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). It abstracts version-specific field and schema differences, exposing a unified API for downstream tools and users.

This MCP server provides a programmatic interface to the GWAS Catalog REST API, enabling access to GWAS study, variant, trait, and association data.

This MCP server provides a programmatic interface to the Broad Institute's Liftover tool, which is available at liftover.broadinstitute.org.

MCP server for bioinformaticians and computational biologists

BioMCP: Biomedical Model Context Protocol