"Most downloaded items or content" matching MCP servers:

• pubmed-mcp-server

  cyanheads

  A

  license

  A

  quality

  A

  maintenance

  A bridge connecting AI agents to NCBI's PubMed database through the Model Context Protocol, enabling seamless searching, retrieval, and analysis of biomedical literature and data.

  Last updated 2026-07-26

  11

  4,246

  128

  Apache 2.0

• Bio-OS MCP Server

  GBA-BI

  A

  license

  C

  quality

  B

  maintenance

  Enables workflow management and Docker image building for Bio-OS platform. Supports WDL workflow submission, validation, and monitoring, along with Docker image building and status tracking for bioinformatics workflows.

  Last updated 2026-07-17

  22

  5

  MIT

• mcp-gwas-catalog

  pipeworx-io

  A

  license

  -

  quality

  C

  maintenance

  MCP server for querying the GWAS Catalog (EBI/NHGRI), a curated catalog of genome-wide association studies. It enables AI agents to search and retrieve study data via natural language or direct tool calls.

  Last updated 2026-06-08

  6

  MIT

• mcp-monarch-initiative

  pipeworx-io

  A

  license

  -

  quality

  C

  maintenance

  Enables querying of the Monarch Initiative biomedical knowledge graph for genes, diseases, phenotypes, and their associations through natural language or direct tool calls.

  Last updated 2026-06-02

  15

  MIT
• 

  OpenCRAVATofficial

  KarchinLab

  F

  license

  -

  quality

  C

  maintenance

  Annotate variants by with a deep and rich set of data. Can annotate: genetic change, rsID, CAid, HGVS (g./c./p.), protein change.

  Last updated 2026-07-15

  5

• Oh My KEGG MCP

  martinuslee

  A

  license

  -

  quality

  D

  maintenance

  An MCP server that provides access to the Kyoto Encyclopedia of Genes and Genomes (KEGG) database, offering 30 tools for searching and analyzing biological data like pathways, genes, and compounds. It supports integration with LangChain and Ollama to enable LLMs to interact with comprehensive genomic and chemical datasets.

  Last updated 2026-02-05

  8

  MIT

• mcp-interpro

  pipeworx-io

  A

  license

  -

  quality

  C

  maintenance

  This server provides access to InterPro protein family, domain, and functional-site classification data from EBI. It allows querying protein annotations through natural language or direct tool calls.

  Last updated 2026-06-08

  8

  MIT

• mcp-protein-atlas

  pipeworx-io

  A

  license

  -

  quality

  C

  maintenance

  Enables querying the Human Protein Atlas data using natural language or direct MCP tools, with keyless access via the Pipeworx gateway.

  Last updated 2026-06-09

  10

  MIT

• mcp-pride

  pipeworx-io

  A

  license

  -

  quality

  C

  maintenance

  MCP server for querying the EBI PRIDE Archive, a proteomics (mass-spectrometry) data repository, through natural language or direct tool calls.

  Last updated 2026-06-09

  7

  MIT

• BioBTree

  tamerh

  A

  license

  -

  quality

  A

  maintenance

  A unified biomedical graph database that integrates 50+ primary data sources — genes, proteins, compounds, diseases, pathways, and clinical data — into a single queryable graph with billions of cross-reference edges. Its native MCP server gives LLMs direct access to structured, authoritative biomedical data, complementing their reasoning with reliable identifiers and up-to-date database content.

  Last updated 2026-07-25

  19

  AGPL 3.0

• Bio_MCP

  ricancong

  F

  license

  -

  quality

  C

  maintenance

  Enables users to generate volcano plots by submitting jobs with input files and parameters, supporting local or Docker execution.

  Last updated 2026-07-30

• Biomolecule Modeling MCP

  huangjianhuster

  F

  license

  -

  quality

  D

  maintenance

  Enables AI assistants to clean PDB structures and run initial-stage energy relaxation for biomolecular modeling. It provides a structured workflow for preparing structures before production molecular dynamics or coarse-graining pipelines.

  Last updated 2026-04-21

• tacc-mcp-bio

  Narasimhan-Lab

  F

  license

  -

  quality

  C

  maintenance

  Enables Claude Code to interact with a TACC or SLURM HPC cluster for bioinformatics pipelines, allowing job management, log reading, file browsing, remote script execution, and job submission through natural language.

  Last updated 2026-06-08

• InterProScan MCP Service

  AltriaPendragon49

  F

  license

  -

  quality

  C

  maintenance

  Provides protein family, domain, and functional annotation using InterProScan, supporting local or API backends.

  Last updated 2026-06-30

• EMBL-EBI MCP Server

  openpharma-org

  F

  license

  -

  quality

  D

  maintenance

  Provides access to EMBL-EBI bioinformatics data including InterPro domains, Pfam families, protein features, and taxonomy through a unified tool.

  Last updated 2026-03-23

  1

• MCP Server for Cirro Data

  NorahZager

  -

  license

  -

  quality

  -

  maintenance

  This server enables multi-agent conversations for interacting with Cirro's biological data platform through its OpenAPI interface, auto-generated using AG2's MCP builder.

  Last updated 2025-06-03