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"Top 25 most popular and downloaded MCP servers" matching MCP servers:

  • PDBe MCP Servers by PDBeurope

    PDBe MCP Serversofficial

    PDBeurope
    A
    license
    B
    quality
    A
    maintenance
    Provides seamless access to the Protein Data Bank in Europe (PDBe) API and search capabilities, enabling AI clients to query protein structures, perform advanced searches, and retrieve structural biology data.
    33
    37
    Apache 2.0

  • BioMCP

    yeyuan98
    A
    license
    A
    quality
    D
    maintenance
    A high-performance MCP server that gives LLMs access to 25 biomedical tools federated across 50+ upstream APIs for genes, variants, drugs, diseases, literature, clinical trials, and structural biology.
    25
    67
    2
    MIT
  • Bio-MCP BLAST by bio-mcp

    Bio-MCP BLASTofficial

    bio-mcp
    A
    license
    Not graded
    quality
    D
    maintenance
    Enables AI assistants to perform NCBI BLAST sequence similarity searches through natural language, supporting nucleotide and protein searches, custom database creation, and multiple output formats.
    10
    MIT
  • Bio-MCP FastQC Server by bio-mcp

    Bio-MCP FastQC Serverofficial

    bio-mcp
    A
    license
    Not graded
    quality
    D
    maintenance
    Enables AI assistants to perform quality control analysis on high-throughput sequencing data using FastQC and MultiQC. It supports single-file and batch processing of FASTQ/FASTA files and generates comprehensive, interactive summary reports.
    MIT
  • bio-mcp-evo2 by bio-mcp

    bio-mcp-evo2official

    bio-mcp
    A
    license
    Not graded
    quality
    D
    maintenance
    An MCP server that enables AI assistants to generate, score, and analyze DNA sequences using the evo2 genomic foundation model. It supports multiple execution modes including local GPU, SLURM clusters, and the Nvidia NIM cloud API for tasks like variant effect prediction and sequence embedding.
    MIT

  • BWA MCP Server

    bio-mcp
    A
    license
    Not graded
    quality
    D
    maintenance
    Enables AI assistants to perform DNA/RNA sequence alignment using BWA (Burrows-Wheeler Aligner), supporting both short and long read alignment to reference genomes with indexing, BWA-MEM, and BWA-backtrack algorithms.
    MIT

  • PubTator-MCP-Server

    JackKuo666
    A
    license
    Not graded
    quality
    D
    maintenance
    🔍 A biomedical literature annotation and relationship mining server based on PubTator3, providing convenient access through the MCP interface.
    9
    MIT
  • FLASK-tools by FLASK-LLNL

    FLASK-toolsofficial

    FLASK-LLNL
    F
    license
    Not graded
    quality
    B
    maintenance
    Provides a collection of MCP servers for computational chemistry tasks including molecular generation and retrosynthesis. Also offers property prediction and molecule pricing capabilities.

  • Biomart MCP

    jzinno
    A
    license
    A
    quality
    D
    maintenance
    A Model Context Protocol server that interfaces with Biomart databases, allowing models to discover biological datasets, explore attributes/filters, retrieve biological data, and translate between different biological identifiers.
    8
    8
    MIT

  • PDB MCP Server

    Augmented-Nature
    F
    license
    A
    quality
    F
    maintenance
    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.
    5
    25
  • peptoma-mcp by peptoma

    peptoma-mcpofficial

    peptoma
    A
    license
    Not graded
    quality
    D
    maintenance
    An MCP server that connects AI agents to the PEPTOMA open DeSci peptide research platform, enabling peptide sequence analysis, feed search, and peer-review annotations.
    25
    MIT
  • Cytoscape MCP Server by cytoscape

    Cytoscape MCP Serverofficial

    cytoscape
    A
    license
    Not graded
    quality
    A
    maintenance
    An embedded MCP server for Cytoscape Desktop that lets AI agents load networks, set active views, and control the desktop application over HTTP.
    6
    BSD 3-Clause
  • sniff-mcp by Sniffscore

    sniff-mcpofficial

    Sniffscore
    A
    license
    Not graded
    quality
    B
    maintenance
    Agent-callable canine genomics API providing breed-stratified allele frequencies, pathogenicity predictions, and variant-gene-breed-disease knowledge graph for dog DNA.
    MIT