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  • A
    license
    A
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    Enables LLM agents to search biomedical literature, retrieve article details, find related papers, manage caching, and download open-access full texts through MCP with structured, agent-friendly responses.
    5
    Apache 2.0
  • 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.
    11
    3,208 npm
    157
    Apache 2.0
  • F
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    quality
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    Enables interaction with MGnify metagenomics resources and tools through the Model Context Protocol. Provides access to MGnify's API for querying and analyzing metagenomic datasets and related biological information.
    23
    1
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  • F
    license
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    quality
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    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
    27
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    A Model Context Protocol server that enhances language models with protein structure analysis capabilities, enabling detailed active site analysis and disease-related protein searches through established protein databases.
    2
    19
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  • A
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    quality
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    Enables AI agents to control RELION 5.x cryo-EM structure determination software through natural language, providing 23 tools for the complete single-particle analysis pipeline.
    5
    MIT
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    maintenance
    Enables AI agents to resolve marine species names to OBIS taxon records, retrieve georeferenced ocean occurrence records with optional date filtering, and pull aggregate statistics such as record counts, contributing datasets, and observed year ranges. Queries the Ocean Biodiversity Information System keylessly over the Pipeworx gateway or as a local stdio server.
    13 npm
    MIT
  • A
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    maintenance
    Enables querying NCBI genome assemblies, gene details with cross-references, and taxonomy trees with per-node assembly and gene counts, providing structured answers about genomes, genes, and taxonomy.
    18 npm
    MIT
  • A
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    Not graded
    quality
    A
    maintenance
    Federates 13 gene-related MCP backends (gnomAD, GTEx, etc.) behind a single Streamable HTTP endpoint with collision-free namespacing and search-based tool discovery.
    6
    MIT
  • A
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    Not graded
    quality
    A
    maintenance
    A Model Context Protocol server providing programmatic access to 3D protein structural data from RCSB PDB, PDBe, and UniProt, enabling search, retrieval, comparison, and analysis of protein structures.
    188 npm
    6
    Apache 2.0
  • A
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    maintenance
    Enables users to search and retrieve 3D cryo-EM and electron-tomography density maps by keyword or entry ID, returning details such as resolution, structure-determination method, sample, and release date.
    14 npm
    1
    MIT
  • A
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    maintenance
    Enables AI assistants to query VirtualFlyBrain data, run queries, and search for terms related to Drosophila neurobiology.
    MIT
  • A
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    Not graded
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    B
    maintenance
    Enables querying metadata from MyVariant.info, a comprehensive variant annotation database, providing dataset statistics, source information, and build versions.
    48 npm
    MIT
  • A
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    Not graded
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    B
    maintenance
    Provides access to AlphaFold predicted protein 3D structures from EBI, enabling retrieval of prediction metadata, summaries, annotations, and UniProt data.
    47 npm
    1
    MIT
  • A
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    quality
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    maintenance
    Integrates GROMACS molecular dynamics simulations with VMD visualization, enabling setup, execution, analysis, and 3D visualization of molecular dynamics workflows through natural language.
    24
    MIT