"RAG (Retrieval-Augmented Generation) system that can store papers and web pages" matching MCP servers:

• Manual RAG — SIH/SUS Query

  leonardo-amaral-3

  F

  license

  -

  quality

  D

  maintenance

  A RAG-based MCP server for natural language querying of Brazilian healthcare manuals (SIH/SUS, SIA/SUS) and official ordinances. It provides 16 tools for semantic search, regulatory critique analysis, and retrieving data from SIGTAP and CNES.

  Last updated 2026-02-28

  1

• fhir-ig-rag

  davidcumming

  F

  license

  -

  quality

  D

  maintenance

  Provides FHIR Implementation Guide facts via MCP tools, enabling querying of must-support, bindings, constraints, and value-set usage from StructureDefinition artifacts for conformance and testing support.

  Last updated 2026-02-13

• MCP Healthcare System

  Sudip-Pandit

  A

  license

  -

  quality

  -

  maintenance

  A production-grade MCP server that enables AI assistants to securely manage healthcare data through clinical tools for patient vitals, lab results, and medication ordering. It prioritizes security and compliance with features like HIPAA-ready audit logging, PII redaction, and role-based access control.

  Last updated 2026-02-21

• SureChEMBL MCP Server

  Augmented-Nature

  F

  license

  A

  quality

  D

  maintenance

  A comprehensive Model Context Protocol (MCP) server for accessing the SureChEMBL chemical patent database.

  Last updated 2025-12-21

  15

  7

• Ensembl MCP Server

  Augmented-Nature

  F

  license

  A

  quality

  F

  maintenance

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

  Last updated 2025-12-21

  19

  3

• Reactome MCP Server

  Augmented-Nature

  F

  license

  A

  quality

  D

  maintenance

  Model Context Protocol server for accessing Reactome pathway and systems biology data.

  Last updated 2025-12-21

  8

  12

• ProteinAtlas MCP Server

  Augmented-Nature

  F

  license

  A

  quality

  D

  maintenance

  A comprehensive Model Context Protocol (MCP) server for accessing Human Protein Atlas data, providing information about protein expression, subcellular localization, pathology, and more.

  Last updated 2025-12-21

  16

  4

• GeneOntology MCP Server

  Augmented-Nature

  A

  license

  B

  quality

  D

  maintenance

  A comprehensive Model Context Protocol server for accessing Gene Ontology (GO) data, enabling AI systems to perform ontology-based analysis, gene annotation research, and functional enrichment studies.

  Last updated 2025-12-21

  4

  29

  8

  MIT

• BioOntology MCP Server

  Augmented-Nature

  F

  license

  B

  quality

  D

  maintenance

  A production-ready Model Context Protocol (MCP) server that provides comprehensive access to the BioOntology API for searching, annotating, and exploring over 1,200 biological ontologies.

  Last updated 2025-12-21

  10

  9

• PubMed MCP Server

  Augmented-Nature

  F

  license

  B

  quality

  F

  maintenance

  Provides comprehensive access to NCBI's PubMed database of over 36 million biomedical citations, allowing users to search, retrieve, and analyze literature directly through MCP tools. It supports advanced queries, citation management, full-text retrieval from PubMed Central, and precise discovery using MeSH terms.

  Last updated 2025-12-21

  16

  15

• OpenTargets MCP Server

  Augmented-Nature

  F

  license

  B

  quality

  D

  maintenance

  Unofficial Model Context Protocol server for accessing Open Targets platform data for gene-drug-disease associations research.

  Last updated 2025-12-21

  6

  11

• OpenFDA MCP Server

  Augmented-Nature

  F

  license

  B

  quality

  D

  maintenance

  A comprehensive MCP server that provides access to U.S. FDA public datasets via the openFDA API, enabling querying of drug adverse events, labeling, recalls, approvals, shortages, NDC directory, and medical device regulatory data.

  Last updated 2025-12-21

  10

  19

• GTEx MCP Server

  Augmented-Nature

  F

  license

  B

  quality

  D

  maintenance

  Enables AI assistants to query and analyze genomics data from the GTEx Portal through 25 specialized tools for gene expression analysis, eQTL/sQTL associations, and genetic variant lookups across 54 human tissue types.

  Last updated 2025-12-21

  25

  3

• Unofficial Clinical Trials MCP

  Augmented-Nature

  F

  license

  B

  quality

  D

  maintenance

  Provides access to the ClinicalTrials.gov API, enabling search, analysis, and retrieval of clinical trial data through MCP tools.

  Last updated 2025-12-21

  17

  8

• Unofficial BioThings.io MCP

  Augmented-Nature

  A

  license

  -

  quality

  D

  maintenance

  Provides access to BioThings.io APIs for comprehensive gene and variant annotations, enabling seamless integration of biological data into workflows.

  Last updated 2025-12-21

  1,043

  6

  MIT

• Math-Physics-ML MCP System

  andylbrummer

  A

  license

  -

  quality

  B

  maintenance

  Provides GPU-accelerated scientific computing capabilities including symbolic mathematics, quantum wave mechanics simulations, molecular dynamics, and neural network training through four specialized MCP servers.

  Last updated 2026-05-01

  2

  MIT

• KEGG MCP Server

  Augmented-Nature

  F

  license

  -

  quality

  D

  maintenance

  Enables natural language querying and analysis of KEGG biological databases, including pathways, genes, compounds, reactions, diseases, and drugs.

  Last updated 2025-12-21

  10

• Bloodtest MCP Server

  longevitycoach

  F

  license

  -

  quality

  D

  maintenance

  A comprehensive health coaching system that combines blood test analysis with evidence-based nutritional therapy recommendations, powered by Retrieval-Augmented Generation (RAG).

  Last updated 2025-07-09

  3

• NCBI Datasets MCP Server

  Augmented-Nature

  F

  license

  -

  quality

  D

  maintenance

  Provides comprehensive access to the NCBI Datasets API, enabling genomic, taxonomic, and biological data operations through 31 specialized tools.

  Last updated 2025-12-21

  16

• Prior Authorization System MCP

  Click2code

  F

  license

  -

  quality

  D

  maintenance

  End-to-end Prior Authorization decision-support system with a multi-agent AI pipeline, MCP Tool Registry, and PostgreSQL backend.

  Last updated 2026-02-06

  1