"Searching PubMed references and formatting them in Markdown" matching MCP servers:

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.

🔍 Enable AI assistants to search, access, and analyze PubMed articles through a simple MCP interface.

Enables search and retrieval of academic papers from PubMed database with advanced features like MeSH term lookup, publication statistics, and PICO-based evidence search.

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.

Search PubMed for articles matching the query.

Server to search PubMed (PubMed is a free, online database that allows users to search for biomedical and life sciences literature). I have created on a day MCP came out but was on vacation, I saw someone post similar server in your DB, but figured to post mine.

Grounds gene-nomenclature work in the HUGO Gene Nomenclature Committee (HGNC) dataset, enabling resolution of gene symbols and IDs to canonical HGNC identifiers, plus cross-references and batch operations.

Enables AI agents and applications to search, retrieve, and analyze chemical compounds, substances, and bioassays from PubChem's vast chemical information database through comprehensive tools for chemical research and discovery.

Enables agents to search a public PubMed-derived corpus by natural language or identifiers and to retrieve publication details while traversing bounded citation and semantic literature graphs.

Enables researchers to query public ENA and BioSamples genomics data in plain English through any MCP client, including counting records, searching samples, retrieving sample details, and checking metadata quality against project requirements.

Provides LLMs with structured access to critical biomedical databases including PubTator3 (PubMed/PMC), ClinicalTrials.gov, and MyVariant.info through the Model Context Protocol.

Provides comprehensive BioPython capabilities for biological sequence analysis, alignment, database access (GenBank, UniProt, PubMed), protein structure analysis, and phylogenetics through a Model Context Protocol interface for AI-assisted bioinformatics workflows.

Connects to NCBI E-utilities for searching, fetching, and linking biological data across Entrez databases.

Enables querying relationships between plant species, small molecules, and mitochondrial Complex I inhibitors by bridging natural-product, biodiversity, and PubMed datasets. Allows LLMs to perform structured searches and reasoning over biological data to identify potential plant-derived mitochondrial inhibitors.

Unified MCP server providing AI-agent-ready access to AlphaFold, PubMed, ChEMBL, Ensembl, and 37+ scientific databases.

Enables searching cryo-EM density maps in EMDB and raw datasets in EMPIAR, with filtering by resolution, keyword, and cross-referencing between the two databases.

A server providing access to NCBI E-utilities API for searching and retrieving data from databases like PubMed, Protein, and Nucleotide.

Enables AI clients to access virome datasets and external bioinformatics APIs through MCP tools, including Wikipedia, PubMed, NCBI Taxonomy, read-only SQL over S3 Parquet, pandas/Plotly analyses, and map visualizations, while keeping the client decoupled from data and business logic.

Enables resolving genetic variant identifiers (HGVS, dbSNP, ClinVar, gnomAD) to stable ClinGen Allele Registry IDs (CA#) and cross-references, providing a canonical allele identity across genome builds.

Enables in-chat scientific viewers for molecular structures, sequence alignments, and slide images, plus data tools for searching structures, fetching sequences, aligning them, and drafting NGS analysis plans.