BioPortal

Provider

Augmented Nature

Classification

Community classification icon community

Est. Downloads

Info icon
This is our estimate of how many downloads occurred of this server across the MCP ecosystem (not specific to any single platform). We use a mix of publicly available data, social signals, and more to feed an algorithm that drives this estimation.
1.2k (146 this week)

Released On

Aug 14, 2025

Popularity Ranking

Info icon
Our estimate as to where this MCP server implementation ranks on the global leaderboard of usage.
#3,349 (#807 this week)

Integrates with BioPortal's API to search, annotate, and explore over 1,200 biological ontologies including medical terminologies like NCIT, DOID, and MESH with batch processing, text annotation, and analytics capabilities for bioinformatics research and clinical text processing.

Related Servers

Simple PubMed

Andy Brandt

Access PubMed's medical research database via the Entrez API for biomedical literature search and analysis.

Classification

Community icon

community

Est Downloads (All Time)

9k

Release Date

Dec 11, 2024

UniProt

TakumiY235

Integrates with UniProt API to provide cached protein information for bioinformatics applications and protein research.

Classification

Community icon

community

Est Downloads (All Time)

1.3k

Release Date

Dec 8, 2024

PubMed

rikachu

Integrates with PubMed to enable searching, retrieving, and accessing medical research articles for evidence-based...

Classification

Community icon

community

Est Downloads (All Time)

Release Date

Dec 12, 2024

PubMed Search

wavelovey

Integrates with PubMed to enable natural language querying and analysis of biomedical literature for research and...

Classification

Community icon

community

Est Downloads (All Time)

6.7k

Release Date

Jan 8, 2025

PubMed

Guillaume Raille

Integrates PubMed data for searching and fetching biomedical literature, enabling dynamic querying and analysis of...

Classification

Community icon

community

Est Downloads (All Time)

13.4k

Release Date

Jan 8, 2025

Biomart

John Zinno

Integrates with Biomart to enable advanced biological data queries, including gene information retrieval, ID...

Classification

Community icon

community

Est Downloads (All Time)

876

Release Date

Feb 27, 2025

BrianKnows

Anton Cheng

Integrates with the BrianKnows knowledge base API to enable searches and information retrieval from specialized...

Classification

Community icon

community

Est Downloads (All Time)

Release Date

Mar 2, 2025

BioMCP

Aakaash Meduri

Enabling agent-based biomedical R&D via protein structure analysis capabilities

Classification

Community icon

community

Est Downloads (All Time)

2.6k

Release Date

Mar 4, 2025

PubMed Search

gradusnikov

Integrates with PubMed database via NCBI E-utilities API to search and retrieve academic papers, including titles,...

Classification

Community icon

community

Est Downloads (All Time)

876

Release Date

Mar 7, 2025

bioRxiv

Jack Kuo

Provides a specialized interface for searching and retrieving bioRxiv scientific articles through keyword-based...

Classification

Community icon

community

Est Downloads (All Time)

2.9k

Release Date

Mar 19, 2025

Cortellis

Joan

Provides direct access to pharmaceutical data through the Cortellis API, enabling drug searches and ontology...

Classification

Community icon

community

Est Downloads (All Time)

Release Date

Mar 22, 2025

bioRxiv

Jack Kuo

Enables searching and retrieving scientific articles from bioRxiv through keyword-based queries, advanced parameter...

Classification

Community icon

community

Est Downloads (All Time)

Release Date

Mar 15, 2025

Cortellis Drug Database

Joan

Integrates with the Cortellis drug database to enable pharmaceutical data querying, including medication searches by...

Classification

Community icon

community

Est Downloads (All Time)

Release Date

Mar 24, 2025

PubMed

Jack Kuo

Provides a bridge to PubMed for searching, filtering, retrieving, and analyzing medical research articles with tools...

Classification

Community icon

community

Est Downloads (All Time)

12k

Release Date

Mar 19, 2025

BioMCP (Biomedical Database Integration)

GenomOncology

Integrates with biomedical databases including ClinicalTrials.gov, PubMed, and MyVariant.info to provide structured...

Classification

Official repository icon

official

Est Downloads (All Time)

67.3k

Release Date

Apr 5, 2025

PubMed Medical Literature Research

Felix Wu

Enables search, retrieval, and analysis of academic medical literature through the NCBI PubMed database with...

Classification

Community icon

community

Est Downloads (All Time)

146

Release Date

Apr 22, 2025

PubMed

cyanheads

Enables AI systems to search, retrieve, and analyze biomedical literature from PubMed for evidence-based research,...

Classification

Community icon

community

Est Downloads (All Time)

9.4k

Release Date

May 25, 2025

UniProt

Augmented Nature

Integrates with UniProt's protein database through 26 specialized bioinformatics tools for protein searches, sequence...

Classification

Community icon

community

Est Downloads (All Time)

Release Date

May 27, 2025

PubChem

Augmented Nature

Integrates with PubChem chemical database to provide compound search, structure analysis, property calculation,...

Classification

Community icon

community

Est Downloads (All Time)

4.4k

Release Date

May 30, 2025

PubMed

Chris Mannina

Integrates with NCBI PubMed to provide literature search, article retrieval, author-based searches, citation...

Classification

Community icon

community

Est Downloads (All Time)

2.4k

Release Date

Jun 4, 2025

BioContext Knowledgebase

BioContextAI Team

Provides unified access to over 20 biomedical databases and research tools including protein databases (UniProt,...

Classification

Community icon

community

Est Visitors (All Time)

12.6k

Release Date

Jul 15, 2025

Ontology Lookup Service

Sean Davis

Integrates with the Ontology Lookup Service API to search biomedical ontology terms, retrieve detailed ontology...

Classification

Community icon

community

Est Downloads (All Time)

2.9k

Release Date

Jul 15, 2025

Gene Ontology

Moudather Chelbi

Integrates with Gene Ontology databases through QuickGO and official GO APIs to search terms, retrieve definitions...

Classification

Community icon

community

Est Downloads (All Time)

1k

Release Date

Jul 31, 2025

Open Targets

Augmented Nature

Integrates with Open Targets platform to search therapeutic targets and diseases, retrieve detailed gene and disease...

Classification

Community icon

community

Est Downloads (All Time)

1.2k

Release Date

Jun 1, 2025

Reactome

Augmented Nature

Integrates with Reactome's curated biological pathway database to search pathways by keywords, genes, or diseases,...

Classification

Community icon

community

Est Downloads (All Time)

1.2k

Release Date

Aug 14, 2025

PubMed Research

aringadre76

Integrates with PubMed's biomedical literature database to search academic papers, retrieve detailed metadata and...

Classification

Community icon

community

Est Downloads (All Time)

856

Release Date

Aug 20, 2025

Ensembl

Augmented Nature

Integrates with Ensembl's genomic database through 20+ specialized tools for gene lookup, sequence retrieval,...

Classification

Community icon

community

Est Downloads (All Time)

146

Release Date

Aug 20, 2025

Protein Data Bank

Augmented Nature

Integrates with the Protein Data Bank (PDB) to provide search, retrieval, and analysis capabilities for protein...

Classification

Community icon

community

Est Downloads (All Time)

2.3k

Release Date

Aug 20, 2025

Protocols.io

Hao-Quan Liu

Integrates with protocols.io platform to enable searching, retrieving, and managing scientific laboratory protocols...

Classification

Community icon

community

Est Downloads (All Time)

970

Release Date

Aug 29, 2025

GTEx Portal

Moudather Chelbi

Integrates with GTEx Portal API to provide gene expression analysis, genetic variant associations, and...

Classification

Community icon

community

Est Downloads (All Time)

146

Release Date

Sep 11, 2025

UniProt

Jose Duarte

Integrates with UniProtKB protein database to provide complete protein entries, sequences, filtered searches, and ID...

Classification

Community icon

community

Est Downloads (All Time)

495

Release Date

Oct 28, 2025

Medical APIs

Pascal Brokmeier

Unified access to biomedical APIs for drug discovery, pathway analysis, and genetic research

Classification

Community icon

community

Est Downloads (All Time)

1.3k

Release Date

Nov 13, 2025

Medical APIs

James Sangalli

Integrates with FDA drug databases, WHO health indicators, RxNorm classifications, PubMed research, Google Scholar,...

Classification

Community icon

community

Est Downloads (All Time)

292

Release Date

Nov 4, 2025