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maintenanceA 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.
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MIT
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Alicense-qualityAmaintenanceMCP server for interacting with Galaxy bioinformatics platform, enabling AI assistants to connect to Galaxy instances, search and execute tools, manage workflows, and access other features.37MIT- Alicense-qualityCmaintenanceMCP server for querying the GWAS Catalog (EBI/NHGRI), a curated catalog of genome-wide association studies. It enables AI agents to search and retrieve study data via natural language or direct tool calls.1MIT
- Alicense-qualityCmaintenanceEnables AI agents to query the PomBase fission yeast model-organism database for genetic and molecular data through the Pipeworx MCP gateway.1MIT
- Alicense-qualityCmaintenanceMCP server for querying gene annotations, full-text gene search, and species taxonomy via MyGene.info. Enables AI agents to access gene data through natural language questions.13MIT
- Alicense-qualityCmaintenanceConnects to NCBI E-utilities for searching, fetching, and linking biological data across Entrez databases.13MIT
- Alicense-qualityCmaintenanceThis server provides access to InterPro protein family, domain, and functional-site classification data from EBI. It allows querying protein annotations through natural language or direct tool calls.3MIT
- Alicense-qualityCmaintenanceProvides access to UniProt protein sequence and function knowledge base, enabling search and retrieval of protein entries, proteomes, taxonomy, and feature annotations.6MIT
- Alicense-qualityCmaintenanceProvides tools to query and resolve identifiers from the Bioregistry, including prefix metadata, CURIE resolution, and substring search.11MIT
- Alicense-qualityCmaintenanceProvides access to AlphaFold predicted protein 3D structures from EBI, enabling retrieval of prediction metadata, summaries, annotations, and UniProt data.14MIT
- Alicense-qualityCmaintenanceEnables AI agents to query the WikiPathways open community pathway database via natural language, part of the Pipeworx MCP gateway.1MIT
- Alicense-qualityCmaintenanceEnables querying the EBI Expression Atlas for gene expression data across species and conditions. Part of the Pipeworx gateway, it provides access to baseline and differential expression studies.7MIT
- Alicense-qualityCmaintenanceProvides access to EBI's MetaboLights metabolomics study repository via an MCP gateway, enabling querying and retrieval of metabolomics data.1MIT
- Alicense-qualityCmaintenanceReproduces the in-silico toxicological profile of Heracleum sosnowskyi metabolites from Rassabina & Fedorov (2025) using open-source models for LD50 prediction, toxicity classification, chemical space clustering, and synthesis cost estimation.MIT
- AlicenseAqualityDmaintenanceA 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.87MIT
- AlicenseAqualityDmaintenanceEnables AI assistants to query the Ubergraph biomedical ontology SPARQL endpoint with tools for custom SPARQL queries, term lookup, search, and hierarchy traversal.4MIT
- FlicenseAqualityDmaintenanceProvides access to EMBL-EBI bioinformatics data including InterPro domains, Pfam families, protein features, and taxonomy through a unified tool.11
- AlicenseAqualityAmaintenanceProvides LLMs with structured access to critical biomedical databases including PubTator3 (PubMed/PMC), ClinicalTrials.gov, and MyVariant.info through the Model Context Protocol.35587MIT
- AlicenseAqualityDmaintenanceEnables bioinformatics analysis through natural language conversations with Claude Desktop, automatically generating and executing Python scripts to produce HTML reports and visualizations.3169MIT
- FlicenseAqualityDmaintenanceLeverages large language models to analyze users' WeGene genetic testing reports, providing access to report data via custom URI schemes and enabling profile and report management through OAuth authentication and API utilization.44