A high-performance MCP server empowering AI Agents with PubMed, ClinicalTrials, ChEMBL, AlphaFold, and Ensembl capabilities. 🧬
SciAgent (BioScience MCP Server) is a high-performance, security-focused Model Context Protocol (MCP) server that empowers AI Agents with cutting-edge biological, medical, and scientific capabilities.
By connecting your AI Assistant (Claude Desktop, Cursor, Claude Code, Aider, etc.) to SciAgent, you eliminate AI hallucinations regarding scientific facts and instantly grant it the ability to interact with real-world, authoritative scientific databases.
📚 Academic Literature Mining: Direct access to PubMed and Europe PMC for the latest peer-reviewed papers. 🏥 Clinical Trials Data: Query global clinical trial data from ClinicalTrials.gov by disease, drug, phase, or status. 🧬 Genomic Data Analysis: Query genetic variants, gene coordinates, and metadata from Ensembl and dbSNP. 🧪 Drug Discovery: Fetch molecule properties and drug targets from ChEMBL. 🔬 Structural Biology: Retrieve and analyze 3D protein structures directly from AlphaFold and UniProt.
🛡️ Built for AI Safety (Codex Security Ready)
When AI processes third-party biological data (such as parsing massive PDB files or reading unverified scientific texts), it is highly susceptible to Prompt Injection and Context Overflow.
SciAgent is engineered with a security-first approach: - Sanitizer Middleware: Strictly validates API responses. - Context Management: Truncates and summarizes massive biological payloads before handing data back to the LLM.
From the project README.
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An OKF-backed Model Context Protocol (MCP) server delivering persistent long-term memory and SQLite FTS5 search for AI agents.
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