Community-based biomedical context to unlock agentic systems
Malte B. KuehliD, Darius P. SchaubiD, Francesco CarliiD, Lukas HeumosiD, Camila Fernández‐ZapataiD, Nico KaiseriD, Jonathan SchauliD, Ulf PanzeriD, Stefan BonniD, Sebastian LobentanzeriD, Julio Sáez-RodrígueziD, Victor G. PuellesiD
Abstract
Large language models (LLMs) face reliability challenges stemming from hallucinations and insufficient access to validated scientific resources. Existing solutions are often fragmented and limited to specific applications, hindering broader adoption and interoperability. Here, we present Biomedical Context for Artificial Intelligence (BioContextAI), an open-source initiative centered on Model Context Protocol (MCP) servers to address these limitations. BioContextAI provides a community-oriented registry for discovering domain-specific MCP servers and a proof-of-concept server implementation that integrates widely-used biomedical knowledgebases. By enabling standardized access to validated scientific knowledge, BioContextAI aims to facilitate the development of composable agentic systems for biomedical research. Together, this work contributes to an emerging ecosystem of community-driven approaches for expanding the capabilities and reliability of biomedical AI systems.
02 /Specification & Classification
Click any tag to browse matching papers- Citations
- 5
- Research Focus
- Approach
Reproducibility ledger
Nobody has reported trying to reproduce this paper yet. Did you replicate an experiment or run the code? Your report saves the next lab a week.
Sign in to file a reproducibility report.
Related papers
- AI semantics for biomedical data integration
James Alastair McLaughlin, Aleix Puig-Barbe, … Helen Parkinson·bioRxiv·Sep 3, 2026
- Biomni: A General-Purpose Biomedical AI Agent
Kexin Huang, Serena Zhang, … Jure Leskovec·bioRxiv·May 30, 2025
- Agentomics: An Agentic System that Autonomously Develops Novel State-of-the-art Solutions for Biomedical Machine Learning Tasks
Vlastimil Martinek, Andrea Gariboldi, … Panagiotis Alexiou·BioinformaticsPeer-reviewed·Jul 1, 2026
- BioML-bench: Evaluation of AI Agents for End-to-End Biomedical ML
Henry E. Miller, Matthew Greenig, … Bo Wang·bioRxiv·Sep 1, 2025
- Automating AI Discovery for Biomedicine Through Knowledge Graphs And LLM Agents
Naafey Aamer, Muhammad Nabeel Asim, … Andreas Dengel·bioRxiv·May 8, 2025
- Quantifying Scientific Consensus in Biomedical Hypotheses via LLM-Assisted Literature Screening
Uiyun Kim, Ohhyeon Kwon, Doheon Lee·bioRxiv·Apr 9, 2026