CASCADE: Agentic In Silico Gene Perturbation Analysis via the Model Context Protocol

⚠️ This record was created in error by the GitHub-Zenodo integration. The canonical CASCADE record is at https://zenodo.org/doi/10.5281/zenodo.18883012. Please cite that DOI instead.CASCADE is a Model Context Protocol (MCP) server for in silico gene perturbation analysis in cancer and immuno-oncology research. It provides 28 tools for simulating gene knockdowns and overexpression using pre-computed regulatory networks and GREmLN model embeddings across 10 immune and epithelial cell types. Features LangGraph-based workflow orchestration with intelligent routing, parallel batch execution, cross-source evidence synthesis across 8 integrated data sources, and optional LLM-powered biological interpretation via Ollama.