autonomous-oncology-agent

Core Capabilities

1. Vision Transformer Analysis: Detects MSI status and key mutations (KRAS, BRAF) directly from H&E images.
2. Clinical Reasoning: Synthesizes patient history, pathology, and genomics to recommend therapies.
3. Evidence Retrieval: Integrates real-time knowledge from OncoKB and PubMed.
4. Decision Support: Provides ranked treatment options with evidence levels.

Workflow

1. Input Processing:
   • Text: Clinical notes, pathology reports, genomic panels.
   • Image: H&E histology slides.
2. Analysis:
   • Vision model predicts molecular features from slides.
   • LLM extracts key clinical entities (Stage, Histology, Mutations).
3. Reasoning:
   • Query OncoKB for actionable mutations.
   • Match against standard of care guidelines.
4. Output: Generate a comprehensive "Tumor Board" style report.

Example Usage

User: "Review this case of metastatic colorectal cancer. The H&E slide is attached. What is the predicted MSI status and recommended first-line therapy?"

Agent Action:

1. Runs vision model on H&E image -> Output: "MSI-High (Predicted)".
2. Reads clinical notes -> "Patient is fit, ECOG 0."
3. Consults Knowledge Base -> "MSI-High CRC responds to Pembrolizumab."
4. Recommends: "Based on predicted MSI-High status, immunotherapy (Pembrolizumab) is recommended over standard chemotherapy..."