Bioinformatics KG extraction

Research with Dr. Tingting Yu and Dr. Jinze Liu (UConn). The question: can we extract the process of experiments — the actual sequence of steps, samples, assays — across thousands of bioinformatics papers, and put them into a shared graph?

I orchestrated LLMs to normalize assay types via a custom multi-agent architecture: an Ontology agent grounds vocabulary, a Top-K agent retrieves candidates, a RAG agent contextualizes, and an LLM-as-a-Judge agent decides. Visualized with React + Vite.

Highlights

• Paper in progress on agentic systems for experimental-process extraction.
• Visualized knowledge graphs over 1000s of papers (React + Vite).
• Custom multi-agent: Ontology + Top-K + RAG + Judge.