HIV envelope conformational analysis
Research Collaborator · Fred Hutchinson Cancer Center · May – July 2025Analyzed 8+ conformational states of the HIV envelope proteins gp120 and gp41, drawn from both MD simulations and cryo-EM structures, to find binding pockets that stay conserved across states — the pockets a broadly neutralizing antibody would need to reach.
Methods Molecular dynamics, cryo-EM structural analysis, conserved-pocket identification.
Biomedical literature RAG pipeline
PubMed · FAISS · LangChain · OpenAI · 2025 – 2026A retrieval pipeline over roughly 1,000 PubMed clinical trial abstracts, built so that every answer can be traced to a PMID. MeSH-aware XML ingestion from NCBI Entrez, and a deliberately strict grounding prompt that forces inline references — because an unsourced answer is worse than no answer in a regulated domain.
Methods OpenAI text-embedding-3-small embeddings, FAISS IndexFlatIP vector index, NCBI E-utilities, LangChain.
Diabetes risk predictor
XGBoost · SHAP · Streamlit · 2025 – 2026Ten classification models benchmarked on the Pima Indians dataset (768 patients) with cross-validation and F1-optimized thresholding, reaching ROC-AUC above 0.85. Deployed as a Streamlit app with per-patient SHAP attributions, so a prediction comes with the reason for it rather than just a number.
Methods XGBoost, SHAP TreeExplainer, cross-validation, Streamlit.
CO₂ adsorption for carbon capture
Computational modeling · Sept 2024 – May 2025ML models over 50,000+ atomic configurations predicting CO₂ adsorption on NH₄HCO₃ for industrial carbon capture, plus CFD data with over a million mesh elements processed for natural gas storage optimization.
Bioreactor process engineering
Bioprocess projects · Sept 2024 – May 2025Reached 250 mg/L recombinant protein yield by applying statistical process control and design of experiments to bioreactor data, and cut batch-to-batch variability by 30% with a PAT framework and real-time sensor monitoring.
Stefan problems with variable thermal conductivity
Numerical methods · Nuclear safetyA Python solver for moving-boundary heat transfer, validated against analytical solutions, modeling phase change in molten salt reactor emergency shutdown systems. Nine freeze-valve configurations compared; a 10 mm design gave a 71-second emergency melt time with a 40% safety margin, checked against Stefan number and thermal diffusion calculations.
Thermal processing in food manufacturing
Process engineerCut energy cost across pasteurization, sterilization and blanching by 12% while holding product safety and quality compliance, and built the process control strategies behind it.
Code for the deployment projects is on GitHub.