immune-response

Code and data associated with Billings et al., "High dose inactivated influenza vaccine inconsistently improves heterologous antibody responses in an elderly human cohort", JID 2025.

scRNA-seq analysis pipeline of mice lung immune response to House Dust Mites

Developed code using the Hybrid Automata Library (HAL) to create a spatial agent-based model of radio-immune response to spatially fractionated radiotherapy. This project was in association with the Cleveland Clinic Lerner Research Institute, Jacob Scott Lab.

Code and reproducibility materials for “Phage-antibiotic therapy under density-dependent bacterial defense,” including ODE simulations, equilibrium/stability analysis, bifurcation diagrams, and figure generation scripts.

Created code to develop and analyze statistical graphs for the spatial radiotherapy model, which can be found at https://github.com/hannahgsimon/HALModeling2024. This project was in association with the Cleveland Clinic Lerner Research Institute, Jacob Scott Lab.

Physics-informed and pure-mechanistic Universal Differential Equations (UDEs) for modeling tumor–immune dynamics. Dual Julia pipelines: Enhanced PI-NODE with residual/correction subnetworks for hybrid physics-neural learning, and Pure-Mechanistic UDE with biologically-constrained Gompertz growth and saturating immune-killing.