Amber M. Smith

Trajectory matching-random walk feasibility sampling for simulating heterogeneous dynamics in mechanistic models

This paper introduces TM-RWFS, a method to generate heterogeneity in mechanistic models by constraining trajectories between data bounds, showing it efficiently reproduces biological variability.

Using virtual patient cohorts to uncover immune response differences in cancer and immunosuppressed COVID-19 patients

This study uses virtual patient cohorts to model immune response differences in cancer and immunosuppressed COVID-19 patients, identifying key immune dysregulation factors.

How Interactions During Viral-Viral Coinfection Can Shape Infection Kinetics

The paper models viral-viral coinfections to show how interactions between viruses affect disease severity and clearance rates in different infection scenarios.

Dynamically Linking Influenza Virus Infection Kinetics, Lung Injury, Inflammation, and Disease Severity

This study links influenza virus infection kinetics to lung injury, inflammation, and disease severity using a model-experiment framework.

Iterative community-driven development of a SARS-CoV-2 tissue simulator

Open-source agent-based PhysiCell model of SARS-CoV-2 infection in lung epithelium; version 5 clears virus in about 6 days in simulation, and delayed T cell arrival increases epithelial loss.

Influenza Virus Infection Model With Density Dependence Supports Biphasic Viral Decay

The paper develops a new mathematical model to capture biphasic viral decay in influenza A virus infections, revealing that viral clearance rates change with infected cell density.