Mankun Sang

This paper develops a framework to model 1D reaction-diffusion dynamics with excluded volume, showing when single-rate continuum models accurately describe reversible binding kinetics.

The paper introduces ioNERDSS, a Python tool that converts 3D atomic structures into coarse-grained models for simulating macromolecular self-assembly.

This paper shows how protein dimerization can enhance or impair DNA target selectivity by redistributing protein populations across the genome, using kinetic models and ChIP-seq data.

This paper presents a parallel implementation of the NERDSS software using MPI, achieving near-linear scaling for particle-based reaction-diffusion simulations up to 96 processors.