Knot dynamics of a DNA strand pushed inside a nanochannel

We investigate knot formation for a model DNA polymer pushed inside a square nanochannel whose width is much shorter compared to the contour length of the chain using Brownian dynamics simulation.
We characterize different kind of knots formed, and monitor their evolution as the DNA is pushed inside the channel towards a steady state distribution. We repeat the calculations for several chain persistence lengths to understand how knots affect the DNA dynamics inside a nanochannel