One dimensional migration of DNA in the presence of point particle traps


Proceedings of the 27th Samahang Pisika ng Pilipinas Physics Congress, Development Academy of the Philippines Convention Center, Tagaytay City, 28–30 Oct 2009, SPP-2009-071.


This paper studies the one-dimensional motion of a DNA molecule through a microchannel with a series of point particle electric traps. The three particle molecule model uses three beads connected via harmonic springs in the presence of a Weeks Chandler-Andersen repulsive potential and a Brownian force. Using the stochastic fourth order Runge-Kutta method, the trajectory of the center of mass is observed as the field strengths were varied. System parameters are identified that can impede the flow of a DNA molecule.