Modeling transcriptional elongation

CDSNS Colloquium
Monday, September 24, 2012 - 11:05am
1 hour (actually 50 minutes)
Skiles 006
Montana State University

Joint with Applied and Computational Mathematics Seminar

Bio-polymerization processes like transcription and translation are central to a proper function of a cell. The speed at which the bio-polymer grows is affected both by number of pauses of elongation machinery, as well their numbers due to crowding effects. In order to quantify these effects in fast transcribing ribosome genes, we rigorously show that a classical traffic flow model is a limit of mean occupancy ODE model. We compare the simulation of this model to a stochastic model and evaluate the combined effect of the polymerase density and the existence of pauses on transcription rate of ribosomal genes.