Development of a "modular" scheme to describe the kinetics of transcript elongation by RNA polymerase.

ABSTRACT: Transcript elongation by RNA polymerase involves the sequential appearance of several alternative and off-pathway states of the transcript elongation complex (TEC), and this complicates modeling of the kinetics of the transcription elongation process. Based on solutions of the chemical master equation for such transcription systems as a function of time, we here develop a modular scheme for simulating such kinetic transcription data. This scheme deals explicitly with the problem of TEC desynchronization as transcript synthesis proceeds, and develops kinetic modules to permit the various alternative states of the TECs (paused states, backtracked states, arrested states, and terminated states) to be introduced one-by-one as needed. In this way, we can set up a comprehensive kinetic model of

SUBMITTER: Greive SJ 

PROVIDER: S-EPMC3164141 | biostudies-literature | 2011 Sep

REPOSITORIES: biostudies-literature