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Issue 15, 2015
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Transcription rates in DNA brushes

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Abstract

We theoretically predict the rate of transcription (TX) in DNA brushes by introducing the concept of TX dipoles that takes into account the unidirectional motion of enzymes (RNAP) along DNA during transcription as correlated pairs of sources and sinks in the relevant diffusion equation. Our theory predicts that the TX rates dramatically change upon the inversion of the orientation of the TX dipoles relative to the substrate because TX dipoles modulate the concentrations of RNAP in the solution. Comparing our theory with experiments suggests that, in some cases, DNA chain segments are relatively uniformly distributed in the brush, in contrast to the parabolic profile expected for flexible polymer brushes.

Graphical abstract: Transcription rates in DNA brushes

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Article information


Submitted
24 Dec 2014
Accepted
21 Feb 2015
First published
04 Mar 2015

Soft Matter, 2015,11, 3017-3021
Article type
Paper
Author version available

Transcription rates in DNA brushes

T. Yamamoto and S. A. Safran, Soft Matter, 2015, 11, 3017
DOI: 10.1039/C4SM02871F

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