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Defining mechanisms that regulate RNA polymerase II transcription in vivo

Author

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  • Nicholas J. Fuda

    (Cornell University)

  • M. Behfar Ardehali

    (Cornell University)

  • John T. Lis

    (Cornell University)

Abstract

In the eukaryotic genome, the thousands of genes that encode messenger RNA are transcribed by a molecular machine called RNA polymerase II. Analysing the distribution and status of RNA polymerase II across a genome has provided crucial insights into the long-standing mysteries of transcription and its regulation. These studies identify points in the transcription cycle where RNA polymerase II accumulates after encountering a rate-limiting step. When coupled with genome-wide mapping of transcription factors, these approaches identify key regulatory steps and factors and, importantly, provide an understanding of the mechanistic generalities, as well as the rich diversities, of gene regulation.

Suggested Citation

  • Nicholas J. Fuda & M. Behfar Ardehali & John T. Lis, 2009. "Defining mechanisms that regulate RNA polymerase II transcription in vivo," Nature, Nature, vol. 461(7261), pages 186-192, September.
    • Handle: RePEc:nat:nature:v:461:y:2009:i:7261:d:10.1038_nature08449
    DOI: 10.1038/nature08449
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    Cited by:

    1. Jonathan Liu & Donald Hansen & Elizabeth Eck & Yang Joon Kim & Meghan Turner & Simon Alamos & Hernan Garcia, 2021. "Real-time single-cell characterization of the eukaryotic transcription cycle reveals correlations between RNA initiation, elongation, and cleavage," PLOS Computational Biology, Public Library of Science, vol. 17(5), pages 1-26, May.
    2. Lin-Tai Da & Fátima Pardo Avila & Dong Wang & Xuhui Huang, 2013. "A Two-State Model for the Dynamics of the Pyrophosphate Ion Release in Bacterial RNA Polymerase," PLOS Computational Biology, Public Library of Science, vol. 9(4), pages 1-9, April.
    3. Edward J Dougherty & Chunhua Guo & S Stoney Simons Jr & Carson C Chow, 2012. "Deducing the Temporal Order of Cofactor Function in Ligand-Regulated Gene Transcription: Theory and Experimental Verification," PLOS ONE, Public Library of Science, vol. 7(1), pages 1-10, January.
    4. Alistair N Boettiger & Peter L Ralph & Steven N Evans, 2011. "Transcriptional Regulation: Effects of Promoter Proximal Pausing on Speed, Synchrony and Reliability," PLOS Computational Biology, Public Library of Science, vol. 7(5), pages 1-14, May.
    5. Zhdanov, Vladimir P., 2011. "Periodic perturbation of the bistable kinetics of gene expression," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 390(1), pages 57-64.

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