Catching transcriptional regulation by thermostatistical modeling

Frank, Till D., Cheong, Alex, Okada-Hatakeyama, Mariko and Kholodenko, Boris N. (2012). Catching transcriptional regulation by thermostatistical modeling. Physical Biology, 9 (4),

Abstract

Gene expression is frequently regulated by multiple transcription factors (TFs). Thermostatistical methods allow for a quantitative description of interactions between TFs, RNA polymerase and DNA, and their impact on the transcription rates. We illustrate three different scales of the thermostatistical approach: the microscale of TF molecules, the mesoscale of promoter energy levels and the macroscale of transcriptionally active and inactive cells in a cell population. We demonstrate versatility of combinatorial transcriptional activation by exemplifying logic functions, such as AND and OR gates. We discuss a metric for cell-to-cell transcriptional activation variability known as Fermi entropy. Suitability of thermostatistical modeling is illustrated by describing the experimental data on transcriptional induction of NF?B and the c-Fos protein.

Publication DOI: https://doi.org/10.1088/1478-3975/9/4/045007
Divisions: Life & Health Sciences > Pharmacy
Life & Health Sciences
Additional Information: © 2012 IOP Publishing Ltd
Uncontrolled Keywords: algorithms,animals,computer simulation,entropy,fuzzy logic,humans,genetic models,statistical models,NF-kappa B,genetic promoter regions,proto-oncogene proteins c-fos,transcription factors,transcriptional activation
Full Text Link: http://iopscien ... 975/9/4/045007/
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Published Date: 2012-08
Authors: Frank, Till D.
Cheong, Alex ( 0000-0003-2482-9078)
Okada-Hatakeyama, Mariko
Kholodenko, Boris N.

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