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Issue 4, 2017
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Optimal parameter values for the control of gene regulation

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Abstract

How does a transcription network arrive at the particular values of biochemical interactions defining it? These interactions define DNA-transcription factor interaction, degradation rates of proteins, promoter strengths, and communication of the environmental signal with the network. What is the structure of the fitness landscape that is defined by the space that these parameters can take on? To answer these questions, we simulate the simplest regulatory network: a transcription factor, R, and a target protein, T. We use a cost-benefit analysis to evolve the network and eventually arrive at values of parameters which maximize fitness. We show that for a given topology, multiple parameter sets exist which confer maximal fitness to the cell, and that pairwise correlations exist between parameters in optimal sets. In addition, our results indicate that in the parameter space defining the interactions in a topology, a highly rugged fitness landscape exists.

Graphical abstract: Optimal parameter values for the control of gene regulation

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Publication details

The article was received on 10 Nov 2016, accepted on 19 Feb 2017 and first published on 28 Feb 2017


Article type: Paper
DOI: 10.1039/C6MB00765A
Citation: Mol. BioSyst., 2017,13, 796-803
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    Optimal parameter values for the control of gene regulation

    R. G. Brajesh, N. Raj and S. Saini, Mol. BioSyst., 2017, 13, 796
    DOI: 10.1039/C6MB00765A

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