Drivers of structural features in gene regulatory networks: From biophysical constraints to biological function

O. Martin, A. Krzywicki, M.P. Zagórski, Physics of Life Reviews 17 (2016) 124–158.

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Journal Article | Published | English

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Author
Martin, Olivier; Krzywicki, André; Zagórski, Marcin PIST Austria
Department
Abstract
Living cells can maintain their internal states, react to changing environments, grow, differentiate, divide, etc. All these processes are tightly controlled by what can be called a regulatory program. The logic of the underlying control can sometimes be guessed at by examining the network of influences amongst genetic components. Some associated gene regulatory networks have been studied in prokaryotes and eukaryotes, unveiling various structural features ranging from broad distributions of out-degrees to recurrent "motifs", that is small subgraphs having a specific pattern of interactions. To understand what factors may be driving such structuring, a number of groups have introduced frameworks to model the dynamics of gene regulatory networks. In that context, we review here such in silico approaches and show how selection for phenotypes, i.e., network function, can shape network structure.
Publishing Year
Date Published
2016-07-01
Journal Title
Physics of Life Reviews
Acknowledgement
MZ has been supported by Polish National Science Centre Grant No. DEC-2012/07/N/NZ2/00107 and by Foundation of Polish Science award START.
Volume
17
Page
124 - 158
IST-REx-ID

Cite this

Martin O, Krzywicki A, Zagórski MP. Drivers of structural features in gene regulatory networks: From biophysical constraints to biological function. Physics of Life Reviews. 2016;17:124-158. doi:10.1016/j.plrev.2016.06.002
Martin, O., Krzywicki, A., & Zagórski, M. P. (2016). Drivers of structural features in gene regulatory networks: From biophysical constraints to biological function. Physics of Life Reviews, 17, 124–158. https://doi.org/10.1016/j.plrev.2016.06.002
Martin, Olivier, André Krzywicki, and Marcin P Zagórski. “Drivers of Structural Features in Gene Regulatory Networks: From Biophysical Constraints to Biological Function.” Physics of Life Reviews 17 (2016): 124–58. https://doi.org/10.1016/j.plrev.2016.06.002.
O. Martin, A. Krzywicki, and M. P. Zagórski, “Drivers of structural features in gene regulatory networks: From biophysical constraints to biological function,” Physics of Life Reviews, vol. 17, pp. 124–158, 2016.
Martin O, Krzywicki A, Zagórski MP. 2016. Drivers of structural features in gene regulatory networks: From biophysical constraints to biological function. Physics of Life Reviews. 17, 124–158.
Martin, Olivier, et al. “Drivers of Structural Features in Gene Regulatory Networks: From Biophysical Constraints to Biological Function.” Physics of Life Reviews, vol. 17, Elsevier, 2016, pp. 124–58, doi:10.1016/j.plrev.2016.06.002.

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