A great part of the effort in the study of coarse-grained models of transcription networks concentrates on their dynamical features. In this Letter, we consider their equilibrium properties, showing that the backbone underlying the dynamic descriptions is an optimization problem. It involves N variables, the gene expression levels, and M constraints, the effects of transcriptional regulation. In the case of Boolean variables and constraints, we investigate the structure of the solutions and derive phase diagrams. Notably, the model exhibits a connectivity transition between a regime of simple gene control, where the input genes control O(1) other genes, and a regime of complex control, where some core input genes control O(N) others.

Logic backbone of a transcription network / M. Cosentino Lagomarsino, P. Jona, B. Bassetti. - In: PHYSICAL REVIEW LETTERS. - ISSN 0031-9007. - 95:15(2005), pp. 158701.158701.1-158701.158701.4.

Logic backbone of a transcription network

M. Cosentino Lagomarsino;B. Bassetti
2005

Abstract

A great part of the effort in the study of coarse-grained models of transcription networks concentrates on their dynamical features. In this Letter, we consider their equilibrium properties, showing that the backbone underlying the dynamic descriptions is an optimization problem. It involves N variables, the gene expression levels, and M constraints, the effects of transcriptional regulation. In the case of Boolean variables and constraints, we investigate the structure of the solutions and derive phase diagrams. Notably, the model exhibits a connectivity transition between a regime of simple gene control, where the input genes control O(1) other genes, and a regime of complex control, where some core input genes control O(N) others.
Boolean functions ; molecular biophysics ; macromolecules ; organic compounds ; physiological models ; botany ; genetics ; Boolean algebra
Settore FIS/02 - Fisica Teorica, Modelli e Metodi Matematici
PHYSICAL REVIEW LETTERS
http://link.aps.org/abstract/PRL/v95/e158701
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Utilizza questo identificativo per citare o creare un link a questo documento: http://hdl.handle.net/2434/31525
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