Kinetic oscillations in the expression of messenger RNA, regulatory protein, and nonprotein coding RNA

Zhdanov, Vladimir P.

doi:10.1016/j.cplett.2008.04.111

Cited by 19 publications

(5 citation statements)

References 49 publications

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“…where [N P /(K P + N P )] n is the probability that all the regulatory sites of gene 2 are occupied by P. With this modification, the solution of the corresponding equations was found to be unique. If one adds the delay between the ncRNA formation (2) and reaction ( 7) (e.g., due to the ncRNA conversion), the model was proved [38] to predict oscillations provided the parameters are suitable.…”

Section: Scenario (I)mentioning

confidence: 99%

Bifurcations in the interplay of messenger RNA, protein and nonprotein coding RNA

Zhdanov¹

2008

J. Phys. A: Math. Theor.

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The interplay of messenger RNA (mRNA), protein, produced via translation of this RNA, and nonprotein coding RNA (ncRNA) may include regulation of the ncRNA production by protein and (i) ncRNA–protein association resulting in suppression of the protein regulatory activity or (ii) ncRNA–mRNA association resulting in degradation of the miRNA–mRNA complex. The kinetic models describing these two scenarios are found to predict bistability provided that protein suppresses the ncRNA formation.

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Section: Scenario (I)mentioning

confidence: 99%

Bifurcations in the interplay of messenger RNA, protein and nonprotein coding RNA

Zhdanov¹

2008

J. Phys. A: Math. Theor.

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“…sRNAs have been demonstrated to regulate gene expression in RNA interference (Bartel, 2004;Cullen, 2005), but the mechanism is not fully understood and only few mathematical models have been proposed (Cuccato et al, 2011;Liu et al, 2011;Mitarai et al, 2007;Zhdanov, 2008Zhdanov, , 2009Zhdanov, , 2011.…”

Section: Rna Interference Motifsmentioning

confidence: 99%

A computational method to preclude multistationarity in networks of interacting species

Feliu

Wiuf

2013

Bioinformatics

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“…Theoretical studies of such kinetics are focused primarily on the simplest situations without protein-mediated regulation [16][17][18][19][20][21][22][23][24][25][26][27][28][29][30][31][32] or with a single protein-mediated feedback [33][34][35][36][37][38][39][40][41][42]. There are also first attempts to describe the kinetics of more complex genetic networks including ncRNAs [43][44][45][46].…”

Section: Introductionmentioning

confidence: 99%

Non-coding RNAs and complex distributed genetic networks

Zhdanov

2011

Open Physics

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Abstract:In eukaryotic cells, the mRNA-protein interplay can be dramatically influenced by non-coding RNAs (ncRNAs). Although this new paradigm is now widely accepted, an understanding of the effect of ncRNAs on complex genetic networks is lacking. To clarify what may happen in this case, we propose a mean-field kinetic model describing the influence of ncRNA on a complex genetic network with a distributed architecture including mutual protein-mediated regulation of many genes transcribed into mRNAs. ncRNA is considered to associate with mRNAs and inhibit their translation and/or facilitate degradation. Our results are indicative of the richness of the kinetics under consideration. The main complex features are found to be bistability and oscillations. One could expect to find kinetic chaos as well. The latter feature has however not been observed in our calculations. In addition, we illustrate the difference in the regulation of distributed networks by mRNA and ncRNA.PACS (

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Kinetic oscillations in the expression of messenger RNA, regulatory protein, and nonprotein coding RNA

Cited by 19 publications

References 49 publications

Bifurcations in the interplay of messenger RNA, protein and nonprotein coding RNA

Bifurcations in the interplay of messenger RNA, protein and nonprotein coding RNA

A computational method to preclude multistationarity in networks of interacting species

Non-coding RNAs and complex distributed genetic networks

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