Evidence map›Paper›PMID 23063780›Full record

ArticleJournal of theoretical biology2013

Type of noise defines global attractors in bistable molecular regulatory systems.

Joanna Jaruszewicz, Pawel J Zuk, Tomasz Lipniacki

Abstract read
In one paragraph

Article in Journal of theoretical biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

9 citing papers in PubMed.

  1. Article
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  7. Stochastic transitions in a bistable reaction system on the membrane.Journal of the Royal Society, Interface · 2013
    Article
  8. Article
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

3 authors.

Joanna JaruszewiczInstitute of Fundamental Technological Research, Polish Academy of Sciences, 02-106 Warsaw, Poland. jjarusz@ippt.gov.pl
Pawel J Zuk
Tomasz Lipniacki

Funding

Collaborative Research : Stochastic Modeling and Estimation of Gene TranscriptionR01GM086885 · NIGMS · RICE UNIVERSITY · PI KIMMEL, MAREK · 2008 to 2011
$1.7M
NIGMS NIH HHS R01 GM086885NIGMS NIH HHS R01-GM086885
6 · The paper itself

Abstract

The aim of this study is to demonstrate that in molecular dynamical systems with the underlying bi- or multistability, the type of noise determines the most strongly attracting steady state or stochastic attractor. As an example we consider a simple stochastic model of autoregulatory gene with a nonlinear positive feedback, which in the deterministic approximation has two stable steady state solutions. Three types of noise are considered: transcriptional and translational - due to the small number of gene product molecules and the gene switching noise - due to gene activation and inactivation transitions. We demonstrate that the type of noise in addition to the noise magnitude dictates the allocation of probability mass between the two stable steady states. In particular, we found that when the gene switching noise dominates over the transcriptional and translational noise (which is characteristic of eukaryotes), the gene preferentially activates, while in the opposite case, when the transcriptional noise dominates (which is characteristic of prokaryotes) the gene preferentially remains inactive. Moreover, even in the zero-noise limit, when the probability mass generically concentrates in the vicinity of one of two steady states, the choice of the most strongly attracting steady state is noise type-dependent. Although the epigenetic attractors are defined with the aid of the deterministic approximation of the stochastic regulatory process, their relative attractivity is controlled by the type of noise, in addition to noise magnitude. Since noise characteristics vary during the cell cycle and development, such mode of regulation can be potentially employed by cells to switch between alternative epigenetic attractors.

Indexed as

Gene Regulatory NetworksTranscriptional ActivationTranscription, GeneticAnimalsComputer SimulationHumansModels, GeneticMonte Carlo MethodProtein BiosynthesisStochastic Processes

Identifiers

PMID23063780
PMCPMC3677133

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.