Repository logo
 
Publication

Majority rules with random tie-breaking in Boolean gene regulatory networks

2013-07-26Journal article Open access
Simple item page
dc.contributor.authorChaouiya, Claudine
dc.contributor.authorOurrad, Ouerdia
dc.contributor.authorLima, Ricardo
dc.date.accessioned2015-10-26T12:09:16Z
dc.date.available2015-10-26T12:09:16Z
dc.date.issued2013-07-26
dc.description.abstractWe consider threshold boolean gene regulatory networks, where the update function of each gene is described as a majority rule evaluated among the regulators of that gene: it is turned ON when the sum of its regulator contributions is positive (activators contribute positively whereas repressors contribute negatively) and turned OFF when this sum is negative. In case of a tie (when contributions cancel each other out), it is often assumed that the gene keeps it current state. This framework has been successfully used to model cell cycle control in yeast. Moreover, several studies consider stochastic extensions to assess the robustness of such a model. Here, we introduce a novel, natural stochastic extension of the majority rule. It consists in randomly choosing the next value of a gene only in case of a tie. Hence, the resulting model includes deterministic and probabilistic updates. We present variants of the majority rule, including alternate treatments of the tie situation. Impact of these variants on the corresponding dynamical behaviours is discussed. After a thorough study of a class of two-node networks, we illustrate the interest of our stochastic extension using a published cell cycle model. In particular, we demonstrate that steady state analysis can be rigorously performed and can lead to effective predictions; these relate for example to the identification of interactions whose addition would ensure that a specific state is absorbing.pt_PT
dc.identifier10.1371/journal.pone.0069626
dc.identifier.citationChaouiya C, Ourrad O, Lima R (2013) Majority Rules with Random Tie-Breaking in Boolean Gene Regulatory Networks. PLoS ONE 8(7): e69626. doi:10.1371/journal.pone.0069626pt_PT
dc.identifier.doi10.1371/journal.pone.0069626
dc.identifier.urihttp://hdl.handle.net/10400.7/439
dc.language.isoengpt_PT
dc.peerreviewedyespt_PT
dc.publisherPLOSpt_PT
dc.relationMALIN: Modular modelling and Analysis of Large biological Interacting Networks
dc.relation.publisherversionhttp://journals.plos.org/plosone/article?id=10.1371/journal.pone.0069626pt_PT
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/pt_PT
dc.subjectGene Regulatory Networkspt_PT
dc.subjectModels, Geneticpt_PT
dc.subjectCell Cyclept_PT
dc.titleMajority rules with random tie-breaking in Boolean gene regulatory networkspt_PT
dc.typejournal article
dspace.entity.typePublication
oaire.awardTitleMALIN: Modular modelling and Analysis of Large biological Interacting Networks
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/3599-PPCDT/PTDC%2FEIA-CCO%2F099229%2F2008/PT
oaire.citation.endPage14pt_PT
oaire.citation.issue7pt_PT
oaire.citation.startPage1pt_PT
oaire.citation.titlePLOS Onept_PT
oaire.citation.volume8pt_PT
oaire.fundingStream3599-PPCDT
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.nameFundação para a Ciência e a Tecnologia
rcaap.rightsopenAccesspt_PT
rcaap.typearticlept_PT
relation.isProjectOfPublication820042aa-3860-49b5-9f01-646a11e76442
relation.isProjectOfPublication.latestForDiscovery820042aa-3860-49b5-9f01-646a11e76442

Files

Original bundle
Now showing 1 - 1 of 1
Thumbnail Image
Name:
Chaouiya_PlosOne_2013.pdf
Size:
962.28 KB
Format:
Adobe Portable Document Format
Description:
main article
Download
License bundle
Now showing 1 - 1 of 1
No Thumbnail Available
Name:
license.txt
Size:
1.71 KB
Format:
Item-specific license agreed upon to submission
Description:
Download

Collections

NM- Artigos