Determining the Maximum States of the Ensemble Distribution of Boolean Networks

Inference of the gene regulation mechanism from gene expression patterns has become increasingly popular, in recent years, with the advent of microarray technology. Obtaining the states of genes and their regulatory relationships would greatly enable the scientists to investigate and understand the...

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Autores principales:	Xiaodong Cui, Binghao Ren, Zhenghan Li
Formato:	article
Lenguaje:	EN
Publicado:	Frontiers Media S.A. 2021
Materias:	network Gaussian distribution state pattern gene expression Boolean Physics QC1-999
Acceso en línea:	https://doaj.org/article/df7d6f9fa85546149e5d2dedb59c0233
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id	oai:doaj.org-article:df7d6f9fa85546149e5d2dedb59c0233
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spelling	oai:doaj.org-article:df7d6f9fa85546149e5d2dedb59c02332021-11-12T06:08:56ZDetermining the Maximum States of the Ensemble Distribution of Boolean Networks2296-424X10.3389/fphy.2021.690748https://doaj.org/article/df7d6f9fa85546149e5d2dedb59c02332021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fphy.2021.690748/fullhttps://doaj.org/toc/2296-424XInference of the gene regulation mechanism from gene expression patterns has become increasingly popular, in recent years, with the advent of microarray technology. Obtaining the states of genes and their regulatory relationships would greatly enable the scientists to investigate and understand the mechanisms of the diseases. However, it is still a big challenge to determine relationships from several thousands of genes. Here, we simplify the above complex gene state determination problem as an inference of the distribution of the ensemble Boolean networks (BNs). In order to investigate and calculate the distribution of the BNs’ states, we first compute the probabilities of the different BNs’ states and obtain the number of states Ω. Then, we find the maximum possible distribution of the number of the BNs’ states and calculate the fluctuation of the distribution. Finally, two representative experiments are conducted, and the efficiency of the obtained results is verified. The proposed algorithm is conceptually concise and easily applicable to many other realistic models; furthermore, it is highly extensible for various situations.Xiaodong CuiBinghao RenZhenghan LiFrontiers Media S.A.articlenetworkGaussian distributionstate patterngene expressionBooleanPhysicsQC1-999ENFrontiers in Physics, Vol 9 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	network Gaussian distribution state pattern gene expression Boolean Physics QC1-999
spellingShingle	network Gaussian distribution state pattern gene expression Boolean Physics QC1-999 Xiaodong Cui Binghao Ren Zhenghan Li Determining the Maximum States of the Ensemble Distribution of Boolean Networks
description	Inference of the gene regulation mechanism from gene expression patterns has become increasingly popular, in recent years, with the advent of microarray technology. Obtaining the states of genes and their regulatory relationships would greatly enable the scientists to investigate and understand the mechanisms of the diseases. However, it is still a big challenge to determine relationships from several thousands of genes. Here, we simplify the above complex gene state determination problem as an inference of the distribution of the ensemble Boolean networks (BNs). In order to investigate and calculate the distribution of the BNs’ states, we first compute the probabilities of the different BNs’ states and obtain the number of states Ω. Then, we find the maximum possible distribution of the number of the BNs’ states and calculate the fluctuation of the distribution. Finally, two representative experiments are conducted, and the efficiency of the obtained results is verified. The proposed algorithm is conceptually concise and easily applicable to many other realistic models; furthermore, it is highly extensible for various situations.
format	article
author	Xiaodong Cui Binghao Ren Zhenghan Li
author_facet	Xiaodong Cui Binghao Ren Zhenghan Li
author_sort	Xiaodong Cui
title	Determining the Maximum States of the Ensemble Distribution of Boolean Networks
title_short	Determining the Maximum States of the Ensemble Distribution of Boolean Networks
title_full	Determining the Maximum States of the Ensemble Distribution of Boolean Networks
title_fullStr	Determining the Maximum States of the Ensemble Distribution of Boolean Networks
title_full_unstemmed	Determining the Maximum States of the Ensemble Distribution of Boolean Networks
title_sort	determining the maximum states of the ensemble distribution of boolean networks
publisher	Frontiers Media S.A.
publishDate	2021
url	https://doaj.org/article/df7d6f9fa85546149e5d2dedb59c0233
work_keys_str_mv	AT xiaodongcui determiningthemaximumstatesoftheensembledistributionofbooleannetworks AT binghaoren determiningthemaximumstatesoftheensembledistributionofbooleannetworks AT zhenghanli determiningthemaximumstatesoftheensembledistributionofbooleannetworks
_version_	1718431201084047360

Determining the Maximum States of the Ensemble Distribution of Boolean Networks

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