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Inferring gene regulatory network using path consistency algorithm based on conditional mutual information and genetic algorithm

Authors: Sima Iranmanesh; Vahid Sattari-Naeini; Behnam Ghavami;

Inferring gene regulatory network using path consistency algorithm based on conditional mutual information and genetic algorithm

Abstract

The interactions between genes can be described in the form of an intrinsic and interwoven network called Gene Regulatory Network. Discovering this interaction and accurate modeling of Gene Regulatory Network is one of the key issues in understanding the fundamental cell processes which may be used in various medical, complex genetic diseases and drug discovery applications. In this paper, a method for inferring the gene regulatory network using a combination of Genetic Algorithm and Path Consistency Algorithm based on Conditional Mutual information is presented. In this method, for each gene, a genetic algorithm is utilized to find the most suitable predictor set of that gene. Moreover, in order to reduce the search space, the initial population for each target gene is created using the predictors obtained from Path Consistency Algorithm based on Conditional Mutual information method. To guide Genetic Algorithm, the multiple Pearson correlation coefficient is used. The obtained results using three evaluation criteria for biological data show that the proposed model performs better than recent similar methods.

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
1
Average
Average
Average
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