Overview of Computational Approaches for Inference of MicroRNA-Mediated and Gene Regulatory Networks

Ristevski, Blagoj (2015) Overview of Computational Approaches for Inference of MicroRNA-Mediated and Gene Regulatory Networks. Advances in Computers, 97. pp. 111-145. ISSN 0065-2458

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Abstract

This chapter describes biological backgrounds of regulatory relationships in living cells, high-throughput experimental technologies, and application of computational approaches in reverse engineering of microRNA (miRNA)-mediated and gene regulatory networks (GRNs). The most commonly used models for GRNs inference based on Boolean networks, Bayesian networks, dynamic Bayesian networks, association networks, novel two-stage model using integration of a priori biological knowledge, differential and difference equations models are detailed and their inference capabilities are compared. The regulatory role of miRNAs and transcription factors (TFs) in miRNAs-mediated regulatory networks is described as well. Additionally, commonly used methods for target prediction of miRNAs and TFs are described as well as most commonly used biological regulatory relationships databases and tools are listed. The mainly validation criteria used for assessment of inferred regulatory networks are explained. Finally, concluding remarks and further directions for miRNA-mediated and GRNs inference are given.

Item Type: Article
Subjects: Scientific Fields (Frascati) > Natural sciences > Computer and information sciences
Scientific Fields (Frascati) > Engineering and Technology > Electrical engineering, electronic engineering,information engineering
Divisions: Faculty of Information and Communication Technologies
Depositing User: Mrs Natasha Tabakovska
Date Deposited: 15 Jan 2020 14:31
Last Modified: 15 Jan 2020 14:31
URI: http://eprints.uklo.edu.mk/id/eprint/2333

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