Construction of a hierarchical gene regulatory network centered around a transcription factor

Document Type

Article

Publication Date

5-2019

Department

College of Forest Resources and Environmental Science

Abstract

We have modified a multitude of transcription factors (TFs) in numerous plant species and some animal species, and obtained transgenic lines that exhibit phenotypic alterations. Whenever we observe phenotypic changes in a TF’s transgenic lines, we are always eager to identify its target genes, collaborative regulators and even upstream high hierarchical regulators. This issue can be addressed by establishing a multilayered hierarchical gene regulatory network (ML-hGRN) centered around a given TF. In this article, a practical approach for constructing an ML-hGRN centered on a TF using a combined approach of top-down and bottom-up network construction methods is described. Strategies for constructing ML-hGRNs are vitally important, as these networks provide key information to advance our understanding of how biological processes are regulated.

Publisher's Statement

© The Author 2017. Published by Oxford University Press. All rights reserved. Publisher’s version of record: https://doi.org/10.1093/bib/bbx152

Publication Title

Briefings in Bioinformatics

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