A system-wide understanding of gene regulation will provide deep insights into plant development and physiology. In this chapter we describe a threefold approach to identify the gene regulatory networks in Arabidopsis thaliana that function in a specific tissue or biological process. Since no single method is sufficient to establish comprehensive and high-confidence gene regulatory networks, we focus on the integration of three approaches. First, we describe an in silico prediction method of transcription factor-DNA binding, then an in vivo assay of transcription factor-DNA binding by yeast-1-hybrid and lastly the identification of co-expression clusters by transcription factor induction in planta. Each of these methods provides a unique tool to advance our understanding of gene regulation, and together provide a robust model for the generation of gene regulatory networks.
CITATION STYLE
Sparks, E. E., & Benfey, P. N. (2016). Identifying gene regulatory networks in arabidopsis by in silico prediction, yeast-1-hybrid, and inducible gene profi ling assays. In Methods in Molecular Biology (Vol. 1370, pp. 29–50). Humana Press Inc. https://doi.org/10.1007/978-1-4939-3142-2_3
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