Protocol for coexpression network construction and stress-responsive expression analysis in Brachypodium

Abstract

Identifying functionally coexpressed genes and modules has increasingly become important to understand the transcriptional flux and to understand large scale gene association. Application of the graph theory and combination of tools has allowed to understand the genic interaction and to understand the role of hub and non-hub proteins in plant development and its ability to cope with stress. Association genetics has also been coupled with network modules to map these key genes as e-QTLs. High throughput sequencing approaches has revolutionized the mining of the gene behavior and also the association of the genes over time-series. The present protocol chapter presents a unified workflow to understand the transcriptional modules in Brachypodium distachyon using weighted coexpressed gene network analysis approach.