Fig 5.

Identification of transcription factors (TFs) in gene co-expression modules. A Bubble plot illustrating the proportion of different TF families within each module. Enrichment analysis, using the hypergeometric test to compare TF family distributions in modules to the genomic background, is indicated by red points (enriched, p-value < 0.01) and gray points (not enriched). B Bubble plot illustrating the proportion of genes regulated by identified hub TFs in each module. Larger and darker points represent higher proportions of regulated genes. C Gene regulatory network involving MYB73, ERF017, MYB30, and OBP1. FIMO was used to predict the regulatory relationships between transcription factors (TFs) and their target genes by analyzing the promoter regions (1 kb upstream of the transcription start site) of genes within each module. A gene was predicted to be regulated by a TF if the TF's binding motifs were present in its promoter region. Each node represents a gene, with different colors indicating different modules. The gray lines represent potential regulatory relationships