Fig. 1

Overlap of transcription factors identified using the eFDR and different p-value correction methods. The Venn diagram shows the transcription factors whose target genes are overrepresented (eFDR of corrected p-value < 0.05) among significantly upregulated Escherichia coli genes (GSE55662 Gene Expression Omnibus experiment), using the Regulon database [24]. Transcription factors regulating less than 3 or more than 400 target genes were excluded. The diagram illustrates the overlap between transcription factors significantly overrepresented when using the eFDR (red), the Benjamini-Hochberg (abbreviated as BH, blue), and the Bonferroni (abbreviated as Bonf., green) p-value correction methods with the threshold < 0.05. The size of each section indicates the count of transcription factors specific to that method or shared between methods