Fig. 1

Agreement between four different methods for DEG analysis of RNA-seq data. a Intersections between DEGs, which were detected by Cuffdiff2, edgeR, DESeq2 and Two-stage Poisson Model (TSPM), after Benjamini-Hochberg false discovery correction at 5 %. b-g Pairwise comparisons of logarithmic (base 2) fold changes (LFC) in expression that were estimated by Cuffdiff2, edgeR, DESeq2 and TSPM: b edgeR and Cuffdiff2; c edgeR and DESeq2; d edgeR and TSPM; e Cuffdiff2 and TSPM; f Cuffdiff2 and DESeq2; g TSPM and DESeq2; Spearman correlation coefficients (Rho) are included in each graph. RNA samples were obtained from amygdalae micro-punches of female mice, heterozygous for a targeted deletion in the Brd1 gene on a congenic C57BL/6NTac background and of their WT littermates (8 biological replicates/group)