Fig. 1

Global changes of DEGs in day 18 P compared to NP bovine CL. (A) A total of 3437 genes were significantly differentially expressed between the CL of P compared to NP samples. The log 2 normalized counts were centered to have for each gene a mean of zero. Hierarchical clustering of the centered values was performed with the Pearson dissimilarity measure. The expression profile is accompanied by a colored bar indicating the centered log 2 normalized counts. Hierarchical clustering of the centered values was performed with the Pearson dissimilarity measure. Each column represents an individual cow and each row represents a gene. (B) A volcano plot was constructed, satisfying the criteria of -log2 fold-change value > 0.58 or < − 0.58 and padj < 0.05. The x-axis and y-axis in the volcano plot represent the log 2 ratio and –log 10 (padj), respectively. Points are colored according to their average log ratio in the data set. Red and blue indicate that the expression level was decreased or increased, respectively. (C) Validation of selective DEGs with qPCR analysis where the fold change (P compared to NP) of RNA seq analyses (dark patterned bars) was compared with the qPCR results (open bars). Positive and negative values represent up- and down-regulated DEGs, respectively