Fig. 1

Differential Gene Expression in IR64 plants due to 2 h cold shock (a) Venn Diagram showing the distribution of the total 32,161 transcripts obtained in the RNA-seq replicates; The sets CTR1 and CTR2 represent the control replicates 1 and 2, whereas, CS1 and CS2 represent the Cold shock replicates 1 and 2 respectively. b Volcano plot showing the expression profile of the transcripts, the green and red lines indicate the log2 ratio cut-off for downregulated and upregulated DEGs, respectively. The yellow line represents the p-value cut off used for identifying the DEGs. c unsupervised hierarchical clustering of transcripts, with distinct upregulation and downregulation patterns in expression for cold shock replicates, compared to control condition. The count values are colour coded green to black to red in increasing order. Gene clusters exhibit classes of genes with distinct expression patterns under the two conditions