Fig. 2

Volcano plots showing the differential expression between selected timepoints. Green dots indicate transcripts that are up-regulated. Red dots indicate transcripts that are down-regulated. Grey dots indicate transcripts that are not significantly differentially expressed. A q value (adjusted p value) threshold of 0.01 was applied to determine statistical significance. The x-axis corresponds to log2FC between selected timepoints. The y-axis corresponds to − log10 of the q value (adjusted p value). Data-points corresponding to the most significantly differentially expressed transcripts (q value < 1E−40 and ranked by log2FC) with reaction associations in iDU1327 are circled. A Differential expression analysis between T1 and T2. The transcripts and their associated reactions that correspond to circled data-points are given in Table 1. B Differential expression analysis between T1 and T3. The transcripts and their associated reactions that correspond to circled data-points are given in Table 2. C Differential expression analysis between T2 and T3. The transcripts and their associated reactions that correspond to circled data-points are given in Table 3