TABLE 2.
Differential expression analysis using DESeq2 in R.
| Time point (hpi) | Botrytis inoculated vs. control | Botrytis inoculated vs. mock inoculated | Overlap | Abs (LFC) > 1 |
| 0 | 167 + 60 | 71 + 5 | 67 + 0 | 65 + 0 |
| 1 | 539 + 13 | 1 + 0 | 0 + 0 | 0 + 0 |
| 12 | 2,636 + 316 | 1,561 + 32 | 1,501 + 8 | 1,100 + 0 |
| 28 | 8,016 + 5,830 | 7,112 + 4,364 | 6,573 + 3,612 | 3,863 + 899 |
| Overall (0, 1, 12, 28) | 8,199 + 5,981 | 7,136 + 4,389 | 6,588 + 3,616 | 3,876 + 899 |
For each time point the number of genes up + downregulated are displayed for the comparison of Botrytis inoculated samples with the control, and Botrytis inoculated samples with mock inoculated samples. Additionally, the number of up + downregulated genes that overlap between those two comparisons is given, and the number of these genes that exhibited an absolute log2 fold change of at least 1 compared to mock inoculation. Up + downregulated.