Table 5.
Details of differentially expressed genes obtained from three different RNA-Seq experiments at FDR 0.05 and 0.01
| Experiment | FDR 0.01 | FDR 0.05 | |||||
|---|---|---|---|---|---|---|---|
| Up | Down | Total | Up | Down | Total | Reference | |
| SoGI-DGE | |||||||
| HST vs HSB | – | 31 | 31 | 1 | 58 | 59 | HSB |
| HSB vs LSB | 101 | 34,375 | 34,476 | 111 | 43,109 | 43,220 | LSB |
| LST vs LSB | 86 | 30,723 | 30,809 | 102 | 42,149 | 42,251 | LSB |
| SUGIT-DGE | |||||||
| HST vs HSB | – | 21 | 21 | – | 38 | 38 | HSB |
| HSB vs LSB | 132 | 18,411 | 18,543 | 140 | 30,129 | 30,269 | LSB |
| LST vs LSB | 114 | 11,599 | 11,713 | 142 | 26,626 | 26,768 | LSB |
| SAS-DGE | |||||||
| HST vs HSB | 2591 | 235 | 2826 | 4752 | 383 | 5135 | HSB |
| HSB vs LSB | 38 | 20,449 | 20,487 | 41 | 24,233 | 24,274 | LSB |
| LST vs LSB | 26 | 19,782 | 19,808 | 36 | 24,438 | 24,474 | LSB |
HSB, high sugar bottom internode; HST, high sugar top internode; LSB-low sugar bottom internode; LST-low sugar top internode; SoGI-Saccharum officinarum gene indices; SUGIT-Sugarcane Iso-Seq transcriptome database; SAS-sugarcane assembled sequences