Table 4.
The comparisons between the CleaveLand Pipeline and the SeqTar pipeline
| SeqTar-All | SeqTar-VR | starBase/CL | Reported | Total | |
|---|---|---|---|---|---|
| Arabidopsis | |||||
| SeqTar-All | – | 41 020 | 7215 | 412 | 246 227 |
| SeqTar-VR | 41 020 | – | 5966 | 277 | 41 020 |
| starBase/CL | 7215 | 5966 | – | 227 | 13 399 |
| Reported | 412 | 277 | 227 | – | 428 |
| Rice | |||||
| SeqTar-All | – | 76 497 | 7375 | 382 | 487 305 |
| SeqTar-VR | 76 497 | – | 4938 | 218 | 76 497 |
| starBase/CL | 7375 | 4938 | – | 190 | 13 279 |
| Reported | 382 | 218 | 190 | – | 458 |
The number in a cell means the common non-redundant miRNA:target pairs predicted by the methods in the line and the column of the cell. SeqTar-All, SeqTar-VR, starBase/CL and Reported stand for pairs of SeqTar, SeqTar with at least one valid read, starBase/CleaveLand and literature summarized in Supplementary Table S1 (Arabidopsis) and S2 (rice), respectively. SeqTar's results on the WT and xrn4 data sets were combined to form the SeqTar-All and SeqTar-VR in Arabidopsis. The ‘Total’ column listed the total numbers of pairs of SeqTar-All, SeqTar-VR, starBase/CL and Reported.