Table 8.
Parameters used for miRNA target prediction (Ahmadi et al. data set).
| No | Parameter | Parameter description |
|---|---|---|
| 1 | Total score | Obtained by the sum of pair scores. Match + 5, G:U + 1, Mismatch − 3, Gap − 1 |
| 2 | Seed score | Obtained by the sum of pair scores in the seed region |
| 3 | WC pairs | Number of WC pairs in the duplex |
| 4 | Wobble pairs | Number of wobble pairs in the duplex |
| 5 | Mismatches | Number of mismatches in duplex |
| 6 | Number-bulges | Number of bulges in the duplex |
| 7 | A proportion | Proportion of “A” in the duplex |
| 8 | C proportion | Proportion of “C” in the duplex |
| 9 | G proportion | Proportion of “G” in the duplex |
| 10 | U proportion | Proportion of “U” in the duplex |
| 11 | A:U proportion | Proportion of A:U matches in the duplex |
| 12 | Minimum free energy | Calculated using RNAfold for a duplex formed by the miRNA and its target. RNAfold is the part of Vienna RNA package |
Adopted from Ahmadi et al. [29].