Table 1.
RETRA genes of four vertebrates identified in frequently used gene sets
| Ensembl | NCBI | Twinscan (comparative) | |||
|---|---|---|---|---|---|
| Final set v33 (v34) | GeneScan (aut.) | Final set | Gnomon (aut.) | ||
| Human | 251 (230) | 51 | 65 | 60 | 33 |
| Rat | 181 | 479 | 98 | 173 | 190 |
| Mouse | 277 | 475 | 807 | 1195 | 116 |
| Fugu | 679 | 333 | 670 | 220 | na |
| Sum | 1137 | 1338 | 1640 | 1648 | 339a |
(i) The Ensembl (15) pipeline, which is based on (ii) the automatic gene discovery method GeneScan (16), (iii) the NCBI (http://www.ncbi.nlm.nih.gov/genome/guide/build.html) pipeline which is based on (iv) the Gnomon (http://www.ncbi.nlm.nih.gov/genome/guide/gnomon.html) predictor and (v) a comparative gene prediction method, Twinscan (17). All sets correspond to human genome assembly build 33 (see more details in Supplementary Table 2); the reference numbers for the more recent human genome assembly build 34 available from Ensembl are given in brackets. na: twinscan gene predictions for fugu are not available.
aSum is not comparable.