Table 6.
Detection of novel E. coli sORFs by DeepRibo and smORFer. Successfully predicted, experimentally verified novel sORFs [20] with their score and rank for all novel sORF predictions. For smORFer, the rank is based on the TIS read counts (RPF). Entries marked with X indicate missed predictions due to low Ribo-seq or TIS coverage
| Gene name | smORFer Rank | smORFer RPF | DeepRibo Rank | DeepRibo Score |
|---|---|---|---|---|
| ysaE | 73 | 1718 | 519 | −2.111 |
| ysgD | 89 | 1452 | 115 | −1.115 |
| ydgV | 183 | 612 | X | X |
| ychT | 292 | 334 | 42 | −0.464 |
| yncP | 414 | 169 | 174 | −1.464 |
| ynaN | 472 | 111 | 427 | −2.000 |
| yqgH | 485 | 97 | X | X |
| ythB | 489 | 83 | 23 | 0.006 |
| yhgP | 492 | 90 | X | X |
| argL | 495 | 87 | X | X |
| yhiY | 515 | 67 | X | X |
| ybgV | 516 | 66 | X | X |
| yibX-S | 516 | 66 | X | X |
| ytiB | 539 | 43 | 1,129 | −2.613 |
| yljB | 544 | 38 | 759 | −2.353 |
| ytgA | 546 | 36 | X | X |
| yfiS | 549 | 33 | 61 | −0.600 |
| ysdE | 552 | 30 | X | X |
| yriB | 555 | 27 | X | X |
| ykiE | 561 | 21 | 45 | −0.481 |
| evgL | 556 | 26 | X | X |
| ybiE | 571 | 11 | 688 | −2.282 |
| yicU | 572 | 10 | X | X |
| yqhJ | 573 | 9 | 5,352 | −4.078 |
| yecV | 573 | 9 | X | X |
| yqgG | 576 | 6 | 15 | 0.169 |
| yadX | 576 | 6 | 498 | −2.080 |
| ymiD | 577 | 5 | 46 | −0.491 |
| yqiM | X | X | 520 | −2.112 |
| yodE | X | X | 26 | −0.006 |
| yriA | X | X | X | X |