Table 2 Evaluation of ExUTR by using 3P–Seq data and corresponding RNA-Seq data
From: ExUTR: a novel pipeline for large-scale prediction of 3′-UTR sequences from NGS data
Cell line | Strategy | RNA-Seq | 3P–Seq | |
|---|---|---|---|---|
Predicted 3′-UTR | Mapping rate | Percentage of 3′-UTR detected | ||
HEK293 | reference-based | 18,935 | 76.8% | 94.5% |
de novo | 20,036 | 71.5% | 82.0% | |
Hela | reference-based | 17,412 | 78.3% | 93.5% |
de novo | 17,813 | 72.7% | 80.8% | |
Huh7 | reference-based | 18,905 | 73.7% | 89.0% |
de novo | 19,950 | 69.1% | 79.5% | |
IMR90 | reference-based | 14,962 | 72.2% | 94.8% |
de novo | 15,001 | 67.9% | 86.1% | |