TABLE 1.
Clinically relevant targets identified from the CRISPR cell growth screen
| Rank | Clinically relevant targets | C-score | CRISPR depletion screen P value |
HCC microarray (T/NT) |
GSE14520 microarray (T/NT) |
TCGA HCC RNA-seq (T/NT) |
||||
|---|---|---|---|---|---|---|---|---|---|---|
| HCCLM3 | SNU449 | FC | FDR, q | FC | FDR, q | FC | FDR, q | |||
| 1 | NCAPG | 17 | 0.001 | 0.040 | 3.5 | 7.6E−10 | 9.9 | 7.7E−07 | 20.9 | 1.6E−43 |
| 2 | CCNA2 | 22 | 0.004 | 0.003 | 2.3 | 1.6E−08 | 7.1 | 7.8E−06 | 11.4 | 9.5E−36 |
| 3 | AURKA | 25 | 0.002 | 0.035 | 2.6 | 5.2E−08 | 8.6 | 4.5E−06 | 6.7 | 4.6E−38 |
| 4 | MAD2L1 | 25 | 0.001 | 0.016 | 3.4 | 8.6E−10 | 7.1 | 4.4E−06 | 4.9 | 6.8E−28 |
| 5 | KIF23 | 26 | 0.000 | 0.003 | 2.1 | 8.7E−06 | 3.5 | 2.0E−05 | 12.2 | 8.5E−32 |
| 6 | BUB1B | 32 | 0.035 | 0.042 | 4.1 | 4.0E−11 | 7.7 | 8.3E−06 | 17.0 | 3.4E−37 |
| 7 | OIP5 | 32 | 0.034 | 0.012 | 2.1 | 5.5E−07 | 7.9 | 1.3E−07 | 8.5 | 6.6E−30 |
| 8 | PRIM1 | 36 | 0.015 | 0.015 | 2.2 | 1.4E−08 | 7.0 | 3.6E−06 | 2.5 | 1.1E−12 |
| 9 | CDC7 | 40 | 0.003 | 0.046 | 2.3 | 1.1E−07 | 6.8 | 2.3E−06 | 4.4 | 1.5E−23 |
| 10 | ANXA2 | 48 | 0.025 | 0.035 | 2.2 | 8.6E−08 | 5.9 | 1.8E−04 | 2.2 | 1.6E−11 |
| 11 | SNRPB | 49 | 0.003 | 0.033 | 2.0 | 2.9E−09 | 1.6 | 1.9E−01 | 2.1 | 9.6E−19 |
| 12 | ZNF320 | 49 | 0.004 | 0.015 | 2.1 | 1.8E−03 | — | — | 1.7 | 2.6E−03 |
| 13 | MRPS23 | 55 | 0.019 | 0.018 | 2.1 | 2.2E−10 | — | — | 1.7 | 7.7E−18 |
CRISPR depletion screen P value is calculated based on the MAGeCK algorithm. C-score is the sum of ranking of the 13 genes based on their individual ranking according to P value of CRISPR screen and FC of the 3 expression datasets. C-score, combined score; NT, nontumor; T, tumor.