Table 3.
Pathway Analysis of Significant Genes Common between CRISPR/Cas9 Screen and RNA-Sequencing
| Gene Set Name | # Genes in Gene Set (K) | # Genes in Overlap (k) | k/K | p Value | FDR Q-Value |
|---|---|---|---|---|---|
| KEGG | |||||
| Pathways in cancer | 328 | 8 | 2.4% | 8.79 × 10−7 | 1.63 × 10−4 |
| Dorsoventral axis formation | 25 | 3 | 12.0% | 2.50 × 10−5 | 2.32 × 10−3 |
| TGF beta signaling pathway | 86 | 4 | 4.7% | 4.56 × 10−5 | 2.83 × 10−3 |
| Taste transduction | 52 | 3 | 5.8% | 2.30 × 10−4 | 1.01 × 10−2 |
| Basal cell carcinoma | 55 | 3 | 5.5% | 2.71 × 10−4 | 1.01 × 10−2 |
| P53 signaling pathway | 69 | 3 | 4.4% | 5.29 × 10−4 | 1.53 × 10−2 |
| Melanoma | 71 | 3 | 4.2% | 5.75 × 10−4 | 1.53 × 10−2 |
| Calcium signaling pathway | 178 | 4 | 2.3% | 7.40 × 10−4 | 1.72 × 10−2 |
| GO Biological Processes | |||||
| Circulatory system development | 788 | 19 | 2.4% | 1.75 × 10−14 | 7.76 × 10−11 |
| Regulation of multicellular organismal development | 1,672 | 22 | 1.3% | 2.11 × 10−11 | 3.37 × 10−8 |
| Regulation of cellular component movement | 771 | 16 | 2.1% | 2.28 × 10−11 | 3.37 × 10−8 |
| Positive regulation of developmental process | 1,142 | 18 | 1.6% | 1.02 × 10−10 | 1.13 × 10−7 |
| Regulation of cell differentiation | 1,492 | 20 | 1.3% | 1.42 × 10−10 | 1.26 × 10−7 |
| Tissue development | 1,518 | 20 | 1.3% | 1.92 × 10−10 | 1.42 × 10−7 |
| Epithelium development | 945 | 16 | 1.7% | 4.43 × 10−10 | 2.81 × 10−7 |
| Anatomical structure formation involved in morphogenesis | 957 | 16 | 1.7% | 5.31 × 10−10 | 2.93 × 10−7 |
| Regulation of transport | 1,804 | 21 | 1.2% | 5.95 × 10−10 | 2.93 × 10−7 |
| Blood vessel morphogenesis | 364 | 11 | 3.0% | 7.66 × 10−10 | 3.31 × 10−7 |
| GO Molecular Function | |||||
| Receptor binding | 1,476 | 19 | 1.3% | 8.53 × 10−10 | 7.68 × 10−7 |
| Receptor activity | 1,649 | 17 | 1.0% | 1.79 × 10−7 | 8.05 × 10−5 |
| Transporter activity | 1,276 | 14 | 1.1% | 1.17 × 10−6 | 3.52 × 10−4 |
| S100 protein binding | 13 | 3 | 23.1% | 3.17 × 10−6 | 6.27 × 10−4 |
| Kinase activity | 842 | 11 | 1.3% | 3.48 × 10−6 | 6.27 × 10−4 |
| Metal ion transmembrane transporter activity | 417 | 8 | 1.9% | 5.18 × 10−6 | 7.18 × 10−4 |
| Cation channel activity | 298 | 7 | 2.4% | 5.58 × 10−6 | 7.18 × 10−4 |
| Gated channel activity | 325 | 7 | 2.2% | 9.80 × 10−6 | 1.10 × 10−3 |
| Protein kinase activity | 640 | 9 | 1.4% | 1.58 × 10−5 | 1.38 × 10−3 |
| Transferase activity transferring phosphorus containing groups | 992 | 11 | 1.1% | 1.61 × 10−5 | 1.38 × 10−3 |
Related to Figure 3.