Table 4.
CNVs affecting COSMIC genes identified using SI and LI data
| Patient | Library | Chr. | Location | CNV | Length (bp) | Log2 fold | Affected COSMIC genes |
|---|---|---|---|---|---|---|---|
| 1 | SI | 3 | 51996100:52507500 | Loss | 511 400 | −0.819 | BAP1 |
| 1 | SI | 9 | 136216500:137456500 | Loss | 1 240 000 | −0.819 | BRD3 |
| 1 | SI | 16 | 88359000:89200400 | Loss | 841 400 | −1.127 | CBFA2T3 |
| 1 | SI | 8 | 38276300:38441900 | Loss | 165 600 | −0.819 | FGFR1 |
| 1 | SI | 19 | 358300:8783100 | Loss | 8 424 800 | −1.234 | FSTL3 |
| 1 | SI | 19 | 358300:8783100 | Loss | 8 424 800 | −1.234 | GNA11 |
| 1 | SI | 19 | 358300:8783100 | Loss | 8 424 800 | −1.234 | MLLT1 |
| 1 | SI | 12 | 56035700:57163000 | Loss | 1 127 300 | −0.789 | NACA |
| 1 | SI | 8 | 70884500:71036600 | Loss | 152 100 | −0.819 | NCOA2 |
| 1 | SI | 22 | 30055000:30229500 | Loss | 174 500 | −0.819 | NF2 |
| 1 | SI | 9 | 137928600:140766000 | Loss | 2 837 400 | −0.789 | NOTCH1 |
| 1 | SI | 9 | 133827500:133983900 | Loss | 156 400 | −0.819 | NUP214 |
| 1 | SI | 19 | 358300:8783100 | Loss | 8 424 800 | −1.234 | SH3GL1 |
| 1 | SI | 19 | 358300:8783100 | Loss | 8 424 800 | −1.234 | STK11 |
| 1 | SI | 19 | 358300:8783100 | Loss | 8 424 800 | −1.234 | TCF3 |
| 1 | SI | 1 | 798600:3766500 | Loss | 2 967 900 | −0.789 | TNFRSF14 |
| 3 | LI | 3 | 186450400:187448100 | Loss | 997 700 | −0.912 | BCL6 |
| 3 | LI | 3 | 186450400:187448100 | Loss | 997 700 | −0.912 | EIF4A2 |
Chr=chromosome