Table 1.
Genomic analysis of NSCLC tumor tissue and tumor-derived CR cultures
| Sample no. | Sample ID | Gender/age | Tumor type | Tumor tissue (variant allele frequency) | Tumor-derived CR culturea (variant allele frequency) |
|---|---|---|---|---|---|
| 1 | PLT26; region-3 | F/55 | AC | TFG (0.10), CBFA2T3 (0.10), SMARCA4 (0.08), TP53 (0.07), TMPRSS2 (0.07), PPP2R1A (0.04), ALK+ | TFG (0.66), CBFA2T3 (0.73), SMARCA4 (0.45), TP53 (0.99), TMPRSS2 (0.54), PPP2R1A (0.50), ALK+ |
| 2 | PLT26; region-5 | F/55 | AC | TFG (0.15), CBFA2T3 (0.28), SMARCA4 (0.15), TP53 (0.28), TMPRSS2 (0.17), PPP2R1A (0.12), ALK+ | TFG (0.64), CBFA2T3 (0.66), SMARCA4 (0.49), TP53 (0.98), TMPRSS2 (0.50), PPP2R1A (0.58), ALK+ |
| 3 | PLT30 | M/75 | AC | NKX2-1 (0.33), ERB B4 (0.26), WASF 3 (0.25), KRAS (0.18), TP53 (0.15), HERPUD1 (0.14) | All wild type |
| 4 | PLT36 | F/62 | AC | GNAS (0.72), TP53 (0.40), LTBP2 (0.34), LCP1 (0.3), MAP2K1 (0.27), PDGFRB (0.25), GUCY1A2 (0.19), KMT2D (0.16), HECW1 (0.15), KMT2C (0.10) | All wild type |
| 5 | PLT41 | M/56 | AC | MYB (0.15), NSD3 (0.14), TP53 (0.14), KMT2C (0.11), ALK+ | All wild type |
| 6 | PLT42b | F/63 | AC | PDGFRB (0.05), TYK2 (0.04), ARID1A (0.03), IDH2 (0.03), TCL6 (0.03), ITK (0.03), NTRK3 (0.02), KRAS (0.02), WT1 (0.02) | All wild type |
| 7 | PLT62; region-1 | F/50 | AC | BCL6 (0.66), STK11 (0.43), KRAS (0.38), PRF1 (0.33), KIT (0.22), NEF 2L2 (0.20), CBFA2T3 (0.19), CLTCL1 (0.17) | All wild type |
| 8 | PLT62; region-2 | F/50 | AC | BCL6 (0.34), STK11 (0.26), KRAS (0.23), PRF1 (0.17), KIT (0.10), NEF2L2 (0.04), CBFA2T3 (0.07), CLTCL1 (0.10) | All wild type |
| 9 | PLT63 | F/68 | AC | CDKN2B (0.11), ALK+ | All wild type |
| 10 | PLT64 | F/25 | AC | ALK+ | All wild type |
| 11 | PLT66 | M/71 | AC | CIC (0.42), KRAS (0.36), CBF A2T3 (0.23), AKAP9 (0.22), NIN (0.22), AFF4 (0.21), PML (0.20), FGFR1OP (0.20), ABL1 (0.19), FLT3 (0.19), LTBP2 (0.19), PDGFRB (0.18), HEY1 (0.18), EPHA10 (0.17), UNC13D (0.16), CDH6 (0.16), ARID4B (0.14), BCL11B (0.14), UNC13D (0.11), CYP1B1 (0.10) | All wild type |
a
Passage #4.
b
All mutations identified with variant allele frequency <0.1.