Background
Methods
Patient data
Variables | Patients (N) | Univariate analysis | Multivariate analysis | |||
---|---|---|---|---|---|---|
HR (95% CI) |
P
| HR (95% CI) |
P
| |||
GSE31210 | ||||||
Age | ≤ 65/> 65 | 176/50 | 1.89 (1.12–3.18) | 1.70E−02 | 2.36 (1.37–4.04) | 1.83E−03 |
Gender | Female/male | 121/105 | 1.27 (0.78–2.07) | 3.38E−01 | ||
ALK fusion | +/− | 215/11 | 0.74 (0.18–3.02) | 6.73E−01 | ||
EGFR mutation | +/− | 99/127 | 0.60 (0.37–0.98) | 4.29E−02 | 1.98 (0.88–4.47) | 1.00E−01 |
KRAS mutation | +/− | 206/20 | 0.98 (0.42–2.26) | 9.56E−01 | ||
Triple negative | No/yes | 158/68 | 1.87 (1.14–3.08) | 1.39E−02 | 2.91 (1.30–6.54) | 9.71E−03 |
Myc copy | Low/high | 207/17 | 1.04 (0.42–2.59) | 9.33E−01 | ||
Stage | I/II | 168/58 | 3.16 (1.92–5.21) | 6.09E−06 | 2.77 (1.63–4.71) | 1.62E−04 |
Smoking | No/yes | 115/111 | 1.33 (0.82–2.18) | 2.52E−01 | ||
Risk score | Low/high | 123/103 | 3.26 (1.92–5.53) | 1.24E−05 | 3.10 (1.77–5.41) | 7.17E−05 |
GSE37745 | ||||||
Age | ≤ 65/> 65 | 45/51 | 0.89 (0.50–1.55) | 6.70E−01 | ||
Gender | Female/male | 46/50 | 1.01 (0.58–1.78) | 9.60E−01 | ||
Stage | I/II | 63/18 | 1.13 (0.54–2.38) | 7.45E−01 | ||
Stage | I/III | 63/14 | 1.78 (0.81–3.91) | 1.48E−01 | ||
Stage | I/IV | 63/1 | 5.71 (0.75–43.63) | 9.32E−02 | ||
Histological type | Adeno/large | 53/13 | 1.05 (0.46–2.42) | 9.08E−01 | ||
Histological type | Adeno/squamous | 53/30 | 1.12 (0.60–2.10) | 7.17E−01 | ||
WHO performance status | 0/1 | 54/32 | 2.21 (1.21–4.03) | 1.02E−02 | 2.43 (1.32–4.47) | 4.31E−03 |
WHO performance status | 0/2 | 54/6 | 1.04 (0.25–4.42) | 9.52E−01 | 1.12 (0.26–4.75) | 8.77E−01 |
WHO performance status | 0/3 | 54/4 | 1.66 (0.50–5.53) | 4.08E−01 | 1.62 (0.49–5.38) | 4.34E−01 |
Risk score | Low/high | 46/50 | 2.31 (1.27–4.21) | 6.08E−03 | 2.49 (1.36–4.55) | 3.10E−03 |
GSE50081 | ||||||
Age | ≤ 65/> 65 | 59/118 | 1.24 (0.69–2.24) | 4.77E−01 | ||
Gender | Female/male | 81/96 | 1.68 (0.95–2.99) | 7.59E−02 | ||
Stage | I/II | 124/53 | 1.87 (1.06–3.28) | 3.03E−02 | 1.71 (0.97–3.01) | 6.30E−02 |
Histological type | Adeno/large | 124/7 | 1.04 (0.25–4.31) | 9.59E−01 | ||
Histological type | Adeno/squamous | 124/42 | 0.73 (0.10–5.36) | 7.61E−01 | ||
Histological type | Adeno/other | 124/4 | 0.74 (0.38–1.45) | 3.79E−01 | ||
Smoking | No/yes | 24/133 | 0.70 (0.35–1.40) | 3.14E−01 | ||
Risk score | Low/high | 83/94 | 2.42 (1.33–4.43) | 4.02E−03 | 2.30 (1.26–4.22) | 6.97E−03 |
All patients | ||||||
Age | ≤ 65/> 65 | 280/219 | 1.36 (1.00–1.84) | 5.04E−02 | ||
Gender | Female/male | 248/251 | 1.31 (0.96–1.78) | 8.51E−02 | ||
Stage | I/II | 355/129 | 2.05 (1.47–2.85) | 2.02E−05 | 1.72 (1.23–2.40) | 1.50E−03 |
Stage | I/III | 355/14 | 3.45 (1.68–7.11) | 7.74E−04 | 2.62 (1.27–5.43) | 9.41E−03 |
Stage | I/IV | 355/1 | 22.26 (3.01–164.44) | 2.36E−03 | 14.79 (2.00–109.7) | 8.40E−03 |
Histological type | Adeno/large | 403/20 | 1.48 (0.75–2.93) | 2.61E−01 | ||
Histological type | Adeno/squamous | 403/72 | 0.76 (0.11–5.44) | 7.85E−01 | ||
Histological type | Adeno/other | 403/4 | 1.17 (0.77–1.78) | 4.52E−01 | ||
Risk score | Low/high | 252/247 | 2.7 (1.94–3.76) | 4.16E−09 | 2.39 (1.70–3.35) | 4.47E−07 |
Variables | Patients (N) | Univariate analysis | Multivariate analysis | |||
---|---|---|---|---|---|---|
HR (95% CI) |
P
| HR (95% CI) |
P
| |||
GSE31210 | ||||||
Age | ≤ 65/> 65 | 176/50 | 2.58 (1.31–5.08) | 5.99E−03 | 3.51 (1.72–7.15) | 5.44E−04 |
Gender | Female/male | 121/105 | 1.52 (0.78–2.96) | 2.19E−01 | ||
ALK fusion | +/− | 215/11 | 1.49 (0.36–6.24) | 5.82E−01 | ||
EGFR mutation | +/− | 99/127 | 0.47 (0.24–0.93) | 2.96E−02 | 1.87 (0.65–5.37) | 2.47E−01 |
KRAS mutation | +/− | 206/20 | 0.87 (0.27–2.85) | 8.17E−01 | ||
Triple negative | No/yes | 158/68 | 2.19 (1.12–4.26) | 2.12E−02 | 2.95 (1.06–8.19) | 3.76E−02 |
Myc copy | Low/high | 207/17 | 0.7 (0.17–2.9) | 6.18E−01 | ||
Stage | I/II | 168/58 | 4.23 (2.17–8.24) | 2.17E−05 | 3.45 (1.72–6.93) | 5.06E−04 |
Smoking | No/yes | 115/111 | 1.64 (0.84–3.2) | 1.50E−01 | ||
Risk score | Low/high | 129/97 | 6.14 (2.68–14.07) | 1.84E−05 | 5.47 (2.3–12.99) | 1.21E−04 |
GSE37745 | ||||||
Age | ≤ 65/> 65 | 102/94 | 1.35 (0.98–1.88) | 6.88E−02 | ||
Gender | Female/male | 89/107 | 1.1 (0.79–1.52) | 5.85E−01 | ||
Stage | I/II | 130/35 | 1.22 (0.79–1.87) | 3.66E−01 | 1.14 (0.73–1.77) | 5.68E−01 |
Stage | I/III | 130/27 | 1.86 (1.19–2.93) | 6.88E−03 | 1.63 (1.02–2.63) | 4.27E−02 |
Stage | I/IV | 130/4 | 1.31 (0.42–4.15) | 6.43E−01 | 1.97 (0.61–6.35) | 2.57E−01 |
Histological type | Adeno/large | 106/24 | 0.89 (0.52–1.53) | 6.75E−01 | ||
Histological type | Adeno/squamous | 106/66 | 1.26 (0.88–1.79) | 2.05E−01 | ||
WHO performance status | 0/1 | 105/75 | 1.91 (1.35–2.7) | 2.38E−04 | 1.96 (1.39–2.79) | 1.53E−04 |
WHO performance status | 0/2 | 105/12 | 1.95 (1.01–3.79) | 4.83E−02 | 1.81 (0.92–3.57) | 8.66E−02 |
WHO performance status | 0/3 | 105/4 | 1.13 (0.36–3.61) | 8.32E−01 | 1.09 (0.34–3.54) | 8.80E−01 |
Risk score | Low/high | 97/99 | 1.56 (1.12–2.16) | 8.31E−03 | 1.44 (1.02–2.04) | 3.80E−02 |
GSE50081 | ||||||
Age | ≤ 65/> 65 | 59/122 | 1.56 (0.93–2.61) | 9.04E−02 | ||
Gender | Female/male | 83/98 | 1.93 (1.19–3.14) | 7.80E−03 | 2 (1.23–3.26) | 5.47E−03 |
Stage | I/II | 127/54 | 1.69 (1.05–2.72) | 3.10E−02 | 1.63 (1.01–2.63) | 4.71E−02 |
Histological type | Adeno/large | 127/7 | 1.71 (0.62–4.74) | 3.01E−01 | ||
Histological type | Adeno/squamous | 127/43 | 1.84 (0.57–5.92) | 3.03E−01 | ||
Histological type | Adeno/other | 127/4 | 0.8 (0.46–1.39) | 4.35E−01 | ||
Smoking | No/yes | 24/136 | 1.39 (0.66–2.92) | 3.89E−01 | ||
Risk score | Low/high | 79/102 | 2.21 (1.34–3.64) | 1.81E−03 | 2.09 (1.27–3.45) | 3.91E−03 |
All patients | ||||||
Age | ≤ 65/> 65 | 337/266 | 1.92 (1.5–2.46) | 2.48E−07 | 1.83 (1.42–2.35) | 2.94E−06 |
Gender | Female/male | 293/310 | 1.45 (1.13–1.86) | 3.79E−03 | 1.27 (0.98–1.64) | 7.14E−02 |
Stage | I/II | 425/147 | 1.67 (1.26–2.21) | 3.43E−04 | 1.5 (1.13–2) | 5.31E−03 |
Stage | I/III | 425/27 | 3.6 (2.34–5.56) | 7.02E−09 | 2.79 (1.79–4.36) | 6.58E−06 |
Stage | I/IV | 425/4 | 2.53 (0.81–7.93) | 1.12E−01 | 3.23 (1.02–10.23) | 4.58E−02 |
Histological type | Adeno/large | 459/31 | 1.76 (1.1–2.81) | 1.83E−02 | 1.51 (0.94–2.43) | 9.16E−02 |
Histological type | Adeno/squamous | 459/109 | 2.29 (0.73–7.18) | 1.56E−01 | 1.92 (0.6–6.1) | 2.70E−01 |
Histological type | Adeno/other | 459/4 | 1.85 (1.39–2.45) | 2.09E−05 | 1.27 (0.94–1.72) | 1.18E−01 |
Risk score | Low/high | 305/298 | 2.11 (1.63–2.72) | 1.03E−08 | 1.65 (1.26–2.18) | 3.32E−04 |
Prognostic gene signature screening
Evaluation of the robustness of prognostic gene signature by re-sampling tests
Association of prognostic gene signature and cancer hallmarks
Statistical analysis
Results
Identification of a six-gene prognostic signature
Gene stable ID | Gene name | Gene type | Chromosome | Gene start (bp) | Gene end (bp) |
---|---|---|---|---|---|
ENSG00000152527 | PLEKHH2 | Protein coding | 2 | 43,637,273 | 43,767,987 |
ENSG00000136003 | ISCU | Protein coding | 12 | 108,562,582 | 108,569,384 |
ENSG00000079101 | CLUL1 | Protein coding | 18 | 596,988 | 650,334 |
ENSG00000101938 | CHRDL1 | Protein coding | X | 110,673,856 | 110,795,819 |
ENSG00000124374 | PAIP2B | Protein coding | 2 | 71,182,739 | 71,227,083 |
ENSG00000163814 | CDCP1 | Protein coding | 3 | 45,082,278 | 45,146,422 |
The six-gene signature predicts survival of NSCLC patients
The six-gene prognostic signature is robust
The six-gene signature is an independent prognostic factor
Further validation of the six-gene signature using another independent dataset
Variables | Group | Patients (N) | Univariate analysis | Multivariate analysis | ||
---|---|---|---|---|---|---|
HR (95% CI) |
P
| HR (95% CI) |
P
| |||
DFS | ||||||
Age | ≤ 67/> 67 | 383/378 | 0.97 (0.75–1.26) | 8.30E−01 | 1.11 (0.85–1.45) | 4.30E−01 |
Gender | Female/male | 326/435 | 0.96 (0.74–1.25) | 7.60E−01 | 1.08 (0.81–1.43) | 6.00E−01 |
Stage | I/II | 410/220 | 1.64 (1.21–2.22) | 1.30E−03 | 1.74 (1.28–2.37) | 3.60E−04 |
Stage | I/III | 410/109 | 2.16 (1.51–3.08) | 2.20E−05 | 2.25 (1.57–3.22) | 9.30E−06 |
Stage | I/IV | 410/22 | 1.76 (0.82–3.80) | 1.50E−01 | 1.56 (0.71–3.40) | 2.70E−01 |
Histological type | Adeno/squamous | 395/366 | 0.65 (0.50–0.85) | 1.60E−03 | 0.58 (0.43–0.77) | 1.60E−04 |
Risk score | Low/high | 380/381 | 1.33 (1.02–1.73) | 3.70E−02 | 1.40 (1.08–1.83) | 1.30E−02 |
OS | ||||||
Age | ≤ 67/> 67 | 383/378 | 1.25 (0.98–1.58) | 7.10E−02 | 1.34 (1.05–1.70) | 1.90E−02 |
Gender | Female/male | 326/435 | 1.22 (0.96–1.57) | 1.10E−01 | 1.19 (0.92–1.53) | 2.00E−01 |
Stage | I/II | 410/220 | 1.51 (1.14–2.00) | 4.30E−03 | 1.45 (1.09–1.93) | 1.10E−02 |
Stage | I/III | 410/109 | 2.07 (1.50–2.85) | 9.60E−06 | 2.04 (1.47–2.83) | 1.80E−05 |
Stage | I/IV | 410/22 | 2.77 (1.59–4.83) | 3.20E−04 | 2.83 (1.60–5.00) | 3.40E−04 |
Histological type | Adeno/squamous | 395/366 | 1.13 (0.89–1.44) | 3.20E−01 | 0.93 (0.71–1.22) | 5.90E−01 |
Risk score | Low/high | 380/381 | 1.54 (1.20–1.96) | 5.50E−04 | 1.48 (1.14–1.91) | 3.30E−03 |