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. Author manuscript; available in PMC: 2016 Nov 14.
Published in final edited form as: Cancer Epidemiol Biomarkers Prev. 2011 May 24;20(7):1453–1462. doi: 10.1158/1055-9965.EPI-11-0042

Table 2. Lung cancer risk associated with TP63 variants rs17429138, rs4396880 and rs10937405.

Phase 1
 Phase 2
 Combined
Cases (%) Controls (%) OR (95% CI) P-value Cases (%) Controls (%) OR (95% CI) P-value OR (95% CI) P-value P-value§
TP63
Adenocarcinoma
rs17429138
AA† 213 (45.9) 2025 (39) 1 (Ref) 179 (41.6) 1106 (37.3) 1 (Ref)
AG 197 (42.5) 2400 (46.2) 0.78 (0.64-0.96) 0.02 206 (47.9) 1411 (47.5) 0.9 (0.73-1.12) 0.35 0.84 (0.72-0.97) 0.02 0.34
GG 54 (11.6) 772 (14.9) 0.67 (0.49-0.91) 9.88×10-03 45 (10.5) 451 (15.2) 0.62 (0.44-0.87) 5.95×10-03 0.64 (0.51-0.81) 1.71×10-04 0.75
HWE 0.41 0.16 0.21 0.98
RAF, per allele OR 0.67 0.62 1.24 (1.08-1.43) 2.51×10-03 0.66 0.61 1.22 (1.05-1.42) 0.01 1.23 (1.11-1.37) 7.49×10-05 0.84
rs10937405
GG† 178 (38.4) 1699 (32.7) 1 (Ref) 153 (35.3) 924 (31.1) 1 (Ref)
AG 214 (46.1) 2527 (48.6) 0.81 (0.66-1) 0.05 219 (50.5) 1452 (48.9) 0.91 (0.73-1.14) 0.41 0.85 (0.73-0.99) 0.04 0.44
AA 72 (15.5) 973 (18.7) 0.71 (0.53-0.94) 0.02 62 (14.3) 591 (19.9) 0.63 (0.46-0.87) 4.21×10-03 0.67 (0.54-0.83) 2.19×10-04 0.61
HWE 0.57 0.54 0.25 0.63
RAF, per allele OR 0.61 0.57 1.20 (1.05-1.38) 9.24×10-03 0.6 0.56 1.22 (1.06-1.41) 7.03×10-03 1.21 (1.10-1.34) 1.82×10-04 0.86
rs4396880
GG† 201 (43.2) 1939 (37.3) 1 (Ref) 177 (40.4) 1080 (35.9) 1 (Ref)
AG 203 (43.7) 2437 (46.9) 0.8 (0.66-0.99) 0.04 211 (48.2) 1427 (47.5) 0.9 (0.73-1.12) 0.35 0.85 (0.73-0.98) 0.03 0.44
AA 61 (13.1) 822 (15.8) 0.72 (0.53-0.96) 0.03 50 (11.4) 498 (16.6) 0.61 (0.44-0.85) 3.75×10-03 0.67 (0.54-0.83) 3.52×10-04 0.49
HWE 0.39 0.22 0.27 0.47
RAF, per allele OR 0.65 0.61 1.20 (1.04-1.38) 0.01 0.64 0.6 1.23 (1.06-1.42) 6.79×10-03 1.21 (1.09-1.34) 2.03×10-04 0.83
Squamous
rs17429138
AA+ 247 (40.5) 2025 (39) 1 (Ref) 412 (38.9) 1106 (37.3) 1 (Ref)
AG 281 (46.1) 2400 (46.2) 0.96 (0.8-1.15) 0.66 502 (47.4) 1411 (47.5) 0.96 (0.82-1.11) 0.55 0.96 (0.85-1.08) 0.46 0.97
GG 82 (13.4) 772 (14.9) 0.87 (0.67-1.13) 0.3 144 (13.6) 451 (15.2) 0.86 (0.69-1.07) 0.17 0.86 (0.73-1.02) 0.09 0.93
HWE 0.88 0.16 0.65 0.98
RAF, per allele OR 0.64 0.62 1.06 (0.94-1.2) 0.32 0.63 0.61 1.07 (0.97-1.19) 0.19 1.07 (0.99-1.16) 0.1 0.93
rs10937405
GG† 216 (35.4) 1699 (32.7) 1 (Ref) 369 (34.8) 924 (31.1) 1 (Ref)
AG 290 (47.5) 2527 (48.6) 0.9(0.75-1.09) 0.28 514 (48.5) 1452 (48.9) 0.89 (0.76-1.04) 0.13 0.89 (0.79-1.01) 0.07 0.88
AA 104 (17) 973 (18.7) 0.84 (0.66-1.08) 0.17 176 (16.6) 591 (19.9) 0.75 (0.61-0.92) 5.49×10-03 0.78 (0.67-0.92) 2.59×10-03 0.47
HWE 0.69 0.54 0.89 0.63
RAF, per allele OR 0.59 0.57 1.09 (0.97-1.23) 0.14 0.59 0.56 1.15 (1.04-1.27) 5.46×10-03 1.13 (1.04-1.22) 2.15×10-03 0.51
rs4396880
GG+ 238 (39.1) 1939 (37.3) 1(Ref) 412 (38.6) 1080 (35.9) 1 (Ref)
AG 282 (46.3) 2437 (46.9) 0.94 (0.79-1.13) 0.53 507 (47.5) 1427 (47.5) 0.93 (0.8-1.08) 0.36 0.94 (0.83-1.05) 0.27 0.92
AA 89 (14.6) 822 (15.8) 0.88 (0.68-1.14) 0.34 148 (13.9) 498 (16.6) 0.78 (0.63-0.97) 0.02 0.82 (0.7-0.97) 0.02 0.47
HWE 0.71 0.22 0.69 0.47
RAF, per allele OR 0.62 0.61 1.06 (0.94-1.2) 0.32 0.62 0.6 1.12 (1.01-1.24) 0.03 1.10 (1.01-1.18) 0.02 0.53
SCLC
rs17429138
AA+ 206 (38.9) 2025 (39) 1 (Ref) 182 (36.3) 1106 (37.3) 1 (Ref)
AG 256 (48.3) 2400 (46.2) 1.05 (0.86-1.27) 0.63 246 (49) 1411 (47.5) 1.06 (0.86-1.3) 0.58 1.05 (0.91-1.21) 0.47 0.94
GG 68 (12.8) 772 (14.9) 0.87 (0.65-1.15) 0.32 74 (14.7) 451 (15.2) 1 (0.74-1.33) 0.98 0.93 (0.76-1.14) 0.47 0.5
HWE 0.4 0.16 0.54 0.98
RAF, per allele OR 0.63 0.62 1.04 (0.91-1.19) 0.54 0.39 0.39 1.01 (0.88-1.16) 0.87 1.03 (0.93-1.13) 0.58 0.76
rs10937405
GG† 170 (32.1) 1699 (32.7) 1 (Ref) 161 (32.1) 924 (31.1) 1 (Ref)
AG 265 (50) 2527 (48.6) 1.05 (0.86-1.28) 0.65 250 (49.9) 1452 (48.9) 0.99 (0.8-1.22) 0.91 1.02 (0.88-1.18) 0.8 0.7
AA 95 (17.9) 973 (18.7) 0.98 (0.75-1.27) 0.86 90 (18) 591 (19.9) 0.87 (0.66-1.15) 0.34 0.93 (0.77-1.12) 0.43 0.57
HWE 0.64 0.54 0.68 0.63
RAF, per allele OR 0.57 0.57 1 (0.88-1.14) 0.95 0.57 0.56 1.06 (0.93-1.21) 0.39 1.03 (0.94-1.13) 0.52 0.55
rs4396880
GG+ 193 (36.5) 1939 (37.3) 1 (Ref) 182 (36) 1080 (35.9) 1 (Ref)
AG 261 (49.3) 2437 (46.9) 1.08 (0.89-1.31) 0.46 243 (48.1) 1427 (47.5) 1.01 (0.82-1.24) 0.92 1.04 (0.91-1.2) 0.55 0.67
AA 75 (14.2) 822 (15.8) 0.92 (0.69-1.21) 0.54 80 (15.8) 498 (16.6) 0.95 (0.72-1.27) 0.74 0.93 (0.77-1.14) 0.5 0.85
HWE 0.38 0.22 0.94 0.47
RAF, per allele OR 0.61 0.61 1.02 (0.89-1.16) 0.8 0.6 0.6 1.02 (0.89-1.16) 0.8 1.02 (0.93-1.12) 0.72 1
NSCLC
rs17429138
AA+ 605 (42.7) 2025 (39) 1 (Ref) 754 (39.7) 1106 (37.3) 1 (Ref)
AG 629 (44.4) 2400 (46.2) 0.88 (0.77-1) 0.04 895 (47.1) 1411 (47.5) 0.93 (0.82-1.05) 0.26 0.9 (0.83-0.99) 0.03 0.52
GG 183 (12.9) 772 (14.9) 0.79 (0.66-0.95) 1.00×10-02 251 (13.2) 451 (15.2) 0.82 (0.68-0.98) 0.03 0.81 (0.71-0.92) 9.89×10-04 0.83
HWE 0.33 0.16 0.57 0.98
RAF, per allele OR 0.65 0.62 1.13 (1.03-1.23) 6.22×10-03 0.63 0.61 1.1 (1.01-1.2) 0.03 1.11 (1.05-1.18) 5.07×10-04 0.67
rs10937405
GG† 512 (36.1) 1699 (32.7) 1 (Ref) 663 (34.7) 924 (31.1) 1 (Ref)
AG 675 (47.6) 2527 (48.6) 0.89 (0.78-1.01) 0.07 942 (49.3) 1452 (48.9) 0.9 (0.79-1.03) 0.13 0.9 (0.82-0.98) 0.02 0.83
AA 231 (16.3) 973 (18.7) 0.79 (0.66-0.94) 7.28×10-03 304 (15.9) 591 (19.9) 0.72 (0.6-0.85) 1.31×10-04 0.75 (0.66-0.85) 4.02×10-06 0.45
HWE 0.73 0.54 0.32 0.63
RAF, per allele OR 0.6 0.57 1.13 (1.04-1.23) 5.43×10-03 0.59 0.56 1.17 (1.08-1.27) 2.22×10-04 1.15 (1.08-1.22) 4.59×10-06 0.55
rs4396880
GG+ 583 (41.1) 1939 (37.3) 1 (Ref) 750 (39) 1080 (35.9) 1 (Ref)
AG 640 (45.2) 2437 (46.9) 0.87 (0.77-0.99) 0.04 916 (47.6) 1427 (47.5) 0.92 (0.82-1.05) 0.22 0.9 (0.82-0.98) 0.02 0.53
AA 194 (13.7) 822 (15.8) 0.78 (0.65-0.94) 9.03×10-03 259 (13.5) 498 (16.6) 0.75 (0.63-0.89) 1.34×10-03 0.77 (0.68-0.87) 3.80×10-05 0.72
HWE 0.39 0.22 0.43 0.47
RAF, per allele OR 0.64 0.61 1.13 (1.04-1.23) 4.22×10-03 0.63 0.6 1.14 (1.05-1.24) 2.36×10-03 1.14 (1.07-1.21) 2.98×10-05 0.94

HWE: Hardy-Weinberg Equilibrium

RAF: risk allele frequency

†

risk allele

§

test of heterogeneity P-value