This pipeline computes the correlation between significant copy number variation (cnv focal) genes and selected clinical features.
Testing the association between subtypes identified by 70 different clustering approaches and 6 clinical features across 552 patients, 12 significant findings detected with Q value < 0.25.
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2 subtypes identified in current cancer cohort by 'Amp Peak 1(1p34.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 2(1q21.3) mutation analysis'. These subtypes correlate to 'AGE'.
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2 subtypes identified in current cancer cohort by 'Amp Peak 3(1q42.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 4(2p23.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 5(2q31.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 6(3q26.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 7(4p16.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 8(4q13.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 9(5p15.33) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 10(6p22.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 11(7q36.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 12(8p11.21) mutation analysis'. These subtypes correlate to 'AGE'.
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2 subtypes identified in current cancer cohort by 'Amp Peak 13(8q24.21) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 14(10p15.3) mutation analysis'. These subtypes correlate to 'AGE'.
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2 subtypes identified in current cancer cohort by 'Amp Peak 15(10q22.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 16(11q14.1) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 17(12p13.33) mutation analysis'. These subtypes correlate to 'AGE'.
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2 subtypes identified in current cancer cohort by 'Amp Peak 18(12p12.1) mutation analysis'. These subtypes correlate to 'AGE'.
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2 subtypes identified in current cancer cohort by 'Amp Peak 19(14q11.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 20(15q26.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 21(17q25.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 22(18q11.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 23(19p13.12) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 24(19q12) mutation analysis'. These subtypes correlate to 'AGE'.
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2 subtypes identified in current cancer cohort by 'Amp Peak 25(19q13.2) mutation analysis'. These subtypes correlate to 'AGE'.
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2 subtypes identified in current cancer cohort by 'Amp Peak 26(20p13) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 27(20q11.21) mutation analysis'. These subtypes correlate to 'AGE'.
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2 subtypes identified in current cancer cohort by 'Amp Peak 28(20q13.33) mutation analysis'. These subtypes correlate to 'AGE'.
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2 subtypes identified in current cancer cohort by 'Amp Peak 29(22q12.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 30(Xp11.23) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Amp Peak 31(Xq28) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 1(1p36.11) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 2(1q32.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 3(2p25.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 4(2q22.1) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 5(2q37.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 6(3p26.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 7(4q22.1) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 8(4q34.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 9(5q11.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 10(5q13.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 11(6q27) mutation analysis'. These subtypes correlate to 'AGE'.
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2 subtypes identified in current cancer cohort by 'Del Peak 12(7p22.1) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 13(8p23.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 14(8p21.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 15(9p24.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 16(9q21.11) mutation analysis'. These subtypes correlate to 'AGE'.
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2 subtypes identified in current cancer cohort by 'Del Peak 17(9q34.13) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 18(10p15.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 19(10q23.31) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 20(10q26.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 21(11p15.5) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 22(11q25) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 23(12q23.1) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 24(12q24.33) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 25(13q14.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 26(14q23.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 27(15q15.1) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 28(16p13.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 29(16q22.1) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 30(16q23.1) mutation analysis'. These subtypes correlate to 'AGE'.
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2 subtypes identified in current cancer cohort by 'Del Peak 31(17p12) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 32(17q11.2) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 33(18q23) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 34(19p13.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 35(19q13.33) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 36(19q13.43) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 37(21q22.3) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 38(22q13.32) mutation analysis'. These subtypes do not correlate to any clinical features.
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2 subtypes identified in current cancer cohort by 'Del Peak 39(Xp21.1) mutation analysis'. These subtypes do not correlate to any clinical features.
Table 1. Get Full Table Overview of the association between subtypes identified by 70 different clustering approaches and 6 clinical features. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 12 significant findings detected.
Clinical Features |
Time to Death |
AGE |
PRIMARY SITE OF DISEASE |
KARNOFSKY PERFORMANCE SCORE |
TUMOR STAGE |
RADIATIONS RADIATION REGIMENINDICATION |
Statistical Tests | logrank test | t-test | Fisher's exact test | t-test | Fisher's exact test | Fisher's exact test |
Amp Peak 1(1p34 3) |
0.0333 (1.00) |
0.00962 (1.00) |
1 (1.00) |
0.985 (1.00) |
0.874 (1.00) |
0.123 (1.00) |
Amp Peak 2(1q21 3) |
0.291 (1.00) |
4.24e-06 (0.00176) |
0.128 (1.00) |
0.408 (1.00) |
0.757 (1.00) |
1 (1.00) |
Amp Peak 3(1q42 2) |
0.29 (1.00) |
0.000643 (0.262) |
0.252 (1.00) |
0.736 (1.00) |
0.173 (1.00) |
0.597 (1.00) |
Amp Peak 4(2p23 2) |
0.915 (1.00) |
0.0855 (1.00) |
0.762 (1.00) |
0.988 (1.00) |
0.369 (1.00) |
1 (1.00) |
Amp Peak 5(2q31 2) |
0.177 (1.00) |
0.0132 (1.00) |
0.756 (1.00) |
0.693 (1.00) |
0.00661 (1.00) |
0.0847 (1.00) |
Amp Peak 6(3q26 2) |
0.955 (1.00) |
0.000836 (0.34) |
0.527 (1.00) |
0.00131 (0.531) |
0.0553 (1.00) |
1 (1.00) |
Amp Peak 7(4p16 3) |
0.456 (1.00) |
0.644 (1.00) |
0.723 (1.00) |
0.0728 (1.00) |
0.831 (1.00) |
1 (1.00) |
Amp Peak 8(4q13 3) |
0.204 (1.00) |
0.208 (1.00) |
0.571 (1.00) |
0.42 (1.00) |
0.407 (1.00) |
1 (1.00) |
Amp Peak 9(5p15 33) |
0.0538 (1.00) |
0.00274 (1.00) |
0.751 (1.00) |
0.798 (1.00) |
0.292 (1.00) |
0.604 (1.00) |
Amp Peak 10(6p22 3) |
0.132 (1.00) |
0.00543 (1.00) |
1 (1.00) |
0.545 (1.00) |
0.0489 (1.00) |
0.618 (1.00) |
Amp Peak 11(7q36 3) |
0.291 (1.00) |
0.858 (1.00) |
1 (1.00) |
0.1 (1.00) |
0.741 (1.00) |
0.599 (1.00) |
Amp Peak 12(8p11 21) |
0.335 (1.00) |
0.000534 (0.219) |
0.121 (1.00) |
0.662 (1.00) |
0.317 (1.00) |
0.288 (1.00) |
Amp Peak 13(8q24 21) |
0.547 (1.00) |
0.0995 (1.00) |
1 (1.00) |
0.628 (1.00) |
0.188 (1.00) |
0.518 (1.00) |
Amp Peak 14(10p15 3) |
0.13 (1.00) |
0.000432 (0.178) |
0.154 (1.00) |
0.923 (1.00) |
0.228 (1.00) |
0.58 (1.00) |
Amp Peak 15(10q22 3) |
0.523 (1.00) |
0.221 (1.00) |
0.0934 (1.00) |
0.989 (1.00) |
0.751 (1.00) |
1 (1.00) |
Amp Peak 16(11q14 1) |
0.298 (1.00) |
0.335 (1.00) |
0.256 (1.00) |
0.474 (1.00) |
0.0508 (1.00) |
1 (1.00) |
Amp Peak 17(12p13 33) |
0.772 (1.00) |
3.54e-07 (0.000148) |
0.756 (1.00) |
0.735 (1.00) |
0.0955 (1.00) |
1 (1.00) |
Amp Peak 18(12p12 1) |
0.0918 (1.00) |
1.23e-08 (5.15e-06) |
0.251 (1.00) |
0.335 (1.00) |
0.0316 (1.00) |
0.603 (1.00) |
Amp Peak 19(14q11 2) |
0.752 (1.00) |
0.0651 (1.00) |
0.124 (1.00) |
0.378 (1.00) |
0.101 (1.00) |
1 (1.00) |
Amp Peak 20(15q26 3) |
0.0716 (1.00) |
0.284 (1.00) |
0.728 (1.00) |
0.42 (1.00) |
0.147 (1.00) |
0.564 (1.00) |
Amp Peak 21(17q25 3) |
0.0217 (1.00) |
0.783 (1.00) |
1 (1.00) |
0.685 (1.00) |
0.381 (1.00) |
1 (1.00) |
Amp Peak 22(18q11 2) |
0.979 (1.00) |
0.0441 (1.00) |
0.114 (1.00) |
0.18 (1.00) |
0.843 (1.00) |
0.567 (1.00) |
Amp Peak 23(19p13 12) |
0.199 (1.00) |
0.072 (1.00) |
0.461 (1.00) |
0.597 (1.00) |
0.119 (1.00) |
0.596 (1.00) |
Amp Peak 24(19q12) |
0.602 (1.00) |
1.19e-05 (0.00493) |
0.162 (1.00) |
0.51 (1.00) |
0.104 (1.00) |
1 (1.00) |
Amp Peak 25(19q13 2) |
0.0201 (1.00) |
3.37e-06 (0.00141) |
0.15 (1.00) |
0.989 (1.00) |
0.639 (1.00) |
0.575 (1.00) |
Amp Peak 26(20p13) |
0.317 (1.00) |
0.00756 (1.00) |
0.753 (1.00) |
0.11 (1.00) |
0.0022 (0.889) |
1 (1.00) |
Amp Peak 27(20q11 21) |
0.104 (1.00) |
7.62e-08 (3.19e-05) |
1 (1.00) |
0.264 (1.00) |
0.0856 (1.00) |
1 (1.00) |
Amp Peak 28(20q13 33) |
0.331 (1.00) |
9.1e-06 (0.00377) |
1 (1.00) |
0.752 (1.00) |
0.546 (1.00) |
1 (1.00) |
Amp Peak 29(22q12 2) |
0.545 (1.00) |
0.0241 (1.00) |
1 (1.00) |
0.419 (1.00) |
0.434 (1.00) |
1 (1.00) |
Amp Peak 30(Xp11 23) |
0.144 (1.00) |
0.0223 (1.00) |
0.0781 (1.00) |
0.275 (1.00) |
0.364 (1.00) |
0.559 (1.00) |
Amp Peak 31(Xq28) |
0.355 (1.00) |
0.97 (1.00) |
0.77 (1.00) |
0.654 (1.00) |
0.00163 (0.662) |
0.0619 (1.00) |
Del Peak 1(1p36 11) |
0.169 (1.00) |
0.187 (1.00) |
0.751 (1.00) |
0.427 (1.00) |
0.496 (1.00) |
1 (1.00) |
Del Peak 2(1q32 3) |
0.96 (1.00) |
0.544 (1.00) |
1 (1.00) |
0.287 (1.00) |
0.423 (1.00) |
0.411 (1.00) |
Del Peak 3(2p25 3) |
0.922 (1.00) |
0.425 (1.00) |
0.615 (1.00) |
0.875 (1.00) |
0.0602 (1.00) |
0.511 (1.00) |
Del Peak 4(2q22 1) |
0.25 (1.00) |
0.385 (1.00) |
0.656 (1.00) |
0.595 (1.00) |
0.356 (1.00) |
1 (1.00) |
Del Peak 5(2q37 3) |
0.555 (1.00) |
0.102 (1.00) |
0.359 (1.00) |
0.432 (1.00) |
0.806 (1.00) |
0.223 (1.00) |
Del Peak 6(3p26 2) |
0.792 (1.00) |
0.00246 (0.99) |
0.126 (1.00) |
0.246 (1.00) |
0.136 (1.00) |
0.0493 (1.00) |
Del Peak 7(4q22 1) |
0.51 (1.00) |
0.95 (1.00) |
1 (1.00) |
0.925 (1.00) |
0.0436 (1.00) |
1 (1.00) |
Del Peak 8(4q34 3) |
0.797 (1.00) |
0.36 (1.00) |
0.728 (1.00) |
0.171 (1.00) |
0.796 (1.00) |
0.564 (1.00) |
Del Peak 9(5q11 2) |
0.737 (1.00) |
0.628 (1.00) |
0.767 (1.00) |
0.325 (1.00) |
0.243 (1.00) |
0.568 (1.00) |
Del Peak 10(5q13 2) |
0.261 (1.00) |
0.922 (1.00) |
0.747 (1.00) |
0.216 (1.00) |
0.884 (1.00) |
0.203 (1.00) |
Del Peak 11(6q27) |
0.301 (1.00) |
0.000461 (0.189) |
1 (1.00) |
0.454 (1.00) |
0.509 (1.00) |
1 (1.00) |
Del Peak 12(7p22 1) |
0.09 (1.00) |
0.0291 (1.00) |
0.758 (1.00) |
0.497 (1.00) |
0.966 (1.00) |
1 (1.00) |
Del Peak 13(8p23 3) |
0.271 (1.00) |
0.0639 (1.00) |
1 (1.00) |
0.95 (1.00) |
0.888 (1.00) |
1 (1.00) |
Del Peak 14(8p21 2) |
0.672 (1.00) |
0.0645 (1.00) |
1 (1.00) |
0.647 (1.00) |
0.538 (1.00) |
1 (1.00) |
Del Peak 15(9p24 3) |
0.943 (1.00) |
0.025 (1.00) |
0.45 (1.00) |
0.928 (1.00) |
0.397 (1.00) |
0.587 (1.00) |
Del Peak 16(9q21 11) |
0.595 (1.00) |
4.09e-06 (0.0017) |
0.0533 (1.00) |
0.634 (1.00) |
0.00478 (1.00) |
1 (1.00) |
Del Peak 17(9q34 13) |
0.786 (1.00) |
0.0402 (1.00) |
0.767 (1.00) |
0.623 (1.00) |
0.859 (1.00) |
0.276 (1.00) |
Del Peak 18(10p15 3) |
0.336 (1.00) |
0.83 (1.00) |
0.608 (1.00) |
0.72 (1.00) |
0.392 (1.00) |
0.505 (1.00) |
Del Peak 19(10q23 31) |
0.328 (1.00) |
0.972 (1.00) |
1 (1.00) |
0.393 (1.00) |
0.625 (1.00) |
0.563 (1.00) |
Del Peak 20(10q26 3) |
0.0829 (1.00) |
0.842 (1.00) |
0.8 (1.00) |
0.77 (1.00) |
0.345 (1.00) |
1 (1.00) |
Del Peak 21(11p15 5) |
0.0509 (1.00) |
0.563 (1.00) |
0.0267 (1.00) |
0.267 (1.00) |
0.675 (1.00) |
1 (1.00) |
Del Peak 22(11q25) |
0.598 (1.00) |
0.0797 (1.00) |
0.225 (1.00) |
0.631 (1.00) |
0.0759 (1.00) |
0.276 (1.00) |
Del Peak 23(12q23 1) |
0.271 (1.00) |
0.0147 (1.00) |
0.798 (1.00) |
0.4 (1.00) |
0.262 (1.00) |
1 (1.00) |
Del Peak 24(12q24 33) |
0.655 (1.00) |
0.112 (1.00) |
0.13 (1.00) |
0.652 (1.00) |
0.539 (1.00) |
0.296 (1.00) |
Del Peak 25(13q14 2) |
0.0714 (1.00) |
0.561 (1.00) |
0.777 (1.00) |
0.592 (1.00) |
0.747 (1.00) |
0.561 (1.00) |
Del Peak 26(14q23 2) |
0.67 (1.00) |
0.456 (1.00) |
0.475 (1.00) |
0.0423 (1.00) |
0.313 (1.00) |
0.106 (1.00) |
Del Peak 27(15q15 1) |
0.664 (1.00) |
0.00579 (1.00) |
0.411 (1.00) |
0.253 (1.00) |
0.0296 (1.00) |
0.298 (1.00) |
Del Peak 28(16p13 3) |
0.886 (1.00) |
0.883 (1.00) |
0.751 (1.00) |
0.578 (1.00) |
0.217 (1.00) |
0.603 (1.00) |
Del Peak 29(16q22 1) |
0.645 (1.00) |
0.00497 (1.00) |
0.193 (1.00) |
0.275 (1.00) |
0.547 (1.00) |
1 (1.00) |
Del Peak 30(16q23 1) |
0.161 (1.00) |
7.72e-05 (0.0318) |
0.636 (1.00) |
0.0778 (1.00) |
0.128 (1.00) |
1 (1.00) |
Del Peak 31(17p12) |
0.797 (1.00) |
0.982 (1.00) |
0.493 (1.00) |
0.73 (1.00) |
0.0127 (1.00) |
1 (1.00) |
Del Peak 32(17q11 2) |
0.708 (1.00) |
0.0331 (1.00) |
0.0666 (1.00) |
0.686 (1.00) |
0.259 (1.00) |
1 (1.00) |
Del Peak 33(18q23) |
0.669 (1.00) |
0.795 (1.00) |
0.229 (1.00) |
0.544 (1.00) |
0.693 (1.00) |
1 (1.00) |
Del Peak 34(19p13 3) |
0.19 (1.00) |
0.0164 (1.00) |
1 (1.00) |
0.00833 (1.00) |
0.0647 (1.00) |
1 (1.00) |
Del Peak 35(19q13 33) |
0.603 (1.00) |
0.355 (1.00) |
1 (1.00) |
0.311 (1.00) |
0.374 (1.00) |
0.25 (1.00) |
Del Peak 36(19q13 43) |
0.456 (1.00) |
0.0261 (1.00) |
1 (1.00) |
0.283 (1.00) |
0.263 (1.00) |
1 (1.00) |
Del Peak 37(21q22 3) |
0.584 (1.00) |
0.35 (1.00) |
0.774 (1.00) |
0.665 (1.00) |
0.124 (1.00) |
1 (1.00) |
Del Peak 38(22q13 32) |
0.843 (1.00) |
0.901 (1.00) |
0.443 (1.00) |
0.752 (1.00) |
0.548 (1.00) |
1 (1.00) |
Del Peak 39(Xp21 1) |
0.838 (1.00) |
0.367 (1.00) |
1 (1.00) |
0.987 (1.00) |
0.682 (1.00) |
0.557 (1.00) |
Table S1. Description of clustering approach #1: 'Amp Peak 1(1p34.3) mutation analysis'
Cluster Labels | AMP PEAK 1(1P34.3) MUTATED | AMP PEAK 1(1P34.3) WILD-TYPE |
---|---|---|
Number of samples | 275 | 277 |
Table S2. Description of clustering approach #2: 'Amp Peak 2(1q21.3) mutation analysis'
Cluster Labels | AMP PEAK 2(1Q21.3) MUTATED | AMP PEAK 2(1Q21.3) WILD-TYPE |
---|---|---|
Number of samples | 347 | 205 |
P value = 4.24e-06 (t-test), Q value = 0.0018
Table S3. Clustering Approach #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #2: 'AGE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 541 | 59.8 (11.6) |
AMP PEAK 2(1Q21.3) MUTATED | 341 | 61.6 (11.0) |
AMP PEAK 2(1Q21.3) WILD-TYPE | 200 | 56.8 (12.0) |
Figure S1. Get High-res Image Clustering Approach #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #2: 'AGE'
![](D2V2.png)
Table S4. Description of clustering approach #3: 'Amp Peak 3(1q42.2) mutation analysis'
Cluster Labels | AMP PEAK 3(1Q42.2) MUTATED | AMP PEAK 3(1Q42.2) WILD-TYPE |
---|---|---|
Number of samples | 298 | 254 |
Table S5. Description of clustering approach #4: 'Amp Peak 4(2p23.2) mutation analysis'
Cluster Labels | AMP PEAK 4(2P23.2) MUTATED | AMP PEAK 4(2P23.2) WILD-TYPE |
---|---|---|
Number of samples | 231 | 321 |
Table S6. Description of clustering approach #5: 'Amp Peak 5(2q31.2) mutation analysis'
Cluster Labels | AMP PEAK 5(2Q31.2) MUTATED | AMP PEAK 5(2Q31.2) WILD-TYPE |
---|---|---|
Number of samples | 243 | 309 |
Table S7. Description of clustering approach #6: 'Amp Peak 6(3q26.2) mutation analysis'
Cluster Labels | AMP PEAK 6(3Q26.2) MUTATED | AMP PEAK 6(3Q26.2) WILD-TYPE |
---|---|---|
Number of samples | 458 | 94 |
Table S8. Description of clustering approach #7: 'Amp Peak 7(4p16.3) mutation analysis'
Cluster Labels | AMP PEAK 7(4P16.3) MUTATED | AMP PEAK 7(4P16.3) WILD-TYPE |
---|---|---|
Number of samples | 151 | 401 |
Table S9. Description of clustering approach #8: 'Amp Peak 8(4q13.3) mutation analysis'
Cluster Labels | AMP PEAK 8(4Q13.3) MUTATED | AMP PEAK 8(4Q13.3) WILD-TYPE |
---|---|---|
Number of samples | 105 | 447 |
Table S10. Description of clustering approach #9: 'Amp Peak 9(5p15.33) mutation analysis'
Cluster Labels | AMP PEAK 9(5P15.33) MUTATED | AMP PEAK 9(5P15.33) WILD-TYPE |
---|---|---|
Number of samples | 292 | 260 |
Table S11. Description of clustering approach #10: 'Amp Peak 10(6p22.3) mutation analysis'
Cluster Labels | AMP PEAK 10(6P22.3) MUTATED | AMP PEAK 10(6P22.3) WILD-TYPE |
---|---|---|
Number of samples | 281 | 271 |
Table S12. Description of clustering approach #11: 'Amp Peak 11(7q36.3) mutation analysis'
Cluster Labels | AMP PEAK 11(7Q36.3) MUTATED | AMP PEAK 11(7Q36.3) WILD-TYPE |
---|---|---|
Number of samples | 296 | 256 |
Table S13. Description of clustering approach #12: 'Amp Peak 12(8p11.21) mutation analysis'
Cluster Labels | AMP PEAK 12(8P11.21) MUTATED | AMP PEAK 12(8P11.21) WILD-TYPE |
---|---|---|
Number of samples | 196 | 356 |
P value = 0.000534 (t-test), Q value = 0.22
Table S14. Clustering Approach #12: 'Amp Peak 12(8p11.21) mutation analysis' versus Clinical Feature #2: 'AGE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 541 | 59.8 (11.6) |
AMP PEAK 12(8P11.21) MUTATED | 192 | 62.1 (10.8) |
AMP PEAK 12(8P11.21) WILD-TYPE | 349 | 58.6 (11.8) |
Figure S2. Get High-res Image Clustering Approach #12: 'Amp Peak 12(8p11.21) mutation analysis' versus Clinical Feature #2: 'AGE'
![](D12V2.png)
Table S15. Description of clustering approach #13: 'Amp Peak 13(8q24.21) mutation analysis'
Cluster Labels | AMP PEAK 13(8Q24.21) MUTATED | AMP PEAK 13(8Q24.21) WILD-TYPE |
---|---|---|
Number of samples | 433 | 119 |
Table S16. Description of clustering approach #14: 'Amp Peak 14(10p15.3) mutation analysis'
Cluster Labels | AMP PEAK 14(10P15.3) MUTATED | AMP PEAK 14(10P15.3) WILD-TYPE |
---|---|---|
Number of samples | 237 | 315 |
P value = 0.000432 (t-test), Q value = 0.18
Table S17. Clustering Approach #14: 'Amp Peak 14(10p15.3) mutation analysis' versus Clinical Feature #2: 'AGE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 541 | 59.8 (11.6) |
AMP PEAK 14(10P15.3) MUTATED | 233 | 61.8 (11.2) |
AMP PEAK 14(10P15.3) WILD-TYPE | 308 | 58.3 (11.7) |
Figure S3. Get High-res Image Clustering Approach #14: 'Amp Peak 14(10p15.3) mutation analysis' versus Clinical Feature #2: 'AGE'
![](D14V2.png)
Table S18. Description of clustering approach #15: 'Amp Peak 15(10q22.3) mutation analysis'
Cluster Labels | AMP PEAK 15(10Q22.3) MUTATED | AMP PEAK 15(10Q22.3) WILD-TYPE |
---|---|---|
Number of samples | 173 | 379 |
Table S19. Description of clustering approach #16: 'Amp Peak 16(11q14.1) mutation analysis'
Cluster Labels | AMP PEAK 16(11Q14.1) MUTATED | AMP PEAK 16(11Q14.1) WILD-TYPE |
---|---|---|
Number of samples | 244 | 308 |
Table S20. Description of clustering approach #17: 'Amp Peak 17(12p13.33) mutation analysis'
Cluster Labels | AMP PEAK 17(12P13.33) MUTATED | AMP PEAK 17(12P13.33) WILD-TYPE |
---|---|---|
Number of samples | 308 | 244 |
P value = 3.54e-07 (t-test), Q value = 0.00015
Table S21. Clustering Approach #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #2: 'AGE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 541 | 59.8 (11.6) |
AMP PEAK 17(12P13.33) MUTATED | 303 | 62.1 (10.8) |
AMP PEAK 17(12P13.33) WILD-TYPE | 238 | 56.9 (12.0) |
Figure S4. Get High-res Image Clustering Approach #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #2: 'AGE'
![](D17V2.png)
Table S22. Description of clustering approach #18: 'Amp Peak 18(12p12.1) mutation analysis'
Cluster Labels | AMP PEAK 18(12P12.1) MUTATED | AMP PEAK 18(12P12.1) WILD-TYPE |
---|---|---|
Number of samples | 293 | 259 |
P value = 1.23e-08 (t-test), Q value = 5.1e-06
Table S23. Clustering Approach #18: 'Amp Peak 18(12p12.1) mutation analysis' versus Clinical Feature #2: 'AGE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 541 | 59.8 (11.6) |
AMP PEAK 18(12P12.1) MUTATED | 286 | 62.5 (11.2) |
AMP PEAK 18(12P12.1) WILD-TYPE | 255 | 56.8 (11.4) |
Figure S5. Get High-res Image Clustering Approach #18: 'Amp Peak 18(12p12.1) mutation analysis' versus Clinical Feature #2: 'AGE'
![](D18V2.png)
Table S24. Description of clustering approach #19: 'Amp Peak 19(14q11.2) mutation analysis'
Cluster Labels | AMP PEAK 19(14Q11.2) MUTATED | AMP PEAK 19(14Q11.2) WILD-TYPE |
---|---|---|
Number of samples | 140 | 412 |
Table S25. Description of clustering approach #20: 'Amp Peak 20(15q26.3) mutation analysis'
Cluster Labels | AMP PEAK 20(15Q26.3) MUTATED | AMP PEAK 20(15Q26.3) WILD-TYPE |
---|---|---|
Number of samples | 153 | 399 |
Table S26. Description of clustering approach #21: 'Amp Peak 21(17q25.3) mutation analysis'
Cluster Labels | AMP PEAK 21(17Q25.3) MUTATED | AMP PEAK 21(17Q25.3) WILD-TYPE |
---|---|---|
Number of samples | 202 | 350 |
Table S27. Description of clustering approach #22: 'Amp Peak 22(18q11.2) mutation analysis'
Cluster Labels | AMP PEAK 22(18Q11.2) MUTATED | AMP PEAK 22(18Q11.2) WILD-TYPE |
---|---|---|
Number of samples | 134 | 418 |
Table S28. Description of clustering approach #23: 'Amp Peak 23(19p13.12) mutation analysis'
Cluster Labels | AMP PEAK 23(19P13.12) MUTATED | AMP PEAK 23(19P13.12) WILD-TYPE |
---|---|---|
Number of samples | 299 | 253 |
Table S29. Description of clustering approach #24: 'Amp Peak 24(19q12) mutation analysis'
Cluster Labels | AMP PEAK 24(19Q12) MUTATED | AMP PEAK 24(19Q12) WILD-TYPE |
---|---|---|
Number of samples | 305 | 247 |
P value = 1.19e-05 (t-test), Q value = 0.0049
Table S30. Clustering Approach #24: 'Amp Peak 24(19q12) mutation analysis' versus Clinical Feature #2: 'AGE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 541 | 59.8 (11.6) |
AMP PEAK 24(19Q12) MUTATED | 300 | 61.8 (11.1) |
AMP PEAK 24(19Q12) WILD-TYPE | 241 | 57.4 (11.7) |
Figure S6. Get High-res Image Clustering Approach #24: 'Amp Peak 24(19q12) mutation analysis' versus Clinical Feature #2: 'AGE'
![](D24V2.png)
Table S31. Description of clustering approach #25: 'Amp Peak 25(19q13.2) mutation analysis'
Cluster Labels | AMP PEAK 25(19Q13.2) MUTATED | AMP PEAK 25(19Q13.2) WILD-TYPE |
---|---|---|
Number of samples | 232 | 320 |
P value = 3.37e-06 (t-test), Q value = 0.0014
Table S32. Clustering Approach #25: 'Amp Peak 25(19q13.2) mutation analysis' versus Clinical Feature #2: 'AGE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 541 | 59.8 (11.6) |
AMP PEAK 25(19Q13.2) MUTATED | 228 | 62.5 (11.2) |
AMP PEAK 25(19Q13.2) WILD-TYPE | 313 | 57.8 (11.5) |
Figure S7. Get High-res Image Clustering Approach #25: 'Amp Peak 25(19q13.2) mutation analysis' versus Clinical Feature #2: 'AGE'
![](D25V2.png)
Table S33. Description of clustering approach #26: 'Amp Peak 26(20p13) mutation analysis'
Cluster Labels | AMP PEAK 26(20P13) MUTATED | AMP PEAK 26(20P13) WILD-TYPE |
---|---|---|
Number of samples | 299 | 253 |
Table S34. Description of clustering approach #27: 'Amp Peak 27(20q11.21) mutation analysis'
Cluster Labels | AMP PEAK 27(20Q11.21) MUTATED | AMP PEAK 27(20Q11.21) WILD-TYPE |
---|---|---|
Number of samples | 322 | 230 |
P value = 7.62e-08 (t-test), Q value = 3.2e-05
Table S35. Clustering Approach #27: 'Amp Peak 27(20q11.21) mutation analysis' versus Clinical Feature #2: 'AGE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 541 | 59.8 (11.6) |
AMP PEAK 27(20Q11.21) MUTATED | 315 | 62.0 (11.5) |
AMP PEAK 27(20Q11.21) WILD-TYPE | 226 | 56.7 (11.0) |
Figure S8. Get High-res Image Clustering Approach #27: 'Amp Peak 27(20q11.21) mutation analysis' versus Clinical Feature #2: 'AGE'
![](D27V2.png)
Table S36. Description of clustering approach #28: 'Amp Peak 28(20q13.33) mutation analysis'
Cluster Labels | AMP PEAK 28(20Q13.33) MUTATED | AMP PEAK 28(20Q13.33) WILD-TYPE |
---|---|---|
Number of samples | 384 | 168 |
P value = 9.1e-06 (t-test), Q value = 0.0038
Table S37. Clustering Approach #28: 'Amp Peak 28(20q13.33) mutation analysis' versus Clinical Feature #2: 'AGE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 541 | 59.8 (11.6) |
AMP PEAK 28(20Q13.33) MUTATED | 376 | 61.2 (11.5) |
AMP PEAK 28(20Q13.33) WILD-TYPE | 165 | 56.5 (11.1) |
Figure S9. Get High-res Image Clustering Approach #28: 'Amp Peak 28(20q13.33) mutation analysis' versus Clinical Feature #2: 'AGE'
![](D28V2.png)
Table S38. Description of clustering approach #29: 'Amp Peak 29(22q12.2) mutation analysis'
Cluster Labels | AMP PEAK 29(22Q12.2) MUTATED | AMP PEAK 29(22Q12.2) WILD-TYPE |
---|---|---|
Number of samples | 88 | 464 |
Table S39. Description of clustering approach #30: 'Amp Peak 30(Xp11.23) mutation analysis'
Cluster Labels | AMP PEAK 30(XP11.23) MUTATED | AMP PEAK 30(XP11.23) WILD-TYPE |
---|---|---|
Number of samples | 162 | 390 |
Table S40. Description of clustering approach #31: 'Amp Peak 31(Xq28) mutation analysis'
Cluster Labels | AMP PEAK 31(XQ28) MUTATED | AMP PEAK 31(XQ28) WILD-TYPE |
---|---|---|
Number of samples | 219 | 333 |
Table S41. Description of clustering approach #32: 'Del Peak 1(1p36.11) mutation analysis'
Cluster Labels | DEL PEAK 1(1P36.11) MUTATED | DEL PEAK 1(1P36.11) WILD-TYPE |
---|---|---|
Number of samples | 260 | 292 |
Table S42. Description of clustering approach #33: 'Del Peak 2(1q32.3) mutation analysis'
Cluster Labels | DEL PEAK 2(1Q32.3) MUTATED | DEL PEAK 2(1Q32.3) WILD-TYPE |
---|---|---|
Number of samples | 89 | 463 |
Table S43. Description of clustering approach #34: 'Del Peak 3(2p25.3) mutation analysis'
Cluster Labels | DEL PEAK 3(2P25.3) MUTATED | DEL PEAK 3(2P25.3) WILD-TYPE |
---|---|---|
Number of samples | 117 | 435 |
Table S44. Description of clustering approach #35: 'Del Peak 4(2q22.1) mutation analysis'
Cluster Labels | DEL PEAK 4(2Q22.1) MUTATED | DEL PEAK 4(2Q22.1) WILD-TYPE |
---|---|---|
Number of samples | 129 | 423 |
Table S45. Description of clustering approach #36: 'Del Peak 5(2q37.3) mutation analysis'
Cluster Labels | DEL PEAK 5(2Q37.3) MUTATED | DEL PEAK 5(2Q37.3) WILD-TYPE |
---|---|---|
Number of samples | 169 | 383 |
Table S46. Description of clustering approach #37: 'Del Peak 6(3p26.2) mutation analysis'
Cluster Labels | DEL PEAK 6(3P26.2) MUTATED | DEL PEAK 6(3P26.2) WILD-TYPE |
---|---|---|
Number of samples | 203 | 349 |
Table S47. Description of clustering approach #38: 'Del Peak 7(4q22.1) mutation analysis'
Cluster Labels | DEL PEAK 7(4Q22.1) MUTATED | DEL PEAK 7(4Q22.1) WILD-TYPE |
---|---|---|
Number of samples | 369 | 183 |
Table S48. Description of clustering approach #39: 'Del Peak 8(4q34.3) mutation analysis'
Cluster Labels | DEL PEAK 8(4Q34.3) MUTATED | DEL PEAK 8(4Q34.3) WILD-TYPE |
---|---|---|
Number of samples | 399 | 153 |
Table S49. Description of clustering approach #40: 'Del Peak 9(5q11.2) mutation analysis'
Cluster Labels | DEL PEAK 9(5Q11.2) MUTATED | DEL PEAK 9(5Q11.2) WILD-TYPE |
---|---|---|
Number of samples | 329 | 223 |
Table S50. Description of clustering approach #41: 'Del Peak 10(5q13.2) mutation analysis'
Cluster Labels | DEL PEAK 10(5Q13.2) MUTATED | DEL PEAK 10(5Q13.2) WILD-TYPE |
---|---|---|
Number of samples | 392 | 160 |
Table S51. Description of clustering approach #42: 'Del Peak 11(6q27) mutation analysis'
Cluster Labels | DEL PEAK 11(6Q27) MUTATED | DEL PEAK 11(6Q27) WILD-TYPE |
---|---|---|
Number of samples | 356 | 196 |
P value = 0.000461 (t-test), Q value = 0.19
Table S52. Clustering Approach #42: 'Del Peak 11(6q27) mutation analysis' versus Clinical Feature #2: 'AGE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 541 | 59.8 (11.6) |
DEL PEAK 11(6Q27) MUTATED | 350 | 58.5 (11.4) |
DEL PEAK 11(6Q27) WILD-TYPE | 191 | 62.2 (11.6) |
Figure S10. Get High-res Image Clustering Approach #42: 'Del Peak 11(6q27) mutation analysis' versus Clinical Feature #2: 'AGE'
![](D42V2.png)
Table S53. Description of clustering approach #43: 'Del Peak 12(7p22.1) mutation analysis'
Cluster Labels | DEL PEAK 12(7P22.1) MUTATED | DEL PEAK 12(7P22.1) WILD-TYPE |
---|---|---|
Number of samples | 240 | 312 |
Table S54. Description of clustering approach #44: 'Del Peak 13(8p23.3) mutation analysis'
Cluster Labels | DEL PEAK 13(8P23.3) MUTATED | DEL PEAK 13(8P23.3) WILD-TYPE |
---|---|---|
Number of samples | 371 | 181 |
Table S55. Description of clustering approach #45: 'Del Peak 14(8p21.2) mutation analysis'
Cluster Labels | DEL PEAK 14(8P21.2) MUTATED | DEL PEAK 14(8P21.2) WILD-TYPE |
---|---|---|
Number of samples | 386 | 166 |
Table S56. Description of clustering approach #46: 'Del Peak 15(9p24.3) mutation analysis'
Cluster Labels | DEL PEAK 15(9P24.3) MUTATED | DEL PEAK 15(9P24.3) WILD-TYPE |
---|---|---|
Number of samples | 245 | 307 |
Table S57. Description of clustering approach #47: 'Del Peak 16(9q21.11) mutation analysis'
Cluster Labels | DEL PEAK 16(9Q21.11) MUTATED | DEL PEAK 16(9Q21.11) WILD-TYPE |
---|---|---|
Number of samples | 266 | 286 |
P value = 4.09e-06 (t-test), Q value = 0.0017
Table S58. Clustering Approach #47: 'Del Peak 16(9q21.11) mutation analysis' versus Clinical Feature #2: 'AGE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 541 | 59.8 (11.6) |
DEL PEAK 16(9Q21.11) MUTATED | 260 | 62.2 (11.5) |
DEL PEAK 16(9Q21.11) WILD-TYPE | 281 | 57.6 (11.3) |
Figure S11. Get High-res Image Clustering Approach #47: 'Del Peak 16(9q21.11) mutation analysis' versus Clinical Feature #2: 'AGE'
![](D47V2.png)
Table S59. Description of clustering approach #48: 'Del Peak 17(9q34.13) mutation analysis'
Cluster Labels | DEL PEAK 17(9Q34.13) MUTATED | DEL PEAK 17(9Q34.13) WILD-TYPE |
---|---|---|
Number of samples | 329 | 223 |
Table S60. Description of clustering approach #49: 'Del Peak 18(10p15.3) mutation analysis'
Cluster Labels | DEL PEAK 18(10P15.3) MUTATED | DEL PEAK 18(10P15.3) WILD-TYPE |
---|---|---|
Number of samples | 115 | 437 |
Table S61. Description of clustering approach #50: 'Del Peak 19(10q23.31) mutation analysis'
Cluster Labels | DEL PEAK 19(10Q23.31) MUTATED | DEL PEAK 19(10Q23.31) WILD-TYPE |
---|---|---|
Number of samples | 214 | 338 |
Table S62. Description of clustering approach #51: 'Del Peak 20(10q26.3) mutation analysis'
Cluster Labels | DEL PEAK 20(10Q26.3) MUTATED | DEL PEAK 20(10Q26.3) WILD-TYPE |
---|---|---|
Number of samples | 186 | 366 |
Table S63. Description of clustering approach #52: 'Del Peak 21(11p15.5) mutation analysis'
Cluster Labels | DEL PEAK 21(11P15.5) MUTATED | DEL PEAK 21(11P15.5) WILD-TYPE |
---|---|---|
Number of samples | 328 | 224 |
Table S64. Description of clustering approach #53: 'Del Peak 22(11q25) mutation analysis'
Cluster Labels | DEL PEAK 22(11Q25) MUTATED | DEL PEAK 22(11Q25) WILD-TYPE |
---|---|---|
Number of samples | 191 | 361 |
Table S65. Description of clustering approach #54: 'Del Peak 23(12q23.1) mutation analysis'
Cluster Labels | DEL PEAK 23(12Q23.1) MUTATED | DEL PEAK 23(12Q23.1) WILD-TYPE |
---|---|---|
Number of samples | 188 | 364 |
Table S66. Description of clustering approach #55: 'Del Peak 24(12q24.33) mutation analysis'
Cluster Labels | DEL PEAK 24(12Q24.33) MUTATED | DEL PEAK 24(12Q24.33) WILD-TYPE |
---|---|---|
Number of samples | 207 | 345 |
Table S67. Description of clustering approach #56: 'Del Peak 25(13q14.2) mutation analysis'
Cluster Labels | DEL PEAK 25(13Q14.2) MUTATED | DEL PEAK 25(13Q14.2) WILD-TYPE |
---|---|---|
Number of samples | 342 | 210 |
Table S68. Description of clustering approach #57: 'Del Peak 26(14q23.2) mutation analysis'
Cluster Labels | DEL PEAK 26(14Q23.2) MUTATED | DEL PEAK 26(14Q23.2) WILD-TYPE |
---|---|---|
Number of samples | 290 | 262 |
Table S69. Description of clustering approach #58: 'Del Peak 27(15q15.1) mutation analysis'
Cluster Labels | DEL PEAK 27(15Q15.1) MUTATED | DEL PEAK 27(15Q15.1) WILD-TYPE |
---|---|---|
Number of samples | 347 | 205 |
Table S70. Description of clustering approach #59: 'Del Peak 28(16p13.3) mutation analysis'
Cluster Labels | DEL PEAK 28(16P13.3) MUTATED | DEL PEAK 28(16P13.3) WILD-TYPE |
---|---|---|
Number of samples | 293 | 259 |
Table S71. Description of clustering approach #60: 'Del Peak 29(16q22.1) mutation analysis'
Cluster Labels | DEL PEAK 29(16Q22.1) MUTATED | DEL PEAK 29(16Q22.1) WILD-TYPE |
---|---|---|
Number of samples | 437 | 115 |
Table S72. Description of clustering approach #61: 'Del Peak 30(16q23.1) mutation analysis'
Cluster Labels | DEL PEAK 30(16Q23.1) MUTATED | DEL PEAK 30(16Q23.1) WILD-TYPE |
---|---|---|
Number of samples | 429 | 123 |
P value = 7.72e-05 (t-test), Q value = 0.032
Table S73. Clustering Approach #61: 'Del Peak 30(16q23.1) mutation analysis' versus Clinical Feature #2: 'AGE'
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 541 | 59.8 (11.6) |
DEL PEAK 30(16Q23.1) MUTATED | 423 | 60.8 (11.5) |
DEL PEAK 30(16Q23.1) WILD-TYPE | 118 | 56.1 (11.2) |
Figure S12. Get High-res Image Clustering Approach #61: 'Del Peak 30(16q23.1) mutation analysis' versus Clinical Feature #2: 'AGE'
![](D61V2.png)
Table S74. Description of clustering approach #62: 'Del Peak 31(17p12) mutation analysis'
Cluster Labels | DEL PEAK 31(17P12) MUTATED | DEL PEAK 31(17P12) WILD-TYPE |
---|---|---|
Number of samples | 466 | 86 |
Table S75. Description of clustering approach #63: 'Del Peak 32(17q11.2) mutation analysis'
Cluster Labels | DEL PEAK 32(17Q11.2) MUTATED | DEL PEAK 32(17Q11.2) WILD-TYPE |
---|---|---|
Number of samples | 450 | 102 |
Table S76. Description of clustering approach #64: 'Del Peak 33(18q23) mutation analysis'
Cluster Labels | DEL PEAK 33(18Q23) MUTATED | DEL PEAK 33(18Q23) WILD-TYPE |
---|---|---|
Number of samples | 359 | 193 |
Table S77. Description of clustering approach #65: 'Del Peak 34(19p13.3) mutation analysis'
Cluster Labels | DEL PEAK 34(19P13.3) MUTATED | DEL PEAK 34(19P13.3) WILD-TYPE |
---|---|---|
Number of samples | 485 | 67 |
Table S78. Description of clustering approach #66: 'Del Peak 35(19q13.33) mutation analysis'
Cluster Labels | DEL PEAK 35(19Q13.33) MUTATED | DEL PEAK 35(19Q13.33) WILD-TYPE |
---|---|---|
Number of samples | 286 | 266 |
Table S79. Description of clustering approach #67: 'Del Peak 36(19q13.43) mutation analysis'
Cluster Labels | DEL PEAK 36(19Q13.43) MUTATED | DEL PEAK 36(19Q13.43) WILD-TYPE |
---|---|---|
Number of samples | 273 | 279 |
Table S80. Description of clustering approach #68: 'Del Peak 37(21q22.3) mutation analysis'
Cluster Labels | DEL PEAK 37(21Q22.3) MUTATED | DEL PEAK 37(21Q22.3) WILD-TYPE |
---|---|---|
Number of samples | 214 | 338 |
Table S81. Description of clustering approach #69: 'Del Peak 38(22q13.32) mutation analysis'
Cluster Labels | DEL PEAK 38(22Q13.32) MUTATED | DEL PEAK 38(22Q13.32) WILD-TYPE |
---|---|---|
Number of samples | 477 | 75 |
Table S82. Description of clustering approach #70: 'Del Peak 39(Xp21.1) mutation analysis'
Cluster Labels | DEL PEAK 39(XP21.1) MUTATED | DEL PEAK 39(XP21.1) WILD-TYPE |
---|---|---|
Number of samples | 352 | 200 |
-
Cluster data file = all_lesions.conf_99.cnv.cluster.txt
-
Clinical data file = OV-TP.clin.merged.picked.txt
-
Number of patients = 552
-
Number of clustering approaches = 70
-
Number of selected clinical features = 6
-
Exclude small clusters that include fewer than K patients, K = 3
For survival clinical features, the Kaplan-Meier survival curves of tumors with and without gene mutations were plotted and the statistical significance P values were estimated by logrank test (Bland and Altman 2004) using the 'survdiff' function in R
For continuous numerical clinical features, two-tailed Student's t test with unequal variance (Lehmann and Romano 2005) was applied to compare the clinical values between two tumor subtypes using 't.test' function in R
For binary clinical features, two-tailed Fisher's exact tests (Fisher 1922) were used to estimate the P values using the 'fisher.test' function in R
For multiple hypothesis correction, Q value is the False Discovery Rate (FDR) analogue of the P value (Benjamini and Hochberg 1995), defined as the minimum FDR at which the test may be called significant. We used the 'Benjamini and Hochberg' method of 'p.adjust' function in R to convert P values into Q values.
This is an experimental feature. The full results of the analysis summarized in this report can be downloaded from the TCGA Data Coordination Center.