This pipeline computes the correlation between significant copy number variation (cnv focal) genes and selected clinical features.
Testing the association between subtypes identified by 45 different clustering approaches and 11 clinical features across 34 patients, no significant finding detected with Q value < 0.25.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 1(1q21.3) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 2(2p24.3) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 3(3q26.2) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 4(3q28) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 5(4q12) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 6(5p15.33) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 7(6q12) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 8(7p11.2) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 9(8q24.21) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 10(9p24.1) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 12(11q13.3) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 13(11q22.1) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 14(13q22.1) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 15(14q24.1) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 16(15q26.3) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 17(16p13.13) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 18(17q12) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 19(17q25.1) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 20(19q13.31) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 21(20q11.21) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Amp Peak 22(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(1p36.22) 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(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 3(2q37.1) 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 4(3p11.2) 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 5(4q22.1) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Del Peak 6(4q35.2) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Del Peak 7(5q15) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Del Peak 8(6p24.3) 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 10(6q26) 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(7q34) 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 12(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 13(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 14(13q12.12) 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(13q13.3) 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 17(14q32.31) 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 18(16q11.2) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Del Peak 19(16q23.1) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Del Peak 20(17p12) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Del Peak 21(17q25.3) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Del Peak 22(19p13.3) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Del Peak 23(20p12.1) 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(21q21.1) mutation analysis'. These subtypes do not correlate to any clinical features.
-
2 subtypes identified in current cancer cohort by 'Del Peak 25(Xp11.3) 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 26(Xq21.33) mutation analysis'. These subtypes do not correlate to any clinical features.
Clinical Features |
Time to Death |
AGE |
HISTOLOGICAL TYPE |
RADIATIONS RADIATION REGIMENINDICATION |
NUMBERPACKYEARSSMOKED | STOPPEDSMOKINGYEAR | TOBACCOSMOKINGHISTORYINDICATOR |
DISTANT METASTASIS |
LYMPH NODE METASTASIS |
NUMBER OF LYMPH NODES |
TUMOR STAGECODE |
Statistical Tests | logrank test | t-test | Fisher's exact test | Fisher's exact test | t-test | t-test | t-test | Fisher's exact test | Fisher's exact test | t-test | t-test |
Amp Peak 1(1q21 3) |
0.298 (1.00) |
0.581 (1.00) |
0.746 (1.00) |
1 (1.00) |
0.287 (1.00) |
0.792 (1.00) |
0.675 (1.00) |
0.687 (1.00) |
0.35 (1.00) |
||
Amp Peak 2(2p24 3) |
0.0352 (1.00) |
0.238 (1.00) |
0.532 (1.00) |
1 (1.00) |
0.646 (1.00) |
0.544 (1.00) |
1 (1.00) |
1 (1.00) |
0.654 (1.00) |
||
Amp Peak 3(3q26 2) |
0.423 (1.00) |
0.525 (1.00) |
0.28 (1.00) |
0.644 (1.00) |
0.682 (1.00) |
0.608 (1.00) |
0.287 (1.00) |
0.641 (1.00) |
0.566 (1.00) |
||
Amp Peak 4(3q28) |
0.423 (1.00) |
0.525 (1.00) |
0.28 (1.00) |
0.644 (1.00) |
0.682 (1.00) |
0.608 (1.00) |
0.287 (1.00) |
0.641 (1.00) |
0.566 (1.00) |
||
Amp Peak 5(4q12) |
0.857 (1.00) |
0.148 (1.00) |
1 (1.00) |
0.138 (1.00) |
0.321 (1.00) |
0.22 (1.00) |
0.537 (1.00) |
0.593 (1.00) |
|||
Amp Peak 6(5p15 33) |
0.448 (1.00) |
0.512 (1.00) |
0.364 (1.00) |
0.467 (1.00) |
0.449 (1.00) |
0.9 (1.00) |
1 (1.00) |
0.266 (1.00) |
0.113 (1.00) |
||
Amp Peak 7(6q12) |
0.285 (1.00) |
0.388 (1.00) |
1 (1.00) |
0.564 (1.00) |
0.671 (1.00) |
1 (1.00) |
0.611 (1.00) |
0.914 (1.00) |
|||
Amp Peak 8(7p11 2) |
0.375 (1.00) |
0.903 (1.00) |
0.707 (1.00) |
0.195 (1.00) |
0.85 (1.00) |
0.633 (1.00) |
1 (1.00) |
0.566 (1.00) |
|||
Amp Peak 9(8q24 21) |
0.988 (1.00) |
0.748 (1.00) |
1 (1.00) |
0.715 (1.00) |
0.783 (1.00) |
0.186 (1.00) |
0.427 (1.00) |
1 (1.00) |
1 (1.00) |
||
Amp Peak 10(9p24 1) |
0.129 (1.00) |
0.122 (1.00) |
0.67 (1.00) |
0.644 (1.00) |
0.805 (1.00) |
1 (1.00) |
0.372 (1.00) |
0.634 (1.00) |
|||
Amp Peak 12(11q13 3) |
0.423 (1.00) |
0.28 (1.00) |
1 (1.00) |
0.564 (1.00) |
0.589 (1.00) |
0.532 (1.00) |
0.52 (1.00) |
||||
Amp Peak 13(11q22 1) |
0.9 (1.00) |
0.00543 (1.00) |
1 (1.00) |
1 (1.00) |
0.528 (1.00) |
0.633 (1.00) |
0.372 (1.00) |
0.154 (1.00) |
|||
Amp Peak 14(13q22 1) |
0.634 (1.00) |
0.981 (1.00) |
0.243 (1.00) |
1 (1.00) |
0.345 (1.00) |
1 (1.00) |
0.537 (1.00) |
0.593 (1.00) |
|||
Amp Peak 15(14q24 1) |
0.285 (1.00) |
0.715 (1.00) |
0.19 (1.00) |
0.644 (1.00) |
0.555 (1.00) |
1 (1.00) |
0.641 (1.00) |
0.527 (1.00) |
|||
Amp Peak 16(15q26 3) |
0.829 (1.00) |
0.441 (1.00) |
1 (1.00) |
0.683 (1.00) |
0.676 (1.00) |
0.675 (1.00) |
0.672 (1.00) |
0.271 (1.00) |
|||
Amp Peak 17(16p13 13) |
0.552 (1.00) |
0.112 (1.00) |
0.0374 (1.00) |
1 (1.00) |
0.388 (1.00) |
0.158 (1.00) |
1 (1.00) |
0.704 (1.00) |
|||
Amp Peak 18(17q12) |
0.932 (1.00) |
0.89 (1.00) |
0.331 (1.00) |
0.618 (1.00) |
0.589 (1.00) |
0.153 (1.00) |
0.327 (1.00) |
0.613 (1.00) |
|||
Amp Peak 19(17q25 1) |
0.28 (1.00) |
0.914 (1.00) |
0.0477 (1.00) |
1 (1.00) |
0.783 (1.00) |
0.24 (1.00) |
1 (1.00) |
0.225 (1.00) |
0.367 (1.00) |
||
Amp Peak 20(19q13 31) |
0.149 (1.00) |
0.9 (1.00) |
0.577 (1.00) |
0.00479 (1.00) |
0.985 (1.00) |
0.524 (1.00) |
0.396 (1.00) |
0.687 (1.00) |
0.692 (1.00) |
||
Amp Peak 21(20q11 21) |
0.0234 (1.00) |
0.373 (1.00) |
0.813 (1.00) |
0.718 (1.00) |
0.113 (1.00) |
0.293 (1.00) |
0.454 (1.00) |
0.142 (1.00) |
0.54 (1.00) |
||
Amp Peak 22(Xq28) |
0.241 (1.00) |
0.691 (1.00) |
0.67 (1.00) |
1 (1.00) |
0.645 (1.00) |
0.158 (1.00) |
1 (1.00) |
0.89 (1.00) |
|||
Del Peak 1(1p36 22) |
0.916 (1.00) |
0.242 (1.00) |
0.146 (1.00) |
1 (1.00) |
0.277 (1.00) |
0.728 (1.00) |
0.633 (1.00) |
1 (1.00) |
0.8 (1.00) |
||
Del Peak 2(2q22 1) |
0.747 (1.00) |
0.569 (1.00) |
1 (1.00) |
0.0666 (1.00) |
0.888 (1.00) |
0.532 (1.00) |
1 (1.00) |
0.718 (1.00) |
|||
Del Peak 3(2q37 1) |
0.0924 (1.00) |
0.0168 (1.00) |
1 (1.00) |
0.467 (1.00) |
0.0503 (1.00) |
0.206 (1.00) |
1 (1.00) |
0.442 (1.00) |
0.463 (1.00) |
||
Del Peak 4(3p11 2) |
0.68 (1.00) |
0.559 (1.00) |
0.398 (1.00) |
0.708 (1.00) |
0.534 (1.00) |
0.354 (1.00) |
0.7 (1.00) |
0.257 (1.00) |
0.0769 (1.00) |
||
Del Peak 5(4q22 1) |
0.559 (1.00) |
0.535 (1.00) |
0.707 (1.00) |
0.666 (1.00) |
0.881 (1.00) |
0.86 (1.00) |
1 (1.00) |
0.372 (1.00) |
0.164 (1.00) |
||
Del Peak 6(4q35 2) |
0.0897 (1.00) |
0.529 (1.00) |
0.769 (1.00) |
0.714 (1.00) |
0.838 (1.00) |
0.769 (1.00) |
0.675 (1.00) |
0.702 (1.00) |
0.441 (1.00) |
||
Del Peak 7(5q15) |
0.327 (1.00) |
0.135 (1.00) |
0.66 (1.00) |
0.715 (1.00) |
0.627 (1.00) |
0.977 (1.00) |
0.688 (1.00) |
0.707 (1.00) |
0.171 (1.00) |
||
Del Peak 8(6p24 3) |
0.986 (1.00) |
0.324 (1.00) |
0.42 (1.00) |
0.644 (1.00) |
0.263 (1.00) |
1 (1.00) |
0.0472 (1.00) |
0.165 (1.00) |
|||
Del Peak 10(6q26) |
0.602 (1.00) |
0.114 (1.00) |
0.707 (1.00) |
0.385 (1.00) |
0.696 (1.00) |
0.642 (1.00) |
0.372 (1.00) |
0.634 (1.00) |
|||
Del Peak 11(7q34) |
0.00723 (1.00) |
0.811 (1.00) |
1 (1.00) |
0.157 (1.00) |
0.838 (1.00) |
0.608 (1.00) |
1 (1.00) |
1 (1.00) |
0.458 (1.00) |
||
Del Peak 12(10q23 31) |
0.108 (1.00) |
0.903 (1.00) |
1 (1.00) |
0.394 (1.00) |
0.77 (1.00) |
0.0211 (1.00) |
0.633 (1.00) |
0.156 (1.00) |
0.208 (1.00) |
||
Del Peak 13(11q25) |
0.954 (1.00) |
0.644 (1.00) |
0.422 (1.00) |
0.437 (1.00) |
0.304 (1.00) |
0.744 (1.00) |
1 (1.00) |
0.702 (1.00) |
0.134 (1.00) |
||
Del Peak 14(13q12 12) |
0.63 (1.00) |
0.968 (1.00) |
0.471 (1.00) |
1 (1.00) |
0.881 (1.00) |
0.769 (1.00) |
1 (1.00) |
0.696 (1.00) |
0.182 (1.00) |
||
Del Peak 15(13q13 3) |
0.63 (1.00) |
0.968 (1.00) |
0.471 (1.00) |
1 (1.00) |
0.881 (1.00) |
0.769 (1.00) |
1 (1.00) |
0.696 (1.00) |
0.182 (1.00) |
||
Del Peak 17(14q32 31) |
0.523 (1.00) |
0.099 (1.00) |
1 (1.00) |
1 (1.00) |
0.861 (1.00) |
0.22 (1.00) |
0.279 (1.00) |
0.00565 (1.00) |
|||
Del Peak 18(16q11 2) |
0.734 (1.00) |
1 (1.00) |
0.539 (1.00) |
1 (1.00) |
0.52 (1.00) |
||||||
Del Peak 19(16q23 1) |
0.893 (1.00) |
0.0329 (1.00) |
1 (1.00) |
0.532 (1.00) |
1 (1.00) |
||||||
Del Peak 20(17p12) |
0.644 (1.00) |
0.194 (1.00) |
0.235 (1.00) |
0.271 (1.00) |
0.533 (1.00) |
0.276 (1.00) |
1 (1.00) |
0.702 (1.00) |
0.441 (1.00) |
||
Del Peak 21(17q25 3) |
0.298 (1.00) |
0.488 (1.00) |
1 (1.00) |
0.666 (1.00) |
0.373 (1.00) |
0.837 (1.00) |
0.633 (1.00) |
1 (1.00) |
0.566 (1.00) |
||
Del Peak 22(19p13 3) |
0.447 (1.00) |
0.612 (1.00) |
0.278 (1.00) |
0.0847 (1.00) |
0.764 (1.00) |
0.837 (1.00) |
1 (1.00) |
1 (1.00) |
0.566 (1.00) |
||
Del Peak 23(20p12 1) |
0.296 (1.00) |
0.804 (1.00) |
0.224 (1.00) |
0.148 (1.00) |
0.733 (1.00) |
0.728 (1.00) |
0.287 (1.00) |
1 (1.00) |
0.8 (1.00) |
||
Del Peak 24(21q21 1) |
0.337 (1.00) |
0.605 (1.00) |
0.492 (1.00) |
0.0337 (1.00) |
0.03 (1.00) |
1 (1.00) |
0.419 (1.00) |
0.547 (1.00) |
|||
Del Peak 25(Xp11 3) |
0.844 (1.00) |
0.187 (1.00) |
0.789 (1.00) |
0.13 (1.00) |
0.0867 (1.00) |
0.268 (1.00) |
0.205 (1.00) |
1 (1.00) |
0.323 (1.00) |
||
Del Peak 26(Xq21 33) |
0.00867 (1.00) |
0.897 (1.00) |
0.746 (1.00) |
0.116 (1.00) |
0.166 (1.00) |
0.549 (1.00) |
1 (1.00) |
1 (1.00) |
0.4 (1.00) |
Cluster Labels | AMP PEAK 1(1Q21.3) MUTATED | AMP PEAK 1(1Q21.3) WILD-TYPE |
---|---|---|
Number of samples | 24 | 10 |
Cluster Labels | AMP PEAK 2(2P24.3) MUTATED | AMP PEAK 2(2P24.3) WILD-TYPE |
---|---|---|
Number of samples | 10 | 24 |
Cluster Labels | AMP PEAK 3(3Q26.2) MUTATED | AMP PEAK 3(3Q26.2) WILD-TYPE |
---|---|---|
Number of samples | 27 | 7 |
Cluster Labels | AMP PEAK 4(3Q28) MUTATED | AMP PEAK 4(3Q28) WILD-TYPE |
---|---|---|
Number of samples | 27 | 7 |
Cluster Labels | AMP PEAK 5(4Q12) MUTATED | AMP PEAK 5(4Q12) WILD-TYPE |
---|---|---|
Number of samples | 5 | 29 |
Cluster Labels | AMP PEAK 6(5P15.33) MUTATED | AMP PEAK 6(5P15.33) WILD-TYPE |
---|---|---|
Number of samples | 14 | 20 |
Cluster Labels | AMP PEAK 7(6Q12) MUTATED | AMP PEAK 7(6Q12) WILD-TYPE |
---|---|---|
Number of samples | 4 | 30 |
Cluster Labels | AMP PEAK 8(7P11.2) MUTATED | AMP PEAK 8(7P11.2) WILD-TYPE |
---|---|---|
Number of samples | 8 | 26 |
Cluster Labels | AMP PEAK 9(8Q24.21) MUTATED | AMP PEAK 9(8Q24.21) WILD-TYPE |
---|---|---|
Number of samples | 16 | 18 |
Cluster Labels | AMP PEAK 10(9P24.1) MUTATED | AMP PEAK 10(9P24.1) WILD-TYPE |
---|---|---|
Number of samples | 7 | 27 |
Cluster Labels | AMP PEAK 12(11Q13.3) MUTATED | AMP PEAK 12(11Q13.3) WILD-TYPE |
---|---|---|
Number of samples | 4 | 30 |
Cluster Labels | AMP PEAK 13(11Q22.1) MUTATED | AMP PEAK 13(11Q22.1) WILD-TYPE |
---|---|---|
Number of samples | 7 | 27 |
Cluster Labels | AMP PEAK 14(13Q22.1) MUTATED | AMP PEAK 14(13Q22.1) WILD-TYPE |
---|---|---|
Number of samples | 4 | 30 |
Cluster Labels | AMP PEAK 15(14Q24.1) MUTATED | AMP PEAK 15(14Q24.1) WILD-TYPE |
---|---|---|
Number of samples | 7 | 27 |
Cluster Labels | AMP PEAK 16(15Q26.3) MUTATED | AMP PEAK 16(15Q26.3) WILD-TYPE |
---|---|---|
Number of samples | 10 | 24 |
Cluster Labels | AMP PEAK 17(16P13.13) MUTATED | AMP PEAK 17(16P13.13) WILD-TYPE |
---|---|---|
Number of samples | 8 | 26 |
Cluster Labels | AMP PEAK 18(17Q12) MUTATED | AMP PEAK 18(17Q12) WILD-TYPE |
---|---|---|
Number of samples | 5 | 29 |
Cluster Labels | AMP PEAK 19(17Q25.1) MUTATED | AMP PEAK 19(17Q25.1) WILD-TYPE |
---|---|---|
Number of samples | 10 | 24 |
Cluster Labels | AMP PEAK 20(19Q13.31) MUTATED | AMP PEAK 20(19Q13.31) WILD-TYPE |
---|---|---|
Number of samples | 11 | 23 |
Cluster Labels | AMP PEAK 21(20Q11.21) MUTATED | AMP PEAK 21(20Q11.21) WILD-TYPE |
---|---|---|
Number of samples | 19 | 15 |
Cluster Labels | AMP PEAK 22(XQ28) MUTATED | AMP PEAK 22(XQ28) WILD-TYPE |
---|---|---|
Number of samples | 7 | 27 |
Cluster Labels | DEL PEAK 1(1P36.22) MUTATED | DEL PEAK 1(1P36.22) WILD-TYPE |
---|---|---|
Number of samples | 6 | 28 |
Cluster Labels | DEL PEAK 2(2Q22.1) MUTATED | DEL PEAK 2(2Q22.1) WILD-TYPE |
---|---|---|
Number of samples | 4 | 30 |
Cluster Labels | DEL PEAK 3(2Q37.1) MUTATED | DEL PEAK 3(2Q37.1) WILD-TYPE |
---|---|---|
Number of samples | 14 | 20 |
Cluster Labels | DEL PEAK 4(3P11.2) MUTATED | DEL PEAK 4(3P11.2) WILD-TYPE |
---|---|---|
Number of samples | 17 | 17 |
Cluster Labels | DEL PEAK 5(4Q22.1) MUTATED | DEL PEAK 5(4Q22.1) WILD-TYPE |
---|---|---|
Number of samples | 8 | 26 |
Cluster Labels | DEL PEAK 6(4Q35.2) MUTATED | DEL PEAK 6(4Q35.2) WILD-TYPE |
---|---|---|
Number of samples | 12 | 22 |
Cluster Labels | DEL PEAK 7(5Q15) MUTATED | DEL PEAK 7(5Q15) WILD-TYPE |
---|---|---|
Number of samples | 16 | 18 |
Cluster Labels | DEL PEAK 8(6P24.3) MUTATED | DEL PEAK 8(6P24.3) WILD-TYPE |
---|---|---|
Number of samples | 6 | 28 |
Cluster Labels | DEL PEAK 10(6Q26) MUTATED | DEL PEAK 10(6Q26) WILD-TYPE |
---|---|---|
Number of samples | 8 | 26 |
Cluster Labels | DEL PEAK 11(7Q34) MUTATED | DEL PEAK 11(7Q34) WILD-TYPE |
---|---|---|
Number of samples | 7 | 27 |
Cluster Labels | DEL PEAK 12(10Q23.31) MUTATED | DEL PEAK 12(10Q23.31) WILD-TYPE |
---|---|---|
Number of samples | 7 | 27 |
Cluster Labels | DEL PEAK 13(11Q25) MUTATED | DEL PEAK 13(11Q25) WILD-TYPE |
---|---|---|
Number of samples | 23 | 11 |
Cluster Labels | DEL PEAK 14(13Q12.12) MUTATED | DEL PEAK 14(13Q12.12) WILD-TYPE |
---|---|---|
Number of samples | 13 | 21 |
Cluster Labels | DEL PEAK 15(13Q13.3) MUTATED | DEL PEAK 15(13Q13.3) WILD-TYPE |
---|---|---|
Number of samples | 13 | 21 |
Cluster Labels | DEL PEAK 17(14Q32.31) MUTATED | DEL PEAK 17(14Q32.31) WILD-TYPE |
---|---|---|
Number of samples | 3 | 31 |
Cluster Labels | DEL PEAK 18(16Q11.2) MUTATED | DEL PEAK 18(16Q11.2) WILD-TYPE |
---|---|---|
Number of samples | 3 | 31 |
Cluster Labels | DEL PEAK 19(16Q23.1) MUTATED | DEL PEAK 19(16Q23.1) WILD-TYPE |
---|---|---|
Number of samples | 3 | 31 |
Cluster Labels | DEL PEAK 20(17P12) MUTATED | DEL PEAK 20(17P12) WILD-TYPE |
---|---|---|
Number of samples | 12 | 22 |
Cluster Labels | DEL PEAK 21(17Q25.3) MUTATED | DEL PEAK 21(17Q25.3) WILD-TYPE |
---|---|---|
Number of samples | 8 | 26 |
Cluster Labels | DEL PEAK 22(19P13.3) MUTATED | DEL PEAK 22(19P13.3) WILD-TYPE |
---|---|---|
Number of samples | 9 | 25 |
Cluster Labels | DEL PEAK 23(20P12.1) MUTATED | DEL PEAK 23(20P12.1) WILD-TYPE |
---|---|---|
Number of samples | 6 | 28 |
Cluster Labels | DEL PEAK 24(21Q21.1) MUTATED | DEL PEAK 24(21Q21.1) WILD-TYPE |
---|---|---|
Number of samples | 9 | 25 |
Cluster Labels | DEL PEAK 25(XP11.3) MUTATED | DEL PEAK 25(XP11.3) WILD-TYPE |
---|---|---|
Number of samples | 13 | 21 |
Cluster Labels | DEL PEAK 26(XQ21.33) MUTATED | DEL PEAK 26(XQ21.33) WILD-TYPE |
---|---|---|
Number of samples | 10 | 24 |
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Cluster data file = all_lesions.conf_99.cnv.cluster.txt
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Clinical data file = CESC-TP.clin.merged.picked.txt
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Number of patients = 34
-
Number of clustering approaches = 45
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Number of selected clinical features = 11
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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.