This pipeline computes the correlation between cancer subtypes identified by different molecular patterns and selected clinical features.
Testing the association between subtypes identified by 10 different clustering approaches and 13 clinical features across 869 patients, 76 significant findings detected with P value < 0.05 and Q value < 0.25.
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CNMF clustering analysis on array-based mRNA expression data identified 4 subtypes that correlate to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'HISTOLOGICAL_TYPE', and 'RACE'.
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Consensus hierarchical clustering analysis on array-based mRNA expression data identified 5 subtypes that correlate to 'PATHOLOGY_T_STAGE', 'GENDER', 'HISTOLOGICAL_TYPE', and 'RACE'.
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3 subtypes identified in current cancer cohort by 'Copy Number Ratio CNMF subtypes'. These subtypes correlate to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', 'KARNOFSKY_PERFORMANCE_SCORE', 'HISTOLOGICAL_TYPE', 'NUMBER_PACK_YEARS_SMOKED', 'YEAR_OF_TOBACCO_SMOKING_ONSET', and 'RACE'.
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3 subtypes identified in current cancer cohort by 'METHLYATION CNMF'. These subtypes correlate to 'Time to Death', 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', 'HISTOLOGICAL_TYPE', and 'RACE'.
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CNMF clustering analysis on sequencing-based mRNA expression data identified 4 subtypes that correlate to 'Time to Death', 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', 'HISTOLOGICAL_TYPE', and 'RACE'.
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Consensus hierarchical clustering analysis on sequencing-based mRNA expression data identified 6 subtypes that correlate to 'Time to Death', 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', 'HISTOLOGICAL_TYPE', and 'RACE'.
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3 subtypes identified in current cancer cohort by 'MIRSEQ CNMF'. These subtypes correlate to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'RACE'.
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3 subtypes identified in current cancer cohort by 'MIRSEQ CHIERARCHICAL'. These subtypes correlate to 'Time to Death', 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', 'HISTOLOGICAL_TYPE', and 'RACE'.
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4 subtypes identified in current cancer cohort by 'MIRseq Mature CNMF subtypes'. These subtypes correlate to 'Time to Death', 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', and 'HISTOLOGICAL_TYPE'.
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5 subtypes identified in current cancer cohort by 'MIRseq Mature cHierClus subtypes'. These subtypes correlate to 'Time to Death', 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', and 'HISTOLOGICAL_TYPE'.
Clinical Features |
Statistical Tests |
mRNA CNMF subtypes |
mRNA cHierClus subtypes |
Copy Number Ratio CNMF subtypes |
METHLYATION CNMF |
RNAseq CNMF subtypes |
RNAseq cHierClus subtypes |
MIRSEQ CNMF |
MIRSEQ CHIERARCHICAL |
MIRseq Mature CNMF subtypes |
MIRseq Mature cHierClus subtypes |
Time to Death | logrank test |
0.318 (0.388) |
0.149 (0.208) |
0.00233 (0.0048) |
4.13e-05 (0.000112) |
0 (0) |
6.97e-13 (4.53e-11) |
1.11e-07 (3.6e-06) |
7.81e-09 (3.38e-07) |
2.35e-06 (3.02e-05) |
7.63e-07 (1.65e-05) |
YEARS TO BIRTH | Kruskal-Wallis (anova) |
0.222 (0.286) |
0.214 (0.279) |
0.224 (0.286) |
3.76e-07 (9.78e-06) |
0.000197 (0.000465) |
1.05e-05 (3.1e-05) |
0.323 (0.388) |
4.58e-06 (3.02e-05) |
0.00264 (0.00527) |
0.0106 (0.0202) |
NEOPLASM DISEASESTAGE | Fisher's exact test |
0.0324 (0.0577) |
0.0637 (0.108) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
PATHOLOGY T STAGE | Fisher's exact test |
0.0111 (0.0209) |
0.0246 (0.045) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
PATHOLOGY N STAGE | Fisher's exact test |
0.0767 (0.121) |
0.321 (0.388) |
0.124 (0.178) |
0.00073 (0.00164) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
3e-05 (8.48e-05) |
0.161 (0.22) |
0.00063 (0.00146) |
1e-05 (3.02e-05) |
PATHOLOGY M STAGE | Fisher's exact test |
0.18 (0.236) |
0.245 (0.307) |
0.00251 (0.0051) |
0.00807 (0.0157) |
0.00014 (0.000337) |
1e-05 (3.02e-05) |
0.0336 (0.0591) |
0.00149 (0.00312) |
0.038 (0.0658) |
0.0142 (0.0264) |
GENDER | Fisher's exact test |
0.736 (0.797) |
0.00013 (0.000319) |
5e-05 (0.00013) |
4e-05 (0.000111) |
0.00011 (0.000275) |
1e-05 (3.02e-05) |
0.178 (0.236) |
0.00071 (0.00162) |
0.00102 (0.00225) |
0.00134 (0.00286) |
KARNOFSKY PERFORMANCE SCORE | Kruskal-Wallis (anova) |
0.0452 (0.0773) |
0.101 (0.155) |
0.469 (0.544) |
0.111 (0.164) |
0.858 (0.907) |
0.161 (0.22) |
0.077 (0.121) |
0.138 (0.198) |
||
HISTOLOGICAL TYPE | Fisher's exact test |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
NUMBER PACK YEARS SMOKED | Kruskal-Wallis (anova) |
0.0292 (0.0528) |
0.809 (0.862) |
0.993 (1.00) |
0.759 (0.815) |
0.562 (0.636) |
0.646 (0.717) |
0.638 (0.715) |
0.481 (0.554) |
||
YEAR OF TOBACCO SMOKING ONSET | Kruskal-Wallis (anova) |
0.0074 (0.0146) |
0.0775 (0.121) |
0.404 (0.478) |
0.175 (0.235) |
0.12 (0.175) |
0.106 (0.161) |
0.148 (0.208) |
0.175 (0.235) |
||
RACE | Fisher's exact test |
1e-05 (3.02e-05) |
3e-05 (8.48e-05) |
5e-05 (0.00013) |
0.00126 (0.00273) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
1e-05 (3.02e-05) |
7e-05 (0.000178) |
0.72 (0.787) |
0.0763 (0.121) |
ETHNICITY | Fisher's exact test |
0.109 (0.163) |
0.0675 (0.111) |
0.402 (0.478) |
0.238 (0.3) |
0.41 (0.481) |
0.0816 (0.126) |
0.556 (0.634) |
0.256 (0.317) |
0.694 (0.765) |
0.0663 (0.111) |
Cluster Labels | 1 | 2 | 3 | 4 |
---|---|---|---|---|
Number of samples | 34 | 24 | 13 | 17 |
P value = 0.318 (logrank test), Q value = 0.39
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 88 | 16 | 0.5 - 101.1 (33.2) |
subtype1 | 34 | 4 | 1.4 - 101.1 (32.0) |
subtype2 | 24 | 8 | 0.5 - 93.3 (38.2) |
subtype3 | 13 | 1 | 12.1 - 84.4 (40.0) |
subtype4 | 17 | 3 | 0.5 - 76.6 (26.4) |
P value = 0.222 (Kruskal-Wallis (anova)), Q value = 0.29
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 87 | 60.1 (12.2) |
subtype1 | 33 | 60.2 (13.8) |
subtype2 | 24 | 59.2 (10.8) |
subtype3 | 13 | 65.6 (10.5) |
subtype4 | 17 | 56.9 (11.2) |
P value = 0.0324 (Fisher's exact test), Q value = 0.058
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 45 | 16 | 15 | 6 |
subtype1 | 23 | 4 | 6 | 1 |
subtype2 | 8 | 4 | 8 | 4 |
subtype3 | 8 | 5 | 0 | 0 |
subtype4 | 6 | 3 | 1 | 1 |
P value = 0.0111 (Fisher's exact test), Q value = 0.021
nPatients | T1 | T2 | T3 |
---|---|---|---|
ALL | 48 | 21 | 19 |
subtype1 | 23 | 4 | 7 |
subtype2 | 9 | 5 | 10 |
subtype3 | 8 | 5 | 0 |
subtype4 | 8 | 7 | 2 |
P value = 0.0767 (Fisher's exact test), Q value = 0.12
nPatients | N0 | N1 |
---|---|---|
ALL | 37 | 4 |
subtype1 | 18 | 0 |
subtype2 | 11 | 3 |
subtype3 | 5 | 0 |
subtype4 | 3 | 1 |
P value = 0.18 (Fisher's exact test), Q value = 0.24
nPatients | 0 | 1 |
---|---|---|
ALL | 77 | 6 |
subtype1 | 33 | 1 |
subtype2 | 20 | 4 |
subtype3 | 13 | 0 |
subtype4 | 11 | 1 |
P value = 0.736 (Fisher's exact test), Q value = 0.8
nPatients | FEMALE | MALE |
---|---|---|
ALL | 33 | 55 |
subtype1 | 15 | 19 |
subtype2 | 9 | 15 |
subtype3 | 4 | 9 |
subtype4 | 5 | 12 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | KIDNEY CLEAR CELL RENAL CARCINOMA | KIDNEY PAPILLARY RENAL CELL CARCINOMA |
---|---|---|
ALL | 72 | 16 |
subtype1 | 34 | 0 |
subtype2 | 23 | 1 |
subtype3 | 12 | 1 |
subtype4 | 3 | 14 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|
ALL | 1 | 12 | 71 |
subtype1 | 0 | 0 | 32 |
subtype2 | 0 | 1 | 21 |
subtype3 | 0 | 2 | 11 |
subtype4 | 1 | 9 | 7 |
P value = 0.109 (Fisher's exact test), Q value = 0.16
nPatients | HISPANIC OR LATINO | NOT HISPANIC OR LATINO |
---|---|---|
ALL | 7 | 58 |
subtype1 | 5 | 19 |
subtype2 | 2 | 11 |
subtype3 | 0 | 12 |
subtype4 | 0 | 16 |
Cluster Labels | 1 | 2 | 3 | 4 | 5 |
---|---|---|---|---|---|
Number of samples | 21 | 24 | 18 | 13 | 12 |
P value = 0.149 (logrank test), Q value = 0.21
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 88 | 16 | 0.5 - 101.1 (33.2) |
subtype1 | 21 | 1 | 1.4 - 59.8 (31.1) |
subtype2 | 24 | 8 | 0.5 - 93.3 (38.2) |
subtype3 | 18 | 4 | 0.5 - 76.6 (25.3) |
subtype4 | 13 | 3 | 11.1 - 101.1 (48.4) |
subtype5 | 12 | 0 | 12.1 - 84.4 (40.4) |
P value = 0.214 (Kruskal-Wallis (anova)), Q value = 0.28
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 87 | 60.1 (12.2) |
subtype1 | 20 | 57.6 (13.7) |
subtype2 | 24 | 59.2 (10.8) |
subtype3 | 18 | 57.0 (10.9) |
subtype4 | 13 | 64.1 (13.5) |
subtype5 | 12 | 66.2 (10.8) |
P value = 0.0637 (Fisher's exact test), Q value = 0.11
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 45 | 16 | 15 | 6 |
subtype1 | 16 | 2 | 3 | 0 |
subtype2 | 8 | 4 | 8 | 4 |
subtype3 | 7 | 3 | 1 | 1 |
subtype4 | 7 | 2 | 3 | 1 |
subtype5 | 7 | 5 | 0 | 0 |
P value = 0.0246 (Fisher's exact test), Q value = 0.045
nPatients | T1 | T2 | T3 |
---|---|---|---|
ALL | 48 | 21 | 19 |
subtype1 | 16 | 2 | 3 |
subtype2 | 9 | 5 | 10 |
subtype3 | 9 | 7 | 2 |
subtype4 | 7 | 2 | 4 |
subtype5 | 7 | 5 | 0 |
P value = 0.321 (Fisher's exact test), Q value = 0.39
nPatients | N0 | N1 |
---|---|---|
ALL | 37 | 4 |
subtype1 | 9 | 0 |
subtype2 | 11 | 3 |
subtype3 | 4 | 1 |
subtype4 | 9 | 0 |
subtype5 | 4 | 0 |
P value = 0.245 (Fisher's exact test), Q value = 0.31
nPatients | 0 | 1 |
---|---|---|
ALL | 77 | 6 |
subtype1 | 21 | 0 |
subtype2 | 20 | 4 |
subtype3 | 12 | 1 |
subtype4 | 12 | 1 |
subtype5 | 12 | 0 |
P value = 0.00013 (Fisher's exact test), Q value = 0.00032
nPatients | FEMALE | MALE |
---|---|---|
ALL | 33 | 55 |
subtype1 | 3 | 18 |
subtype2 | 9 | 15 |
subtype3 | 5 | 13 |
subtype4 | 12 | 1 |
subtype5 | 4 | 8 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | KIDNEY CLEAR CELL RENAL CARCINOMA | KIDNEY PAPILLARY RENAL CELL CARCINOMA |
---|---|---|
ALL | 72 | 16 |
subtype1 | 21 | 0 |
subtype2 | 23 | 1 |
subtype3 | 4 | 14 |
subtype4 | 13 | 0 |
subtype5 | 11 | 1 |
P value = 3e-05 (Fisher's exact test), Q value = 8.5e-05
nPatients | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|
ALL | 1 | 12 | 71 |
subtype1 | 0 | 0 | 19 |
subtype2 | 0 | 1 | 21 |
subtype3 | 1 | 10 | 7 |
subtype4 | 0 | 0 | 13 |
subtype5 | 0 | 1 | 11 |
P value = 0.0675 (Fisher's exact test), Q value = 0.11
nPatients | HISPANIC OR LATINO | NOT HISPANIC OR LATINO |
---|---|---|
ALL | 7 | 58 |
subtype1 | 2 | 12 |
subtype2 | 2 | 11 |
subtype3 | 0 | 16 |
subtype4 | 3 | 7 |
subtype5 | 0 | 12 |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 267 | 304 | 288 |
P value = 0.00233 (logrank test), Q value = 0.0048
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 843 | 211 | 0.1 - 194.8 (30.5) |
subtype1 | 255 | 40 | 0.1 - 194.8 (26.4) |
subtype2 | 301 | 78 | 0.1 - 120.6 (31.2) |
subtype3 | 287 | 93 | 0.1 - 141.7 (36.5) |
P value = 0.224 (Kruskal-Wallis (anova)), Q value = 0.29
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 853 | 60.1 (12.6) |
subtype1 | 265 | 59.4 (13.3) |
subtype2 | 302 | 59.7 (12.1) |
subtype3 | 286 | 61.2 (12.4) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 448 | 103 | 190 | 100 |
subtype1 | 156 | 38 | 43 | 15 |
subtype2 | 176 | 32 | 60 | 33 |
subtype3 | 116 | 33 | 87 | 52 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 462 | 123 | 251 | 15 |
subtype1 | 162 | 45 | 48 | 6 |
subtype2 | 180 | 39 | 80 | 3 |
subtype3 | 120 | 39 | 123 | 6 |
P value = 0.124 (Fisher's exact test), Q value = 0.18
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 317 | 43 | 6 |
subtype1 | 76 | 12 | 3 |
subtype2 | 116 | 9 | 2 |
subtype3 | 125 | 22 | 1 |
P value = 0.00251 (Fisher's exact test), Q value = 0.0051
nPatients | 0 | 1 |
---|---|---|
ALL | 542 | 89 |
subtype1 | 114 | 8 |
subtype2 | 221 | 32 |
subtype3 | 207 | 49 |
P value = 5e-05 (Fisher's exact test), Q value = 0.00013
nPatients | FEMALE | MALE |
---|---|---|
ALL | 287 | 572 |
subtype1 | 67 | 200 |
subtype2 | 131 | 173 |
subtype3 | 89 | 199 |
P value = 0.0452 (Kruskal-Wallis (anova)), Q value = 0.077
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 115 | 90.3 (17.6) |
subtype1 | 49 | 94.5 (7.4) |
subtype2 | 30 | 91.7 (12.3) |
subtype3 | 36 | 83.3 (27.0) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | KIDNEY CHROMOPHOBE | KIDNEY CLEAR CELL RENAL CARCINOMA | KIDNEY PAPILLARY RENAL CELL CARCINOMA |
---|---|---|---|
ALL | 66 | 524 | 269 |
subtype1 | 46 | 29 | 192 |
subtype2 | 6 | 247 | 51 |
subtype3 | 14 | 248 | 26 |
P value = 0.0292 (Kruskal-Wallis (anova)), Q value = 0.053
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 91 | 30.8 (26.2) |
subtype1 | 52 | 30.1 (19.0) |
subtype2 | 22 | 41.9 (41.1) |
subtype3 | 17 | 18.4 (13.1) |
P value = 0.0074 (Kruskal-Wallis (anova)), Q value = 0.015
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 67 | 1973.4 (16.4) |
subtype1 | 38 | 1967.9 (14.0) |
subtype2 | 18 | 1980.2 (18.6) |
subtype3 | 11 | 1981.2 (14.0) |
P value = 5e-05 (Fisher's exact test), Q value = 0.00013
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 15 | 116 | 702 |
subtype1 | 2 | 8 | 44 | 199 |
subtype2 | 0 | 2 | 52 | 247 |
subtype3 | 0 | 5 | 20 | 256 |
P value = 0.402 (Fisher's exact test), Q value = 0.48
nPatients | HISPANIC OR LATINO | NOT HISPANIC OR LATINO |
---|---|---|
ALL | 42 | 597 |
subtype1 | 10 | 201 |
subtype2 | 16 | 208 |
subtype3 | 16 | 188 |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 125 | 301 | 210 |
P value = 4.13e-05 (logrank test), Q value = 0.00011
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 620 | 141 | 0.1 - 194.8 (26.2) |
subtype1 | 121 | 29 | 0.1 - 152.0 (42.4) |
subtype2 | 300 | 93 | 0.1 - 120.6 (28.9) |
subtype3 | 199 | 19 | 0.1 - 194.8 (21.3) |
P value = 3.76e-07 (Kruskal-Wallis (anova)), Q value = 9.8e-06
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 631 | 60.5 (12.6) |
subtype1 | 124 | 54.2 (14.2) |
subtype2 | 299 | 61.8 (11.8) |
subtype3 | 208 | 62.3 (11.7) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 338 | 74 | 137 | 75 |
subtype1 | 52 | 30 | 27 | 15 |
subtype2 | 139 | 28 | 80 | 53 |
subtype3 | 147 | 16 | 30 | 7 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 348 | 88 | 180 | 12 |
subtype1 | 53 | 30 | 35 | 6 |
subtype2 | 143 | 38 | 115 | 5 |
subtype3 | 152 | 20 | 30 | 1 |
P value = 0.00073 (Fisher's exact test), Q value = 0.0016
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 214 | 33 | 6 |
subtype1 | 54 | 13 | 3 |
subtype2 | 124 | 10 | 0 |
subtype3 | 36 | 10 | 3 |
P value = 0.00807 (Fisher's exact test), Q value = 0.016
nPatients | 0 | 1 |
---|---|---|
ALL | 349 | 63 |
subtype1 | 66 | 9 |
subtype2 | 221 | 51 |
subtype3 | 62 | 3 |
P value = 4e-05 (Fisher's exact test), Q value = 0.00011
nPatients | FEMALE | MALE |
---|---|---|
ALL | 209 | 427 |
subtype1 | 58 | 67 |
subtype2 | 102 | 199 |
subtype3 | 49 | 161 |
P value = 0.101 (Kruskal-Wallis (anova)), Q value = 0.16
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 107 | 92.4 (9.7) |
subtype1 | 19 | 88.4 (14.6) |
subtype2 | 33 | 91.2 (9.6) |
subtype3 | 55 | 94.5 (6.9) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | KIDNEY CHROMOPHOBE | KIDNEY CLEAR CELL RENAL CARCINOMA | KIDNEY PAPILLARY RENAL CELL CARCINOMA |
---|---|---|---|
ALL | 66 | 315 | 255 |
subtype1 | 66 | 25 | 34 |
subtype2 | 0 | 286 | 15 |
subtype3 | 0 | 4 | 206 |
P value = 0.809 (Kruskal-Wallis (anova)), Q value = 0.86
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 89 | 31.1 (26.4) |
subtype1 | 15 | 27.3 (21.0) |
subtype2 | 19 | 35.4 (40.3) |
subtype3 | 55 | 30.7 (21.7) |
P value = 0.0775 (Kruskal-Wallis (anova)), Q value = 0.12
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 67 | 1973.1 (16.5) |
subtype1 | 11 | 1976.9 (14.6) |
subtype2 | 13 | 1981.1 (21.1) |
subtype3 | 43 | 1969.8 (14.6) |
P value = 0.00126 (Fisher's exact test), Q value = 0.0027
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 8 | 102 | 504 |
subtype1 | 0 | 5 | 23 | 93 |
subtype2 | 0 | 2 | 36 | 258 |
subtype3 | 2 | 1 | 43 | 153 |
P value = 0.238 (Fisher's exact test), Q value = 0.3
nPatients | HISPANIC OR LATINO | NOT HISPANIC OR LATINO |
---|---|---|
ALL | 26 | 493 |
subtype1 | 7 | 77 |
subtype2 | 9 | 239 |
subtype3 | 10 | 177 |
Cluster Labels | 1 | 2 | 3 | 4 |
---|---|---|---|---|
Number of samples | 118 | 196 | 298 | 253 |
P value = 0 (logrank test), Q value = 0
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 849 | 211 | 0.1 - 194.8 (30.6) |
subtype1 | 115 | 18 | 0.2 - 152.0 (47.2) |
subtype2 | 195 | 96 | 0.1 - 109.9 (28.9) |
subtype3 | 297 | 69 | 0.1 - 120.6 (37.4) |
subtype4 | 242 | 28 | 0.1 - 194.8 (21.6) |
P value = 0.000197 (Kruskal-Wallis (anova)), Q value = 0.00046
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 859 | 60.2 (12.6) |
subtype1 | 117 | 54.8 (14.4) |
subtype2 | 196 | 60.5 (12.0) |
subtype3 | 297 | 60.7 (12.5) |
subtype4 | 249 | 61.8 (11.6) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 454 | 103 | 189 | 101 |
subtype1 | 56 | 33 | 19 | 10 |
subtype2 | 57 | 20 | 70 | 48 |
subtype3 | 173 | 31 | 61 | 33 |
subtype4 | 168 | 19 | 39 | 10 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 468 | 123 | 251 | 15 |
subtype1 | 56 | 33 | 27 | 2 |
subtype2 | 62 | 24 | 99 | 10 |
subtype3 | 174 | 38 | 84 | 2 |
subtype4 | 176 | 28 | 41 | 1 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 323 | 42 | 6 |
subtype1 | 60 | 5 | 3 |
subtype2 | 85 | 20 | 1 |
subtype3 | 130 | 2 | 0 |
subtype4 | 48 | 15 | 2 |
P value = 0.00014 (Fisher's exact test), Q value = 0.00034
nPatients | 0 | 1 |
---|---|---|
ALL | 547 | 90 |
subtype1 | 72 | 7 |
subtype2 | 139 | 44 |
subtype3 | 248 | 32 |
subtype4 | 88 | 7 |
P value = 0.00011 (Fisher's exact test), Q value = 0.00027
nPatients | FEMALE | MALE |
---|---|---|
ALL | 286 | 579 |
subtype1 | 47 | 71 |
subtype2 | 51 | 145 |
subtype3 | 122 | 176 |
subtype4 | 66 | 187 |
P value = 0.469 (Kruskal-Wallis (anova)), Q value = 0.54
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 115 | 91.1 (15.4) |
subtype1 | 17 | 91.8 (8.8) |
subtype2 | 16 | 84.4 (27.3) |
subtype3 | 25 | 91.2 (9.7) |
subtype4 | 57 | 92.8 (14.4) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | KIDNEY CHROMOPHOBE | KIDNEY CLEAR CELL RENAL CARCINOMA | KIDNEY PAPILLARY RENAL CELL CARCINOMA |
---|---|---|---|
ALL | 66 | 529 | 270 |
subtype1 | 64 | 38 | 16 |
subtype2 | 2 | 182 | 12 |
subtype3 | 0 | 296 | 2 |
subtype4 | 0 | 13 | 240 |
P value = 0.993 (Kruskal-Wallis (anova)), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 92 | 30.6 (26.1) |
subtype1 | 13 | 39.3 (48.6) |
subtype2 | 6 | 28.8 (19.2) |
subtype3 | 9 | 28.2 (20.0) |
subtype4 | 64 | 29.3 (20.9) |
P value = 0.404 (Kruskal-Wallis (anova)), Q value = 0.48
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 68 | 1973.2 (16.4) |
subtype1 | 10 | 1973.5 (17.0) |
subtype2 | 4 | 1986.0 (14.6) |
subtype3 | 5 | 1976.0 (23.5) |
subtype4 | 49 | 1971.8 (15.6) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 15 | 116 | 708 |
subtype1 | 0 | 3 | 19 | 93 |
subtype2 | 0 | 4 | 13 | 176 |
subtype3 | 0 | 2 | 27 | 264 |
subtype4 | 2 | 6 | 57 | 175 |
P value = 0.41 (Fisher's exact test), Q value = 0.48
nPatients | HISPANIC OR LATINO | NOT HISPANIC OR LATINO |
---|---|---|
ALL | 42 | 603 |
subtype1 | 4 | 76 |
subtype2 | 7 | 125 |
subtype3 | 19 | 192 |
subtype4 | 12 | 210 |
Cluster Labels | 1 | 2 | 3 | 4 | 5 | 6 |
---|---|---|---|---|---|---|
Number of samples | 88 | 138 | 208 | 159 | 111 | 161 |
P value = 6.97e-13 (logrank test), Q value = 4.5e-11
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 849 | 211 | 0.1 - 194.8 (30.6) |
subtype1 | 87 | 12 | 2.5 - 152.0 (52.3) |
subtype2 | 134 | 37 | 0.1 - 194.8 (19.6) |
subtype3 | 208 | 45 | 0.1 - 112.8 (35.7) |
subtype4 | 158 | 76 | 0.1 - 109.9 (32.6) |
subtype5 | 110 | 29 | 0.1 - 120.6 (46.5) |
subtype6 | 152 | 12 | 0.1 - 129.9 (23.6) |
P value = 1.05e-05 (Kruskal-Wallis (anova)), Q value = 3.1e-05
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 859 | 60.2 (12.6) |
subtype1 | 88 | 53.8 (14.1) |
subtype2 | 136 | 61.7 (13.0) |
subtype3 | 207 | 59.0 (12.8) |
subtype4 | 158 | 61.6 (11.3) |
subtype5 | 111 | 62.9 (12.0) |
subtype6 | 159 | 60.6 (11.5) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 454 | 103 | 189 | 101 |
subtype1 | 38 | 30 | 15 | 5 |
subtype2 | 59 | 8 | 42 | 21 |
subtype3 | 122 | 21 | 40 | 25 |
subtype4 | 39 | 20 | 61 | 39 |
subtype5 | 72 | 9 | 22 | 8 |
subtype6 | 124 | 15 | 9 | 3 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 468 | 123 | 251 | 15 |
subtype1 | 38 | 30 | 19 | 1 |
subtype2 | 64 | 12 | 50 | 7 |
subtype3 | 123 | 27 | 56 | 2 |
subtype4 | 43 | 24 | 87 | 5 |
subtype5 | 72 | 10 | 29 | 0 |
subtype6 | 128 | 20 | 10 | 0 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 323 | 42 | 6 |
subtype1 | 51 | 2 | 2 |
subtype2 | 33 | 26 | 3 |
subtype3 | 77 | 2 | 0 |
subtype4 | 76 | 11 | 0 |
subtype5 | 59 | 1 | 0 |
subtype6 | 27 | 0 | 1 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | 0 | 1 |
---|---|---|
ALL | 547 | 90 |
subtype1 | 55 | 3 |
subtype2 | 62 | 14 |
subtype3 | 177 | 24 |
subtype4 | 109 | 40 |
subtype5 | 93 | 8 |
subtype6 | 51 | 1 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | FEMALE | MALE |
---|---|---|
ALL | 286 | 579 |
subtype1 | 33 | 55 |
subtype2 | 56 | 82 |
subtype3 | 12 | 196 |
subtype4 | 48 | 111 |
subtype5 | 108 | 3 |
subtype6 | 29 | 132 |
P value = 0.111 (Kruskal-Wallis (anova)), Q value = 0.16
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 115 | 91.1 (15.4) |
subtype1 | 12 | 89.2 (9.0) |
subtype2 | 21 | 87.1 (24.1) |
subtype3 | 16 | 94.4 (8.1) |
subtype4 | 11 | 82.7 (28.7) |
subtype5 | 13 | 90.0 (10.8) |
subtype6 | 42 | 95.0 (7.1) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | KIDNEY CHROMOPHOBE | KIDNEY CLEAR CELL RENAL CARCINOMA | KIDNEY PAPILLARY RENAL CELL CARCINOMA |
---|---|---|---|
ALL | 66 | 529 | 270 |
subtype1 | 64 | 19 | 5 |
subtype2 | 2 | 32 | 104 |
subtype3 | 0 | 208 | 0 |
subtype4 | 0 | 155 | 4 |
subtype5 | 0 | 111 | 0 |
subtype6 | 0 | 4 | 157 |
P value = 0.759 (Kruskal-Wallis (anova)), Q value = 0.82
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 92 | 30.6 (26.1) |
subtype1 | 12 | 27.2 (22.1) |
subtype2 | 24 | 38.5 (39.0) |
subtype3 | 6 | 34.7 (20.6) |
subtype4 | 7 | 26.7 (19.4) |
subtype5 | 2 | 9.5 (0.7) |
subtype6 | 41 | 28.1 (19.0) |
P value = 0.175 (Kruskal-Wallis (anova)), Q value = 0.24
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 68 | 1973.2 (16.4) |
subtype1 | 9 | 1976.0 (15.9) |
subtype2 | 21 | 1974.0 (15.2) |
subtype3 | 5 | 1976.0 (23.5) |
subtype4 | 4 | 1989.8 (16.7) |
subtype6 | 29 | 1969.0 (15.2) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 15 | 116 | 708 |
subtype1 | 0 | 2 | 10 | 74 |
subtype2 | 0 | 5 | 36 | 92 |
subtype3 | 0 | 3 | 14 | 186 |
subtype4 | 0 | 2 | 11 | 145 |
subtype5 | 0 | 1 | 12 | 97 |
subtype6 | 2 | 2 | 33 | 114 |
P value = 0.0816 (Fisher's exact test), Q value = 0.13
nPatients | HISPANIC OR LATINO | NOT HISPANIC OR LATINO |
---|---|---|
ALL | 42 | 603 |
subtype1 | 4 | 51 |
subtype2 | 8 | 105 |
subtype3 | 9 | 131 |
subtype4 | 5 | 110 |
subtype5 | 11 | 67 |
subtype6 | 5 | 139 |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 316 | 188 | 345 |
P value = 1.11e-07 (logrank test), Q value = 3.6e-06
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 833 | 209 | 0.1 - 194.8 (30.5) |
subtype1 | 303 | 38 | 0.1 - 194.8 (26.4) |
subtype2 | 186 | 66 | 0.1 - 129.9 (26.4) |
subtype3 | 344 | 105 | 0.2 - 120.6 (37.2) |
P value = 0.323 (Kruskal-Wallis (anova)), Q value = 0.39
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 844 | 60.1 (12.6) |
subtype1 | 312 | 59.4 (13.2) |
subtype2 | 188 | 59.6 (12.3) |
subtype3 | 344 | 61.1 (12.0) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 441 | 101 | 189 | 100 |
subtype1 | 183 | 47 | 55 | 15 |
subtype2 | 85 | 17 | 51 | 33 |
subtype3 | 173 | 37 | 83 | 52 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 455 | 121 | 250 | 15 |
subtype1 | 191 | 56 | 59 | 4 |
subtype2 | 87 | 18 | 72 | 9 |
subtype3 | 177 | 47 | 119 | 2 |
P value = 3e-05 (Fisher's exact test), Q value = 8.5e-05
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 311 | 43 | 6 |
subtype1 | 88 | 20 | 3 |
subtype2 | 73 | 16 | 3 |
subtype3 | 150 | 7 | 0 |
P value = 0.0336 (Fisher's exact test), Q value = 0.059
nPatients | 0 | 1 |
---|---|---|
ALL | 531 | 89 |
subtype1 | 128 | 11 |
subtype2 | 123 | 26 |
subtype3 | 280 | 52 |
P value = 0.178 (Fisher's exact test), Q value = 0.24
nPatients | FEMALE | MALE |
---|---|---|
ALL | 280 | 569 |
subtype1 | 92 | 224 |
subtype2 | 67 | 121 |
subtype3 | 121 | 224 |
P value = 0.858 (Kruskal-Wallis (anova)), Q value = 0.91
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 116 | 90.3 (17.5) |
subtype1 | 63 | 91.9 (14.1) |
subtype2 | 23 | 86.5 (23.9) |
subtype3 | 30 | 90.0 (18.6) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | KIDNEY CHROMOPHOBE | KIDNEY CLEAR CELL RENAL CARCINOMA | KIDNEY PAPILLARY RENAL CELL CARCINOMA |
---|---|---|---|
ALL | 66 | 512 | 271 |
subtype1 | 59 | 25 | 232 |
subtype2 | 6 | 145 | 37 |
subtype3 | 1 | 342 | 2 |
P value = 0.562 (Kruskal-Wallis (anova)), Q value = 0.64
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 93 | 30.3 (26.1) |
subtype1 | 70 | 29.9 (27.8) |
subtype2 | 15 | 33.6 (20.8) |
subtype3 | 8 | 27.2 (21.5) |
P value = 0.12 (Kruskal-Wallis (anova)), Q value = 0.18
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 69 | 1973.1 (16.3) |
subtype1 | 53 | 1970.8 (15.2) |
subtype2 | 11 | 1979.8 (15.3) |
subtype3 | 5 | 1982.2 (25.0) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 15 | 116 | 692 |
subtype1 | 2 | 8 | 58 | 233 |
subtype2 | 0 | 3 | 37 | 145 |
subtype3 | 0 | 4 | 21 | 314 |
P value = 0.556 (Fisher's exact test), Q value = 0.63
nPatients | HISPANIC OR LATINO | NOT HISPANIC OR LATINO |
---|---|---|
ALL | 40 | 594 |
subtype1 | 14 | 241 |
subtype2 | 7 | 124 |
subtype3 | 19 | 229 |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 77 | 574 | 198 |
P value = 7.81e-09 (logrank test), Q value = 3.4e-07
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 833 | 209 | 0.1 - 194.8 (30.5) |
subtype1 | 76 | 12 | 2.5 - 152.0 (60.3) |
subtype2 | 570 | 183 | 0.1 - 129.9 (32.2) |
subtype3 | 187 | 14 | 0.1 - 194.8 (21.3) |
P value = 4.58e-06 (Kruskal-Wallis (anova)), Q value = 3e-05
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 844 | 60.1 (12.6) |
subtype1 | 77 | 53.0 (13.9) |
subtype2 | 571 | 60.6 (12.3) |
subtype3 | 196 | 61.7 (11.7) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 441 | 101 | 189 | 100 |
subtype1 | 28 | 29 | 15 | 5 |
subtype2 | 273 | 55 | 153 | 91 |
subtype3 | 140 | 17 | 21 | 4 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 455 | 121 | 250 | 15 |
subtype1 | 28 | 29 | 19 | 1 |
subtype2 | 280 | 68 | 211 | 13 |
subtype3 | 147 | 24 | 20 | 1 |
P value = 0.161 (Fisher's exact test), Q value = 0.22
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 311 | 43 | 6 |
subtype1 | 49 | 2 | 2 |
subtype2 | 228 | 36 | 4 |
subtype3 | 34 | 5 | 0 |
P value = 0.00149 (Fisher's exact test), Q value = 0.0031
nPatients | 0 | 1 |
---|---|---|
ALL | 531 | 89 |
subtype1 | 50 | 3 |
subtype2 | 421 | 84 |
subtype3 | 60 | 2 |
P value = 0.00071 (Fisher's exact test), Q value = 0.0016
nPatients | FEMALE | MALE |
---|---|---|
ALL | 280 | 569 |
subtype1 | 28 | 49 |
subtype2 | 208 | 366 |
subtype3 | 44 | 154 |
P value = 0.161 (Kruskal-Wallis (anova)), Q value = 0.22
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 116 | 90.3 (17.5) |
subtype1 | 8 | 92.5 (7.1) |
subtype2 | 62 | 86.9 (22.6) |
subtype3 | 46 | 94.6 (7.2) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | KIDNEY CHROMOPHOBE | KIDNEY CLEAR CELL RENAL CARCINOMA | KIDNEY PAPILLARY RENAL CELL CARCINOMA |
---|---|---|---|
ALL | 66 | 512 | 271 |
subtype1 | 60 | 16 | 1 |
subtype2 | 6 | 491 | 77 |
subtype3 | 0 | 5 | 193 |
P value = 0.646 (Kruskal-Wallis (anova)), Q value = 0.72
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 93 | 30.3 (26.1) |
subtype1 | 10 | 25.6 (23.0) |
subtype2 | 30 | 34.6 (34.3) |
subtype3 | 53 | 28.8 (21.0) |
P value = 0.106 (Kruskal-Wallis (anova)), Q value = 0.16
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 69 | 1973.1 (16.3) |
subtype1 | 7 | 1975.0 (16.2) |
subtype2 | 21 | 1979.1 (18.7) |
subtype3 | 41 | 1969.7 (14.3) |
P value = 7e-05 (Fisher's exact test), Q value = 0.00018
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 15 | 116 | 692 |
subtype1 | 0 | 2 | 6 | 67 |
subtype2 | 0 | 10 | 65 | 489 |
subtype3 | 2 | 3 | 45 | 136 |
P value = 0.256 (Fisher's exact test), Q value = 0.32
nPatients | HISPANIC OR LATINO | NOT HISPANIC OR LATINO |
---|---|---|
ALL | 40 | 594 |
subtype1 | 4 | 41 |
subtype2 | 29 | 386 |
subtype3 | 7 | 167 |
Cluster Labels | 1 | 2 | 3 | 4 |
---|---|---|---|---|
Number of samples | 145 | 68 | 59 | 126 |
P value = 2.35e-06 (logrank test), Q value = 3e-05
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 386 | 80 | 0.1 - 194.8 (26.0) |
subtype1 | 138 | 13 | 0.1 - 194.8 (22.9) |
subtype2 | 66 | 9 | 1.2 - 152.0 (41.6) |
subtype3 | 57 | 20 | 0.1 - 129.9 (15.2) |
subtype4 | 125 | 38 | 0.1 - 120.6 (33.0) |
P value = 0.00264 (Kruskal-Wallis (anova)), Q value = 0.0053
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 394 | 59.8 (12.7) |
subtype1 | 144 | 61.5 (11.8) |
subtype2 | 66 | 53.8 (14.5) |
subtype3 | 59 | 61.3 (12.8) |
subtype4 | 125 | 60.2 (11.9) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 215 | 48 | 79 | 45 |
subtype1 | 102 | 11 | 19 | 4 |
subtype2 | 27 | 17 | 18 | 6 |
subtype3 | 23 | 4 | 15 | 15 |
subtype4 | 63 | 16 | 27 | 20 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 223 | 53 | 106 | 9 |
subtype1 | 106 | 13 | 20 | 1 |
subtype2 | 27 | 17 | 23 | 1 |
subtype3 | 24 | 5 | 23 | 5 |
subtype4 | 66 | 18 | 40 | 2 |
P value = 0.00063 (Fisher's exact test), Q value = 0.0015
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 122 | 29 | 6 |
subtype1 | 26 | 6 | 1 |
subtype2 | 33 | 6 | 2 |
subtype3 | 13 | 12 | 3 |
subtype4 | 50 | 5 | 0 |
P value = 0.038 (Fisher's exact test), Q value = 0.066
nPatients | 0 | 1 |
---|---|---|
ALL | 195 | 33 |
subtype1 | 45 | 2 |
subtype2 | 36 | 4 |
subtype3 | 25 | 8 |
subtype4 | 89 | 19 |
P value = 0.00102 (Fisher's exact test), Q value = 0.0022
nPatients | FEMALE | MALE |
---|---|---|
ALL | 128 | 270 |
subtype1 | 31 | 114 |
subtype2 | 32 | 36 |
subtype3 | 23 | 36 |
subtype4 | 42 | 84 |
P value = 0.077 (Kruskal-Wallis (anova)), Q value = 0.12
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 78 | 91.3 (14.7) |
subtype1 | 39 | 95.4 (6.0) |
subtype2 | 8 | 87.5 (10.4) |
subtype3 | 14 | 82.1 (28.6) |
subtype4 | 17 | 91.2 (11.1) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | KIDNEY CHROMOPHOBE | KIDNEY CLEAR CELL RENAL CARCINOMA | KIDNEY PAPILLARY RENAL CELL CARCINOMA |
---|---|---|---|
ALL | 48 | 142 | 208 |
subtype1 | 0 | 1 | 144 |
subtype2 | 46 | 4 | 18 |
subtype3 | 2 | 17 | 40 |
subtype4 | 0 | 120 | 6 |
P value = 0.638 (Kruskal-Wallis (anova)), Q value = 0.71
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 71 | 31.5 (28.3) |
subtype1 | 42 | 30.7 (21.1) |
subtype2 | 13 | 24.6 (21.6) |
subtype3 | 9 | 33.6 (25.2) |
subtype4 | 7 | 46.1 (64.5) |
P value = 0.148 (Kruskal-Wallis (anova)), Q value = 0.21
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 55 | 1972.2 (17.4) |
subtype1 | 33 | 1967.6 (14.6) |
subtype2 | 11 | 1979.1 (17.6) |
subtype3 | 6 | 1979.0 (16.9) |
subtype4 | 5 | 1979.8 (28.6) |
P value = 0.72 (Fisher's exact test), Q value = 0.79
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 9 | 68 | 305 |
subtype1 | 2 | 2 | 24 | 112 |
subtype2 | 0 | 2 | 11 | 52 |
subtype3 | 0 | 2 | 14 | 41 |
subtype4 | 0 | 3 | 19 | 100 |
P value = 0.694 (Fisher's exact test), Q value = 0.76
nPatients | HISPANIC OR LATINO | NOT HISPANIC OR LATINO |
---|---|---|
ALL | 20 | 289 |
subtype1 | 7 | 123 |
subtype2 | 4 | 34 |
subtype3 | 3 | 43 |
subtype4 | 6 | 89 |
Cluster Labels | 1 | 2 | 3 | 4 | 5 |
---|---|---|---|---|---|
Number of samples | 51 | 82 | 88 | 131 | 46 |
P value = 7.63e-07 (logrank test), Q value = 1.7e-05
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 386 | 80 | 0.1 - 194.8 (26.0) |
subtype1 | 48 | 4 | 0.1 - 194.8 (19.7) |
subtype2 | 78 | 4 | 0.5 - 123.6 (25.8) |
subtype3 | 85 | 28 | 0.1 - 100.9 (19.7) |
subtype4 | 130 | 37 | 0.1 - 120.6 (35.4) |
subtype5 | 45 | 7 | 2.5 - 152.0 (59.1) |
P value = 0.0106 (Kruskal-Wallis (anova)), Q value = 0.02
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 394 | 59.8 (12.7) |
subtype1 | 51 | 60.3 (12.0) |
subtype2 | 81 | 61.1 (11.4) |
subtype3 | 86 | 61.5 (13.9) |
subtype4 | 130 | 59.9 (11.7) |
subtype5 | 46 | 53.1 (14.6) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | STAGE I | STAGE II | STAGE III | STAGE IV |
---|---|---|---|---|
ALL | 215 | 48 | 79 | 45 |
subtype1 | 43 | 3 | 2 | 1 |
subtype2 | 56 | 7 | 12 | 1 |
subtype3 | 37 | 4 | 27 | 17 |
subtype4 | 66 | 17 | 26 | 22 |
subtype5 | 13 | 17 | 12 | 4 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 223 | 53 | 106 | 9 |
subtype1 | 44 | 2 | 2 | 1 |
subtype2 | 59 | 9 | 12 | 0 |
subtype3 | 39 | 6 | 35 | 5 |
subtype4 | 68 | 19 | 41 | 3 |
subtype5 | 13 | 17 | 16 | 0 |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 122 | 29 | 6 |
subtype1 | 10 | 1 | 0 |
subtype2 | 13 | 3 | 0 |
subtype3 | 16 | 19 | 4 |
subtype4 | 54 | 4 | 0 |
subtype5 | 29 | 2 | 2 |
P value = 0.0142 (Fisher's exact test), Q value = 0.026
nPatients | 0 | 1 |
---|---|---|
ALL | 195 | 33 |
subtype1 | 16 | 0 |
subtype2 | 23 | 0 |
subtype3 | 37 | 10 |
subtype4 | 91 | 21 |
subtype5 | 28 | 2 |
P value = 0.00134 (Fisher's exact test), Q value = 0.0029
nPatients | FEMALE | MALE |
---|---|---|
ALL | 128 | 270 |
subtype1 | 13 | 38 |
subtype2 | 14 | 68 |
subtype3 | 38 | 50 |
subtype4 | 43 | 88 |
subtype5 | 20 | 26 |
P value = 0.138 (Kruskal-Wallis (anova)), Q value = 0.2
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 78 | 91.3 (14.7) |
subtype1 | 14 | 95.7 (5.1) |
subtype2 | 21 | 94.8 (6.8) |
subtype3 | 20 | 83.0 (24.1) |
subtype4 | 20 | 92.5 (10.7) |
subtype5 | 3 | 93.3 (11.5) |
P value = 1e-05 (Fisher's exact test), Q value = 3e-05
nPatients | KIDNEY CHROMOPHOBE | KIDNEY CLEAR CELL RENAL CARCINOMA | KIDNEY PAPILLARY RENAL CELL CARCINOMA |
---|---|---|---|
ALL | 48 | 142 | 208 |
subtype1 | 0 | 0 | 51 |
subtype2 | 0 | 1 | 81 |
subtype3 | 6 | 11 | 71 |
subtype4 | 0 | 127 | 4 |
subtype5 | 42 | 3 | 1 |
P value = 0.481 (Kruskal-Wallis (anova)), Q value = 0.55
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 71 | 31.5 (28.3) |
subtype1 | 19 | 29.4 (21.4) |
subtype2 | 19 | 34.2 (25.3) |
subtype3 | 16 | 37.4 (41.9) |
subtype4 | 8 | 26.0 (23.6) |
subtype5 | 9 | 24.6 (24.2) |
P value = 0.175 (Kruskal-Wallis (anova)), Q value = 0.24
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 55 | 1972.2 (17.4) |
subtype1 | 14 | 1969.6 (15.2) |
subtype2 | 15 | 1966.4 (15.6) |
subtype3 | 15 | 1974.0 (17.0) |
subtype4 | 5 | 1988.8 (24.0) |
subtype5 | 6 | 1974.7 (17.7) |
P value = 0.0763 (Fisher's exact test), Q value = 0.12
nPatients | AMERICAN INDIAN OR ALASKA NATIVE | ASIAN | BLACK OR AFRICAN AMERICAN | WHITE |
---|---|---|---|---|
ALL | 2 | 9 | 68 | 305 |
subtype1 | 0 | 1 | 7 | 41 |
subtype2 | 2 | 1 | 15 | 61 |
subtype3 | 0 | 3 | 22 | 59 |
subtype4 | 0 | 3 | 22 | 103 |
subtype5 | 0 | 1 | 2 | 41 |
P value = 0.0663 (Fisher's exact test), Q value = 0.11
nPatients | HISPANIC OR LATINO | NOT HISPANIC OR LATINO |
---|---|---|
ALL | 20 | 289 |
subtype1 | 4 | 44 |
subtype2 | 1 | 70 |
subtype3 | 5 | 65 |
subtype4 | 6 | 92 |
subtype5 | 4 | 18 |
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Cluster data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/KIPAN-TP/15165233/KIPAN-TP.mergedcluster.txt
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Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/KIPAN-TP/15081103/KIPAN-TP.merged_data.txt
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Number of patients = 869
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Number of clustering approaches = 10
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Number of selected clinical features = 13
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Exclude small clusters that include fewer than K patients, K = 3
consensus non-negative matrix factorization clustering approach (Brunet et al. 2004)
Resampling-based clustering method (Monti et al. 2003)
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 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.
In addition to the links below, the full results of the analysis summarized in this report can also be downloaded programmatically using firehose_get, or interactively from either the Broad GDAC website or TCGA Data Coordination Center Portal.