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 12 clinical features across 260 patients, 9 significant findings detected with P value < 0.05 and Q value < 0.25.
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3 subtypes identified in current cancer cohort by 'Copy Number Ratio CNMF subtypes'. These subtypes do not correlate to any clinical features.
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3 subtypes identified in current cancer cohort by 'METHLYATION CNMF'. These subtypes correlate to 'Time from Specimen Diagnosis to Death'.
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CNMF clustering analysis on RPPA data identified 4 subtypes that do not correlate to any clinical features.
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Consensus hierarchical clustering analysis on RPPA data identified 3 subtypes that do not correlate to any clinical features.
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CNMF clustering analysis on sequencing-based mRNA expression data identified 3 subtypes that correlate to 'Time from Specimen Diagnosis to Death', 'Time to Death', and 'PRIMARY.SITE.OF.DISEASE'.
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Consensus hierarchical clustering analysis on sequencing-based mRNA expression data identified 3 subtypes that correlate to 'Time from Specimen Diagnosis to Death', 'AGE', 'PRIMARY.SITE.OF.DISEASE', and 'PATHOLOGY.T.STAGE'.
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3 subtypes identified in current cancer cohort by 'MIRSEQ CNMF'. These subtypes do not correlate to any clinical features.
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4 subtypes identified in current cancer cohort by 'MIRSEQ CHIERARCHICAL'. These subtypes do not correlate to any clinical features.
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3 subtypes identified in current cancer cohort by 'MIRseq Mature CNMF subtypes'. These subtypes correlate to 'PATHOLOGY.T.STAGE'.
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4 subtypes identified in current cancer cohort by 'MIRseq Mature cHierClus subtypes'. These subtypes do not correlate to any clinical features.
Clinical Features |
Statistical Tests |
Copy Number Ratio CNMF subtypes |
METHLYATION CNMF |
RPPA CNMF subtypes |
RPPA cHierClus subtypes |
RNAseq CNMF subtypes |
RNAseq cHierClus subtypes |
MIRSEQ CNMF |
MIRSEQ CHIERARCHICAL |
MIRseq Mature CNMF subtypes |
MIRseq Mature cHierClus subtypes |
Time from Specimen Diagnosis to Death | logrank test |
0.0252 (1.00) |
0.000154 (0.0181) |
0.133 (1.00) |
0.227 (1.00) |
5.83e-06 (7e-04) |
1.58e-05 (0.00187) |
0.0322 (1.00) |
0.111 (1.00) |
0.0105 (1.00) |
0.0602 (1.00) |
Time to Death | logrank test |
0.21 (1.00) |
0.0182 (1.00) |
0.17 (1.00) |
0.812 (1.00) |
0.00107 (0.121) |
0.0233 (1.00) |
0.0911 (1.00) |
0.566 (1.00) |
0.0545 (1.00) |
0.339 (1.00) |
AGE | ANOVA |
0.0165 (1.00) |
0.293 (1.00) |
0.138 (1.00) |
0.821 (1.00) |
0.00727 (0.8) |
0.000476 (0.0547) |
0.358 (1.00) |
0.0552 (1.00) |
0.0576 (1.00) |
0.721 (1.00) |
PRIMARY SITE OF DISEASE | Chi-square test |
0.487 (1.00) |
0.0029 (0.322) |
0.0775 (1.00) |
0.515 (1.00) |
0.00101 (0.116) |
9.62e-06 (0.00115) |
0.0376 (1.00) |
0.713 (1.00) |
0.0102 (1.00) |
0.0826 (1.00) |
NEOPLASM DISEASESTAGE | Chi-square test |
0.435 (1.00) |
0.381 (1.00) |
0.511 (1.00) |
0.157 (1.00) |
0.111 (1.00) |
0.0344 (1.00) |
0.734 (1.00) |
0.3 (1.00) |
0.304 (1.00) |
0.31 (1.00) |
PATHOLOGY T STAGE | Chi-square test |
0.518 (1.00) |
0.215 (1.00) |
0.351 (1.00) |
0.606 (1.00) |
0.0887 (1.00) |
0.00144 (0.161) |
0.188 (1.00) |
0.179 (1.00) |
0.000469 (0.0544) |
0.534 (1.00) |
PATHOLOGY N STAGE | Chi-square test |
0.585 (1.00) |
0.0665 (1.00) |
0.423 (1.00) |
0.216 (1.00) |
0.649 (1.00) |
0.993 (1.00) |
0.55 (1.00) |
0.886 (1.00) |
0.915 (1.00) |
0.969 (1.00) |
PATHOLOGY M STAGE | Chi-square test |
0.701 (1.00) |
0.725 (1.00) |
0.166 (1.00) |
0.921 (1.00) |
0.897 (1.00) |
0.371 (1.00) |
0.938 (1.00) |
0.609 (1.00) |
0.936 (1.00) |
0.646 (1.00) |
MELANOMA ULCERATION | Fisher's exact test |
0.838 (1.00) |
0.234 (1.00) |
0.607 (1.00) |
0.583 (1.00) |
0.305 (1.00) |
0.212 (1.00) |
0.246 (1.00) |
0.711 (1.00) |
0.411 (1.00) |
0.717 (1.00) |
MELANOMA PRIMARY KNOWN | Fisher's exact test |
0.316 (1.00) |
0.287 (1.00) |
0.581 (1.00) |
0.164 (1.00) |
0.0188 (1.00) |
0.194 (1.00) |
0.168 (1.00) |
0.286 (1.00) |
0.111 (1.00) |
0.0415 (1.00) |
BRESLOW THICKNESS | ANOVA |
0.903 (1.00) |
0.824 (1.00) |
0.928 (1.00) |
0.576 (1.00) |
0.16 (1.00) |
0.137 (1.00) |
0.806 (1.00) |
0.899 (1.00) |
0.886 (1.00) |
0.824 (1.00) |
GENDER | Fisher's exact test |
0.443 (1.00) |
0.811 (1.00) |
0.826 (1.00) |
0.202 (1.00) |
0.48 (1.00) |
0.626 (1.00) |
0.0743 (1.00) |
0.793 (1.00) |
0.277 (1.00) |
0.58 (1.00) |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 95 | 73 | 92 |
P value = 0.0252 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 247 | 120 | 0.1 - 124.3 (13.9) |
subtype1 | 91 | 48 | 0.1 - 122.7 (11.2) |
subtype2 | 66 | 35 | 1.9 - 111.1 (13.2) |
subtype3 | 90 | 37 | 0.1 - 124.3 (19.0) |
P value = 0.21 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 254 | 122 | 0.2 - 357.4 (48.2) |
subtype1 | 94 | 49 | 0.2 - 268.9 (45.7) |
subtype2 | 69 | 36 | 3.2 - 357.4 (56.2) |
subtype3 | 91 | 37 | 2.4 - 314.5 (48.8) |
P value = 0.0165 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 256 | 55.6 (15.8) |
subtype1 | 94 | 57.4 (17.2) |
subtype2 | 70 | 51.0 (15.7) |
subtype3 | 92 | 57.2 (13.7) |
P value = 0.487 (Chi-square test), Q value = 1
nPatients | DISTANT METASTASIS | PRIMARY TUMOR | REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE | REGIONAL LYMPH NODE |
---|---|---|---|---|
ALL | 33 | 1 | 55 | 170 |
subtype1 | 16 | 1 | 18 | 59 |
subtype2 | 9 | 0 | 18 | 46 |
subtype3 | 8 | 0 | 19 | 65 |
P value = 0.435 (Chi-square test), Q value = 1
nPatients | I OR II NOS | STAGE 0 | STAGE I | STAGE IA | STAGE IB | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 10 | 5 | 21 | 10 | 24 | 16 | 10 | 13 | 10 | 30 | 11 | 23 | 41 | 12 |
subtype1 | 1 | 1 | 5 | 3 | 11 | 7 | 3 | 5 | 6 | 10 | 4 | 11 | 12 | 5 |
subtype2 | 6 | 1 | 5 | 3 | 5 | 6 | 3 | 2 | 3 | 10 | 1 | 8 | 10 | 4 |
subtype3 | 3 | 3 | 11 | 4 | 8 | 3 | 4 | 6 | 1 | 10 | 6 | 4 | 19 | 3 |
P value = 0.518 (Chi-square test), Q value = 1
nPatients | T0+T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 51 | 57 | 50 | 53 |
subtype1 | 16 | 21 | 18 | 22 |
subtype2 | 20 | 16 | 12 | 11 |
subtype3 | 15 | 20 | 20 | 20 |
P value = 0.585 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 | N3 |
---|---|---|---|---|
ALL | 134 | 48 | 31 | 31 |
subtype1 | 49 | 14 | 15 | 10 |
subtype2 | 39 | 16 | 8 | 7 |
subtype3 | 46 | 18 | 8 | 14 |
P value = 0.701 (Chi-square test), Q value = 1
nPatients | M0 | M1 | M1A | M1B | M1C |
---|---|---|---|---|---|
ALL | 233 | 4 | 2 | 2 | 5 |
subtype1 | 82 | 2 | 1 | 1 | 2 |
subtype2 | 67 | 1 | 0 | 0 | 3 |
subtype3 | 84 | 1 | 1 | 1 | 0 |
P value = 0.838 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 98 | 64 |
subtype1 | 39 | 24 |
subtype2 | 22 | 17 |
subtype3 | 37 | 23 |
P value = 0.316 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 31 | 229 |
subtype1 | 11 | 84 |
subtype2 | 12 | 61 |
subtype3 | 8 | 84 |
P value = 0.903 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 192 | 3.6 (5.1) |
subtype1 | 74 | 3.4 (3.9) |
subtype2 | 48 | 3.6 (7.4) |
subtype3 | 70 | 3.8 (4.3) |
P value = 0.443 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 101 | 159 |
subtype1 | 39 | 56 |
subtype2 | 31 | 42 |
subtype3 | 31 | 61 |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 65 | 94 | 101 |
P value = 0.000154 (logrank test), Q value = 0.018
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 247 | 120 | 0.1 - 124.3 (13.9) |
subtype1 | 64 | 40 | 0.1 - 111.1 (10.9) |
subtype2 | 89 | 41 | 0.1 - 114.2 (13.9) |
subtype3 | 94 | 39 | 0.1 - 124.3 (19.0) |
P value = 0.0182 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 254 | 122 | 0.2 - 357.4 (48.2) |
subtype1 | 64 | 40 | 0.2 - 247.0 (40.9) |
subtype2 | 92 | 43 | 0.9 - 357.4 (54.9) |
subtype3 | 98 | 39 | 2.4 - 346.0 (47.0) |
P value = 0.293 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 256 | 55.6 (15.8) |
subtype1 | 64 | 54.4 (16.1) |
subtype2 | 92 | 57.7 (16.4) |
subtype3 | 100 | 54.5 (14.9) |
P value = 0.0029 (Chi-square test), Q value = 0.32
nPatients | DISTANT METASTASIS | PRIMARY TUMOR | REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE | REGIONAL LYMPH NODE |
---|---|---|---|---|
ALL | 33 | 1 | 55 | 170 |
subtype1 | 15 | 1 | 15 | 34 |
subtype2 | 14 | 0 | 22 | 58 |
subtype3 | 4 | 0 | 18 | 78 |
P value = 0.381 (Chi-square test), Q value = 1
nPatients | I OR II NOS | STAGE 0 | STAGE I | STAGE IA | STAGE IB | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 10 | 5 | 21 | 10 | 24 | 16 | 10 | 13 | 10 | 30 | 11 | 23 | 41 | 12 |
subtype1 | 1 | 2 | 4 | 1 | 7 | 8 | 2 | 4 | 4 | 6 | 2 | 6 | 11 | 3 |
subtype2 | 6 | 1 | 6 | 6 | 9 | 5 | 5 | 7 | 5 | 8 | 6 | 7 | 12 | 3 |
subtype3 | 3 | 2 | 11 | 3 | 8 | 3 | 3 | 2 | 1 | 16 | 3 | 10 | 18 | 6 |
P value = 0.215 (Chi-square test), Q value = 1
nPatients | T0+T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 51 | 57 | 50 | 53 |
subtype1 | 7 | 20 | 11 | 15 |
subtype2 | 19 | 18 | 19 | 21 |
subtype3 | 25 | 19 | 20 | 17 |
P value = 0.0665 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 | N3 |
---|---|---|---|---|
ALL | 134 | 48 | 31 | 31 |
subtype1 | 36 | 14 | 6 | 5 |
subtype2 | 56 | 10 | 14 | 10 |
subtype3 | 42 | 24 | 11 | 16 |
P value = 0.725 (Chi-square test), Q value = 1
nPatients | M0 | M1 | M1A | M1B | M1C |
---|---|---|---|---|---|
ALL | 233 | 4 | 2 | 2 | 5 |
subtype1 | 57 | 2 | 1 | 0 | 0 |
subtype2 | 88 | 1 | 0 | 1 | 2 |
subtype3 | 88 | 1 | 1 | 1 | 3 |
P value = 0.234 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 98 | 64 |
subtype1 | 17 | 18 |
subtype2 | 42 | 26 |
subtype3 | 39 | 20 |
P value = 0.287 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 31 | 229 |
subtype1 | 7 | 58 |
subtype2 | 8 | 86 |
subtype3 | 16 | 85 |
P value = 0.824 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 192 | 3.6 (5.1) |
subtype1 | 50 | 3.6 (5.0) |
subtype2 | 73 | 3.3 (2.7) |
subtype3 | 69 | 3.8 (6.8) |
P value = 0.811 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 101 | 159 |
subtype1 | 24 | 41 |
subtype2 | 39 | 55 |
subtype3 | 38 | 63 |
Cluster Labels | 1 | 2 | 3 | 4 |
---|---|---|---|---|
Number of samples | 46 | 53 | 27 | 38 |
P value = 0.133 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 155 | 82 | 0.2 - 124.3 (13.7) |
subtype1 | 44 | 20 | 3.5 - 111.9 (14.2) |
subtype2 | 50 | 28 | 0.2 - 114.2 (18.2) |
subtype3 | 25 | 14 | 1.9 - 68.1 (6.6) |
subtype4 | 36 | 20 | 1.1 - 124.3 (13.7) |
P value = 0.17 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 159 | 83 | 0.2 - 357.4 (50.7) |
subtype1 | 44 | 20 | 9.9 - 346.0 (55.3) |
subtype2 | 53 | 29 | 0.2 - 357.4 (54.7) |
subtype3 | 26 | 14 | 3.6 - 162.1 (40.3) |
subtype4 | 36 | 20 | 2.6 - 176.6 (40.0) |
P value = 0.138 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 161 | 55.3 (15.9) |
subtype1 | 45 | 50.9 (13.2) |
subtype2 | 53 | 55.9 (15.8) |
subtype3 | 27 | 57.0 (16.9) |
subtype4 | 36 | 58.7 (17.6) |
P value = 0.0775 (Chi-square test), Q value = 1
nPatients | DISTANT METASTASIS | PRIMARY TUMOR | REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE | REGIONAL LYMPH NODE |
---|---|---|---|---|
ALL | 21 | 1 | 28 | 113 |
subtype1 | 2 | 0 | 14 | 30 |
subtype2 | 10 | 1 | 6 | 36 |
subtype3 | 5 | 0 | 5 | 17 |
subtype4 | 4 | 0 | 3 | 30 |
P value = 0.511 (Chi-square test), Q value = 1
nPatients | I OR II NOS | STAGE 0 | STAGE I | STAGE IA | STAGE IB | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 8 | 2 | 13 | 8 | 16 | 7 | 5 | 6 | 3 | 20 | 5 | 15 | 26 | 9 |
subtype1 | 2 | 1 | 6 | 1 | 7 | 1 | 2 | 1 | 0 | 3 | 3 | 6 | 8 | 2 |
subtype2 | 2 | 1 | 5 | 1 | 6 | 2 | 2 | 2 | 3 | 8 | 1 | 1 | 6 | 5 |
subtype3 | 1 | 0 | 1 | 2 | 1 | 1 | 0 | 1 | 0 | 5 | 1 | 4 | 5 | 0 |
subtype4 | 3 | 0 | 1 | 4 | 2 | 3 | 1 | 2 | 0 | 4 | 0 | 4 | 7 | 2 |
P value = 0.351 (Chi-square test), Q value = 1
nPatients | T0+T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 36 | 35 | 28 | 31 |
subtype1 | 8 | 12 | 11 | 9 |
subtype2 | 8 | 11 | 6 | 13 |
subtype3 | 7 | 7 | 5 | 3 |
subtype4 | 13 | 5 | 6 | 6 |
P value = 0.423 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 | N3 |
---|---|---|---|---|
ALL | 82 | 25 | 24 | 21 |
subtype1 | 22 | 8 | 5 | 8 |
subtype2 | 32 | 5 | 6 | 6 |
subtype3 | 9 | 6 | 7 | 3 |
subtype4 | 19 | 6 | 6 | 4 |
P value = 0.166 (Chi-square test), Q value = 1
nPatients | M0 | M1 | M1A | M1B | M1C |
---|---|---|---|---|---|
ALL | 145 | 4 | 2 | 2 | 2 |
subtype1 | 42 | 1 | 1 | 0 | 0 |
subtype2 | 43 | 3 | 1 | 2 | 0 |
subtype3 | 26 | 0 | 0 | 0 | 0 |
subtype4 | 34 | 0 | 0 | 0 | 2 |
P value = 0.607 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 64 | 36 |
subtype1 | 19 | 8 |
subtype2 | 23 | 13 |
subtype3 | 11 | 5 |
subtype4 | 11 | 10 |
P value = 0.581 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 24 | 140 |
subtype1 | 5 | 41 |
subtype2 | 8 | 45 |
subtype3 | 3 | 24 |
subtype4 | 8 | 30 |
P value = 0.928 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 116 | 3.4 (5.3) |
subtype1 | 36 | 3.7 (8.2) |
subtype2 | 36 | 3.5 (3.1) |
subtype3 | 21 | 2.7 (3.8) |
subtype4 | 23 | 3.6 (3.6) |
P value = 0.826 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 64 | 100 |
subtype1 | 17 | 29 |
subtype2 | 19 | 34 |
subtype3 | 11 | 16 |
subtype4 | 17 | 21 |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 65 | 56 | 43 |
P value = 0.227 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 155 | 82 | 0.2 - 124.3 (13.7) |
subtype1 | 60 | 32 | 0.2 - 111.9 (11.7) |
subtype2 | 55 | 29 | 3.5 - 124.3 (16.0) |
subtype3 | 40 | 21 | 1.4 - 84.7 (15.8) |
P value = 0.812 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 159 | 83 | 0.2 - 357.4 (50.7) |
subtype1 | 64 | 33 | 0.2 - 248.6 (43.9) |
subtype2 | 55 | 29 | 6.4 - 357.4 (53.5) |
subtype3 | 40 | 21 | 9.9 - 346.0 (54.7) |
P value = 0.821 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 161 | 55.3 (15.9) |
subtype1 | 65 | 56.2 (16.8) |
subtype2 | 55 | 54.5 (15.3) |
subtype3 | 41 | 55.0 (15.3) |
P value = 0.515 (Chi-square test), Q value = 1
nPatients | DISTANT METASTASIS | PRIMARY TUMOR | REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE | REGIONAL LYMPH NODE |
---|---|---|---|---|
ALL | 21 | 1 | 28 | 113 |
subtype1 | 9 | 0 | 11 | 44 |
subtype2 | 9 | 1 | 7 | 39 |
subtype3 | 3 | 0 | 10 | 30 |
P value = 0.157 (Chi-square test), Q value = 1
nPatients | I OR II NOS | STAGE 0 | STAGE I | STAGE IA | STAGE IB | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 8 | 2 | 13 | 8 | 16 | 7 | 5 | 6 | 3 | 20 | 5 | 15 | 26 | 9 |
subtype1 | 2 | 0 | 5 | 5 | 6 | 6 | 0 | 2 | 0 | 8 | 2 | 7 | 8 | 4 |
subtype2 | 3 | 1 | 6 | 2 | 5 | 0 | 4 | 4 | 3 | 8 | 1 | 2 | 8 | 2 |
subtype3 | 3 | 1 | 2 | 1 | 5 | 1 | 1 | 0 | 0 | 4 | 2 | 6 | 10 | 3 |
P value = 0.606 (Chi-square test), Q value = 1
nPatients | T0+T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 36 | 35 | 28 | 31 |
subtype1 | 15 | 14 | 11 | 13 |
subtype2 | 14 | 10 | 6 | 11 |
subtype3 | 7 | 11 | 11 | 7 |
P value = 0.216 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 | N3 |
---|---|---|---|---|
ALL | 82 | 25 | 24 | 21 |
subtype1 | 33 | 11 | 10 | 5 |
subtype2 | 32 | 4 | 8 | 8 |
subtype3 | 17 | 10 | 6 | 8 |
P value = 0.921 (Chi-square test), Q value = 1
nPatients | M0 | M1 | M1A | M1B | M1C |
---|---|---|---|---|---|
ALL | 145 | 4 | 2 | 2 | 2 |
subtype1 | 57 | 2 | 1 | 1 | 1 |
subtype2 | 49 | 1 | 0 | 1 | 0 |
subtype3 | 39 | 1 | 1 | 0 | 1 |
P value = 0.583 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 64 | 36 |
subtype1 | 31 | 14 |
subtype2 | 20 | 12 |
subtype3 | 13 | 10 |
P value = 0.164 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 24 | 140 |
subtype1 | 6 | 59 |
subtype2 | 12 | 44 |
subtype3 | 6 | 37 |
P value = 0.576 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 116 | 3.4 (5.3) |
subtype1 | 50 | 3.0 (3.3) |
subtype2 | 35 | 3.2 (3.0) |
subtype3 | 31 | 4.3 (8.9) |
P value = 0.202 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 64 | 100 |
subtype1 | 29 | 36 |
subtype2 | 23 | 33 |
subtype3 | 12 | 31 |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 89 | 71 | 98 |
P value = 5.83e-06 (logrank test), Q value = 7e-04
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 246 | 120 | 0.1 - 124.3 (13.9) |
subtype1 | 84 | 48 | 1.7 - 122.7 (15.3) |
subtype2 | 69 | 20 | 0.4 - 124.3 (24.0) |
subtype3 | 93 | 52 | 0.1 - 99.5 (10.0) |
P value = 0.00107 (logrank test), Q value = 0.12
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 252 | 122 | 0.2 - 357.4 (48.7) |
subtype1 | 86 | 50 | 4.9 - 357.4 (57.1) |
subtype2 | 70 | 20 | 2.4 - 268.9 (54.0) |
subtype3 | 96 | 52 | 0.2 - 247.0 (40.9) |
P value = 0.00727 (ANOVA), Q value = 0.8
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 254 | 55.5 (15.8) |
subtype1 | 86 | 51.3 (15.6) |
subtype2 | 71 | 57.1 (15.3) |
subtype3 | 97 | 58.2 (15.7) |
P value = 0.00101 (Chi-square test), Q value = 0.12
nPatients | DISTANT METASTASIS | PRIMARY TUMOR | REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE | REGIONAL LYMPH NODE |
---|---|---|---|---|
ALL | 33 | 1 | 55 | 168 |
subtype1 | 9 | 0 | 30 | 50 |
subtype2 | 4 | 0 | 11 | 56 |
subtype3 | 20 | 1 | 14 | 62 |
P value = 0.111 (Chi-square test), Q value = 1
nPatients | I OR II NOS | STAGE 0 | STAGE I | STAGE IA | STAGE IB | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 10 | 5 | 21 | 10 | 24 | 16 | 10 | 13 | 10 | 30 | 11 | 22 | 41 | 12 |
subtype1 | 4 | 3 | 9 | 1 | 8 | 7 | 3 | 3 | 1 | 13 | 5 | 6 | 11 | 7 |
subtype2 | 3 | 1 | 8 | 6 | 5 | 4 | 4 | 1 | 2 | 9 | 0 | 5 | 14 | 2 |
subtype3 | 3 | 1 | 4 | 3 | 11 | 5 | 3 | 9 | 7 | 8 | 6 | 11 | 16 | 3 |
P value = 0.0887 (Chi-square test), Q value = 1
nPatients | T0+T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 51 | 57 | 49 | 53 |
subtype1 | 18 | 25 | 15 | 12 |
subtype2 | 19 | 12 | 12 | 14 |
subtype3 | 14 | 20 | 22 | 27 |
P value = 0.649 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 | N3 |
---|---|---|---|---|
ALL | 134 | 47 | 31 | 31 |
subtype1 | 45 | 17 | 12 | 10 |
subtype2 | 40 | 14 | 4 | 9 |
subtype3 | 49 | 16 | 15 | 12 |
P value = 0.897 (Chi-square test), Q value = 1
nPatients | M0 | M1 | M1A | M1B | M1C |
---|---|---|---|---|---|
ALL | 232 | 4 | 2 | 2 | 5 |
subtype1 | 78 | 2 | 1 | 1 | 3 |
subtype2 | 64 | 1 | 0 | 0 | 1 |
subtype3 | 90 | 1 | 1 | 1 | 1 |
P value = 0.305 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 98 | 64 |
subtype1 | 27 | 18 |
subtype2 | 30 | 13 |
subtype3 | 41 | 33 |
P value = 0.0188 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 31 | 227 |
subtype1 | 15 | 74 |
subtype2 | 11 | 60 |
subtype3 | 5 | 93 |
P value = 0.16 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 192 | 3.6 (5.1) |
subtype1 | 61 | 3.1 (6.6) |
subtype2 | 50 | 2.8 (3.5) |
subtype3 | 81 | 4.4 (4.5) |
P value = 0.48 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 100 | 158 |
subtype1 | 39 | 50 |
subtype2 | 25 | 46 |
subtype3 | 36 | 62 |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 71 | 111 | 76 |
P value = 1.58e-05 (logrank test), Q value = 0.0019
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 246 | 120 | 0.1 - 124.3 (13.9) |
subtype1 | 68 | 39 | 1.7 - 122.7 (14.4) |
subtype2 | 103 | 37 | 0.2 - 124.3 (22.2) |
subtype3 | 75 | 44 | 0.1 - 95.4 (9.9) |
P value = 0.0233 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 252 | 122 | 0.2 - 357.4 (48.7) |
subtype1 | 69 | 40 | 4.9 - 357.4 (58.0) |
subtype2 | 108 | 38 | 0.9 - 268.9 (47.7) |
subtype3 | 75 | 44 | 0.2 - 314.5 (43.4) |
P value = 0.000476 (ANOVA), Q value = 0.055
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 254 | 55.5 (15.8) |
subtype1 | 69 | 49.9 (15.1) |
subtype2 | 110 | 56.0 (15.4) |
subtype3 | 75 | 60.0 (15.6) |
P value = 9.62e-06 (Chi-square test), Q value = 0.0011
nPatients | DISTANT METASTASIS | PRIMARY TUMOR | REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE | REGIONAL LYMPH NODE |
---|---|---|---|---|
ALL | 33 | 1 | 55 | 168 |
subtype1 | 9 | 0 | 23 | 39 |
subtype2 | 5 | 0 | 15 | 91 |
subtype3 | 19 | 1 | 17 | 38 |
P value = 0.0344 (Chi-square test), Q value = 1
nPatients | I OR II NOS | STAGE 0 | STAGE I | STAGE IA | STAGE IB | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 10 | 5 | 21 | 10 | 24 | 16 | 10 | 13 | 10 | 30 | 11 | 22 | 41 | 12 |
subtype1 | 3 | 3 | 8 | 1 | 7 | 5 | 2 | 2 | 1 | 11 | 4 | 4 | 8 | 5 |
subtype2 | 5 | 2 | 10 | 7 | 12 | 4 | 4 | 3 | 2 | 15 | 1 | 9 | 20 | 4 |
subtype3 | 2 | 0 | 3 | 2 | 5 | 7 | 4 | 8 | 7 | 4 | 6 | 9 | 13 | 3 |
P value = 0.00144 (Chi-square test), Q value = 0.16
nPatients | T0+T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 51 | 57 | 49 | 53 |
subtype1 | 13 | 21 | 13 | 8 |
subtype2 | 29 | 24 | 15 | 19 |
subtype3 | 9 | 12 | 21 | 26 |
P value = 0.993 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 | N3 |
---|---|---|---|---|
ALL | 134 | 47 | 31 | 31 |
subtype1 | 38 | 14 | 8 | 7 |
subtype2 | 57 | 19 | 14 | 15 |
subtype3 | 39 | 14 | 9 | 9 |
P value = 0.371 (Chi-square test), Q value = 1
nPatients | M0 | M1 | M1A | M1B | M1C |
---|---|---|---|---|---|
ALL | 232 | 4 | 2 | 2 | 5 |
subtype1 | 62 | 1 | 1 | 1 | 2 |
subtype2 | 101 | 0 | 1 | 1 | 3 |
subtype3 | 69 | 3 | 0 | 0 | 0 |
P value = 0.212 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 98 | 64 |
subtype1 | 21 | 13 |
subtype2 | 47 | 23 |
subtype3 | 30 | 28 |
P value = 0.194 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 31 | 227 |
subtype1 | 11 | 60 |
subtype2 | 15 | 96 |
subtype3 | 5 | 71 |
P value = 0.137 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 192 | 3.6 (5.1) |
subtype1 | 50 | 3.2 (7.2) |
subtype2 | 77 | 3.0 (3.5) |
subtype3 | 65 | 4.6 (4.5) |
P value = 0.626 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 100 | 158 |
subtype1 | 31 | 40 |
subtype2 | 41 | 70 |
subtype3 | 28 | 48 |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 69 | 104 | 78 |
P value = 0.0322 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 239 | 119 | 0.1 - 124.3 (14.2) |
subtype1 | 66 | 23 | 0.1 - 122.7 (16.0) |
subtype2 | 99 | 57 | 0.1 - 124.3 (12.9) |
subtype3 | 74 | 39 | 1.0 - 111.1 (14.8) |
P value = 0.0911 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 245 | 121 | 0.2 - 357.4 (47.8) |
subtype1 | 67 | 24 | 0.2 - 357.4 (34.3) |
subtype2 | 104 | 58 | 2.6 - 247.0 (47.5) |
subtype3 | 74 | 39 | 4.9 - 314.5 (61.1) |
P value = 0.358 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 247 | 55.6 (15.6) |
subtype1 | 68 | 56.4 (14.7) |
subtype2 | 104 | 56.7 (16.8) |
subtype3 | 75 | 53.5 (14.8) |
P value = 0.0376 (Chi-square test), Q value = 1
nPatients | DISTANT METASTASIS | PRIMARY TUMOR | REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE | REGIONAL LYMPH NODE |
---|---|---|---|---|
ALL | 32 | 1 | 53 | 164 |
subtype1 | 6 | 1 | 14 | 48 |
subtype2 | 17 | 0 | 14 | 72 |
subtype3 | 9 | 0 | 25 | 44 |
P value = 0.734 (Chi-square test), Q value = 1
nPatients | I OR II NOS | STAGE 0 | STAGE I | STAGE IA | STAGE IB | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 10 | 5 | 21 | 10 | 24 | 14 | 9 | 13 | 9 | 28 | 11 | 22 | 40 | 12 |
subtype1 | 4 | 1 | 5 | 3 | 3 | 5 | 2 | 1 | 2 | 7 | 2 | 9 | 11 | 5 |
subtype2 | 3 | 2 | 7 | 6 | 11 | 7 | 4 | 8 | 4 | 10 | 4 | 10 | 14 | 5 |
subtype3 | 3 | 2 | 9 | 1 | 10 | 2 | 3 | 4 | 3 | 11 | 5 | 3 | 15 | 2 |
P value = 0.188 (Chi-square test), Q value = 1
nPatients | T0+T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 50 | 57 | 46 | 50 |
subtype1 | 18 | 8 | 12 | 14 |
subtype2 | 21 | 25 | 20 | 21 |
subtype3 | 11 | 24 | 14 | 15 |
P value = 0.55 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 | N3 |
---|---|---|---|---|
ALL | 130 | 45 | 31 | 30 |
subtype1 | 29 | 11 | 11 | 11 |
subtype2 | 59 | 17 | 11 | 11 |
subtype3 | 42 | 17 | 9 | 8 |
P value = 0.938 (Chi-square test), Q value = 1
nPatients | M0 | M1 | M1A | M1B | M1C |
---|---|---|---|---|---|
ALL | 226 | 4 | 2 | 2 | 5 |
subtype1 | 58 | 1 | 1 | 1 | 2 |
subtype2 | 95 | 2 | 1 | 1 | 2 |
subtype3 | 73 | 1 | 0 | 0 | 1 |
P value = 0.246 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 96 | 62 |
subtype1 | 19 | 19 |
subtype2 | 49 | 25 |
subtype3 | 28 | 18 |
P value = 0.168 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 31 | 220 |
subtype1 | 13 | 56 |
subtype2 | 11 | 93 |
subtype3 | 7 | 71 |
P value = 0.806 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 186 | 3.6 (5.1) |
subtype1 | 44 | 3.2 (2.9) |
subtype2 | 82 | 3.5 (4.1) |
subtype3 | 60 | 3.9 (7.3) |
P value = 0.0743 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 95 | 156 |
subtype1 | 33 | 36 |
subtype2 | 39 | 65 |
subtype3 | 23 | 55 |
Cluster Labels | 1 | 2 | 3 | 4 |
---|---|---|---|---|
Number of samples | 29 | 25 | 69 | 128 |
P value = 0.111 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 239 | 119 | 0.1 - 124.3 (14.2) |
subtype1 | 27 | 9 | 0.2 - 114.2 (20.4) |
subtype2 | 23 | 12 | 3.5 - 47.4 (13.0) |
subtype3 | 67 | 34 | 0.1 - 122.7 (18.6) |
subtype4 | 122 | 64 | 0.1 - 124.3 (11.7) |
P value = 0.566 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 245 | 121 | 0.2 - 357.4 (47.8) |
subtype1 | 28 | 10 | 0.2 - 357.4 (33.0) |
subtype2 | 23 | 12 | 4.9 - 182.0 (58.0) |
subtype3 | 67 | 34 | 7.2 - 346.0 (56.2) |
subtype4 | 127 | 65 | 0.9 - 314.5 (44.4) |
P value = 0.0552 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 247 | 55.6 (15.6) |
subtype1 | 29 | 55.4 (16.5) |
subtype2 | 23 | 47.7 (16.1) |
subtype3 | 67 | 55.1 (13.1) |
subtype4 | 128 | 57.4 (16.3) |
P value = 0.713 (Chi-square test), Q value = 1
nPatients | DISTANT METASTASIS | PRIMARY TUMOR | REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE | REGIONAL LYMPH NODE |
---|---|---|---|---|
ALL | 32 | 1 | 53 | 164 |
subtype1 | 3 | 0 | 9 | 17 |
subtype2 | 3 | 0 | 6 | 16 |
subtype3 | 6 | 0 | 17 | 46 |
subtype4 | 20 | 1 | 21 | 85 |
P value = 0.3 (Chi-square test), Q value = 1
nPatients | I OR II NOS | STAGE 0 | STAGE I | STAGE IA | STAGE IB | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 10 | 5 | 21 | 10 | 24 | 14 | 9 | 13 | 9 | 28 | 11 | 22 | 40 | 12 |
subtype1 | 1 | 0 | 1 | 1 | 1 | 3 | 2 | 0 | 1 | 2 | 1 | 7 | 3 | 3 |
subtype2 | 2 | 0 | 5 | 1 | 4 | 0 | 0 | 0 | 0 | 2 | 2 | 1 | 4 | 2 |
subtype3 | 2 | 3 | 8 | 1 | 6 | 3 | 1 | 4 | 2 | 10 | 3 | 3 | 13 | 2 |
subtype4 | 5 | 2 | 7 | 7 | 13 | 8 | 6 | 9 | 6 | 14 | 5 | 11 | 20 | 5 |
P value = 0.179 (Chi-square test), Q value = 1
nPatients | T0+T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 50 | 57 | 46 | 50 |
subtype1 | 6 | 3 | 6 | 8 |
subtype2 | 2 | 11 | 3 | 3 |
subtype3 | 15 | 15 | 10 | 12 |
subtype4 | 27 | 28 | 27 | 27 |
P value = 0.886 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 | N3 |
---|---|---|---|---|
ALL | 130 | 45 | 31 | 30 |
subtype1 | 12 | 6 | 6 | 3 |
subtype2 | 14 | 4 | 4 | 2 |
subtype3 | 34 | 13 | 7 | 10 |
subtype4 | 70 | 22 | 14 | 15 |
P value = 0.609 (Chi-square test), Q value = 1
nPatients | M0 | M1 | M1A | M1B | M1C |
---|---|---|---|---|---|
ALL | 226 | 4 | 2 | 2 | 5 |
subtype1 | 25 | 1 | 1 | 1 | 0 |
subtype2 | 21 | 1 | 0 | 0 | 1 |
subtype3 | 63 | 1 | 0 | 0 | 1 |
subtype4 | 117 | 1 | 1 | 1 | 3 |
P value = 0.711 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 96 | 62 |
subtype1 | 10 | 8 |
subtype2 | 10 | 4 |
subtype3 | 20 | 16 |
subtype4 | 56 | 34 |
P value = 0.286 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 31 | 220 |
subtype1 | 5 | 24 |
subtype2 | 2 | 23 |
subtype3 | 12 | 57 |
subtype4 | 12 | 116 |
P value = 0.899 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 186 | 3.6 (5.1) |
subtype1 | 19 | 3.5 (3.2) |
subtype2 | 19 | 2.9 (3.8) |
subtype3 | 45 | 4.0 (8.1) |
subtype4 | 103 | 3.5 (3.9) |
P value = 0.793 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 95 | 156 |
subtype1 | 11 | 18 |
subtype2 | 9 | 16 |
subtype3 | 23 | 46 |
subtype4 | 52 | 76 |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 86 | 93 | 72 |
P value = 0.0105 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 239 | 119 | 0.1 - 124.3 (14.2) |
subtype1 | 81 | 31 | 0.1 - 122.7 (16.0) |
subtype2 | 89 | 52 | 0.1 - 124.3 (11.2) |
subtype3 | 69 | 36 | 1.0 - 111.1 (14.5) |
P value = 0.0545 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 245 | 121 | 0.2 - 357.4 (47.8) |
subtype1 | 83 | 33 | 0.2 - 357.4 (47.5) |
subtype2 | 93 | 52 | 2.6 - 248.6 (43.2) |
subtype3 | 69 | 36 | 4.9 - 314.5 (61.0) |
P value = 0.0576 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 247 | 55.6 (15.6) |
subtype1 | 84 | 55.4 (15.0) |
subtype2 | 93 | 58.3 (16.8) |
subtype3 | 70 | 52.4 (14.4) |
P value = 0.0102 (Chi-square test), Q value = 1
nPatients | DISTANT METASTASIS | PRIMARY TUMOR | REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE | REGIONAL LYMPH NODE |
---|---|---|---|---|
ALL | 32 | 1 | 53 | 164 |
subtype1 | 10 | 1 | 16 | 59 |
subtype2 | 14 | 0 | 11 | 67 |
subtype3 | 8 | 0 | 26 | 38 |
P value = 0.304 (Chi-square test), Q value = 1
nPatients | I OR II NOS | STAGE 0 | STAGE I | STAGE IA | STAGE IB | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 10 | 5 | 21 | 10 | 24 | 14 | 9 | 13 | 9 | 28 | 11 | 22 | 40 | 12 |
subtype1 | 6 | 4 | 7 | 6 | 3 | 5 | 1 | 1 | 4 | 11 | 2 | 8 | 14 | 4 |
subtype2 | 2 | 0 | 6 | 3 | 12 | 5 | 3 | 8 | 3 | 10 | 4 | 9 | 14 | 4 |
subtype3 | 2 | 1 | 8 | 1 | 9 | 4 | 5 | 4 | 2 | 7 | 5 | 5 | 12 | 4 |
P value = 0.000469 (Chi-square test), Q value = 0.054
nPatients | T0+T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 50 | 57 | 46 | 50 |
subtype1 | 26 | 10 | 9 | 19 |
subtype2 | 17 | 21 | 20 | 20 |
subtype3 | 7 | 26 | 17 | 11 |
P value = 0.915 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 | N3 |
---|---|---|---|---|
ALL | 130 | 45 | 31 | 30 |
subtype1 | 41 | 13 | 11 | 13 |
subtype2 | 49 | 18 | 11 | 9 |
subtype3 | 40 | 14 | 9 | 8 |
P value = 0.936 (Chi-square test), Q value = 1
nPatients | M0 | M1 | M1A | M1B | M1C |
---|---|---|---|---|---|
ALL | 226 | 4 | 2 | 2 | 5 |
subtype1 | 75 | 1 | 1 | 1 | 1 |
subtype2 | 85 | 1 | 1 | 1 | 2 |
subtype3 | 66 | 2 | 0 | 0 | 2 |
P value = 0.411 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 96 | 62 |
subtype1 | 25 | 22 |
subtype2 | 44 | 23 |
subtype3 | 27 | 17 |
P value = 0.111 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 31 | 220 |
subtype1 | 16 | 70 |
subtype2 | 9 | 84 |
subtype3 | 6 | 66 |
P value = 0.886 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 186 | 3.6 (5.1) |
subtype1 | 53 | 3.5 (4.3) |
subtype2 | 75 | 3.7 (4.2) |
subtype3 | 58 | 3.3 (6.8) |
P value = 0.277 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 95 | 156 |
subtype1 | 38 | 48 |
subtype2 | 34 | 59 |
subtype3 | 23 | 49 |
Cluster Labels | 1 | 2 | 3 | 4 |
---|---|---|---|---|
Number of samples | 25 | 98 | 81 | 47 |
P value = 0.0602 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 239 | 119 | 0.1 - 124.3 (14.2) |
subtype1 | 23 | 8 | 0.2 - 114.2 (20.5) |
subtype2 | 93 | 47 | 0.1 - 124.3 (13.1) |
subtype3 | 78 | 37 | 0.1 - 122.7 (18.1) |
subtype4 | 45 | 27 | 0.1 - 98.8 (11.1) |
P value = 0.339 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 245 | 121 | 0.2 - 357.4 (47.8) |
subtype1 | 24 | 9 | 0.2 - 357.4 (40.6) |
subtype2 | 98 | 48 | 0.9 - 248.6 (38.4) |
subtype3 | 78 | 37 | 4.9 - 346.0 (58.2) |
subtype4 | 45 | 27 | 6.4 - 314.5 (58.0) |
P value = 0.721 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 247 | 55.6 (15.6) |
subtype1 | 25 | 56.3 (17.2) |
subtype2 | 98 | 56.7 (15.8) |
subtype3 | 78 | 54.0 (14.1) |
subtype4 | 46 | 55.9 (17.3) |
P value = 0.0826 (Chi-square test), Q value = 1
nPatients | DISTANT METASTASIS | PRIMARY TUMOR | REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE | REGIONAL LYMPH NODE |
---|---|---|---|---|
ALL | 32 | 1 | 53 | 164 |
subtype1 | 3 | 0 | 6 | 16 |
subtype2 | 13 | 1 | 10 | 74 |
subtype3 | 8 | 0 | 23 | 50 |
subtype4 | 8 | 0 | 14 | 24 |
P value = 0.31 (Chi-square test), Q value = 1
nPatients | I OR II NOS | STAGE 0 | STAGE I | STAGE IA | STAGE IB | STAGE II | STAGE IIA | STAGE IIB | STAGE IIC | STAGE III | STAGE IIIA | STAGE IIIB | STAGE IIIC | STAGE IV |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ALL | 10 | 5 | 21 | 10 | 24 | 14 | 9 | 13 | 9 | 28 | 11 | 22 | 40 | 12 |
subtype1 | 1 | 0 | 1 | 1 | 1 | 3 | 2 | 0 | 1 | 1 | 1 | 5 | 3 | 2 |
subtype2 | 5 | 2 | 5 | 7 | 10 | 7 | 3 | 7 | 3 | 11 | 2 | 9 | 15 | 3 |
subtype3 | 3 | 3 | 10 | 1 | 6 | 3 | 2 | 4 | 2 | 14 | 3 | 4 | 15 | 3 |
subtype4 | 1 | 0 | 5 | 1 | 7 | 1 | 2 | 2 | 3 | 2 | 5 | 4 | 7 | 4 |
P value = 0.534 (Chi-square test), Q value = 1
nPatients | T0+T1 | T2 | T3 | T4 |
---|---|---|---|---|
ALL | 50 | 57 | 46 | 50 |
subtype1 | 5 | 2 | 6 | 6 |
subtype2 | 21 | 21 | 19 | 20 |
subtype3 | 18 | 18 | 11 | 14 |
subtype4 | 6 | 16 | 10 | 10 |
P value = 0.969 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 | N3 |
---|---|---|---|---|
ALL | 130 | 45 | 31 | 30 |
subtype1 | 12 | 5 | 4 | 2 |
subtype2 | 56 | 16 | 11 | 10 |
subtype3 | 38 | 16 | 10 | 12 |
subtype4 | 24 | 8 | 6 | 6 |
P value = 0.646 (Chi-square test), Q value = 1
nPatients | M0 | M1 | M1A | M1B | M1C |
---|---|---|---|---|---|
ALL | 226 | 4 | 2 | 2 | 5 |
subtype1 | 22 | 1 | 0 | 1 | 0 |
subtype2 | 89 | 1 | 1 | 1 | 1 |
subtype3 | 73 | 1 | 0 | 0 | 2 |
subtype4 | 42 | 1 | 1 | 0 | 2 |
P value = 0.717 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 96 | 62 |
subtype1 | 8 | 7 |
subtype2 | 44 | 23 |
subtype3 | 23 | 17 |
subtype4 | 21 | 15 |
P value = 0.0415 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 31 | 220 |
subtype1 | 4 | 21 |
subtype2 | 9 | 89 |
subtype3 | 16 | 65 |
subtype4 | 2 | 45 |
P value = 0.824 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 186 | 3.6 (5.1) |
subtype1 | 16 | 3.4 (3.4) |
subtype2 | 77 | 3.5 (4.1) |
subtype3 | 51 | 4.0 (7.9) |
subtype4 | 42 | 3.0 (2.7) |
P value = 0.58 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 95 | 156 |
subtype1 | 11 | 14 |
subtype2 | 40 | 58 |
subtype3 | 26 | 55 |
subtype4 | 18 | 29 |
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Cluster data file = SKCM-TM.mergedcluster.txt
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Clinical data file = SKCM-TM.merged_data.txt
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Number of patients = 260
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Number of clustering approaches = 10
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Number of selected clinical features = 12
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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 continuous numerical clinical features, one-way analysis of variance (Howell 2002) was applied to compare the clinical values between tumor subtypes using 'anova' function in R
For multi-class clinical features (nominal or ordinal), Chi-square tests (Greenwood and Nikulin 1996) were used to estimate the P values using the 'chisq.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.
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.