This pipeline computes the correlation between cancer subtypes identified by different molecular patterns and selected clinical features.
Testing the association between subtypes identified by 8 different clustering approaches and 14 clinical features across 80 patients, 5 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 'CN CNMF'. 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 do not correlate to any clinical features.
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CNMF clustering analysis on RPPA data identified 3 subtypes that do not correlate to any clinical features.
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Consensus hierarchical clustering analysis on RPPA data identified 6 subtypes that correlate to 'Time to Death'.
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CNMF clustering analysis on sequencing-based mRNA expression data identified 4 subtypes that correlate to 'GENDER'.
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Consensus hierarchical clustering analysis on sequencing-based mRNA expression data identified 2 subtypes that correlate to 'GENDER'.
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CNMF clustering analysis on sequencing-based miR expression data identified 5 subtypes that do not correlate to any clinical features.
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Consensus hierarchical clustering analysis on sequencing-based miR expression data identified 3 subtypes that correlate to 'PATHOLOGY.N' and 'STOPPEDSMOKINGYEAR'.
Clinical Features |
Statistical Tests |
CN CNMF |
METHLYATION CNMF |
RPPA CNMF subtypes |
RPPA cHierClus subtypes |
RNAseq CNMF subtypes |
RNAseq cHierClus subtypes |
MIRseq CNMF subtypes |
MIRseq cHierClus subtypes |
Time to Death | logrank test |
0.156 (1.00) |
0.247 (1.00) |
0.0403 (1.00) |
3.04e-07 (3.16e-05) |
0.00789 (0.757) |
0.744 (1.00) |
0.716 (1.00) |
0.192 (1.00) |
AGE | ANOVA |
0.958 (1.00) |
0.089 (1.00) |
0.053 (1.00) |
0.0407 (1.00) |
0.739 (1.00) |
0.169 (1.00) |
0.531 (1.00) |
0.0115 (1.00) |
GENDER | Fisher's exact test |
0.877 (1.00) |
0.551 (1.00) |
0.197 (1.00) |
0.0853 (1.00) |
0.000198 (0.0202) |
6.73e-06 (0.000693) |
0.522 (1.00) |
0.147 (1.00) |
KARNOFSKY PERFORMANCE SCORE | ANOVA | ||||||||
HISTOLOGICAL TYPE | Chi-square test |
0.617 (1.00) |
0.842 (1.00) |
0.135 (1.00) |
0.203 (1.00) |
0.398 (1.00) |
0.00445 (0.44) |
0.116 (1.00) |
0.29 (1.00) |
PATHOLOGY T | Chi-square test |
0.347 (1.00) |
0.784 (1.00) |
0.0532 (1.00) |
0.011 (1.00) |
0.00851 (0.809) |
0.00649 (0.629) |
0.74 (1.00) |
0.192 (1.00) |
PATHOLOGY N | Chi-square test |
0.984 (1.00) |
0.772 (1.00) |
0.175 (1.00) |
0.163 (1.00) |
0.0163 (1.00) |
0.679 (1.00) |
0.215 (1.00) |
0.00071 (0.0717) |
PATHOLOGICSPREAD(M) | Chi-square test |
0.952 (1.00) |
0.048 (1.00) |
0.578 (1.00) |
0.945 (1.00) |
0.978 (1.00) |
0.984 (1.00) |
0.931 (1.00) |
0.873 (1.00) |
TUMOR STAGE | Chi-square test |
0.997 (1.00) |
0.815 (1.00) |
0.078 (1.00) |
0.154 (1.00) |
0.179 (1.00) |
0.976 (1.00) |
0.713 (1.00) |
0.00875 (0.822) |
RADIATIONS RADIATION REGIMENINDICATION | Fisher's exact test |
0.707 (1.00) |
0.192 (1.00) |
0.104 (1.00) |
0.452 (1.00) |
0.406 (1.00) |
0.582 (1.00) |
0.76 (1.00) |
0.569 (1.00) |
NUMBERPACKYEARSSMOKED | ANOVA |
0.33 (1.00) |
0.773 (1.00) |
0.747 (1.00) |
0.385 (1.00) |
0.273 (1.00) |
0.152 (1.00) |
0.957 (1.00) |
0.639 (1.00) |
STOPPEDSMOKINGYEAR | ANOVA |
0.732 (1.00) |
0.434 (1.00) |
0.851 (1.00) |
0.642 (1.00) |
0.702 (1.00) |
0.11 (1.00) |
0.212 (1.00) |
0.00172 (0.172) |
TOBACCOSMOKINGHISTORYINDICATOR | Chi-square test |
0.638 (1.00) |
0.993 (1.00) |
0.181 (1.00) |
0.249 (1.00) |
0.463 (1.00) |
0.235 (1.00) |
0.135 (1.00) |
0.0771 (1.00) |
YEAROFTOBACCOSMOKINGONSET | ANOVA |
0.911 (1.00) |
0.287 (1.00) |
0.0108 (1.00) |
0.115 (1.00) |
0.0724 (1.00) |
0.00484 (0.474) |
0.157 (1.00) |
0.0931 (1.00) |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 21 | 40 | 19 |
P value = 0.156 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 67 | 21 | 0.1 - 224.0 (13.2) |
subtype1 | 18 | 8 | 0.6 - 45.3 (12.5) |
subtype2 | 34 | 8 | 0.7 - 76.2 (10.1) |
subtype3 | 15 | 5 | 0.1 - 224.0 (19.5) |
P value = 0.958 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 66 | 66.5 (10.6) |
subtype1 | 18 | 66.4 (10.5) |
subtype2 | 32 | 66.8 (10.6) |
subtype3 | 16 | 65.9 (11.5) |
P value = 0.877 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 46 | 34 |
subtype1 | 12 | 9 |
subtype2 | 22 | 18 |
subtype3 | 12 | 7 |
P value = 0.617 (Chi-square test), Q value = 1
nPatients | LUNG ACINAR ADENOCARCINOMA | LUNG ADENOCARCINOMA MIXED SUBTYPE | LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS) | LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS | LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS | LUNG MICROPAPILLARY ADENOCARCINOMA | LUNG MUCINOUS ADENOCARCINOMA | LUNG PAPILLARY ADENOCARCINOMA | MUCINOUS (COLLOID) ADENOCARCINOMA |
---|---|---|---|---|---|---|---|---|---|
ALL | 3 | 18 | 46 | 3 | 4 | 1 | 1 | 2 | 2 |
subtype1 | 2 | 4 | 12 | 1 | 0 | 0 | 0 | 0 | 2 |
subtype2 | 1 | 10 | 22 | 1 | 3 | 1 | 1 | 1 | 0 |
subtype3 | 0 | 4 | 12 | 1 | 1 | 0 | 0 | 1 | 0 |
P value = 0.347 (Chi-square test), Q value = 1
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 21 | 48 | 10 |
subtype1 | 7 | 12 | 2 |
subtype2 | 11 | 21 | 7 |
subtype3 | 3 | 15 | 1 |
P value = 0.984 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 14 | 15 |
subtype1 | 12 | 4 | 4 |
subtype2 | 24 | 7 | 8 |
subtype3 | 13 | 3 | 3 |
P value = 0.952 (Chi-square test), Q value = 1
nPatients | M0 | M1 | MX |
---|---|---|---|
ALL | 60 | 4 | 14 |
subtype1 | 15 | 1 | 5 |
subtype2 | 31 | 2 | 6 |
subtype3 | 14 | 1 | 3 |
P value = 0.997 (Chi-square test), Q value = 1
nPatients | I | II | III | IV |
---|---|---|---|---|
ALL | 42 | 15 | 16 | 4 |
subtype1 | 11 | 4 | 4 | 1 |
subtype2 | 20 | 8 | 9 | 2 |
subtype3 | 11 | 3 | 3 | 1 |
P value = 0.707 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 5 | 75 |
subtype1 | 1 | 20 |
subtype2 | 2 | 38 |
subtype3 | 2 | 17 |
P value = 0.33 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 40 | 33.0 (31.8) |
subtype1 | 8 | 20.8 (18.5) |
subtype2 | 24 | 33.2 (34.0) |
subtype3 | 8 | 44.7 (34.4) |
P value = 0.732 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 32 | 1987.1 (15.0) |
subtype1 | 7 | 1984.3 (18.1) |
subtype2 | 16 | 1986.5 (13.9) |
subtype3 | 9 | 1990.2 (15.7) |
P value = 0.638 (Chi-square test), Q value = 1
nPatients | CURRENT REFORMED SMOKER FOR < OR = 15 YEARS | CURRENT REFORMED SMOKER FOR > 15 YEARS | CURRENT SMOKER | LIFELONG NON-SMOKER |
---|---|---|---|---|
ALL | 16 | 25 | 7 | 27 |
subtype1 | 2 | 9 | 1 | 7 |
subtype2 | 9 | 11 | 5 | 13 |
subtype3 | 5 | 5 | 1 | 7 |
P value = 0.911 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 27 | 1960.7 (12.1) |
subtype1 | 7 | 1962.0 (8.6) |
subtype2 | 14 | 1960.9 (14.3) |
subtype3 | 6 | 1959.0 (11.8) |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 23 | 20 | 19 |
P value = 0.247 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 51 | 15 | 0.1 - 224.0 (12.7) |
subtype1 | 20 | 3 | 0.7 - 224.0 (15.1) |
subtype2 | 16 | 7 | 0.1 - 163.1 (13.8) |
subtype3 | 15 | 5 | 0.8 - 48.5 (6.2) |
P value = 0.089 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 48 | 66.6 (11.3) |
subtype1 | 19 | 65.5 (10.8) |
subtype2 | 17 | 63.6 (11.3) |
subtype3 | 12 | 72.6 (10.6) |
P value = 0.551 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 37 | 25 |
subtype1 | 13 | 10 |
subtype2 | 14 | 6 |
subtype3 | 10 | 9 |
P value = 0.842 (Chi-square test), Q value = 1
nPatients | LUNG ACINAR ADENOCARCINOMA | LUNG ADENOCARCINOMA MIXED SUBTYPE | LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS) | LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS | LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS | LUNG MICROPAPILLARY ADENOCARCINOMA | LUNG MUCINOUS ADENOCARCINOMA | LUNG PAPILLARY ADENOCARCINOMA | MUCINOUS (COLLOID) ADENOCARCINOMA |
---|---|---|---|---|---|---|---|---|---|
ALL | 3 | 13 | 33 | 3 | 4 | 1 | 1 | 2 | 2 |
subtype1 | 1 | 6 | 12 | 1 | 1 | 0 | 1 | 1 | 0 |
subtype2 | 1 | 4 | 11 | 1 | 1 | 0 | 0 | 0 | 2 |
subtype3 | 1 | 3 | 10 | 1 | 2 | 1 | 0 | 1 | 0 |
P value = 0.784 (Chi-square test), Q value = 1
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 16 | 36 | 9 |
subtype1 | 4 | 15 | 4 |
subtype2 | 6 | 11 | 2 |
subtype3 | 6 | 10 | 3 |
P value = 0.772 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 39 | 11 | 11 |
subtype1 | 16 | 4 | 3 |
subtype2 | 13 | 3 | 3 |
subtype3 | 10 | 4 | 5 |
P value = 0.048 (Chi-square test), Q value = 1
nPatients | M0 | M1 | MX |
---|---|---|---|
ALL | 44 | 2 | 14 |
subtype1 | 21 | 1 | 1 |
subtype2 | 13 | 0 | 5 |
subtype3 | 10 | 1 | 8 |
P value = 0.815 (Chi-square test), Q value = 1
nPatients | I | II | III | IV |
---|---|---|---|---|
ALL | 32 | 13 | 12 | 2 |
subtype1 | 13 | 6 | 3 | 1 |
subtype2 | 11 | 3 | 4 | 0 |
subtype3 | 8 | 4 | 5 | 1 |
P value = 0.192 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 4 | 58 |
subtype1 | 1 | 22 |
subtype2 | 3 | 17 |
subtype3 | 0 | 19 |
P value = 0.773 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 29 | 28.1 (28.5) |
subtype1 | 11 | 27.3 (32.0) |
subtype2 | 9 | 33.6 (36.6) |
subtype3 | 9 | 23.8 (13.2) |
P value = 0.434 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 28 | 1987.2 (15.0) |
subtype1 | 12 | 1986.6 (18.3) |
subtype2 | 8 | 1992.6 (11.7) |
subtype3 | 8 | 1982.9 (11.9) |
P value = 0.993 (Chi-square test), Q value = 1
nPatients | CURRENT REFORMED SMOKER FOR < OR = 15 YEARS | CURRENT REFORMED SMOKER FOR > 15 YEARS | CURRENT SMOKER | LIFELONG NON-SMOKER |
---|---|---|---|---|
ALL | 13 | 20 | 3 | 21 |
subtype1 | 6 | 7 | 1 | 9 |
subtype2 | 4 | 6 | 1 | 6 |
subtype3 | 3 | 7 | 1 | 6 |
P value = 0.287 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 19 | 1961.2 (11.8) |
subtype1 | 9 | 1957.3 (11.1) |
subtype2 | 6 | 1967.3 (14.1) |
subtype3 | 4 | 1960.8 (7.2) |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 25 | 20 | 21 |
P value = 0.0403 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 57 | 18 | 0.1 - 224.0 (13.2) |
subtype1 | 20 | 6 | 0.7 - 45.3 (6.5) |
subtype2 | 18 | 4 | 0.1 - 224.0 (24.3) |
subtype3 | 19 | 8 | 1.0 - 163.1 (8.4) |
P value = 0.053 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 56 | 66.0 (9.8) |
subtype1 | 21 | 62.9 (11.0) |
subtype2 | 17 | 70.5 (7.8) |
subtype3 | 18 | 65.3 (8.6) |
P value = 0.197 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 38 | 28 |
subtype1 | 18 | 7 |
subtype2 | 10 | 10 |
subtype3 | 10 | 11 |
P value = 0.135 (Chi-square test), Q value = 1
nPatients | LUNG ACINAR ADENOCARCINOMA | LUNG ADENOCARCINOMA MIXED SUBTYPE | LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS) | LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS | LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS | LUNG MICROPAPILLARY ADENOCARCINOMA | LUNG MUCINOUS ADENOCARCINOMA | LUNG PAPILLARY ADENOCARCINOMA | MUCINOUS (COLLOID) ADENOCARCINOMA |
---|---|---|---|---|---|---|---|---|---|
ALL | 3 | 14 | 38 | 3 | 2 | 1 | 1 | 2 | 2 |
subtype1 | 1 | 4 | 18 | 0 | 0 | 1 | 1 | 0 | 0 |
subtype2 | 1 | 7 | 7 | 3 | 1 | 0 | 0 | 0 | 1 |
subtype3 | 1 | 3 | 13 | 0 | 1 | 0 | 0 | 2 | 1 |
P value = 0.0532 (Chi-square test), Q value = 1
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 16 | 40 | 9 |
subtype1 | 10 | 12 | 2 |
subtype2 | 5 | 13 | 2 |
subtype3 | 1 | 15 | 5 |
P value = 0.175 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 37 | 13 | 14 |
subtype1 | 15 | 5 | 3 |
subtype2 | 14 | 3 | 3 |
subtype3 | 8 | 5 | 8 |
P value = 0.578 (Chi-square test), Q value = 1
nPatients | M0 | M1 | MX |
---|---|---|---|
ALL | 48 | 3 | 13 |
subtype1 | 17 | 2 | 5 |
subtype2 | 13 | 1 | 5 |
subtype3 | 18 | 0 | 3 |
P value = 0.078 (Chi-square test), Q value = 1
nPatients | I | II | III | IV |
---|---|---|---|---|
ALL | 31 | 14 | 15 | 3 |
subtype1 | 13 | 6 | 2 | 2 |
subtype2 | 11 | 4 | 3 | 1 |
subtype3 | 7 | 4 | 10 | 0 |
P value = 0.104 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 3 | 63 |
subtype1 | 3 | 22 |
subtype2 | 0 | 20 |
subtype3 | 0 | 21 |
P value = 0.747 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 33 | 34.2 (34.0) |
subtype1 | 10 | 36.0 (43.2) |
subtype2 | 16 | 29.8 (28.8) |
subtype3 | 7 | 41.5 (34.3) |
P value = 0.851 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 28 | 1988.9 (14.0) |
subtype1 | 10 | 1990.1 (13.3) |
subtype2 | 10 | 1986.8 (13.8) |
subtype3 | 8 | 1990.0 (16.6) |
P value = 0.181 (Chi-square test), Q value = 1
nPatients | CURRENT REFORMED SMOKER FOR < OR = 15 YEARS | CURRENT REFORMED SMOKER FOR > 15 YEARS | CURRENT SMOKER | LIFELONG NON-SMOKER |
---|---|---|---|---|
ALL | 16 | 18 | 6 | 23 |
subtype1 | 5 | 7 | 0 | 12 |
subtype2 | 5 | 8 | 3 | 4 |
subtype3 | 6 | 3 | 3 | 7 |
P value = 0.0108 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 22 | 1960.8 (12.3) |
subtype1 | 6 | 1972.2 (11.5) |
subtype2 | 9 | 1954.0 (9.8) |
subtype3 | 7 | 1959.7 (9.4) |
Cluster Labels | 1 | 2 | 3 | 4 | 5 | 6 |
---|---|---|---|---|---|---|
Number of samples | 7 | 11 | 16 | 10 | 11 | 11 |
P value = 3.04e-07 (logrank test), Q value = 3.2e-05
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 57 | 18 | 0.1 - 224.0 (13.2) |
subtype1 | 3 | 2 | 0.7 - 20.5 (1.1) |
subtype2 | 10 | 2 | 0.1 - 224.0 (18.9) |
subtype3 | 15 | 5 | 0.7 - 76.2 (17.1) |
subtype4 | 9 | 2 | 1.0 - 45.3 (8.0) |
subtype5 | 9 | 4 | 0.8 - 19.5 (4.9) |
subtype6 | 11 | 3 | 5.4 - 163.1 (22.3) |
P value = 0.0407 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 56 | 66.0 (9.8) |
subtype1 | 4 | 76.0 (7.9) |
subtype2 | 9 | 64.1 (11.4) |
subtype3 | 15 | 68.0 (7.0) |
subtype4 | 10 | 58.9 (8.8) |
subtype5 | 7 | 65.0 (12.5) |
subtype6 | 11 | 68.2 (7.8) |
P value = 0.0853 (Chi-square test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 38 | 28 |
subtype1 | 5 | 2 |
subtype2 | 5 | 6 |
subtype3 | 14 | 2 |
subtype4 | 4 | 6 |
subtype5 | 5 | 6 |
subtype6 | 5 | 6 |
P value = 0.203 (Chi-square test), Q value = 1
nPatients | LUNG ACINAR ADENOCARCINOMA | LUNG ADENOCARCINOMA MIXED SUBTYPE | LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS) | LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS | LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS | LUNG MICROPAPILLARY ADENOCARCINOMA | LUNG MUCINOUS ADENOCARCINOMA | LUNG PAPILLARY ADENOCARCINOMA | MUCINOUS (COLLOID) ADENOCARCINOMA |
---|---|---|---|---|---|---|---|---|---|
ALL | 3 | 14 | 38 | 3 | 2 | 1 | 1 | 2 | 2 |
subtype1 | 0 | 1 | 5 | 0 | 0 | 1 | 0 | 0 | 0 |
subtype2 | 0 | 3 | 5 | 1 | 1 | 0 | 0 | 0 | 1 |
subtype3 | 1 | 3 | 12 | 0 | 0 | 0 | 0 | 0 | 0 |
subtype4 | 1 | 2 | 6 | 0 | 0 | 0 | 1 | 0 | 0 |
subtype5 | 0 | 1 | 7 | 0 | 0 | 0 | 0 | 2 | 1 |
subtype6 | 1 | 4 | 3 | 2 | 1 | 0 | 0 | 0 | 0 |
P value = 0.011 (Chi-square test), Q value = 1
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 16 | 40 | 9 |
subtype1 | 2 | 3 | 2 |
subtype2 | 4 | 7 | 0 |
subtype3 | 8 | 7 | 0 |
subtype4 | 1 | 5 | 4 |
subtype5 | 1 | 9 | 1 |
subtype6 | 0 | 9 | 2 |
P value = 0.163 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 37 | 13 | 14 |
subtype1 | 4 | 2 | 1 |
subtype2 | 6 | 5 | 0 |
subtype3 | 12 | 1 | 2 |
subtype4 | 4 | 2 | 3 |
subtype5 | 5 | 1 | 5 |
subtype6 | 6 | 2 | 3 |
P value = 0.945 (Chi-square test), Q value = 1
nPatients | M0 | M1 | MX |
---|---|---|---|
ALL | 48 | 3 | 13 |
subtype1 | 6 | 0 | 1 |
subtype2 | 8 | 0 | 2 |
subtype3 | 10 | 1 | 4 |
subtype4 | 8 | 1 | 1 |
subtype5 | 8 | 0 | 3 |
subtype6 | 8 | 1 | 2 |
P value = 0.154 (Chi-square test), Q value = 1
nPatients | I | II | III | IV |
---|---|---|---|---|
ALL | 31 | 14 | 15 | 3 |
subtype1 | 3 | 2 | 2 | 0 |
subtype2 | 5 | 5 | 0 | 0 |
subtype3 | 11 | 2 | 1 | 1 |
subtype4 | 2 | 3 | 4 | 1 |
subtype5 | 4 | 1 | 5 | 0 |
subtype6 | 6 | 1 | 3 | 1 |
P value = 0.452 (Chi-square test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 3 | 63 |
subtype1 | 0 | 7 |
subtype2 | 1 | 10 |
subtype3 | 2 | 14 |
subtype4 | 0 | 10 |
subtype5 | 0 | 11 |
subtype6 | 0 | 11 |
P value = 0.385 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 33 | 34.2 (34.0) |
subtype1 | 3 | 57.3 (78.7) |
subtype2 | 9 | 26.3 (18.6) |
subtype3 | 6 | 24.1 (19.2) |
subtype4 | 4 | 14.0 (19.3) |
subtype5 | 3 | 47.5 (56.5) |
subtype6 | 8 | 47.0 (29.9) |
P value = 0.642 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 28 | 1988.9 (14.0) |
subtype1 | 1 | 1976.0 (NA) |
subtype2 | 6 | 1995.2 (14.9) |
subtype3 | 7 | 1983.7 (13.3) |
subtype4 | 4 | 1988.0 (18.6) |
subtype5 | 4 | 1986.8 (13.9) |
subtype6 | 6 | 1992.8 (12.7) |
P value = 0.249 (Chi-square test), Q value = 1
nPatients | CURRENT REFORMED SMOKER FOR < OR = 15 YEARS | CURRENT REFORMED SMOKER FOR > 15 YEARS | CURRENT SMOKER | LIFELONG NON-SMOKER |
---|---|---|---|---|
ALL | 16 | 18 | 6 | 23 |
subtype1 | 1 | 1 | 0 | 4 |
subtype2 | 5 | 4 | 1 | 1 |
subtype3 | 1 | 6 | 0 | 8 |
subtype4 | 2 | 3 | 1 | 4 |
subtype5 | 3 | 2 | 1 | 4 |
subtype6 | 4 | 2 | 3 | 2 |
P value = 0.115 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 22 | 1960.8 (12.3) |
subtype2 | 4 | 1962.8 (11.3) |
subtype3 | 5 | 1955.6 (14.3) |
subtype4 | 3 | 1975.7 (15.1) |
subtype5 | 2 | 1959.0 (15.6) |
subtype6 | 8 | 1957.9 (7.3) |
Cluster Labels | 1 | 2 | 3 | 4 |
---|---|---|---|---|
Number of samples | 16 | 29 | 22 | 13 |
P value = 0.00789 (logrank test), Q value = 0.76
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 67 | 21 | 0.1 - 224.0 (13.2) |
subtype1 | 13 | 3 | 0.7 - 48.5 (19.5) |
subtype2 | 25 | 12 | 0.8 - 45.3 (12.7) |
subtype3 | 18 | 6 | 0.1 - 224.0 (16.9) |
subtype4 | 11 | 0 | 1.1 - 43.8 (6.8) |
P value = 0.739 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 66 | 66.5 (10.6) |
subtype1 | 15 | 68.6 (10.4) |
subtype2 | 22 | 64.7 (11.1) |
subtype3 | 18 | 67.1 (10.0) |
subtype4 | 11 | 66.3 (11.7) |
P value = 0.000198 (Fisher's exact test), Q value = 0.02
nPatients | FEMALE | MALE |
---|---|---|
ALL | 46 | 34 |
subtype1 | 4 | 12 |
subtype2 | 14 | 15 |
subtype3 | 20 | 2 |
subtype4 | 8 | 5 |
P value = 0.398 (Chi-square test), Q value = 1
nPatients | LUNG ACINAR ADENOCARCINOMA | LUNG ADENOCARCINOMA MIXED SUBTYPE | LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS) | LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS | LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS | LUNG MICROPAPILLARY ADENOCARCINOMA | LUNG MUCINOUS ADENOCARCINOMA | LUNG PAPILLARY ADENOCARCINOMA | MUCINOUS (COLLOID) ADENOCARCINOMA |
---|---|---|---|---|---|---|---|---|---|
ALL | 3 | 18 | 46 | 3 | 4 | 1 | 1 | 2 | 2 |
subtype1 | 1 | 6 | 5 | 2 | 0 | 0 | 1 | 0 | 1 |
subtype2 | 1 | 4 | 21 | 0 | 1 | 0 | 0 | 1 | 1 |
subtype3 | 1 | 3 | 13 | 1 | 2 | 1 | 0 | 1 | 0 |
subtype4 | 0 | 5 | 7 | 0 | 1 | 0 | 0 | 0 | 0 |
P value = 0.00851 (Chi-square test), Q value = 0.81
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 21 | 48 | 10 |
subtype1 | 2 | 9 | 5 |
subtype2 | 4 | 22 | 3 |
subtype3 | 9 | 13 | 0 |
subtype4 | 6 | 4 | 2 |
P value = 0.0163 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 14 | 15 |
subtype1 | 11 | 2 | 3 |
subtype2 | 10 | 9 | 9 |
subtype3 | 19 | 1 | 2 |
subtype4 | 9 | 2 | 1 |
P value = 0.978 (Chi-square test), Q value = 1
nPatients | M0 | M1 | MX |
---|---|---|---|
ALL | 60 | 4 | 14 |
subtype1 | 12 | 1 | 3 |
subtype2 | 23 | 1 | 5 |
subtype3 | 17 | 1 | 3 |
subtype4 | 8 | 1 | 3 |
P value = 0.179 (Chi-square test), Q value = 1
nPatients | I | II | III | IV |
---|---|---|---|---|
ALL | 42 | 15 | 16 | 4 |
subtype1 | 9 | 3 | 3 | 1 |
subtype2 | 9 | 8 | 10 | 1 |
subtype3 | 16 | 2 | 2 | 1 |
subtype4 | 8 | 2 | 1 | 1 |
P value = 0.406 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 5 | 75 |
subtype1 | 0 | 16 |
subtype2 | 2 | 27 |
subtype3 | 1 | 21 |
subtype4 | 2 | 11 |
P value = 0.273 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 40 | 33.0 (31.8) |
subtype1 | 13 | 47.1 (46.8) |
subtype2 | 12 | 28.4 (19.5) |
subtype3 | 7 | 27.0 (21.9) |
subtype4 | 8 | 22.3 (17.7) |
P value = 0.702 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 32 | 1987.1 (15.0) |
subtype1 | 8 | 1982.8 (16.0) |
subtype2 | 10 | 1987.2 (17.0) |
subtype3 | 6 | 1986.2 (12.2) |
subtype4 | 8 | 1991.9 (14.7) |
P value = 0.463 (Chi-square test), Q value = 1
nPatients | CURRENT REFORMED SMOKER FOR < OR = 15 YEARS | CURRENT REFORMED SMOKER FOR > 15 YEARS | CURRENT SMOKER | LIFELONG NON-SMOKER |
---|---|---|---|---|
ALL | 16 | 25 | 7 | 27 |
subtype1 | 4 | 7 | 2 | 3 |
subtype2 | 6 | 9 | 3 | 9 |
subtype3 | 2 | 5 | 1 | 12 |
subtype4 | 4 | 4 | 1 | 3 |
P value = 0.0724 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 27 | 1960.7 (12.1) |
subtype1 | 8 | 1956.8 (11.5) |
subtype2 | 9 | 1963.3 (7.8) |
subtype3 | 4 | 1950.8 (14.8) |
subtype4 | 6 | 1968.8 (12.4) |
Cluster Labels | 1 | 2 |
---|---|---|
Number of samples | 18 | 62 |
P value = 0.744 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 67 | 21 | 0.1 - 224.0 (13.2) |
subtype1 | 15 | 5 | 1.0 - 76.2 (21.9) |
subtype2 | 52 | 16 | 0.1 - 224.0 (10.5) |
P value = 0.169 (t-test), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 66 | 66.5 (10.6) |
subtype1 | 17 | 69.2 (8.3) |
subtype2 | 49 | 65.6 (11.3) |
P value = 6.73e-06 (Fisher's exact test), Q value = 0.00069
nPatients | FEMALE | MALE |
---|---|---|
ALL | 46 | 34 |
subtype1 | 2 | 16 |
subtype2 | 44 | 18 |
P value = 0.00445 (Chi-square test), Q value = 0.44
nPatients | LUNG ACINAR ADENOCARCINOMA | LUNG ADENOCARCINOMA MIXED SUBTYPE | LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS) | LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS | LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS | LUNG MICROPAPILLARY ADENOCARCINOMA | LUNG MUCINOUS ADENOCARCINOMA | LUNG PAPILLARY ADENOCARCINOMA | MUCINOUS (COLLOID) ADENOCARCINOMA |
---|---|---|---|---|---|---|---|---|---|
ALL | 3 | 18 | 46 | 3 | 4 | 1 | 1 | 2 | 2 |
subtype1 | 1 | 7 | 5 | 2 | 0 | 0 | 1 | 0 | 2 |
subtype2 | 2 | 11 | 41 | 1 | 4 | 1 | 0 | 2 | 0 |
P value = 0.00649 (Chi-square test), Q value = 0.63
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 21 | 48 | 10 |
subtype1 | 2 | 10 | 6 |
subtype2 | 19 | 38 | 4 |
P value = 0.679 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 14 | 15 |
subtype1 | 12 | 2 | 4 |
subtype2 | 37 | 12 | 11 |
P value = 0.984 (Chi-square test), Q value = 1
nPatients | M0 | M1 | MX |
---|---|---|---|
ALL | 60 | 4 | 14 |
subtype1 | 14 | 1 | 3 |
subtype2 | 46 | 3 | 11 |
P value = 0.976 (Chi-square test), Q value = 1
nPatients | I | II | III | IV |
---|---|---|---|---|
ALL | 42 | 15 | 16 | 4 |
subtype1 | 9 | 4 | 4 | 1 |
subtype2 | 33 | 11 | 12 | 3 |
P value = 0.582 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 5 | 75 |
subtype1 | 0 | 18 |
subtype2 | 5 | 57 |
P value = 0.152 (t-test), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 40 | 33.0 (31.8) |
subtype1 | 14 | 45.5 (45.5) |
subtype2 | 26 | 26.3 (19.2) |
P value = 0.11 (t-test), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 32 | 1987.1 (15.0) |
subtype1 | 10 | 1980.2 (16.1) |
subtype2 | 22 | 1990.2 (13.8) |
P value = 0.235 (Chi-square test), Q value = 1
nPatients | CURRENT REFORMED SMOKER FOR < OR = 15 YEARS | CURRENT REFORMED SMOKER FOR > 15 YEARS | CURRENT SMOKER | LIFELONG NON-SMOKER |
---|---|---|---|---|
ALL | 16 | 25 | 7 | 27 |
subtype1 | 5 | 8 | 1 | 3 |
subtype2 | 11 | 17 | 6 | 24 |
P value = 0.00484 (t-test), Q value = 0.47
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 27 | 1960.7 (12.1) |
subtype1 | 8 | 1950.6 (10.1) |
subtype2 | 19 | 1965.0 (10.4) |
Cluster Labels | 1 | 2 | 3 | 4 | 5 |
---|---|---|---|---|---|
Number of samples | 16 | 20 | 12 | 21 | 11 |
P value = 0.716 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 67 | 21 | 0.1 - 224.0 (13.2) |
subtype1 | 13 | 4 | 0.6 - 71.0 (15.8) |
subtype2 | 15 | 5 | 1.1 - 46.7 (12.7) |
subtype3 | 12 | 2 | 0.7 - 76.2 (17.5) |
subtype4 | 16 | 7 | 0.1 - 224.0 (7.3) |
subtype5 | 11 | 3 | 0.8 - 44.4 (19.5) |
P value = 0.531 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 66 | 66.5 (10.6) |
subtype1 | 12 | 65.6 (10.9) |
subtype2 | 18 | 69.7 (11.7) |
subtype3 | 12 | 67.4 (7.6) |
subtype4 | 14 | 63.4 (7.6) |
subtype5 | 10 | 65.1 (14.7) |
P value = 0.522 (Chi-square test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 46 | 34 |
subtype1 | 10 | 6 |
subtype2 | 10 | 10 |
subtype3 | 6 | 6 |
subtype4 | 15 | 6 |
subtype5 | 5 | 6 |
P value = 0.116 (Chi-square test), Q value = 1
nPatients | LUNG ACINAR ADENOCARCINOMA | LUNG ADENOCARCINOMA MIXED SUBTYPE | LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS) | LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS | LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS | LUNG MICROPAPILLARY ADENOCARCINOMA | LUNG MUCINOUS ADENOCARCINOMA | LUNG PAPILLARY ADENOCARCINOMA | MUCINOUS (COLLOID) ADENOCARCINOMA |
---|---|---|---|---|---|---|---|---|---|
ALL | 3 | 18 | 46 | 3 | 4 | 1 | 1 | 2 | 2 |
subtype1 | 0 | 2 | 12 | 0 | 2 | 0 | 0 | 0 | 0 |
subtype2 | 2 | 8 | 10 | 0 | 0 | 0 | 0 | 0 | 0 |
subtype3 | 1 | 4 | 5 | 1 | 0 | 0 | 1 | 0 | 0 |
subtype4 | 0 | 0 | 15 | 1 | 1 | 1 | 0 | 1 | 2 |
subtype5 | 0 | 4 | 4 | 1 | 1 | 0 | 0 | 1 | 0 |
P value = 0.74 (Chi-square test), Q value = 1
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 21 | 48 | 10 |
subtype1 | 4 | 10 | 2 |
subtype2 | 3 | 15 | 2 |
subtype3 | 5 | 4 | 2 |
subtype4 | 6 | 13 | 2 |
subtype5 | 3 | 6 | 2 |
P value = 0.215 (Chi-square test), Q value = 1
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 14 | 15 |
subtype1 | 11 | 1 | 4 |
subtype2 | 13 | 3 | 3 |
subtype3 | 10 | 0 | 1 |
subtype4 | 10 | 7 | 4 |
subtype5 | 5 | 3 | 3 |
P value = 0.931 (Chi-square test), Q value = 1
nPatients | M0 | M1 | MX |
---|---|---|---|
ALL | 60 | 4 | 14 |
subtype1 | 13 | 1 | 2 |
subtype2 | 16 | 1 | 3 |
subtype3 | 8 | 1 | 2 |
subtype4 | 16 | 0 | 4 |
subtype5 | 7 | 1 | 3 |
P value = 0.713 (Chi-square test), Q value = 1
nPatients | I | II | III | IV |
---|---|---|---|---|
ALL | 42 | 15 | 16 | 4 |
subtype1 | 9 | 2 | 4 | 1 |
subtype2 | 12 | 4 | 3 | 1 |
subtype3 | 9 | 1 | 1 | 1 |
subtype4 | 7 | 6 | 6 | 0 |
subtype5 | 5 | 2 | 2 | 1 |
P value = 0.76 (Chi-square test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 5 | 75 |
subtype1 | 0 | 16 |
subtype2 | 2 | 18 |
subtype3 | 1 | 11 |
subtype4 | 1 | 20 |
subtype5 | 1 | 10 |
P value = 0.957 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 40 | 33.0 (31.8) |
subtype1 | 7 | 39.1 (13.5) |
subtype2 | 10 | 29.0 (44.2) |
subtype3 | 8 | 33.8 (36.3) |
subtype4 | 8 | 28.4 (19.4) |
subtype5 | 7 | 37.1 (37.2) |
P value = 0.212 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 32 | 1987.1 (15.0) |
subtype1 | 3 | 1979.0 (10.4) |
subtype2 | 7 | 1980.4 (20.4) |
subtype3 | 7 | 1982.7 (11.8) |
subtype4 | 8 | 1994.1 (12.6) |
subtype5 | 7 | 1993.4 (13.1) |
P value = 0.135 (Chi-square test), Q value = 1
nPatients | CURRENT REFORMED SMOKER FOR < OR = 15 YEARS | CURRENT REFORMED SMOKER FOR > 15 YEARS | CURRENT SMOKER | LIFELONG NON-SMOKER |
---|---|---|---|---|
ALL | 16 | 25 | 7 | 27 |
subtype1 | 0 | 6 | 3 | 7 |
subtype2 | 3 | 7 | 1 | 8 |
subtype3 | 2 | 5 | 1 | 3 |
subtype4 | 5 | 5 | 1 | 8 |
subtype5 | 6 | 2 | 1 | 1 |
P value = 0.157 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 27 | 1960.7 (12.1) |
subtype1 | 4 | 1962.2 (11.3) |
subtype2 | 6 | 1958.7 (8.9) |
subtype3 | 6 | 1952.3 (11.7) |
subtype4 | 5 | 1961.2 (8.3) |
subtype5 | 6 | 1969.8 (14.9) |
Cluster Labels | 1 | 2 | 3 |
---|---|---|---|
Number of samples | 6 | 37 | 37 |
P value = 0.192 (logrank test), Q value = 1
nPatients | nDeath | Duration Range (Median), Month | |
---|---|---|---|
ALL | 67 | 21 | 0.1 - 224.0 (13.2) |
subtype1 | 5 | 2 | 5.1 - 21.9 (12.7) |
subtype2 | 32 | 8 | 0.6 - 76.2 (18.9) |
subtype3 | 30 | 11 | 0.1 - 224.0 (10.4) |
P value = 0.0115 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 66 | 66.5 (10.6) |
subtype1 | 6 | 60.0 (10.6) |
subtype2 | 34 | 70.1 (9.8) |
subtype3 | 26 | 63.3 (10.3) |
P value = 0.147 (Fisher's exact test), Q value = 1
nPatients | FEMALE | MALE |
---|---|---|
ALL | 46 | 34 |
subtype1 | 1 | 5 |
subtype2 | 23 | 14 |
subtype3 | 22 | 15 |
P value = 0.29 (Chi-square test), Q value = 1
nPatients | LUNG ACINAR ADENOCARCINOMA | LUNG ADENOCARCINOMA MIXED SUBTYPE | LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS) | LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS | LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS | LUNG MICROPAPILLARY ADENOCARCINOMA | LUNG MUCINOUS ADENOCARCINOMA | LUNG PAPILLARY ADENOCARCINOMA | MUCINOUS (COLLOID) ADENOCARCINOMA |
---|---|---|---|---|---|---|---|---|---|
ALL | 3 | 18 | 46 | 3 | 4 | 1 | 1 | 2 | 2 |
subtype1 | 1 | 1 | 3 | 0 | 0 | 0 | 0 | 0 | 1 |
subtype2 | 1 | 12 | 20 | 2 | 1 | 0 | 1 | 0 | 0 |
subtype3 | 1 | 5 | 23 | 1 | 3 | 1 | 0 | 2 | 1 |
P value = 0.192 (Chi-square test), Q value = 1
nPatients | T1 | T2 | T3+T4 |
---|---|---|---|
ALL | 21 | 48 | 10 |
subtype1 | 0 | 4 | 2 |
subtype2 | 10 | 24 | 2 |
subtype3 | 11 | 20 | 6 |
P value = 0.00071 (Chi-square test), Q value = 0.072
nPatients | N0 | N1 | N2 |
---|---|---|---|
ALL | 49 | 14 | 15 |
subtype1 | 1 | 4 | 1 |
subtype2 | 29 | 1 | 5 |
subtype3 | 19 | 9 | 9 |
P value = 0.873 (Chi-square test), Q value = 1
nPatients | M0 | M1 | MX |
---|---|---|---|
ALL | 60 | 4 | 14 |
subtype1 | 5 | 0 | 1 |
subtype2 | 29 | 2 | 5 |
subtype3 | 26 | 2 | 8 |
P value = 0.00875 (Chi-square test), Q value = 0.82
nPatients | I | II | III | IV |
---|---|---|---|---|
ALL | 42 | 15 | 16 | 4 |
subtype1 | 1 | 4 | 1 | 0 |
subtype2 | 27 | 3 | 5 | 2 |
subtype3 | 14 | 8 | 10 | 2 |
P value = 0.569 (Fisher's exact test), Q value = 1
nPatients | NO | YES |
---|---|---|
ALL | 5 | 75 |
subtype1 | 1 | 5 |
subtype2 | 2 | 35 |
subtype3 | 2 | 35 |
P value = 0.639 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 40 | 33.0 (31.8) |
subtype1 | 3 | 17.3 (17.2) |
subtype2 | 21 | 36.0 (36.5) |
subtype3 | 16 | 32.0 (27.5) |
P value = 0.00172 (ANOVA), Q value = 0.17
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 32 | 1987.1 (15.0) |
subtype1 | 2 | 2005.5 (7.8) |
subtype2 | 14 | 1977.5 (10.6) |
subtype3 | 16 | 1993.1 (14.0) |
P value = 0.0771 (Chi-square test), Q value = 1
nPatients | CURRENT REFORMED SMOKER FOR < OR = 15 YEARS | CURRENT REFORMED SMOKER FOR > 15 YEARS | CURRENT SMOKER | LIFELONG NON-SMOKER |
---|---|---|---|---|
ALL | 16 | 25 | 7 | 27 |
subtype1 | 2 | 2 | 0 | 2 |
subtype2 | 2 | 15 | 5 | 13 |
subtype3 | 12 | 8 | 2 | 12 |
P value = 0.0931 (ANOVA), Q value = 1
nPatients | Mean (Std.Dev) | |
---|---|---|
ALL | 27 | 1960.7 (12.1) |
subtype1 | 2 | 1966.5 (4.9) |
subtype2 | 14 | 1956.5 (11.2) |
subtype3 | 11 | 1965.1 (12.8) |
-
Cluster data file = MOLECULAR_NONSMOKER.mergedcluster.txt
-
Clinical data file = MOLECULAR_NONSMOKER.clin.merged.picked.txt
-
Number of patients = 80
-
Number of clustering approaches = 8
-
Number of selected clinical features = 14
-
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 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 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 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 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.