This pipeline computes the correlation between significantly recurrent gene mutations and molecular subtypes.
Testing the association between mutation status of 25 genes and 6 molecular subtypes across 195 patients, 39 significant findings detected with P value < 0.05 and Q value < 0.25.
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FLT3 mutation correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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NPM1 mutation correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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DNMT3A mutation correlated to 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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IDH2 mutation correlated to 'METHLYATION_CNMF'.
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IDH1 mutation correlated to 'METHLYATION_CNMF'.
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RUNX1 mutation correlated to 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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WT1 mutation correlated to 'METHLYATION_CNMF'.
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U2AF1 mutation correlated to 'METHLYATION_CNMF'.
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TP53 mutation correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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CEBPA mutation correlated to 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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KIT mutation correlated to 'METHLYATION_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
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STAG2 mutation correlated to 'MRNASEQ_CHIERARCHICAL'.
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PTPN11 mutation correlated to 'MRNASEQ_CNMF'.
Table 1. Get Full Table Overview of the association between mutation status of 25 genes and 6 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, 39 significant findings detected.
Clinical Features |
CN CNMF |
METHLYATION CNMF |
MRNASEQ CNMF |
MRNASEQ CHIERARCHICAL |
MIRSEQ CNMF |
MIRSEQ CHIERARCHICAL |
||
nMutated (%) | nWild-Type | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | |
FLT3 | 53 (27%) | 142 |
0.00026 (0.00244) |
0.00016 (0.00171) |
1e-05 (0.000167) |
0.00011 (0.0015) |
0.00043 (0.00379) |
0.00078 (0.00585) |
NPM1 | 52 (27%) | 143 |
1e-05 (0.000167) |
1e-05 (0.000167) |
1e-05 (0.000167) |
1e-05 (0.000167) |
1e-05 (0.000167) |
1e-05 (0.000167) |
TP53 | 15 (8%) | 180 |
1e-05 (0.000167) |
1e-05 (0.000167) |
0.0009 (0.00627) |
0.0024 (0.0144) |
0.00018 (0.0018) |
0.00012 (0.0015) |
DNMT3A | 49 (25%) | 146 |
0.854 (0.949) |
0.0305 (0.127) |
0.0242 (0.107) |
0.00249 (0.0144) |
0.00235 (0.0144) |
0.00263 (0.0146) |
RUNX1 | 18 (9%) | 177 |
0.36 (0.629) |
0.0005 (0.00417) |
0.00205 (0.0134) |
5e-05 (0.00075) |
0.00055 (0.00434) |
0.00092 (0.00627) |
CEBPA | 13 (7%) | 182 |
0.59 (0.798) |
0.434 (0.693) |
0.198 (0.488) |
0.00013 (0.0015) |
0.0345 (0.14) |
0.00969 (0.0469) |
KIT | 8 (4%) | 187 |
0.103 (0.315) |
0.0136 (0.0638) |
0.327 (0.613) |
0.00593 (0.0296) |
0.357 (0.629) |
0.189 (0.488) |
IDH2 | 20 (10%) | 175 |
0.0995 (0.315) |
0.0164 (0.0745) |
0.686 (0.839) |
0.342 (0.629) |
0.748 (0.877) |
0.185 (0.488) |
IDH1 | 18 (9%) | 177 |
1 (1.00) |
0.00585 (0.0296) |
0.256 (0.52) |
0.256 (0.52) |
0.235 (0.52) |
0.803 (0.913) |
WT1 | 12 (6%) | 183 |
0.421 (0.679) |
0.0046 (0.0246) |
0.0825 (0.275) |
0.365 (0.629) |
0.0678 (0.248) |
0.275 (0.543) |
U2AF1 | 8 (4%) | 187 |
1 (1.00) |
0.0481 (0.185) |
0.23 (0.52) |
0.259 (0.52) |
0.0756 (0.263) |
0.469 (0.713) |
STAG2 | 6 (3%) | 189 |
0.562 (0.798) |
0.198 (0.488) |
0.132 (0.395) |
0.0278 (0.119) |
0.688 (0.839) |
0.0649 (0.243) |
PTPN11 | 9 (5%) | 186 |
0.682 (0.839) |
0.46 (0.711) |
0.0474 (0.185) |
0.504 (0.741) |
0.0996 (0.315) |
0.208 (0.496) |
TET2 | 17 (9%) | 178 |
0.354 (0.629) |
0.44 (0.693) |
0.29 (0.558) |
0.572 (0.798) |
0.66 (0.839) |
0.845 (0.946) |
NRAS | 15 (8%) | 180 |
0.421 (0.679) |
0.949 (1.00) |
0.601 (0.798) |
0.938 (1.00) |
0.813 (0.917) |
0.668 (0.839) |
PHF6 | 6 (3%) | 189 |
1 (1.00) |
0.632 (0.825) |
0.732 (0.871) |
0.473 (0.713) |
0.726 (0.871) |
0.344 (0.629) |
KRAS | 8 (4%) | 187 |
0.074 (0.263) |
0.725 (0.871) |
0.324 (0.613) |
0.65 (0.839) |
0.255 (0.52) |
0.682 (0.839) |
SMC3 | 7 (4%) | 188 |
1 (1.00) |
0.205 (0.495) |
0.552 (0.796) |
0.444 (0.693) |
0.218 (0.503) |
0.416 (0.679) |
RAD21 | 5 (3%) | 190 |
0.48 (0.713) |
0.365 (0.629) |
0.606 (0.798) |
0.187 (0.488) |
0.213 (0.499) |
0.606 (0.798) |
EZH2 | 3 (2%) | 192 |
0.103 (0.315) |
0.258 (0.52) |
0.589 (0.798) |
0.158 (0.439) |
0.418 (0.679) |
|
ASXL1 | 5 (3%) | 190 |
0.737 (0.871) |
0.0773 (0.263) |
0.259 (0.52) |
0.592 (0.798) |
0.158 (0.439) |
0.416 (0.679) |
SUZ12 | 3 (2%) | 192 |
0.288 (0.558) |
0.788 (0.902) |
0.26 (0.52) |
0.592 (0.798) |
0.198 (0.488) |
0.14 (0.403) |
PHACTR1 | 3 (2%) | 192 |
1 (1.00) |
0.891 (0.975) |
0.416 (0.679) |
|||
SMC1A | 6 (3%) | 189 |
0.763 (0.888) |
0.134 (0.396) |
0.573 (0.798) |
0.246 (0.52) |
0.174 (0.475) |
0.661 (0.839) |
KDM6A | 3 (2%) | 192 |
0.547 (0.796) |
0.475 (0.713) |
0.89 (0.975) |
0.783 (0.902) |
P value = 0.00026 (Fisher's exact test), Q value = 0.0024
Table S1. Gene #1: 'FLT3 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
FLT3 MUTATED | 48 | 3 | 0 | 0 |
FLT3 WILD-TYPE | 95 | 11 | 27 | 2 |
Figure S1. Get High-res Image Gene #1: 'FLT3 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
![](D1V1.png)
P value = 0.00016 (Fisher's exact test), Q value = 0.0017
Table S2. Gene #1: 'FLT3 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
FLT3 MUTATED | 9 | 7 | 13 | 23 |
FLT3 WILD-TYPE | 24 | 56 | 35 | 22 |
Figure S2. Get High-res Image Gene #1: 'FLT3 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D1V2.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S3. Gene #1: 'FLT3 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
FLT3 MUTATED | 6 | 17 | 23 |
FLT3 WILD-TYPE | 67 | 33 | 22 |
Figure S3. Get High-res Image Gene #1: 'FLT3 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D1V3.png)
P value = 0.00011 (Fisher's exact test), Q value = 0.0015
Table S4. Gene #1: 'FLT3 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
FLT3 MUTATED | 5 | 2 | 2 | 6 | 14 | 17 |
FLT3 WILD-TYPE | 11 | 11 | 13 | 51 | 12 | 24 |
Figure S4. Get High-res Image Gene #1: 'FLT3 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D1V4.png)
P value = 0.00043 (Fisher's exact test), Q value = 0.0038
Table S5. Gene #1: 'FLT3 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
FLT3 MUTATED | 23 | 4 | 6 | 18 |
FLT3 WILD-TYPE | 34 | 34 | 36 | 28 |
Figure S5. Get High-res Image Gene #1: 'FLT3 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D1V5.png)
P value = 0.00078 (Fisher's exact test), Q value = 0.0058
Table S6. Gene #1: 'FLT3 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
FLT3 MUTATED | 30 | 5 | 16 |
FLT3 WILD-TYPE | 37 | 30 | 65 |
Figure S6. Get High-res Image Gene #1: 'FLT3 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D1V6.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S7. Gene #2: 'NPM1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
NPM1 MUTATED | 50 | 0 | 0 | 0 |
NPM1 WILD-TYPE | 93 | 14 | 27 | 2 |
Figure S7. Get High-res Image Gene #2: 'NPM1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
![](D2V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S8. Gene #2: 'NPM1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
NPM1 MUTATED | 8 | 4 | 13 | 26 |
NPM1 WILD-TYPE | 25 | 59 | 35 | 19 |
Figure S8. Get High-res Image Gene #2: 'NPM1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D2V2.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S9. Gene #2: 'NPM1 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
NPM1 MUTATED | 1 | 20 | 25 |
NPM1 WILD-TYPE | 72 | 30 | 20 |
Figure S9. Get High-res Image Gene #2: 'NPM1 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D2V3.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S10. Gene #2: 'NPM1 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
NPM1 MUTATED | 0 | 0 | 0 | 1 | 23 | 22 |
NPM1 WILD-TYPE | 16 | 13 | 15 | 56 | 3 | 19 |
Figure S10. Get High-res Image Gene #2: 'NPM1 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D2V4.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S11. Gene #2: 'NPM1 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
NPM1 MUTATED | 35 | 2 | 1 | 12 |
NPM1 WILD-TYPE | 22 | 36 | 41 | 34 |
Figure S11. Get High-res Image Gene #2: 'NPM1 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D2V5.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S12. Gene #2: 'NPM1 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
NPM1 MUTATED | 48 | 1 | 1 |
NPM1 WILD-TYPE | 19 | 34 | 80 |
Figure S12. Get High-res Image Gene #2: 'NPM1 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D2V6.png)
P value = 0.854 (Fisher's exact test), Q value = 0.95
Table S13. Gene #3: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
DNMT3A MUTATED | 36 | 4 | 5 | 0 |
DNMT3A WILD-TYPE | 107 | 10 | 22 | 2 |
P value = 0.0305 (Fisher's exact test), Q value = 0.13
Table S14. Gene #3: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
DNMT3A MUTATED | 5 | 16 | 19 | 7 |
DNMT3A WILD-TYPE | 28 | 47 | 29 | 38 |
Figure S13. Get High-res Image Gene #3: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D3V2.png)
P value = 0.0242 (Fisher's exact test), Q value = 0.11
Table S15. Gene #3: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
DNMT3A MUTATED | 11 | 18 | 12 |
DNMT3A WILD-TYPE | 62 | 32 | 33 |
Figure S14. Get High-res Image Gene #3: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D3V3.png)
P value = 0.00249 (Fisher's exact test), Q value = 0.014
Table S16. Gene #3: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
DNMT3A MUTATED | 0 | 3 | 0 | 14 | 11 | 13 |
DNMT3A WILD-TYPE | 16 | 10 | 15 | 43 | 15 | 28 |
Figure S15. Get High-res Image Gene #3: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D3V4.png)
P value = 0.00235 (Fisher's exact test), Q value = 0.014
Table S17. Gene #3: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
DNMT3A MUTATED | 22 | 4 | 5 | 13 |
DNMT3A WILD-TYPE | 35 | 34 | 37 | 33 |
Figure S16. Get High-res Image Gene #3: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D3V5.png)
P value = 0.00263 (Fisher's exact test), Q value = 0.015
Table S18. Gene #3: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
DNMT3A MUTATED | 25 | 3 | 16 |
DNMT3A WILD-TYPE | 42 | 32 | 65 |
Figure S17. Get High-res Image Gene #3: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D3V6.png)
P value = 0.0995 (Fisher's exact test), Q value = 0.32
Table S19. Gene #4: 'IDH2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
IDH2 MUTATED | 14 | 4 | 1 | 0 |
IDH2 WILD-TYPE | 129 | 10 | 26 | 2 |
P value = 0.0164 (Fisher's exact test), Q value = 0.074
Table S20. Gene #4: 'IDH2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
IDH2 MUTATED | 0 | 11 | 2 | 5 |
IDH2 WILD-TYPE | 33 | 52 | 46 | 40 |
Figure S18. Get High-res Image Gene #4: 'IDH2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D4V2.png)
P value = 0.686 (Fisher's exact test), Q value = 0.84
Table S21. Gene #4: 'IDH2 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
IDH2 MUTATED | 8 | 6 | 3 |
IDH2 WILD-TYPE | 65 | 44 | 42 |
P value = 0.342 (Fisher's exact test), Q value = 0.63
Table S22. Gene #4: 'IDH2 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
IDH2 MUTATED | 0 | 2 | 0 | 9 | 2 | 4 |
IDH2 WILD-TYPE | 16 | 11 | 15 | 48 | 24 | 37 |
P value = 0.748 (Fisher's exact test), Q value = 0.88
Table S23. Gene #4: 'IDH2 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
IDH2 MUTATED | 5 | 2 | 5 | 5 |
IDH2 WILD-TYPE | 52 | 36 | 37 | 41 |
P value = 0.185 (Fisher's exact test), Q value = 0.49
Table S24. Gene #4: 'IDH2 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
IDH2 MUTATED | 5 | 1 | 11 |
IDH2 WILD-TYPE | 62 | 34 | 70 |
P value = 1 (Fisher's exact test), Q value = 1
Table S25. Gene #5: 'IDH1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
IDH1 MUTATED | 14 | 1 | 2 | 0 |
IDH1 WILD-TYPE | 129 | 13 | 25 | 2 |
P value = 0.00585 (Fisher's exact test), Q value = 0.03
Table S26. Gene #5: 'IDH1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
IDH1 MUTATED | 6 | 10 | 1 | 1 |
IDH1 WILD-TYPE | 27 | 53 | 47 | 44 |
Figure S19. Get High-res Image Gene #5: 'IDH1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D5V2.png)
P value = 0.256 (Fisher's exact test), Q value = 0.52
Table S27. Gene #5: 'IDH1 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
IDH1 MUTATED | 7 | 2 | 6 |
IDH1 WILD-TYPE | 66 | 48 | 39 |
P value = 0.256 (Fisher's exact test), Q value = 0.52
Table S28. Gene #5: 'IDH1 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
IDH1 MUTATED | 0 | 0 | 0 | 8 | 4 | 3 |
IDH1 WILD-TYPE | 16 | 13 | 15 | 49 | 22 | 38 |
P value = 0.235 (Fisher's exact test), Q value = 0.52
Table S29. Gene #5: 'IDH1 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
IDH1 MUTATED | 4 | 4 | 2 | 8 |
IDH1 WILD-TYPE | 53 | 34 | 40 | 38 |
P value = 0.803 (Fisher's exact test), Q value = 0.91
Table S30. Gene #5: 'IDH1 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
IDH1 MUTATED | 8 | 3 | 7 |
IDH1 WILD-TYPE | 59 | 32 | 74 |
P value = 0.36 (Fisher's exact test), Q value = 0.63
Table S31. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
RUNX1 MUTATED | 12 | 3 | 3 | 0 |
RUNX1 WILD-TYPE | 131 | 11 | 24 | 2 |
P value = 5e-04 (Fisher's exact test), Q value = 0.0042
Table S32. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
RUNX1 MUTATED | 0 | 13 | 2 | 1 |
RUNX1 WILD-TYPE | 33 | 50 | 46 | 44 |
Figure S20. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D6V2.png)
P value = 0.00205 (Fisher's exact test), Q value = 0.013
Table S33. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
RUNX1 MUTATED | 13 | 3 | 0 |
RUNX1 WILD-TYPE | 60 | 47 | 45 |
Figure S21. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D6V3.png)
P value = 5e-05 (Fisher's exact test), Q value = 0.00075
Table S34. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
RUNX1 MUTATED | 0 | 1 | 0 | 15 | 0 | 0 |
RUNX1 WILD-TYPE | 16 | 12 | 15 | 42 | 26 | 41 |
Figure S22. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D6V4.png)
P value = 0.00055 (Fisher's exact test), Q value = 0.0043
Table S35. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
RUNX1 MUTATED | 1 | 4 | 10 | 1 |
RUNX1 WILD-TYPE | 56 | 34 | 32 | 45 |
Figure S23. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D6V5.png)
P value = 0.00092 (Fisher's exact test), Q value = 0.0063
Table S36. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
RUNX1 MUTATED | 0 | 4 | 12 |
RUNX1 WILD-TYPE | 67 | 31 | 69 |
Figure S24. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D6V6.png)
P value = 0.354 (Fisher's exact test), Q value = 0.63
Table S37. Gene #7: 'TET2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
TET2 MUTATED | 11 | 3 | 2 | 0 |
TET2 WILD-TYPE | 132 | 11 | 25 | 2 |
P value = 0.44 (Fisher's exact test), Q value = 0.69
Table S38. Gene #7: 'TET2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
TET2 MUTATED | 2 | 8 | 2 | 4 |
TET2 WILD-TYPE | 31 | 55 | 46 | 41 |
P value = 0.29 (Fisher's exact test), Q value = 0.56
Table S39. Gene #7: 'TET2 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
TET2 MUTATED | 9 | 2 | 4 |
TET2 WILD-TYPE | 64 | 48 | 41 |
P value = 0.572 (Fisher's exact test), Q value = 0.8
Table S40. Gene #7: 'TET2 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
TET2 MUTATED | 0 | 0 | 2 | 7 | 3 | 3 |
TET2 WILD-TYPE | 16 | 13 | 13 | 50 | 23 | 38 |
P value = 0.66 (Fisher's exact test), Q value = 0.84
Table S41. Gene #7: 'TET2 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
TET2 MUTATED | 6 | 2 | 3 | 6 |
TET2 WILD-TYPE | 51 | 36 | 39 | 40 |
P value = 0.845 (Fisher's exact test), Q value = 0.95
Table S42. Gene #7: 'TET2 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
TET2 MUTATED | 7 | 2 | 8 |
TET2 WILD-TYPE | 60 | 33 | 73 |
P value = 0.421 (Fisher's exact test), Q value = 0.68
Table S43. Gene #8: 'NRAS MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
NRAS MUTATED | 10 | 1 | 4 | 0 |
NRAS WILD-TYPE | 133 | 13 | 23 | 2 |
P value = 0.949 (Fisher's exact test), Q value = 1
Table S44. Gene #8: 'NRAS MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
NRAS MUTATED | 3 | 5 | 3 | 4 |
NRAS WILD-TYPE | 30 | 58 | 45 | 41 |
P value = 0.601 (Fisher's exact test), Q value = 0.8
Table S45. Gene #8: 'NRAS MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
NRAS MUTATED | 5 | 5 | 2 |
NRAS WILD-TYPE | 68 | 45 | 43 |
P value = 0.938 (Fisher's exact test), Q value = 1
Table S46. Gene #8: 'NRAS MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
NRAS MUTATED | 0 | 1 | 1 | 4 | 2 | 4 |
NRAS WILD-TYPE | 16 | 12 | 14 | 53 | 24 | 37 |
P value = 0.813 (Fisher's exact test), Q value = 0.92
Table S47. Gene #8: 'NRAS MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
NRAS MUTATED | 5 | 3 | 4 | 2 |
NRAS WILD-TYPE | 52 | 35 | 38 | 44 |
P value = 0.668 (Fisher's exact test), Q value = 0.84
Table S48. Gene #8: 'NRAS MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
NRAS MUTATED | 7 | 2 | 5 |
NRAS WILD-TYPE | 60 | 33 | 76 |
P value = 0.421 (Fisher's exact test), Q value = 0.68
Table S49. Gene #9: 'WT1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
WT1 MUTATED | 11 | 1 | 0 | 0 |
WT1 WILD-TYPE | 132 | 13 | 27 | 2 |
P value = 0.0046 (Fisher's exact test), Q value = 0.025
Table S50. Gene #9: 'WT1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
WT1 MUTATED | 1 | 0 | 3 | 7 |
WT1 WILD-TYPE | 32 | 63 | 45 | 38 |
Figure S25. Get High-res Image Gene #9: 'WT1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D9V2.png)
P value = 0.0825 (Fisher's exact test), Q value = 0.28
Table S51. Gene #9: 'WT1 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
WT1 MUTATED | 2 | 2 | 6 |
WT1 WILD-TYPE | 71 | 48 | 39 |
P value = 0.365 (Fisher's exact test), Q value = 0.63
Table S52. Gene #9: 'WT1 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
WT1 MUTATED | 0 | 1 | 0 | 3 | 4 | 2 |
WT1 WILD-TYPE | 16 | 12 | 15 | 54 | 22 | 39 |
P value = 0.0678 (Fisher's exact test), Q value = 0.25
Table S53. Gene #9: 'WT1 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
WT1 MUTATED | 2 | 0 | 3 | 6 |
WT1 WILD-TYPE | 55 | 38 | 39 | 40 |
P value = 0.275 (Fisher's exact test), Q value = 0.54
Table S54. Gene #9: 'WT1 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
WT1 MUTATED | 5 | 0 | 6 |
WT1 WILD-TYPE | 62 | 35 | 75 |
P value = 1 (Fisher's exact test), Q value = 1
Table S55. Gene #10: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
U2AF1 MUTATED | 5 | 0 | 1 | 0 |
U2AF1 WILD-TYPE | 138 | 14 | 26 | 2 |
P value = 0.0481 (Fisher's exact test), Q value = 0.18
Table S56. Gene #10: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
U2AF1 MUTATED | 0 | 6 | 2 | 0 |
U2AF1 WILD-TYPE | 33 | 57 | 46 | 45 |
Figure S26. Get High-res Image Gene #10: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D10V2.png)
P value = 0.23 (Fisher's exact test), Q value = 0.52
Table S57. Gene #10: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
U2AF1 MUTATED | 5 | 2 | 0 |
U2AF1 WILD-TYPE | 68 | 48 | 45 |
P value = 0.259 (Fisher's exact test), Q value = 0.52
Table S58. Gene #10: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
U2AF1 MUTATED | 0 | 0 | 0 | 6 | 0 | 1 |
U2AF1 WILD-TYPE | 16 | 13 | 15 | 51 | 26 | 40 |
P value = 0.0756 (Fisher's exact test), Q value = 0.26
Table S59. Gene #10: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
U2AF1 MUTATED | 1 | 2 | 4 | 0 |
U2AF1 WILD-TYPE | 56 | 36 | 38 | 46 |
P value = 0.469 (Fisher's exact test), Q value = 0.71
Table S60. Gene #10: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
U2AF1 MUTATED | 1 | 2 | 4 |
U2AF1 WILD-TYPE | 66 | 33 | 77 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S61. Gene #11: 'TP53 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
TP53 MUTATED | 0 | 2 | 13 | 0 |
TP53 WILD-TYPE | 143 | 12 | 14 | 2 |
Figure S27. Get High-res Image Gene #11: 'TP53 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
![](D11V1.png)
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
Table S62. Gene #11: 'TP53 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
TP53 MUTATED | 0 | 15 | 0 | 0 |
TP53 WILD-TYPE | 33 | 48 | 48 | 45 |
Figure S28. Get High-res Image Gene #11: 'TP53 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D11V2.png)
P value = 9e-04 (Fisher's exact test), Q value = 0.0063
Table S63. Gene #11: 'TP53 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
TP53 MUTATED | 12 | 1 | 0 |
TP53 WILD-TYPE | 61 | 49 | 45 |
Figure S29. Get High-res Image Gene #11: 'TP53 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D11V3.png)
P value = 0.0024 (Fisher's exact test), Q value = 0.014
Table S64. Gene #11: 'TP53 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
TP53 MUTATED | 0 | 0 | 0 | 12 | 0 | 1 |
TP53 WILD-TYPE | 16 | 13 | 15 | 45 | 26 | 40 |
Figure S30. Get High-res Image Gene #11: 'TP53 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D11V4.png)
P value = 0.00018 (Fisher's exact test), Q value = 0.0018
Table S65. Gene #11: 'TP53 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
TP53 MUTATED | 0 | 9 | 3 | 2 |
TP53 WILD-TYPE | 57 | 29 | 39 | 44 |
Figure S31. Get High-res Image Gene #11: 'TP53 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D11V5.png)
P value = 0.00012 (Fisher's exact test), Q value = 0.0015
Table S66. Gene #11: 'TP53 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
TP53 MUTATED | 0 | 8 | 6 |
TP53 WILD-TYPE | 67 | 27 | 75 |
Figure S32. Get High-res Image Gene #11: 'TP53 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D11V6.png)
P value = 0.59 (Fisher's exact test), Q value = 0.8
Table S67. Gene #12: 'CEBPA MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
CEBPA MUTATED | 9 | 0 | 3 | 0 |
CEBPA WILD-TYPE | 134 | 14 | 24 | 2 |
P value = 0.434 (Fisher's exact test), Q value = 0.69
Table S68. Gene #12: 'CEBPA MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
CEBPA MUTATED | 2 | 2 | 5 | 4 |
CEBPA WILD-TYPE | 31 | 61 | 43 | 41 |
P value = 0.198 (Fisher's exact test), Q value = 0.49
Table S69. Gene #12: 'CEBPA MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
CEBPA MUTATED | 9 | 2 | 2 |
CEBPA WILD-TYPE | 64 | 48 | 43 |
P value = 0.00013 (Fisher's exact test), Q value = 0.0015
Table S70. Gene #12: 'CEBPA MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
CEBPA MUTATED | 0 | 0 | 7 | 4 | 1 | 1 |
CEBPA WILD-TYPE | 16 | 13 | 8 | 53 | 25 | 40 |
Figure S33. Get High-res Image Gene #12: 'CEBPA MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D12V4.png)
P value = 0.0345 (Fisher's exact test), Q value = 0.14
Table S71. Gene #12: 'CEBPA MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
CEBPA MUTATED | 1 | 1 | 4 | 7 |
CEBPA WILD-TYPE | 56 | 37 | 38 | 39 |
Figure S34. Get High-res Image Gene #12: 'CEBPA MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
![](D12V5.png)
P value = 0.00969 (Fisher's exact test), Q value = 0.047
Table S72. Gene #12: 'CEBPA MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
CEBPA MUTATED | 2 | 0 | 11 |
CEBPA WILD-TYPE | 65 | 35 | 70 |
Figure S35. Get High-res Image Gene #12: 'CEBPA MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
![](D12V6.png)
P value = 1 (Fisher's exact test), Q value = 1
Table S73. Gene #13: 'PHF6 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
PHF6 MUTATED | 5 | 0 | 1 | 0 |
PHF6 WILD-TYPE | 138 | 14 | 26 | 2 |
P value = 0.632 (Fisher's exact test), Q value = 0.82
Table S74. Gene #13: 'PHF6 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
PHF6 MUTATED | 1 | 1 | 3 | 1 |
PHF6 WILD-TYPE | 32 | 62 | 45 | 44 |
P value = 0.732 (Fisher's exact test), Q value = 0.87
Table S75. Gene #13: 'PHF6 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
PHF6 MUTATED | 2 | 1 | 2 |
PHF6 WILD-TYPE | 71 | 49 | 43 |
P value = 0.473 (Fisher's exact test), Q value = 0.71
Table S76. Gene #13: 'PHF6 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
PHF6 MUTATED | 0 | 0 | 0 | 4 | 1 | 0 |
PHF6 WILD-TYPE | 16 | 13 | 15 | 53 | 25 | 41 |
P value = 0.726 (Fisher's exact test), Q value = 0.87
Table S77. Gene #13: 'PHF6 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
PHF6 MUTATED | 2 | 0 | 2 | 1 |
PHF6 WILD-TYPE | 55 | 38 | 40 | 45 |
P value = 0.344 (Fisher's exact test), Q value = 0.63
Table S78. Gene #13: 'PHF6 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
PHF6 MUTATED | 1 | 0 | 4 |
PHF6 WILD-TYPE | 66 | 35 | 77 |
P value = 0.074 (Fisher's exact test), Q value = 0.26
Table S79. Gene #14: 'KRAS MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
KRAS MUTATED | 5 | 0 | 2 | 1 |
KRAS WILD-TYPE | 138 | 14 | 25 | 1 |
P value = 0.725 (Fisher's exact test), Q value = 0.87
Table S80. Gene #14: 'KRAS MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
KRAS MUTATED | 0 | 3 | 2 | 1 |
KRAS WILD-TYPE | 33 | 60 | 46 | 44 |
P value = 0.324 (Fisher's exact test), Q value = 0.61
Table S81. Gene #14: 'KRAS MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
KRAS MUTATED | 4 | 3 | 0 |
KRAS WILD-TYPE | 69 | 47 | 45 |
P value = 0.65 (Fisher's exact test), Q value = 0.84
Table S82. Gene #14: 'KRAS MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
KRAS MUTATED | 0 | 0 | 0 | 4 | 0 | 3 |
KRAS WILD-TYPE | 16 | 13 | 15 | 53 | 26 | 38 |
P value = 0.255 (Fisher's exact test), Q value = 0.52
Table S83. Gene #14: 'KRAS MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
KRAS MUTATED | 3 | 3 | 0 | 1 |
KRAS WILD-TYPE | 54 | 35 | 42 | 45 |
P value = 0.682 (Fisher's exact test), Q value = 0.84
Table S84. Gene #14: 'KRAS MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
KRAS MUTATED | 3 | 2 | 2 |
KRAS WILD-TYPE | 64 | 33 | 79 |
P value = 1 (Fisher's exact test), Q value = 1
Table S85. Gene #15: 'SMC3 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
SMC3 MUTATED | 6 | 0 | 1 | 0 |
SMC3 WILD-TYPE | 137 | 14 | 26 | 2 |
P value = 0.205 (Fisher's exact test), Q value = 0.5
Table S86. Gene #15: 'SMC3 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
SMC3 MUTATED | 0 | 1 | 4 | 2 |
SMC3 WILD-TYPE | 33 | 62 | 44 | 43 |
P value = 0.552 (Fisher's exact test), Q value = 0.8
Table S87. Gene #15: 'SMC3 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
SMC3 MUTATED | 2 | 2 | 3 |
SMC3 WILD-TYPE | 71 | 48 | 42 |
P value = 0.444 (Fisher's exact test), Q value = 0.69
Table S88. Gene #15: 'SMC3 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
SMC3 MUTATED | 0 | 0 | 1 | 2 | 3 | 1 |
SMC3 WILD-TYPE | 16 | 13 | 14 | 55 | 23 | 40 |
P value = 0.218 (Fisher's exact test), Q value = 0.5
Table S89. Gene #15: 'SMC3 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
SMC3 MUTATED | 1 | 0 | 3 | 3 |
SMC3 WILD-TYPE | 56 | 38 | 39 | 43 |
P value = 0.416 (Fisher's exact test), Q value = 0.68
Table S90. Gene #15: 'SMC3 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
SMC3 MUTATED | 4 | 0 | 3 |
SMC3 WILD-TYPE | 63 | 35 | 78 |
P value = 0.103 (Fisher's exact test), Q value = 0.32
Table S91. Gene #16: 'KIT MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
KIT MUTATED | 6 | 0 | 0 | 1 |
KIT WILD-TYPE | 137 | 14 | 27 | 1 |
P value = 0.0136 (Fisher's exact test), Q value = 0.064
Table S92. Gene #16: 'KIT MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
KIT MUTATED | 1 | 1 | 6 | 0 |
KIT WILD-TYPE | 32 | 62 | 42 | 45 |
Figure S36. Get High-res Image Gene #16: 'KIT MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
![](D16V2.png)
P value = 0.327 (Fisher's exact test), Q value = 0.61
Table S93. Gene #16: 'KIT MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
KIT MUTATED | 4 | 3 | 0 |
KIT WILD-TYPE | 69 | 47 | 45 |
P value = 0.00593 (Fisher's exact test), Q value = 0.03
Table S94. Gene #16: 'KIT MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
KIT MUTATED | 0 | 3 | 2 | 2 | 0 | 0 |
KIT WILD-TYPE | 16 | 10 | 13 | 55 | 26 | 41 |
Figure S37. Get High-res Image Gene #16: 'KIT MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D16V4.png)
P value = 0.357 (Fisher's exact test), Q value = 0.63
Table S95. Gene #16: 'KIT MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
KIT MUTATED | 1 | 3 | 3 | 1 |
KIT WILD-TYPE | 56 | 35 | 39 | 45 |
P value = 0.189 (Fisher's exact test), Q value = 0.49
Table S96. Gene #16: 'KIT MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
KIT MUTATED | 1 | 3 | 4 |
KIT WILD-TYPE | 66 | 32 | 77 |
P value = 0.48 (Fisher's exact test), Q value = 0.71
Table S97. Gene #17: 'RAD21 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
RAD21 MUTATED | 4 | 1 | 0 | 0 |
RAD21 WILD-TYPE | 139 | 13 | 27 | 2 |
P value = 0.365 (Fisher's exact test), Q value = 0.63
Table S98. Gene #17: 'RAD21 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
RAD21 MUTATED | 0 | 1 | 1 | 3 |
RAD21 WILD-TYPE | 33 | 62 | 47 | 42 |
P value = 0.606 (Fisher's exact test), Q value = 0.8
Table S99. Gene #17: 'RAD21 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
RAD21 MUTATED | 1 | 2 | 2 |
RAD21 WILD-TYPE | 72 | 48 | 43 |
P value = 0.187 (Fisher's exact test), Q value = 0.49
Table S100. Gene #17: 'RAD21 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
RAD21 MUTATED | 0 | 0 | 1 | 0 | 2 | 2 |
RAD21 WILD-TYPE | 16 | 13 | 14 | 57 | 24 | 39 |
P value = 0.213 (Fisher's exact test), Q value = 0.5
Table S101. Gene #17: 'RAD21 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
RAD21 MUTATED | 2 | 0 | 0 | 3 |
RAD21 WILD-TYPE | 55 | 38 | 42 | 43 |
P value = 0.606 (Fisher's exact test), Q value = 0.8
Table S102. Gene #17: 'RAD21 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
RAD21 MUTATED | 3 | 0 | 2 |
RAD21 WILD-TYPE | 64 | 35 | 79 |
P value = 0.103 (Fisher's exact test), Q value = 0.32
Table S103. Gene #18: 'EZH2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
EZH2 MUTATED | 1 | 0 | 2 | 0 |
EZH2 WILD-TYPE | 142 | 14 | 25 | 2 |
P value = 0.258 (Fisher's exact test), Q value = 0.52
Table S104. Gene #18: 'EZH2 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
EZH2 MUTATED | 3 | 0 | 0 |
EZH2 WILD-TYPE | 70 | 50 | 45 |
P value = 0.589 (Fisher's exact test), Q value = 0.8
Table S105. Gene #18: 'EZH2 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
EZH2 MUTATED | 0 | 0 | 0 | 3 | 0 | 0 |
EZH2 WILD-TYPE | 16 | 13 | 15 | 54 | 26 | 41 |
P value = 0.158 (Fisher's exact test), Q value = 0.44
Table S106. Gene #18: 'EZH2 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
EZH2 MUTATED | 0 | 1 | 2 | 0 |
EZH2 WILD-TYPE | 57 | 37 | 40 | 46 |
P value = 0.418 (Fisher's exact test), Q value = 0.68
Table S107. Gene #18: 'EZH2 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
EZH2 MUTATED | 0 | 1 | 2 |
EZH2 WILD-TYPE | 67 | 34 | 79 |
P value = 0.562 (Fisher's exact test), Q value = 0.8
Table S108. Gene #19: 'STAG2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
STAG2 MUTATED | 5 | 1 | 0 | 0 |
STAG2 WILD-TYPE | 138 | 13 | 27 | 2 |
P value = 0.198 (Fisher's exact test), Q value = 0.49
Table S109. Gene #19: 'STAG2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
STAG2 MUTATED | 0 | 2 | 0 | 3 |
STAG2 WILD-TYPE | 33 | 61 | 48 | 42 |
P value = 0.132 (Fisher's exact test), Q value = 0.39
Table S110. Gene #19: 'STAG2 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
STAG2 MUTATED | 2 | 0 | 3 |
STAG2 WILD-TYPE | 71 | 50 | 42 |
P value = 0.0278 (Fisher's exact test), Q value = 0.12
Table S111. Gene #19: 'STAG2 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
STAG2 MUTATED | 0 | 0 | 0 | 1 | 4 | 0 |
STAG2 WILD-TYPE | 16 | 13 | 15 | 56 | 22 | 41 |
Figure S38. Get High-res Image Gene #19: 'STAG2 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
![](D19V4.png)
P value = 0.688 (Fisher's exact test), Q value = 0.84
Table S112. Gene #19: 'STAG2 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
STAG2 MUTATED | 2 | 1 | 0 | 2 |
STAG2 WILD-TYPE | 55 | 37 | 42 | 44 |
P value = 0.0649 (Fisher's exact test), Q value = 0.24
Table S113. Gene #19: 'STAG2 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
STAG2 MUTATED | 4 | 1 | 0 |
STAG2 WILD-TYPE | 63 | 34 | 81 |
P value = 0.682 (Fisher's exact test), Q value = 0.84
Table S114. Gene #20: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
PTPN11 MUTATED | 6 | 0 | 2 | 0 |
PTPN11 WILD-TYPE | 137 | 14 | 25 | 2 |
P value = 0.46 (Fisher's exact test), Q value = 0.71
Table S115. Gene #20: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
PTPN11 MUTATED | 2 | 1 | 3 | 3 |
PTPN11 WILD-TYPE | 31 | 62 | 45 | 42 |
P value = 0.0474 (Fisher's exact test), Q value = 0.18
Table S116. Gene #20: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
PTPN11 MUTATED | 1 | 2 | 5 |
PTPN11 WILD-TYPE | 72 | 48 | 40 |
Figure S39. Get High-res Image Gene #20: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
![](D20V3.png)
P value = 0.504 (Fisher's exact test), Q value = 0.74
Table S117. Gene #20: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
PTPN11 MUTATED | 0 | 1 | 0 | 2 | 3 | 2 |
PTPN11 WILD-TYPE | 16 | 12 | 15 | 55 | 23 | 39 |
P value = 0.0996 (Fisher's exact test), Q value = 0.32
Table S118. Gene #20: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
PTPN11 MUTATED | 6 | 1 | 0 | 2 |
PTPN11 WILD-TYPE | 51 | 37 | 42 | 44 |
P value = 0.208 (Fisher's exact test), Q value = 0.5
Table S119. Gene #20: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
PTPN11 MUTATED | 6 | 1 | 2 |
PTPN11 WILD-TYPE | 61 | 34 | 79 |
P value = 0.737 (Fisher's exact test), Q value = 0.87
Table S120. Gene #21: 'ASXL1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
ASXL1 MUTATED | 4 | 0 | 1 | 0 |
ASXL1 WILD-TYPE | 139 | 14 | 26 | 2 |
P value = 0.0773 (Fisher's exact test), Q value = 0.26
Table S121. Gene #21: 'ASXL1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
ASXL1 MUTATED | 0 | 4 | 0 | 0 |
ASXL1 WILD-TYPE | 33 | 59 | 48 | 45 |
P value = 0.259 (Fisher's exact test), Q value = 0.52
Table S122. Gene #21: 'ASXL1 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
ASXL1 MUTATED | 3 | 0 | 0 |
ASXL1 WILD-TYPE | 70 | 50 | 45 |
P value = 0.592 (Fisher's exact test), Q value = 0.8
Table S123. Gene #21: 'ASXL1 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
ASXL1 MUTATED | 0 | 0 | 0 | 3 | 0 | 0 |
ASXL1 WILD-TYPE | 16 | 13 | 15 | 54 | 26 | 41 |
P value = 0.158 (Fisher's exact test), Q value = 0.44
Table S124. Gene #21: 'ASXL1 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
ASXL1 MUTATED | 0 | 1 | 2 | 0 |
ASXL1 WILD-TYPE | 57 | 37 | 40 | 46 |
P value = 0.416 (Fisher's exact test), Q value = 0.68
Table S125. Gene #21: 'ASXL1 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
ASXL1 MUTATED | 0 | 1 | 2 |
ASXL1 WILD-TYPE | 67 | 34 | 79 |
P value = 0.288 (Fisher's exact test), Q value = 0.56
Table S126. Gene #22: 'SUZ12 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
SUZ12 MUTATED | 2 | 1 | 0 | 0 |
SUZ12 WILD-TYPE | 141 | 13 | 27 | 2 |
P value = 0.788 (Fisher's exact test), Q value = 0.9
Table S127. Gene #22: 'SUZ12 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
SUZ12 MUTATED | 0 | 2 | 1 | 0 |
SUZ12 WILD-TYPE | 33 | 61 | 47 | 45 |
P value = 0.26 (Fisher's exact test), Q value = 0.52
Table S128. Gene #22: 'SUZ12 MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
SUZ12 MUTATED | 3 | 0 | 0 |
SUZ12 WILD-TYPE | 70 | 50 | 45 |
P value = 0.592 (Fisher's exact test), Q value = 0.8
Table S129. Gene #22: 'SUZ12 MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
SUZ12 MUTATED | 0 | 0 | 0 | 3 | 0 | 0 |
SUZ12 WILD-TYPE | 16 | 13 | 15 | 54 | 26 | 41 |
P value = 0.198 (Fisher's exact test), Q value = 0.49
Table S130. Gene #22: 'SUZ12 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
SUZ12 MUTATED | 0 | 1 | 0 | 2 |
SUZ12 WILD-TYPE | 57 | 37 | 42 | 44 |
P value = 0.14 (Fisher's exact test), Q value = 0.4
Table S131. Gene #22: 'SUZ12 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
SUZ12 MUTATED | 0 | 2 | 1 |
SUZ12 WILD-TYPE | 67 | 33 | 80 |
P value = 1 (Fisher's exact test), Q value = 1
Table S132. Gene #23: 'PHACTR1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
PHACTR1 MUTATED | 0 | 1 | 1 | 1 |
PHACTR1 WILD-TYPE | 33 | 62 | 47 | 44 |
P value = 0.891 (Fisher's exact test), Q value = 0.98
Table S133. Gene #23: 'PHACTR1 MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
PHACTR1 MUTATED | 1 | 1 | 0 | 1 |
PHACTR1 WILD-TYPE | 56 | 37 | 42 | 45 |
P value = 0.416 (Fisher's exact test), Q value = 0.68
Table S134. Gene #23: 'PHACTR1 MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
PHACTR1 MUTATED | 0 | 1 | 2 |
PHACTR1 WILD-TYPE | 67 | 34 | 79 |
P value = 0.763 (Fisher's exact test), Q value = 0.89
Table S135. Gene #24: 'SMC1A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
SMC1A MUTATED | 6 | 0 | 0 | 0 |
SMC1A WILD-TYPE | 137 | 14 | 27 | 2 |
P value = 0.134 (Fisher's exact test), Q value = 0.4
Table S136. Gene #24: 'SMC1A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
SMC1A MUTATED | 0 | 1 | 1 | 4 |
SMC1A WILD-TYPE | 33 | 62 | 47 | 41 |
P value = 0.573 (Fisher's exact test), Q value = 0.8
Table S137. Gene #24: 'SMC1A MUTATION STATUS' versus Molecular Subtype #3: 'MRNASEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 73 | 50 | 45 |
SMC1A MUTATED | 2 | 3 | 1 |
SMC1A WILD-TYPE | 71 | 47 | 44 |
P value = 0.246 (Fisher's exact test), Q value = 0.52
Table S138. Gene #24: 'SMC1A MUTATION STATUS' versus Molecular Subtype #4: 'MRNASEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 16 | 13 | 15 | 57 | 26 | 41 |
SMC1A MUTATED | 0 | 0 | 1 | 1 | 0 | 4 |
SMC1A WILD-TYPE | 16 | 13 | 14 | 56 | 26 | 37 |
P value = 0.174 (Fisher's exact test), Q value = 0.47
Table S139. Gene #24: 'SMC1A MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
SMC1A MUTATED | 3 | 0 | 0 | 3 |
SMC1A WILD-TYPE | 54 | 38 | 42 | 43 |
P value = 0.661 (Fisher's exact test), Q value = 0.84
Table S140. Gene #24: 'SMC1A MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
SMC1A MUTATED | 3 | 0 | 3 |
SMC1A WILD-TYPE | 64 | 35 | 78 |
P value = 0.547 (Fisher's exact test), Q value = 0.8
Table S141. Gene #25: 'KDM6A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 143 | 14 | 27 | 2 |
KDM6A MUTATED | 2 | 0 | 1 | 0 |
KDM6A WILD-TYPE | 141 | 14 | 26 | 2 |
P value = 0.475 (Fisher's exact test), Q value = 0.71
Table S142. Gene #25: 'KDM6A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 33 | 63 | 48 | 45 |
KDM6A MUTATED | 0 | 1 | 2 | 0 |
KDM6A WILD-TYPE | 33 | 62 | 46 | 45 |
P value = 0.89 (Fisher's exact test), Q value = 0.98
Table S143. Gene #25: 'KDM6A MUTATION STATUS' versus Molecular Subtype #5: 'MIRSEQ_CNMF'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 57 | 38 | 42 | 46 |
KDM6A MUTATED | 1 | 1 | 0 | 1 |
KDM6A WILD-TYPE | 56 | 37 | 42 | 45 |
P value = 0.783 (Fisher's exact test), Q value = 0.9
Table S144. Gene #25: 'KDM6A MUTATION STATUS' versus Molecular Subtype #6: 'MIRSEQ_CHIERARCHICAL'
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 67 | 35 | 81 |
KDM6A MUTATED | 1 | 1 | 1 |
KDM6A WILD-TYPE | 66 | 34 | 80 |
-
Mutation data file = sample_sig_gene_table.txt from Mutsig_2CV pipeline
-
Processed Mutation data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/LAML-TB/15166008/transformed.cor.cli.txt
-
Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/LAML-TB/15098833/LAML-TB.transferedmergedcluster.txt
-
Number of patients = 195
-
Number of significantly mutated genes = 25
-
Number of Molecular subtypes = 6
-
Exclude genes that fewer than K tumors have mutations, K = 3
For binary or multi-class clinical features (nominal or ordinal), 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.