Table 1 TCGA multiple cancer DNA methylation dataset and co-methylation mining summary. The last column displays “number of clusters in common cluster pairs from platform 1/number of clusters in common cluster pairs from platform 2/number of common cluster pairs”
Dataset | Total Sample# | Total Normal# | HM-27 sample (normal) | lmQCM clusters | Probe pair (unique pair) in all clusters | HM-450 Sample (normal) | lmQCM clusters | Probe pair (unique pair) in all clusters | Common clusters between platforms |
|---|---|---|---|---|---|---|---|---|---|
GBM | 450 | 2 | 295(0) | 11 | 812429(807245) | 155(2) | 11 | 968165(967951) | 5/4/5 |
COAD | 555 | 75 | 203(37) | 13 | 1685392(1683052) | 352(38) | 8 | 917282(916822) | 4/4/4 |
CESC | 312 | 3 | 0 | NA | NA | 312(3) | 13 | 812354(811157) | NA |
OVCA | 623 | 30 | 613(30) | 24 | 351921(350936) | 10(0) | NA | NA | NA |
LIHC | 430 | 50 | 0 | NA | NA | 430(50) | 9 | 1059318(1057998) | NA |
LUSC | 573 | 69 | 161(27) | 11 | 2735398(2735122) | 412(42) | 16 | 1402241 | 8/10/11 |
BRCA | 343 | 27 | 343(27) | 9 | 692142(688536) | 0 | NA | NA | NA |
STAD | 470 | 27 | 73(25) | 7 | 6184477(6174821) | 397(2) | 11 | 2113303(2112253) | 4/6/7 |
THCA | 571 | 56 | 0 | NA | NA | 571(56) | 9 | 116820(116799) | NA |
UCEC | 591 | 35 | 118(1) | 8 | 1482759(1476728) | 473(34) | 17 | 629431(629159) | 7/11/12 |
AML | 388 | 0 | 194(0) | 13 | 841743(839045) | 194(0) | 14 | 433671(430841) | 11/13/14 |