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Analysis of batch vs clinical traits
Number of clinical traits: 84
Number of batches based on tumor DNA methylation data (samples retrieved according to this pattern: TCGA-......-0....D-....-05): 24
Correlation between center and batches ('two'=center (second field in the patient barcode)):
> table(batchID,two)
two
batchID A1 A2 A7 A8 AC AN AO AQ AR B6 BH C8 D8 E2 E9 EW GI GM HN
A00Y 0 3 7 66 0 12 2 0 0 0 4 0 0 0 0 0 0 0 0
A032 0 22 0 14 0 19 10 1 0 16 10 0 0 0 0 0 0 0 0
A058 0 2 1 3 0 0 11 0 0 4 26 0 0 0 0 0 0 0 0
A088 7 14 0 1 0 0 1 0 8 9 7 0 0 0 0 0 0 0 0
A10A 0 12 0 0 0 9 0 0 5 9 4 0 0 0 0 0 0 0 0
A10N 0 1 0 0 0 1 12 2 0 1 1 0 0 9 0 0 0 0 0
A10P 7 16 1 4 0 0 12 0 8 13 32 0 0 0 0 0 0 0 0
A112 1 11 1 0 0 0 5 0 3 5 18 20 9 15 0 0 0 0 0
A12E 0 0 0 0 0 0 0 0 1 0 20 2 0 21 0 0 0 0 0
A12R 0 0 3 0 0 0 0 0 15 0 14 0 0 11 0 0 0 0 0
A138 0 0 0 0 0 0 0 0 1 0 7 6 0 2 0 0 0 0 0
A13K 0 7 1 0 0 0 5 2 0 3 18 4 19 6 0 8 0 0 0
A145 6 0 0 0 0 0 1 0 0 0 0 0 0 10 4 19 0 0 0
A148 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
A14H 0 1 0 0 0 0 0 0 0 0 1 0 7 5 10 1 0 0 0
A14N 0 0 0 0 0 0 0 1 0 1 2 0 20 1 6 1 0 0 0
A161 0 0 0 0 2 0 0 0 0 1 3 0 3 2 17 0 0 0 0
A16A 0 4 6 0 1 0 0 0 22 0 1 3 0 0 9 0 0 0 0
A16G 0 3 0 0 0 0 0 0 0 0 1 8 13 0 3 0 1 0 0
A17F 0 0 0 0 4 0 0 0 0 0 0 0 1 0 0 3 0 0 0
A17Z 0 0 0 0 2 0 0 0 4 0 0 0 0 0 1 0 0 6 0
A18O 0 0 0 0 1 0 0 0 5 1 1 0 0 0 1 0 0 7 1
A19F 0 2 0 1 0 0 0 0 0 1 0 0 0 1 0 0 0 0 0
A19Z 0 0 0 0 5 0 0 0 1 0 1 0 0 1 0 0 0 0 0
