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Correlation between BCR batch and the processing batch for 27k arrays (January 20, 2012)
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{csv}Batch on the download page,"# after ""HumanMethylation27k"" in the file name, Level 1",Batch as the sixth field in the patient barcode
Batch 47,1,A00Y
Batch 56,2,A032
Batch 61,no data,
Batch 72,no data,
Batch 74,no data,
Batch 80,no data,
Batch 85,3,A112
Batch 93,4,A12E
Batch 96,no data,
Batch 103,no data,
Batch 109,no data,
Batch 117,no data,
Batch 120,no data,
Batch 124,no data,
Batch 136,no data,
Batch 142,no data,
Batch 147,no data,
Batch 155,no data,
Batch 167,no data,
Batch 177,no data,
Batch 185,no data,{csv} |
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)):
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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)):
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> 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 04 26 4 0 0 0 0 0 0 0 0 A032A088 07 2214 0 14 1 0 19 100 1 0 16 108 09 07 0 0 0 0 0 0 0 A058 0 2 1A10A 30 12 0 0 11 0 0 4 269 0 0 5 9 4 0 0 0 0 0 0 0 A0880 7 14A10N 0 1 0 0 0 1 12 0 2 80 91 71 0 0 09 0 0 0 0 0 A10AA10P 07 1216 01 04 0 90 012 0 58 13 932 40 0 0 0 0 0 0 0 0 A112 A10N1 11 0 1 0 0 0 15 12 0 2 3 0 5 118 20 1 9 015 0 9 0 0 0 0 0 A12E A10P0 70 16 10 40 0 0 12 0 80 13 321 0 20 02 0 21 0 0 0 0 0 A112A12R 0 1 110 13 0 0 0 50 0 15 3 0 514 18 200 90 1511 0 0 0 0 0 A12EA138 0 0 0 0 0 0 0 0 1 0 20 7 26 0 21 2 0 0 0 0 0 A12RA13K 0 07 31 0 0 0 05 2 0 15 3 018 14 4 019 0 116 0 08 0 0 0 A138A145 06 0 0 0 0 0 01 0 10 0 70 60 0 10 2 4 019 0 0 0 0 A148 A13K0 0 7 1 0 0 0 50 20 0 30 18 0 4 190 60 0 80 0 0 0 0 A145 6A14H 0 01 0 0 0 10 0 0 0 0 01 0 10 7 4 19 5 10 1 0 0 0 A148A14N 0 0 10 0 0 0 0 01 0 01 02 0 20 0 1 0 6 0 01 0 0 0 A14HA161 0 10 0 0 02 0 0 0 0 01 13 0 73 52 1017 10 0 0 0 A14NA16A 0 04 6 0 01 0 0 0 22 1 0 1 23 0 20 0 1 9 6 10 0 0 0 A161A16G 0 3 0 0 0 20 0 0 0 0 1 38 13 0 3 2 17 0 01 0 0 A16AA17F 0 4 6 0 1 0 0 0 224 0 1 3 0 0 9 0 0 0 0 1 A16G0 0 3 0 0 0 0 0A17Z 0 0 0 10 82 13 0 30 0 14 0 0 0 A17F0 0 01 0 0 46 0 0 0A18O 0 0 0 0 1 0 0 3 0 05 01 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 |
Significant batch-clinical traits correlations (the entire list can be found here):
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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
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Significant batch-clinical traits correlations (the entire list can be found here):
Correlation with survival
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