Question: Methylation normalization between samples from different platform
0
gravatar for 9521ljh
3 months ago by
9521ljh20
9521ljh20 wrote:

hello

i have SARCOMA methylation data from BeadChip platform.

and i found normal methylation data samples in TCGA from Illumina Human Methylation 450.

in minfi package, i try to read data to normalization. However, the error occurs because of different data format.

in this case , how can i normalize it?

gene • 116 views
ADD COMMENTlink modified 3 months ago by ATpoint36k • written 3 months ago by 9521ljh20
2
gravatar for ATpoint
3 months ago by
ATpoint36k
Germany
ATpoint36k wrote:

You cannot. Platforms are too different to be used in the same statistical analysis. Results would be dominated by batch effects rather than biological truth.

ADD COMMENTlink written 3 months ago by ATpoint36k

sincerely really thank you!!!

ADD REPLYlink written 3 months ago by 9521ljh20
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