Question: Methylation normalization between samples from different platform
0
gravatar for 9521ljh
9 months ago by
9521ljh40
9521ljh40 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 • 165 views
ADD COMMENTlink modified 9 months ago by ATpoint44k • written 9 months ago by 9521ljh40
2
gravatar for ATpoint
9 months ago by
ATpoint44k
ATpoint44k 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 9 months ago by ATpoint44k

sincerely really thank you!!!

ADD REPLYlink written 9 months ago by 9521ljh40
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