Normalizing Two Datasets on Different Platforms For DEG Analysis
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8 months ago

Hi I am trying to run a DEG analysis for two different datasets. I want to normalize my datasets TOGETHER and then combine the expression. However, the platforms are different for the two datasets; one is a hybrid of GPL96(HG-U133A) and GPL97(HG-U133B) while the second dataset's platform is GPL10558. please how do I combine the two datasets to be able to normalize them accordingly before running the DEG analysis?

what R codes and tools should I use for the normalization?

will doing the normalization separately affect the DEG results?

RNA-Seq normalization Affymetrix datasets • 277 views
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Edit your question and remove the all caps, especially from the title. It is rude to use all caps.

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