Higher Dimensional RNASeq Clustering Significance

Higher Dimensional RNASeq Clustering Significance

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@73ef4518

Last seen 29 minutes ago

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Looking at the principal components of our RNASeq data, there is clear separation between the diseased and controlled, however, this separation is in the 5th principal component, which only accounts for 0.45% of variance. There is no clear separation in the lower dimensions, which mostly show batch separation.

How can I statistically leverage the genes associated with this PC when they aren’t differentially expressed in DESeq2? I’ve attached an image of the plot. 5th and 6th PC of RNASeq data


DESeq2


RNASeq


PrincipalComponent


pcaExplorer

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