How to present/evaluate RNAseq deconvolution results?

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6.5 years ago

Sharon ▴ 610

Hi Everyone

It is my first time to try RNAseq deconvolution. What I understand is that it is an estimation of the immune cell content. I draw a boxplot for the content in all my controls vs. all my tumors for all the immune cells. For example the figure attached is for Bcells. But don't know how to judge whether there is a big difference or not. Do we know a ceiling for the normal estimation of the immune cells content so we can say it is lower in tumor or not, something like normal blood pressure, normal sugar level? Or how do we present/evaluate such results?

Thanks

RNA-Seq • 2.0k views

ADD COMMENT • link updated 6.5 years ago by GenoMax 147k • written 6.5 years ago by Sharon ▴ 610

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Past threads that may be useful:
Help understand RNAseq deconvolution results?
Deconvolution methods on RNAseq data

ADD REPLY • link 6.5 years ago by GenoMax 147k

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I have edited your post this time but you will find this useful: How to add images to a Biostars post so the images show up in your post without having to click a link.

ADD REPLY • link 6.5 years ago by GenoMax 147k

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Thanks genomax. I also took a look to those posts but still not clear though :(

ADD REPLY • link 6.5 years ago by Sharon ▴ 610

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