Any method to solve RNA-Seq's non-linearity problem for deconvoluting immune cell?
0
0
Entering edit mode
5.6 years ago
CY ▴ 750

I have been reading deconvolution method to separate RNA-Seq mixture into different immune cell. It seems that, like this and this discussion metioned, expression count from RNA-Seq data is not indenpende (non-linearly correlated) and this would result in poor accuracy of separation.

However, there are many tools, like TIMER or CIBERSORT, available for such task. Is there a widely recognized way to handle such problem?

By the way, I came across this article stating that TPM value from salmon and kalisto may yield more linear result. Would this solve the non-linearity problem?

RNA-Seq deconvolution • 1.1k views
ADD COMMENT

Login before adding your answer.

Traffic: 3013 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6