I would like to know your opinions about the correlation I obtained between qPCR and RNA-seq for 8 genes, being two of them reference genes. The r2 is good but I worry that qPCR FC are not as high as in RNAseq. It could be:
- Normalisation bias in RNAseq analysis: normalisation was performed because ex-vivo sample had 40% of eukaryotic RNA.
- Bias in library preparation, PCR step
Here are the correlation analysis and the technical analysis result:
Thanks for your help. Best, Bernardo