Entering edit mode
6.5 years ago
meha.singh
•
0
Hi, My polysome fractions peaks show overall increase in knockouts along with a decrease in monosome peak intensity (A260)--compared to wild types. I have RNA seq data from polysome fractions of the wild type and knockout genotypes. Since there is already a bias in the polysome peak intensity, will DESeq2 work well for a differential analysis of genes for polysome occupancy between them?
The best way to check is to see how DESeq2 normalises the data (if it can). This can be done by checking the dispersion estimates plot (uses normalised counts) and also a simple box-plot of the regularised logged normalised counts.