Dear all,
I have performed CUT&TAG and tried to pulldown H3K27me3 containing nucleosomes in the cells treated with EZH2 inhibitor. I spiked my human cells with 20% of Drosophila cells.
As you know that EZH2 is writer of H3K27me3 marks, I expect very few reads coming from human nucleosomes from these samples compared to mock-treated samples.
Could you please let me know, what is the best way to normalise the reads from these samples to compare my samples in an unbiased manner?
Best Regards,
Mazhar