Hi guys,
I'm new to ATACseq and I just finished a library prep of 50K nuclei following the OMNI-ATAC protocol. I performed PCR amplification after Tagmentation (5 recommend cycles, plus 4 more cycles after qPCR). However, when I run Agilent (D5000) following amplification, I don't see a nice laddering as expected. I have attached my Agilent result.
Should I do a bead clean up to remove those fragments beyond 1500bp? If so, what ration?
Thank you for any help you can provide
I'm new to ATACseq and I just finished a library prep of 50K nuclei following the OMNI-ATAC protocol. I performed PCR amplification after Tagmentation (5 recommend cycles, plus 4 more cycles after qPCR). However, when I run Agilent (D5000) following amplification, I don't see a nice laddering as expected. I have attached my Agilent result.
Should I do a bead clean up to remove those fragments beyond 1500bp? If so, what ration?
Thank you for any help you can provide