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Forum: Bioinformatics 07-28-2017, 11:29 AM
Replies: 3
Views: 2,401
Posted By mia2025
My favorite tool for this kind of analysis is...

My favorite tool for this kind of analysis is Diffbind. It requires peaks called for each individual replicate using the respective inputs and then generates a list of peaks which are statistically...
Forum: Sample Prep / Library Generation 07-28-2017, 07:11 AM
Replies: 7
Views: 1,185
Posted By mia2025
Hi all, thank you all for the replies. I...

Hi all, thank you all for the replies. I actually figured out the issue. There was a small amount of high MW dna (above 5kb) in all of my inputs that was not visible on an agarose gel but I found...
Forum: Sample Prep / Library Generation 07-27-2017, 07:17 AM
Replies: 7
Views: 1,185
Posted By mia2025
Sure, ive attached the QC report for the Input. ...

Sure, ive attached the QC report for the Input. It was sequenced on the HiSeq SR50 with single read clustering and 1 x 50 sequencing cycles. It was multiplexed with 5 other libraries (including the...
Forum: Sample Prep / Library Generation 07-27-2017, 06:48 AM
Replies: 7
Views: 1,185
Posted By mia2025
Hi nucacidhunter, thanks for your reply. I agree...

Hi nucacidhunter, thanks for your reply. I agree with your assessment about the lack of dimers in the input bioA trace. To clarify, whenever I sequence libraries that have a similar melt curve to...
Forum: Sample Prep / Library Generation 07-26-2017, 07:20 AM
Replies: 7
Views: 1,185
Posted By mia2025
Question Excessive adapter dimer in Chip input samples but not in IP samples

Hello all. I have been coming across an issue during my chip seq library prep that has persisted for months now. I am preparing ChiP seq libraries using the Kapa Hyper Prep kit and TruSeq adapters...
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