Millipore Magna ChIP-seq

[Beninjam]

Dear community,

I'm a ChIP-seq newbie and decided to use the promissing Magna ChIP-seq kit for my experiments. I would be very happy to share thoughts and ideas with you in this thread for the correct use of the kit.

As a start, I would like to ask you a technical question regarding the ChIP-protocol itself:
Why we need to boil the ChIPed DNA sample after reverse cross-linking? Would the denatured molecules ever find their complementary strand in such a complex mixture of sequences and can they be subjected to library preparation afterwards?

Many thanks in advance

[Veleno]

They will..... DNA 101.....

[Beninjam]

Thanks for the answer...
But do I really need to do it?

[Veleno]

I've never seen a ChIP protocol where they ask you to boil the DNA to reverse the cross link; 65C 6h or o/n will do

[Beninjam]

Nor me, I did it anyway to stick to their protocol...

Have a nice day

[Chipper]

I have seen it once in the Magnify protocol (invitrogen) but it was changed to a lower temperature in later versions...