Chip-Seq libraries

[suludana]

Hi,
I'm doing a Chip-Seq experiment (preparing the libraries) and, for some of the samples, the Bioanalyzer peak trace in the final library validation is very very low.
I suppose I have enought material to continue but it will be very difficult to quantify these samples.
Is someone experienced with this problem (very low peaks)? Is it frequent?
Thanks

[shilh]

hi,
my situation is even worse than you. I can not detect any DNA in Bioanalyzer after ChIP-seq library construction.

Could anybody help us to figure our what is wrong?
thanks a lot!

[huguesparri]

How did you measure your starting material concentration?
Didi you notice any leak on your gel (size selection step)?

[shilh]

hi, I only measured once of my ChIP-enriched DNA by Picogreen. It is around 100ng.

I did not check the leak in my gel. It is a good point. Next time I should do it.

Thanks
Shilh