pooled shRNA screen and analysis by Illumina HiSeq

[BlueSylvie]

Hi,

We want to do pooled shRNA screens using the TRC library. The goal is to use NGS to look at shRNA representation before and after selaction.
They graciously made this protocol available (Illumina one step PCR protocol):

http://www.broadinstitute.org/rnai/public/resources/protocols

As I have the opportunity to use a rapid run paired end flow cell to do some testing, I wanted to be sure that the primers used in this protocol will work. Will I be able to get cluster generation?


Any other advices you have regarding this type of experiment is welcome!

BlueSylvie