Tumor 53BP1-/- AIDtg (Sample 1)
Whole-genome libraries were produced according to the Paired-end Sample Preparation kit (Illumina) protocol with minor modifications. In brief, 5 ?g gDNA from three 53BP1-/-IgkAID sIg- B cell tumors, C57/BL6 tails, 53BP1-/- spleenocytes and 129/Sv embryonic stem cells was sonicated to an average fragment size of 500bp, respectively. For converting DNA ends into blunt ends the End-it DNA end repair kit (Epicenter Biotechnologies) was used. Purification steps, addition of dATP to 3’ DNA ends and adapter ligation was performed according to the Illumina protocol. Post adapter ligation DNA fragments were separated on a 2% agarose gel and separated by electrophoresis. 538-575bp fragments were extracted from gels, purified and used for pre-amplification by PCR according to the Illumina protocol. Purified PCR products were analyzed for their quality by Bioanalyzer (Agilent) and subjected to paired-end sequencing.