MiSeq of  transgene insertion site in rattus norvegicus: adult female spleen
Two primer sets were designed to the RaPrnp-MAPT*P301S transgene; one set to the RaPrnp promoter and the other set to the hMAPT open-reading frame (Table S1). Viable rat spleen cells were processed for TLA (de Vree et al. 2014) and combined with primer sets in individual TLA amplification reactions. PCR products were purified to generate a library via a Nextera flex kit (Illumina) and sequenced on an Illumina sequencer. Reads were mapped using BWA-SW (Li and Durbin 2010), version 0.7.15-r1140 protocol with a setting of bwasw -b 7. The sequencing reads of RaPrnp-MAPT*P301S transgene were aligned to the rat genome, assembly rn6. TLA in Tg12099 rats was conducted by Cergentis as a paid service.