MPseq was performed using the Illumina Nextera Mate-Pair library protocol (Illumina, San Diego, CA) and sequenced on the Illumina HiSeq 2500. Sequence data were aligned to hg38 using BIMA, and a custom bioinformatics tool was used to filter the alignments and identify junctions. Detailed methods can be found in Drucker et al., Johnson et al., and Smadbeck et al.12 (link)–14 (link).
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