HIV integration site sequencing
Integration sites associated with the proviral sequences were obtained with Archer VariantPlex kit (ArcherDx) using anchored multiplex PCR (AMP) technology generating target-enriched libraries for Next Generation Sequencing (NGS). Genomic DNA was isolated from highly enriched CD4+ T and processed according to the manufacturer instructions (ArcherDx). Resulting PCR products were sequenced using Illumina Nextseq.