GSM9778872: AAV2CBE, biol_rep2; Homo sapiens; OTHER
Cells were crosslinked with 1% formaldehyde, and reaction was quenched with glycine. Cells were then lysed and chromatin was digested with HindIII (NEB; R3104) before intramolecular ligation in dilute conditions with T4 DNA ligase (NEB; M0202). DNA was purified before undergoing secondary digest with NlaIII (NEB; R0125) and circularization with T4 DNA ligase under dilute conditions. Viral-host interactions were enriched through inverse and nested inverse PCR amplification steps with primers complementary to wtAAV2. Libraries were prepared using NEBNext Ultra II DNA Library Prep Kit and sequenced using single-end sequencing on an Illumina NextSeq platform spiked with 25% phiX spike-in to increase library complexity.