GSM2769600: 5F HEK293T input 2; Homo sapiens; OTHER
DNA was extracted by Universal Genomic DNA Kit (CWbiotech, CW2298). Genomic DNA was digested to 100-500 bp and purified with Agencourt AMPure XP beads (BECKMAN COULTER) following Spin-6 column (Bio-rad) purification. 2 μg DNA fragments and 15 pg spike_in sequences were used for end repair with NEBNext® End Repair Module (NEB, E6050) and 1 μl E.coli ligase was added to repair nicks in DNA. DNA was then purified with 1.8×AMPure XP beads. dA was added to the 3’ end of double-stranded DNA by NEBNext® dA-Tailing Module (NEB, E6053) and purified with 1.8×AMPure XP beads. Damages that may interfere the following labeling step were repaired. DNA was purified and subjected to in vitro BER labeling. For samples named "biotin-dCTP", biotin-dCTP was utilized in the in vitro BER labeling;other samples utilized biotin-dUTP. After purification, fragments labeled with biotin were enriched by streptavidin C1 beads (Invitrogen) following the manufacturer’s guidelines. Y adaptor  was ligated to double-stranded DNA on streptavidin C1 beads so that free adaptor can be removed by beads washing. DNA was then eluted from beads by 95 °C 3 min using deionized water. Eluted DNA was subjected to PCR amplification and sequencing.
GEO Accession
GSM2769600