title: GSM8152465: Cut_and_Run_MCF7_N_CTCF_2; Homo sapiens; OTHER
library_construction_protocol: MCF7 breast cancer cell line was kept in duplicate under Normoxia (21% oxygen) or Hypoxia (1% oxygen) for 24 hours before performing CTCF-ChIP-seq (Shukla et al., 2011; Khoury et al., 2020) and CTCF-CUT&RUN assay (Skene et al., 2018; Sharma et al, 2023). For 4C-seq, MCF7 cells  transduced with lentivirus expressing either shRNA control (shControl) or shRNA specific for CTCF (shCTCF) were kept in Normoxia or Hypoxia and the 4C-seq experiment was performed based on (Splinter et al., 2012; Krijger et al., 2020)  using NlaIII and DpnII as restriction enzymes. All the DNA libraries were prepared using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina. 150 bp paired-end ChIP-seq using Illumina NovaSeq X Plus, 50 bp paired-end CUT&RUN using Illumina NovaSeq 6000, 100 bp paired-end 4C-seq using Illumina NovaSeq 6000