title: GSM8584209: PLACseq_Scid.ahd.2C2, H3K4me3, rep2; Mus musculus; OTHER
library_construction_protocol: PLAC-seq was carried out similar to previously reported (Okuyama et al, 2019) with minor modifications. Cells that had been cross-linked with 1% formaldehyde for 5 min (Covaris sonication) or 10 min (Bioruptor sonication) were thawed on ice for 5 min, re-suspended in ice cold lysis buffer (10 mM Tris-HCl pH 7.5, 10 mM NaCl, 0.2% NP-40, 1x Roche protease inhibitors – 11697498001 (PIC), and subsequently processed for PLAC-seq. PLAC-seq was carried out similar to previously reported (Okuyama et al, 2019) with minor modifications. NEXTflex DNA barcode ligation (BIOO scientific) was performed using the Fast-link ligation kit (Epicenter, LK0750H). PLAC-seq libraries were subject to 2X38 cycles of paired-end sequencing on a NextSeq500.
identifiers.namespace: GEO
identifiers.id: GSM8584209_r1