alias: GSM4413962
title: GSM4413962: BGBEAF-32-  Hi-C replicate 1; Drosophila melanogaster; Hi-C
library_construction_protocol: Hi-C libraries were generated from 10 million cells by following the Insitu Hi-C protocol as mentioned in (Rao et al. 2014) with minor modifications. Crosslinked cells were lysed and genome was digested using DpnII (NEB) overnight. The overhangs were filled with Bioton-16-dATP (Jena Bioscience) followed by ligation and de-crosslinking with proteinase K digestion. The sample was further sonicated using Bioruptor. Biotinylated DNA was pulled down using Dynabeads MyOne Streptavidin T1 beads (Life technologies, 65602). Selected biotinylated DNA fragments ranging from 200-500bp were then ligated with illumina adaptors (NEB). RNA extraction: RNA extraction was carried out using Trizol according to manufacturer's instructions. RNA was further DNase treated and purified using RNeasy Mini kit (Qiagen) following manufacturer's protocol. RNA was assessed qualitatively and quantitatively using Quibit and Bioanalyzer 2100(Agilent). RNA sequencing: PolyA RNA selection, library preparation and sequencing were carried out by Novogene.
identifiers.namespace: GEO
identifiers.id: GSM4413962