GSM1370437: targetedDNaseHiC-lincRNA-H1-rep1; Homo sapiens; OTHER
DNase Hi-C or targeted DNase Hi-C:  Cells are cross-linked with formaldehyde; chromatin is then randomly fragmented by DNase I. The resulting chromatin fragments are end-repaired and dA-tailed, then marked with a biotinylated internal adaptor; and proximity ligation is carried out by burying the biotin-labeled fragments inside solidified agarose gel to favor ligation events between the cross-linked DNA fragments. The resulting DNA sample contains ligation products consisting of chimeric DNA fragments that were originally in close spatial proximity in the nucleus, marked with biotin at the junction. A whole-genome chromatin interaction library is created by shearing the DNA and selecting the biotin-containing fragments with streptavidin magnetic beads. After linear library amplification, a DNase Hi-C library is generated and sequenced to identify whole-genome chromatin contacts. For targeted DNase Hi-C, the chromatin contacts associated with a specific group of loci of interest are then enriched by a bait library targeting the loci via in-solution hybridization-based DNA capture. Finally, quantitation of the enriched chromatin interactions is achieved through massively parallel deep sequencing. DNase Hi-C or targeted DNase Hi-C
GEO Accession
GSM1370437