title: GSM4799711: DNase-seq from UC Davis FAANG chicken liver rep B; Gallus gallus; DNase-Hypersensitivity
library_construction_protocol: DNase-seq datasets were generated by the Stam Lab at University of Washington using a previously published protocol. Briefly, cryopreserved nuclei were slowly defrosted on ice, pelleted at 500g, and resuspended in 37°C DNase I digestion buffer (13.5 mM Tris-HCL pH 8.0, 87 mM NaCl, 54 mM KCl, 6 mM CaCl2, 0.9 mM EDTA, 0.45 mM EGTA, 0.45 mM spermidine). After a 3 minute incubation, the reaction was stopped with 2x stop buffer (50 mM Tris-HCl pH 8.0, 100 mM NaCl, 0.1% SDS, 100 mM EDTA pH 8.0, 1 mM spermidine, 0.3 mM spermine). Samples were treated with RNase for 1 hour at 37°C, then an additional hour at 55°C with proteinase K. DNA fragments were isolated, libraries prepared, and sequenced on Illumina's Hiseq 2500 with 50bp paired-end sequencing.
attributes.tag: GEO Accession
attributes.value: GSM4799711