title: GSM9145491: MUT-3, D70 (RNA-Seq); Homo sapiens; ssRNA-seq
library_name: GSM9145491
library_construction_protocol: for RNAseq, RNA was extracted using RNeasy plus universal mini prep kit (Quiagen). 1 ug total RNA was used for construction of sequencing libraries. For ATAC-seq hESC with or without mutation were lysed in cold liysis buffer(10 mM Tris-HCl, pH 7.4, 10 mM NaCl, 3 mM MgCl₂, 0.1% IGEPAL CA-630). And Nuclei were pelleted by centrifugation at 500 × g for 5 min at 4°C and subsequently treated with Tn5 transposase for library construction. for ChIPseq, H1 hESCs were cross-linked with 1% formaldehyde for 10 min at RT, quenched with 125 mM glycine for 5 min at RT, and collected. ChIP-seq of DEAF1 was performed using rabbit anti-DEAF1 antibody (Bethyl Laboratories, A303-187A) for RNA-seq, Truseq stranded mRNA library prep kit (Illumina) was used following manufacture's protocol. For ATAC-seq, Library prep was performed following Nextera® DNA Library Prep Kit (Illumina). For ChIP-seq, Library prep was performed following iDeal ChIP-seq kit.
identifiers.namespace: GEO
identifiers.id: GSM9145491_r1