title: GSM3986453: Methyl-seq_iN_CONTROL1-2; Homo sapiens; Bisulfite-Seq
library_construction_protocol: Genomic DNA was extracted using the Quick-DNA Universal Ki (Zymo Research).  Total RNA was extracted using the Direct-zol RNA MiniPrep Kit (Zymo Research). For ATAC-seq, 50,000 cells were lysed, transposed, and PCR amplified as previously described (Buenrostro et al, 2013). For RNA-seq, library construction was performed using the NEBNext Ultra Directional RNA Library Prep Kit for Illumina (New England Biolabs) following manufacturer's instructions. Libraries were sequenced on the Illumina NextSeq 500 using 2x150 bp paired-end runs. For Methyl-seq, libraries were prepared using the SeqCap Epi System from Roche, which captures 5.5 million CpGs in the human genome. Libraries were multiplexed and sequenced on the Illumina HiSeq 4000 using 2x150 bp paired-end runs and 30% PhiX spike-in. For ATAC-seq, libraries were prepared using the Illumina Nextera DNA kit and multiplexed and sequenced on the Illumina NextSeq 500 using 2x75 bp paired-end runs and 1% PhiX spike-in. RNA-seq, Capture-base Bisulfite Sequencing, ATAC-seq
identifiers.namespace: GEO
identifiers.id: GSM3986453