title: Illumina HiSeq 2500 paired end sequencing; ATAC-seq of iPSC and human dermal fibroblasts
design: ATAC-seq of iPSC and human dermal fibroblasts
library_construction_protocol: Fibroblasts were derived from neonatal foreskin purchased (Lonza). HDF cells were iPS line iPS_HDF-f_hi6 derived in doi:10.1038/ng.2965.  Bulk ATAC-seq was performed as previously described(1) with slight modifications. Briefly, 2.5×104 cells/ml were used for library preparation.1 Buenrostro, J. D., Wu, B., Chang, H. Y. & Greenleaf, W. J. ATAC-seq: A Method for Assaying Chromatin Accessibility Genome-Wide. Curr. Protoc. Mol. Biol. 109, 21.29.1–21.29.9 (2015). Due to the more resistant membrane properties of DMFB, 0.25% IGEPAL™ CA-630 (Sigma-Aldrich®) were used for cell lysis.  Transposase reaction was carried out as described in the protocol followed by 10 to 12 cycles of PCR amplification. Amplified DNA fragments were purified with MinElute™ PCR Purification Kit (QIAGEN®) and size-selected with AMPure™ XP (Beckman Coulter®). All libraries were examined in Bioanalyzer™ (Agilent®) for size profiles and quantified by KAPA™ Library Quantification Kits (Kapa Biosystems®).