GSM5393357: Bone marrow-derived macrophage - IFNG [scATAC-seq]; Mus musculus; ATAC-seq
10X Genomics Single Cell ATAC-seq Library & Gel Bead Kit V2 After cytokine treatments, macrophages were subjected to nuclei isolation according to the protocol of the manufacturer. Nuclei were counted and ~20,000 were submitted for tagmentation. After tagmentation, nuclei were loaded for capture using the 10x Chromium controller. After Gel emulsion generation, linear amplification was performed, followed by DNA purification following the manufacturer's protocol. The resulting DNA was used for library construction as described on the website of the manufacturer. Libraries were quantified by quantitative PCR and were sequenced on an Illumina Hiseq 2500 sequencer, using the following setup: 50bp read 1N, 8bp i7 index, 16bp i5 index and 50bp read 2N. In this reaction, 1N and 2N refers to the DNA insert sequencing, while i5 and i7 sequencing identifies the individual barcodes of single cells.