GSM5397138: scATAC-seq Inner POD14; Mus musculus; ATAC-seq
scATAC-seq:  Single cell ATAC-seq was performed following 10x Genomics protocols. Rainbow mouse wound healing fibroblasts were FACS-isolated as previously described. Spatial Transcriptomics: Wound specimens were rapidly harvested and flash frozen in OCT. Using the Visium Tissue Optimization Slide & Reagent kit, permeabilization time was optimized at a thickness of 10um per section and 37 minutes for mouse cutaneous scar tissue. Wound tissues were cryosectioned at -20 degrees onto gene expression slides. scATAC-seq: For nuclei isolation, 10x genomics protocol CG000169 Rev D was followed using the low cell input modifications. Transposition, GEM generation and barcoding, post GEM Incubation Cleanup, library construction, and quantification was conducted following the 10x genomics protocol CG000169 Rev D. Pooled libraries were analyzed on an Agilent Bioanalyzer High Sensitivity DNA chip for qualitative control purposes. Spatial transcriptomics: The Gene Expression Slide & Reagent kit was followed per protocol, and used to produce sequencing libraries. scATAC-seq: cDNA libraries were sequenced on a NextSeq 500 Illumina platform. In total, we generated scATAC-seq profiles from 5,353 cells, which yielded on average 13.0 × 10^3 unique fragments mapping to the nuclear genome. Spatial transcriptomics: The libraries were then sequenced using NextSeq (Illumina).