Single-cell DNA methylome and 3D genome atlas of human subcutaneous adipose tissue [snRNA-Seq]

We performed single-nucleus RNA-seq and single-nucleus methyl-3C seq on subcutaneous adipose tissue (SAT) biopsies from Finnish women who underwent abdominal SAT liposuction at Tilkka Hospital, Helsinki, Finland. The purpose of this study was to understand the epigenomic, 3D topology, and transcriptomic dynamics across the SAT cell-types. We performed snRNA-seq on subcutaneous adipose tissue (SAT) biopsies from eight participants, and snm3C-seq3 on five of the eight SAT biopsies. snm3C-seq3: An Arima Genomics Arima-HiC Kit was used for the in situ chromatin conformation capture (3C), the fluorescence-activated nuclei sorting (FANS) and library preparation were performed using the snm3C-seq3 workflow, and libraries were sequenced using the Illumina NovaSeq 6000 instrument with S4 flow cells generating 150 bp paired-end reads. snRNA-seq: The single-nucleus sequencing libraries were either constructed using the Chromium Single Cell 3’ v3.1 chemistry and sequenced on an Illumina NovaSeq S4 with a target sequencing depth of 600 million read pairs (n=6), or constructed using the Single Cell Multiome ATAC + Gene Expression Reagent Kit and sequenced on an Illumina NovaSeq SP with a target sequencing depth of 400 million reads (n=5). *************************************************************** Raw files for human/patient samples were not submitted to GEO due to concerns about submitting personally identifiable sequence data for open access. ***************************************************************