snRNA libraries from 10X Chromium Epi Multiome ATAC + Gene Expression (PN-1000283); Isolated single nuclei are encapsulated into GEMs (Gel Beads-in-emulsion) on a 10X Chromium instrument using a Chromium Next GEM Chip J Single Cell Kit (PN-1000234). The libraries were indexed by Dual Index Kit TT Set A (PN-1000215)
Single-cell multiome profiling of gene expression and chromatin accessibility was performed using the Chromium Single Cell Multiome ATAC + Gene Expression kit (10x Genomics, PN-1000283). Nuclei were isolated from fresh-frozen tissue samples using a detergent-based lysis protocol optimized to preserve nuclear integrity. Isolated nuclei were quantified and loaded onto the Chromium Controller, where individual nuclei were partitioned into Gel Bead-in-Emulsions (GEMs) with barcoded gel beads. Within each GEM, accessible chromatin was indexed by Tn5 transposase during the transposition reaction, while polyadenylated RNA was simultaneously reverse-transcribed to generate barcoded cDNA. Following GEM cleanup, ATAC and gene expression libraries were constructed separately according to the manufacturer's protocol using the Chromium Single Cell Multiome ATAC + Gene Expression reagents. Libraries were amplified, quality-controlled, pooled, and sequenced on an Illumina platform. Gene expression and chromatin accessibility matrices were generated using the Cell Ranger ARC pipeline with default parameters and no protocol deviations.