Single-nuclei RNA/ATAC-seq of healthy and injured human kidney nephrectomy tissue

Improved understanding of the renal cell phenotypes and intercellular signaling pathways that mediate chronic kidney disease is required to develop novel therapeutics. To this end, we performed simultaneous single nuclear RNA and ATAC-sequencing on kidney tissue from patients undergoing tumour nephrectomy, where the ureter was either obstructed by tumour or remained unobstructed. In obstructed kidneys a discrete subset of proximal and ascending thin limb of loop of Henle tubular cells acquired a pro-inflammatory phenotype enriched in senescence markers. We performed single-nuclei RNA and ATAC sequencing using the 10x Genomics Multiome kit to profile gene expression and chromatin changes during kidney injury. Nuclei were isolated from human kidney nephrectomy tissue and 3-5 samples were pooled and processed simultaneously.