­Single Cell Transcriptomics identifies Focal Segmental Glomerulosclerosis Remission Endothelial Biomarker

Intrinsic nephron cell types and tissue resident immune cells were recovered from renal biopsy specimens using a scRNAseq protocol for the Kidney Precision Medicine Project (KPMP), designed for deployment in a multicenter research network. Combined processing of 24 samples including 16 tumor-nephrectomy, 5 surveillance and 3 pre-perfusion biopsies using the scRNAseq protocol yielded 22,268 cells (4690 from surveillance biopsies, 16,491 from tumor-nephrectomies and 2834 cells from pre-perfusion biopsies) . scRNA-seq: Using multiple sources of healthy kidney tissue samples, we generated 22,268 single cell profiles. Unbiased clustering resulted in 31 distinct cell clusters that were successfully linked to intrinsic kidney and immune cell types using specific cell markers. In silico assignment of the three endothelial cell clusters to distinct vascular beds were confirmed by in situ hybridization. Transcripts defining the glomerular endothelial cluster (GEC) were evaluated in biopsies from patients with ten different glomerular diseases in the NEPTUNE and ERCB studies. Focal segmental glomerulosclerosis (FSGS) samples were associated with higher GEC scores. bulk RNA-seq: Transcripts defining the glomerular endothelial cluster (GEC) were evaluated in biopsies from patients with FSGS glomerular diseases in the NEPTUNE cohort studies. ***The submitters are not legally permitted to submit the raw data to GEO or a restricted-access database such as dbGaP or EGA. Therefore, raw data is not provided ****