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ScRNA-seq of human kidney immune cells of patients with ANCA-associated glomerulonephritis, Lupus Nephritis against a healthy nephrectomy control

ANCA-associated glomerulonephritis (AGN) associates with a high risk of end-stage kidneydisease. The role of kidney immune cells in local inflammation remains unclear. This study investigates kidney immune cell diversity and function. Kidney tissue from AGN patients (n=5) and a lupus nephritis (LN) patient (n=1) were aquired during a biopsy procedure for a clinical indication. Needle-core biopsies were obtained for histopathological examination, and an additional pass was performed to retrieve kidney tissue for scRNA-seq. Healthy kidney tissue (n=1) was obtained from a kidney that was surgically removed do tue due to a (non-invasive) papillary urothelial carcinoma. Immediately after collection, kidney tissue was processed into a single-cell suspension and sorted using a 4-color flow cytometry panel to isolate living, CD45+immune cells. To aid in the multi-omic characterization, surface markers and T and B cell repertoires were sequenced in 2 samples (1 AGN patient and the nephrectomy control). These samples were incubated with an oligo-antibody TotalSeq-C cocktail containing 130 unique cell surface antigens.

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Data Access Policy Immuno-nephrology DAC Amsterdam UMC

Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.

Study ID Study Title Study Type
EGAS50000000159 RNASeq
  • We aim to release and publicly share this dataset with our Data Access Committee (DAC). We could not find our study in our DAC
  • Dataset Released

This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.

ID File Type Size Located in
EGAF50000065552 fastq.gz 2.3 GB
EGAF50000065553 fastq.gz 29.4 GB
EGAF50000065554 fastq_1.gz 2.6 GB
EGAF50000065555 fastq_1.gz 7.5 GB
EGAF50000065556 fastq.gz 7.9 GB
EGAF50000065557 fastq_1.gz 27.5 GB
EGAF50000065558 fastq.gz 748.2 MB
EGAF50000065559 fastq.gz 2.7 GB
EGAF50000065560 fastq.gz 212.6 MB
EGAF50000065561 fastq.gz 747.8 MB
EGAF50000065562 fastq.gz 473.6 MB
EGAF50000065563 fastq.gz 139.3 MB
EGAF50000065564 fastq.gz 199.0 MB
EGAF50000065565 fastq.gz 670.0 MB
EGAF50000065566 fastq.gz 4.3 GB
EGAF50000065567 fastq.gz 1.3 GB
EGAF50000065568 fastq.gz 3.0 GB
EGAF50000065569 fastq.gz 5.4 GB
EGAF50000065570 fastq.gz 1.1 GB
EGAF50000065571 fastq.gz 4.2 GB
EGAF50000065572 fastq.gz 393.5 MB
EGAF50000065573 fastq.gz 1.1 GB
EGAF50000065574 fastq.gz 242.3 MB
EGAF50000065575 fastq.gz 647.6 MB
EGAF50000065576 fastq.gz 345.0 MB
EGAF50000065577 fastq.gz 934.3 MB
EGAF50000065578 fastq.gz 371.3 MB
EGAF50000065579 fastq.gz 987.4 MB
EGAF50000065580 fastq.gz 1.6 GB
EGAF50000065581 fastq.gz 4.4 GB
EGAF50000065582 fastq.gz 214.8 MB
EGAF50000065583 fastq.gz 755.6 MB
EGAF50000065584 fastq.gz 138.9 MB
EGAF50000065585 fastq.gz 473.8 MB
EGAF50000065586 fastq.gz 245.2 MB
EGAF50000065587 fastq.gz 861.7 MB
EGAF50000065588 fastq.gz 198.7 MB
EGAF50000065589 fastq.gz 673.6 MB
EGAF50000065590 fastq.gz 744.0 MB
EGAF50000065591 fastq.gz 2.7 GB
EGAF50000065592 fastq.gz 7.5 GB
EGAF50000065593 fastq.gz 27.4 GB
EGAF50000065594 fastq.gz 8.0 GB
EGAF50000065595 fastq.gz 16.7 GB
EGAF50000065596 fastq.gz 29.0 GB
EGAF50000065597 fastq.gz 3.6 GB
EGAF50000065598 fastq.gz 12.9 GB
EGAF50000065599 fastq.gz 4.4 GB
EGAF50000065600 fastq.gz 679.8 MB
EGAF50000065601 fastq.gz 2.6 GB
EGAF50000065602 fastq.gz 1.3 GB
EGAF50000065603 fastq.gz 3.8 GB
EGAF50000065604 fastq.gz 677.8 MB
EGAF50000065605 fastq.gz 2.5 GB
EGAF50000065606 fastq.gz 16.9 GB
EGAF50000065607 fastq.gz 4.8 GB
EGAF50000065608 fastq.gz 1.4 GB
EGAF50000065609 fastq.gz 803.1 MB
58 Files (265.4 GB)