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Single-Cell Transcriptomics of a Human Kidney Allograft Biopsy Specimen Defines a Diverse Inflammatory Response

https://doi.org/10.1681/asn.2018020125

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Bringing Renal Biopsy Interpretation Into the Molecular Age With Single-Cell RNA Sequencing

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Regulation of Weibel–Palade Body Exocytosis

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Biopsy transcriptome expression profiling to identify kidney transplants at risk of chronic injury: a multicentre, prospective study

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CD83 on dendritic cells: more than just a marker for maturation

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Massively parallel digital transcriptional profiling of single cells

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SC3: consensus clustering of single-cell RNA-seq data

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Macrophages

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αvβ6 integrin expression in diseased and transplanted kidneys

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Monocyte Infiltration and Kidney Allograft Dysfunction During Acute Rejection

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Antibody-Mediated Microcirculation Injury Is the Major Cause of Late Kidney Transplant Failure

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Immunoglobulin G (IgG) Expression in Human Umbilical Cord Endothelial Cells

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Kidney fibrosis: Emerging diagnostic and therapeutic strategies

inferred← citeshttps://doi.org/10.1016/j.medj.2024.05.003openalex-snapshot

Cellular dynamics in pig-to-human kidney xenotransplantation

inferred← citeshttps://doi.org/10.1016/j.molimm.2021.10.010openalex-snapshot

Circulating C1q levels in health and disease, more than just a biomarker

inferred← citeshttps://doi.org/10.1016/j.nephro.2019.03.008openalex-snapshot

Immunofluorescence multiparamétrique in situ : vers l’amélioration du phénotype de l’infiltrat cellulaire au cours du rejet d’allogreffe rénale

inferred← citeshttps://doi.org/10.1016/j.nephro.2020.03.004openalex-snapshot

Nouvelles technologies au service de la pathologie rénale : transcriptomique sur tissu fixé et inclus en paraffine

inferred← citeshttps://doi.org/10.1016/j.redox.2025.103593openalex-snapshot

Keap1-independent Nrf2 regulation: A novel therapeutic target for treating kidney disease

inferred← citeshttps://doi.org/10.1016/j.semcdb.2021.09.017openalex-snapshot

Kidney development to kidney organoids and back again

inferred← citeshttps://doi.org/10.1016/j.semnephrol.2021.06.004openalex-snapshot

Nuclear Receptors and Transcription Factors in Obesity-Related Kidney Disease

inferred← citeshttps://doi.org/10.1016/j.semnephrol.2022.10.002openalex-snapshot

Where Are They Now: Spatial and Molecular Diversity of Tissue-Resident Macrophages in the Kidney

inferred← citeshttps://doi.org/10.1016/j.semnephrol.2025.151577openalex-snapshot

Integrating Metabolomics and Transcriptomics to Characterize Differential Functional Capabilities of Kidney Proximal Tubule Cell Subtypes

inferred← citeshttps://doi.org/10.1016/j.semnephrol.2025.151584openalex-snapshot

Multi-Omics Integration in Nephrology: Advances, Challenges, and Future Directions

inferred← citeshttps://doi.org/10.1016/j.stem.2018.10.010openalex-snapshot

Comparative Analysis and Refinement of Human PSC-Derived Kidney Organoid Differentiation with Single-Cell Transcriptomics

inferred← citeshttps://doi.org/10.1016/j.tem.2023.09.001openalex-snapshot

Mechanisms of kidney fibrosis and routes towards therapy

inferred← citeshttps://doi.org/10.1016/j.trac.2021.116366openalex-snapshot

Droplet-based extraction mass spectrometry

inferred← citeshttps://doi.org/10.1016/j.trim.2026.102405openalex-snapshot

Evaluation of the bioassay for detecting early endothelial activation using microvascular cultures in renal transplant recipients

inferred← citeshttps://doi.org/10.1016/j.trim.2026.102416openalex-snapshot

Syk from M1 macrophage exosomes drives vascular injury in kidney transplant rejection

inferred← citeshttps://doi.org/10.1016/j.trre.2026.101028openalex-snapshot

The applications of single cell RNA-seq and spatial transcriptomics in organ transplantation

inferred← citeshttps://doi.org/10.1016/j.trsl.2025.06.002openalex-snapshot

The role of FAK in renal collecting duct in the progression from acute kidney injury to chronic kidney disease

inferred← citeshttps://doi.org/10.1016/j.xkme.2020.10.005openalex-snapshot

Diabetic Kidney Disease, Endothelial Damage, and Podocyte-Endothelial Crosstalk

inferred← citeshttps://doi.org/10.1016/j.xpro.2025.103670openalex-snapshot

Protocol for interpretable and context-specific single-cell-informed deconvolution of bulk RNA-seq data

inferred← citeshttps://doi.org/10.1016/j.yexcr.2025.114711openalex-snapshot

NOTCH signaling orchestrates the inflammatory-fibrotic continuum of macrophages in renal allograft rejection

inferred← citeshttps://doi.org/10.1016/j.ymthe.2025.04.043openalex-snapshot

SARS-CoV-2 N protein induces hypokalemia in acute kidney injury mice via ENaC-dependent mechanism

inferred← citeshttps://doi.org/10.1016/j.ymthe.2026.01.024openalex-snapshot

CD8+ T cell differentiation into NK-like effector cells drives transplant rejection

inferred← citeshttps://doi.org/10.1016/s1773-035x(20)30394-4openalex-snapshot

Transcriptomique en pathologie de la transplantation rénale et cardiaque

inferred← citeshttps://doi.org/10.1016/s1773-035x(25)76517-xopenalex-snapshot

Hétérogénéité des populations immunitaires lors des réactions de rejet du greffon rénal

inferred← citeshttps://doi.org/10.1021/acsami.3c06885openalex-snapshot

Single-Cell Heterogeneity Restorative Chimeric Engineering Nanoparticles for Alleviating Antibody-Mediated Allograft Injury

inferred← citeshttps://doi.org/10.1021/acsptsci.4c00269openalex-snapshot

A Highly Potent, Orally Bioavailable Pyrazole-Derived Cannabinoid CB2 Receptor- Selective Full Agonist for In Vivo Studies

inferred← citeshttps://doi.org/10.1038/s41419-020-02871-6openalex-snapshot

XJB-5-131 inhibited ferroptosis in tubular epithelial cells after ischemia−reperfusion injury

inferred← citeshttps://doi.org/10.1038/s41419-020-03353-5openalex-snapshot

Liver fibrosis-induced muscle atrophy is mediated by elevated levels of circulating TNFα

inferred← citeshttps://doi.org/10.1038/s41419-023-05947-1openalex-snapshot

Single-cell transcriptomic profiles in the pathophysiology within the microenvironment of early diabetic kidney disease

inferred← citeshttps://doi.org/10.1038/s41419-026-08726-wopenalex-snapshot

VHL-recruiting PROTAC attenuates AKI-CKD transition via simultaneous degradation of Smad3 and stabilization of HIF-2α

inferred← citeshttps://doi.org/10.1038/s41423-019-0207-3openalex-snapshot

Emerging approaches and technologies in transplantation: the potential game changers

inferred← citeshttps://doi.org/10.1038/s41467-019-10861-2openalex-snapshot

A single-nucleus RNA-sequencing pipeline to decipher the molecular anatomy and pathophysiology of human kidneys

inferred← citeshttps://doi.org/10.1038/s41467-020-16525-wopenalex-snapshot

The ABCG2 Q141K hyperuricemia and gout associated variant illuminates the physiology of human urate excretion

inferred← citeshttps://doi.org/10.1038/s41467-021-27660-3openalex-snapshot

Single-cell chromatin accessibility landscape in kidney identifies additional cell-of-origin in heterogenous papillary renal cell carcinoma

inferred← citeshttps://doi.org/10.1038/s41467-022-31772-9openalex-snapshot

Single-cell analysis highlights differences in druggable pathways underlying adaptive or fibrotic kidney regeneration

inferred← citeshttps://doi.org/10.1038/s41467-023-36296-4openalex-snapshot

Single-cell RNA sequencing reveals the effects of chemotherapy on human pancreatic adenocarcinoma and its tumor microenvironment

inferred← citeshttps://doi.org/10.1038/s41467-023-39859-7openalex-snapshot

Transcriptional and spatial profiling of the kidney allograft unravels a central role for FcyRIII+ innate immune cells in rejection

inferred← citeshttps://doi.org/10.1038/s41467-023-43226-xopenalex-snapshot

Epidermal growth factor receptor activation is essential for kidney fibrosis development

inferred← citeshttps://doi.org/10.1038/s41467-024-54089-1openalex-snapshot

Profiling of insulin-resistant kidney models and human biopsies reveals common and cell-type-specific mechanisms underpinning Diabetic Kidney Disease

inferred← citeshttps://doi.org/10.1038/s41467-025-62433-2openalex-snapshot

The long non-coding RNA RSDR protects against acute kidney injury in mice by interacting with hnRNPK to regulate DHODH-mediated ferroptosis

inferred← citeshttps://doi.org/10.1038/s41467-025-64447-2openalex-snapshot

FAP+ fibroblasts orchestrate tumor microenvironment remodeling in renal cell carcinoma with tumor thrombus

inferred← citeshttps://doi.org/10.1038/s41467-025-65663-6openalex-snapshot

Recessive variants in the intergenic NOS1AP-C1orf226 locus cause monogenic kidney disease responsive to anti-proteinuric treatment

inferred← citeshttps://doi.org/10.1038/s41467-025-65978-4openalex-snapshot

FGF4-FGFR1 signaling promotes podocyte survival and glomerular function to ameliorate diabetic kidney disease in male mice

inferred← citeshttps://doi.org/10.1038/s41467-026-68397-1openalex-snapshot

Injured epithelial cell states impact kidney allograft survival after T-cell-mediated rejection

inferred← citeshttps://doi.org/10.1038/s41536-021-00156-wopenalex-snapshot

Defining the variety of cell types in developing and adult human kidneys by single-cell RNA sequencing

inferred← citeshttps://doi.org/10.1038/s41576-020-00292-xopenalex-snapshot

Deciphering cell–cell interactions and communication from gene expression

inferred← citeshttps://doi.org/10.1038/s41577-022-00694-4openalex-snapshot

Immunomodulation by endothelial cells — partnering up with the immune system?

inferred← citeshttps://doi.org/10.1038/s41581-018-0045-zopenalex-snapshot

Single-cell analysis of a biopsy sample

inferred← citeshttps://doi.org/10.1038/s41581-019-0110-2openalex-snapshot

Macrophages: versatile players in renal inflammation and fibrosis

inferred← citeshttps://doi.org/10.1038/s41581-019-0135-6openalex-snapshot

Epigenetics and epigenomics in diabetic kidney disease and metabolic memory

inferred← citeshttps://doi.org/10.1038/s41581-019-0227-3openalex-snapshot

Using single-cell technologies to map the human immune system — implications for nephrology

inferred← citeshttps://doi.org/10.1038/s41581-019-0232-6openalex-snapshot

Design and application of single-cell RNA sequencing to study kidney immune cells in lupus nephritis

inferred← citeshttps://doi.org/10.1038/s41581-020-0272-yopenalex-snapshot

Kidney dendritic cells: fundamental biology and functional roles in health and disease

inferred← citeshttps://doi.org/10.1038/s41581-020-0286-5openalex-snapshot

Integrated multi-omics approaches to improve classification of chronic kidney disease

inferred← citeshttps://doi.org/10.1038/s41581-023-00731-yopenalex-snapshot

The role of claudins in homeostasis

inferred← citeshttps://doi.org/10.1038/s41581-024-00834-0openalex-snapshot

Epithelial cell states associated with kidney and allograft injury

inferred← citeshttps://doi.org/10.1038/s41581-024-00861-xopenalex-snapshot

Application of spatial-omics to the classification of kidney biopsy samples in transplantation

inferred← citeshttps://doi.org/10.1038/s41585-026-01130-1openalex-snapshot

Urinary tract infections in children

inferred← citeshttps://doi.org/10.1038/s41588-025-02161-xopenalex-snapshot

Multi-omic and spatial analysis of mouse kidneys highlights sex-specific differences in gene regulation across the lifespan

inferred← citeshttps://doi.org/10.1038/s41597-023-02209-9openalex-snapshot

Meta-analysis of single-cell and single-nucleus transcriptomics reveals kidney cell type consensus signatures

inferred← citeshttps://doi.org/10.1038/s41598-019-44161-yopenalex-snapshot

Gcm1 is involved in cell proliferation and fibrosis during kidney regeneration after ischemia–reperfusion injury

inferred← citeshttps://doi.org/10.1038/s41598-022-09331-5openalex-snapshot

A novel renal perivascular mesenchymal cell subset gives rise to fibroblasts distinct from classic myofibroblasts

inferred← citeshttps://doi.org/10.1038/s41598-022-23078-zopenalex-snapshot

WARS1, TYMP and GBP1 display a distinctive microcirculation pattern by immunohistochemistry during antibody-mediated rejection in kidney transplantation

inferred← citeshttps://doi.org/10.1038/s41598-024-61481-wopenalex-snapshot

Klotho is highly expressed in the chief sites of regulated potassium secretion, and it is stimulated by potassium intake

inferred← citeshttps://doi.org/10.1038/s41598-025-05191-xopenalex-snapshot

Discovering molecular signatures in kidney transplant biopsies with borderline changes and isolated V-lesions: single-cell RNA-sequencing analysis of human blood and tissue Spatial transcriptomics

inferred← citeshttps://doi.org/10.1038/s41598-025-14595-8openalex-snapshot

Mitochondrial subtypes in renal ischemia reperfusion injury guide delayed graft function and Long-Term graft prediction

inferred← citeshttps://doi.org/10.1038/s41598-025-25477-4openalex-snapshot

Galectin-3/CD146 interaction promotes renal damage and systemic inflammation after acute kidney injury

inferred← citeshttps://doi.org/10.1038/s41598-026-36136-7openalex-snapshot

Loss of the CoA-degrading enzyme NUDT19 exacerbates albuminuria and disrupts renal lipid homeostasis in high fat diet-fed mice

inferred← citeshttps://doi.org/10.1038/s41698-023-00441-5openalex-snapshot

High risk clear cell renal cell carcinoma microenvironments contain protumour immunophenotypes lacking specific immune checkpoints

inferred← citeshttps://doi.org/10.1038/s42003-022-03900-0openalex-snapshot

Integrative and comparative single-cell analysis reveals transcriptomic difference between human tumefactive demyelinating lesion and glioma

inferred← citeshttps://doi.org/10.1038/s42003-023-04820-3openalex-snapshot

MASI enables fast model-free standardization and integration of single-cell transcriptomics data

inferred← citeshttps://doi.org/10.1038/s42003-024-07069-6openalex-snapshot

Proximal tubule cell maturation rate and function are controlled by PPARα signaling in kidney organoids

inferred← citeshttps://doi.org/10.1038/s42003-025-08320-4openalex-snapshot

The secreted protease ADAMTS18 is a novel activator of latent TGF-β to exacerbate renal fibrosis

inferred← citeshttps://doi.org/10.1038/s44321-026-00377-wopenalex-snapshot

Dextrorotatory kynurenine suppresses acute rejection through inhibiting M1 macrophage-mediated inflammation

inferred← citeshttps://doi.org/10.1039/c8an01190gopenalex-snapshot

Recent advances in single-cell analysis by mass spectrometry

inferred← citeshttps://doi.org/10.1053/j.akdh.2024.12.004openalex-snapshot

Navigating the Complex Pathogenesis of Acute Kidney Injury: Exploring Macrophage Dynamics, Mitochondrial Dysfunction, and Ferroptosis Pathways

inferred← citeshttps://doi.org/10.1053/j.gastro.2020.03.045openalex-snapshot

Multiomics Evaluation of Gastrointestinal and Other Clinical Characteristics of COVID-19

inferred← citeshttps://doi.org/10.1073/pnas.2024414118openalex-snapshot

Krüppel-like factor 6–mediated loss of BCAA catabolism contributes to kidney injury in mice and humans

inferred← citeshttps://doi.org/10.1073/pnas.2305322120openalex-snapshot

Immune-infiltrated kidney organoid-on-chip model for assessing T cell bispecific antibodies

inferred← citeshttps://doi.org/10.1074/mcp.ra119.001858openalex-snapshot

Peptidomic Analysis of Urine from Youths with Early Type 1 Diabetes Reveals Novel Bioactivity of Uromodulin Peptides In Vitro

inferred← citeshttps://doi.org/10.1080/0886022x.2025.2521457openalex-snapshot

Kidney diseases and single-cell sequencing research: a bibliometric analysis from 2015 to 2024

inferred← citeshttps://doi.org/10.1080/0886022x.2025.2526722openalex-snapshot

Single-cell chromatin accessibility landscape of T cell-mediated rejection and BK polyomavirus-associated nephropathy after kidney transplantation

inferred← citeshttps://doi.org/10.1080/13816810.2022.2144900openalex-snapshot

KCTD1 and Scalp-Ear-Nipple (‘Finlay–Marks’) syndrome may be associated with myopia and Thin basement membrane nephropathy through an effect on the collagen IV α3 and α4 chains

inferred← citeshttps://doi.org/10.1080/15476278.2022.2131357openalex-snapshot

Applications of Transcriptomics in the Research of Antibody-Mediated Rejection in Kidney Transplantation: Progress and Perspectives

inferred← citeshttps://doi.org/10.1093/ajh/hpag089openalex-snapshot

Histamine N-methyltransferase inhibition attenuates hypertension and proximal tubule damage in Dahl salt-sensitive rats fed a high-salt diet

inferred← citeshttps://doi.org/10.1093/bioinformatics/btae219openalex-snapshot

A count-based model for delineating cell–cell interactions in spatial transcriptomics data

inferred← citeshttps://doi.org/10.1093/ckj/sfac152openalex-snapshot

Gain-of-function TLR7 and loss-of-function A20 gene variants identify a novel pathway for Mendelian lupus and lupus nephritis

inferred← citeshttps://doi.org/10.1093/jbmr/zjag114openalex-snapshot

Accelerated osteocytic citrate production in chronic kidney disease is associated with protection of the kidney

inferred← citeshttps://doi.org/10.1093/nar/gkab978openalex-snapshot

Integration of single cell data by disentangled representation learning

inferred← citeshttps://doi.org/10.1093/ndt/gfaa233openalex-snapshot

Experimental and computational technologies to dissect the kidney at the single-cell level

inferred← citeshttps://doi.org/10.1093/ndt/gfab016openalex-snapshot

The podocyte as a direct target of glucocorticoids in nephrotic syndrome

inferred← citeshttps://doi.org/10.1093/ndt/gfaf179openalex-snapshot

IGFBP-5/TGF-β1 mediated crosstalk between endothelial and tubular epithelial cells promotes interstitial fibrosis

inferred← citeshttps://doi.org/10.1093/ndt/gfag118openalex-snapshot

ATTR: the forgotten kidney amyloidosis

inferred← citeshttps://doi.org/10.1093/ndt/gfag141openalex-snapshot

Klotho suppresses cyst growth in ADPKD through the regulation of ferroptosis and reversing DNA methylation

inferred← citeshttps://doi.org/10.1093/ndt/gfz227openalex-snapshot

A single-cell map for the transcriptomic signatures of peripheral blood mononuclear cells in end-stage renal disease

inferred← citeshttps://doi.org/10.1096/fj.202403398rrropenalex-snapshot

Loss of ARNTL Enhances ER Stress and Apoptosis in CKD Through Disruption of NRF2 Signaling

inferred← citeshttps://doi.org/10.1096/fj.202504960ropenalex-snapshot

Revealing the Heterogeneity of Renal Tubular Epithelial Cell Senescence and Its Impact on Renal Fibrosis via Single‐Cell Sequencing and Spatial Omics Technologies

inferred← citeshttps://doi.org/10.1097/mnh.0000000000000495openalex-snapshot

The kidney transcriptome, from single cells to whole organs and back

inferred← citeshttps://doi.org/10.1097/mnh.0000000000000504openalex-snapshot

Recent advances in acute kidney injury and its consequences and impact on chronic kidney disease

inferred← citeshttps://doi.org/10.1097/mnh.0000000000000511openalex-snapshot

Ten years in

inferred← citeshttps://doi.org/10.1097/mnh.0000000000000770openalex-snapshot

Cellular and molecular interrogation of kidney biopsy specimens

inferred← citeshttps://doi.org/10.1097/mnh.0000000000000893openalex-snapshot

Proximal tubule responses to injury: interrogation by single-cell transcriptomics

inferred← citeshttps://doi.org/10.1097/mot.0000000000000840openalex-snapshot

Dissecting the human kidney allograft transcriptome: single-cell RNA sequencing

inferred← citeshttps://doi.org/10.1097/mot.0000000000001052openalex-snapshot

Allograft tissue under the microscope: only the beginning

inferred← citeshttps://doi.org/10.1097/mot.0000000000001079openalex-snapshot

HLA-DQ antibodies in alloimmunity, what makes them different?

inferred← citeshttps://doi.org/10.1097/tp.0000000000002725openalex-snapshot

Single-cell Transcriptomics and Solid Organ Transplantation

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