Single-Nucleus RNA Sequencing Identifies New Classes of Proximal Tubular Epithelial Cells in Kidney Fibrosis

Potent Inhibitors of Organic Anion Transporters 1 and 3 From Natural Compounds and Their Protective Effect on Aristolochic Acid Nephropathy

(2020) Caiyu Li et al.   TOXICOLOGICAL SCIENCES

Cell profiling of mouse acute kidney injury reveals conserved cellular responses to injury

(2020) Yuhei Kirita et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The single-cell transcriptional landscape of mammalian organogenesis

(2019) Junyue Cao et al.   NATURE

Cellular Senescence in the Kidney

(2019) Marie-Helena Docherty et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

WebGestalt 2019: gene set analysis toolkit with revamped UIs and APIs

(2019) Yuxing Liao et al.   NUCLEIC ACIDS RESEARCH

DoubletFinder: Doublet Detection in Single-Cell RNA Sequencing Data Using Artificial Nearest Neighbors

(2019) Christopher S. McGinnis et al.   Cell Systems

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Renal-Tubule Epithelial Cell Nomenclature for Single-Cell RNA-Sequencing Studies

(2019) Lihe Chen et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

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

(2019) Blue B. Lake et al.   Nature Communications

Spatiotemporal immune zonation of the human kidney

(2019) Benjamin J. Stewart et al.   SCIENCE

Single-Cell Profiling Reveals Sex, Lineage, and Regional Diversity in the Mouse Kidney

(2019) Andrew Ransick et al.   DEVELOPMENTAL CELL

Fast, sensitive and accurate integration of single-cell data with Harmony

(2019) Ilya Korsunsky et al.   NATURE METHODS

A Single-Cell Transcriptome Atlas of the Mouse Glomerulus

(2018) Nikos Karaiskos et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Single-cell transcriptomics of the mouse kidney reveals potential cellular targets of kidney disease

(2018) Jihwan Park et al.   SCIENCE

zUMIs - A fast and flexible pipeline to process RNA sequencing data with UMIs

(2018) Swati Parekh et al.   GigaScience

RNA velocity of single cells

(2018) Gioele La Manno et al.   NATURE

Joint profiling of chromatin accessibility and gene expression in thousands of single cells

(2018) Junyue Cao et al.   SCIENCE

Advantages of Single-Nucleus over Single-Cell RNA Sequencing of Adult Kidney: Rare Cell Types and Novel Cell States Revealed in Fibrosis

(2018) Haojia Wu et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

Tenascin-C protects against acute kidney injury by recruiting Wnt ligands

(2018) Shuangqin Chen et al.   KIDNEY INTERNATIONAL

Single-cell RNA-sequence analysis of mouse glomerular mesangial cells uncovers mesangial cell essential genes

(2017) Yuqiu Lu et al.   KIDNEY INTERNATIONAL

QuPath: Open source software for digital pathology image analysis

(2017) Peter Bankhead et al.   Scientific Reports

Cellular senescence in renal ageing and disease

(2016) Ines Sturmlechner et al.   Nature Reviews Nephrology

Novel cystine transporter in renal proximal tubule identified as a missing partner of cystinuria-related plasma membrane protein rBAT/SLC3A1

(2016) Shushi Nagamori et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Deep Sequencing in Microdissected Renal Tubules Identifies Nephron Segment-Specific Transcriptomes

(2015) J. W. Lee et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

Tissue-based map of the human proteome

(2015) M. Uhlen et al.   SCIENCE

A draft network of ligand–receptor-mediated multicellular signalling in human

(2015) Jordan A. Ramilowski et al.   Nature Communications

circlize implements and enhances circular visualization in R

(2014) Zuguang Gu et al.   BIOINFORMATICS

The emergence of the glomerular parietal epithelial cell

(2014) Stuart J. Shankland et al.   Nature Reviews Nephrology

Identification of a Multipotent Self-Renewing Stromal Progenitor Population during Mammalian Kidney Organogenesis

(2014) Akio Kobayashi et al.   Stem Cell Reports

Reactivation of NCAM1 Defines a Subpopulation of Human Adult Kidney Epithelial Cells with Clonogenic and Stem/Progenitor Properties

(2013) Ella Buzhor et al.   AMERICAN JOURNAL OF PATHOLOGY

Chronic epithelial kidney injury molecule-1 expression causes murine kidney fibrosis

(2013) Benjamin D. Humphreys et al.   JOURNAL OF CLINICAL INVESTIGATION

KIM-1 expression links kidney injury with CKD in mice

(2013) Rebecca Kirk   Nature Reviews Nephrology

Differentiated kidney epithelial cells repair injured proximal tubule

(2013) T. Kusaba et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Establishment of a Primary Culture System of Proximal Tubule Segments Using Specific Markers from Normal Mouse Kidneys

(2012) Masumi Kamiyama et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Proximal tubular cells contain a phenotypically distinct, scattered cell population involved in tubular regeneration

(2012) Bart Smeets et al.   JOURNAL OF PATHOLOGY

Identification of Anchor Genes during Kidney Development Defines Ontological Relationships, Molecular Subcompartments and Regulatory Pathways

(2011) Rathi D. Thiagarajan et al.   PLoS One

Epithelial cell cycle arrest in G2/M mediates kidney fibrosis after injury

(2010) Li Yang et al.   NATURE MEDICINE