Andrew P. McMahon

Dissecting the coordinated progression of cell states in spatial transcriptomics with CoPro

CoPro identifies spatially coordinated gene expression programs across tissues, revealing distinct cellular states and their interactions in colon, brain, liver, and kidney.

Defects in nephrogenesis result in an expansion of the Foxd1+ stromal progenitor population

The paper shows that defects in nephron progenitor cell differentiation lead to an expansion of Foxd1+ stromal progenitors in mouse models and identifies a conserved subcluster in human fetal kidneys.

Mitochondrial organization in the developing proximal tubule is controlled by LRRK2

This study shows that mitochondrial redistribution in developing proximal tubule cells depends on fluid flow and LRRK2 activity, which is regulated by shear stress.

Inducible, virus-free direct lineage reprogramming enhances scalable generation of human inner ear hair cell-like cells

This study develops a virus-free, inducible system to generate human inner ear hair cell-like cells from iPS cells, achieving higher efficiency and faster conversion than viral methods.

Cadherin Adhesion Complexes Direct Cell Aggregation in the Epithelial Transition of Wnt-Induced Nephron Progenitor Cells

This study shows that Wnt-{beta}-catenin pathway activates cadherin-mediated cell adhesion, driving cell aggregation during the mesenchymal-to-epithelial transition of nephron progenitor cells.

Comparative single-cell analyses identify shared and divergent features of human and mouse kidney development

The paper compares single-cell chromatin and gene expression data from human and mouse kidney development to identify conserved and divergent features and human-specific enhancer regions linked to kidney disease.

Spatial transcriptomics defines injury-specific microenvironments in the adult mouse kidney and novel cellular interactions in regeneration and disease

The paper uses spatial transcriptomics to identify injury-specific microenvironments and molecular interactions in the mouse kidney during injury and regeneration.

A mechanical pacemaker sets rhythmic nephron formation in the kidney

This study identifies a mechanical pacemaker in the kidney stroma that synchronizes nephron formation with ureteric bud branching.

Canonical Wnt transcriptional complexes are essential for induction of nephrogenesis but not maintenance or proliferation of nephron progenitors

The paper investigates the role of canonical Wnt transcriptional complexes in nephron progenitor cell regulation, finding distinct roles in induction versus maintenance of nephrogenesis.

Modeling kidney development, disease, and plasticity with clonal expandable nephron progenitor cells and nephron organoids

This paper develops a synthetic niche to expand nephron progenitor cells, enabling organoid generation and CRISPR screening for kidney development and disease.

Direct androgen receptor regulation of sexually dimorphic gene expression in the mammalian kidney

The paper identifies androgen receptor-mediated regulation of sexually dimorphic gene expression in the mouse kidney and finds limited conservation in human kidney.

A cell atlas of the fly kidney

The paper characterizes cell types in the fly kidney using snRNA-seq and identifies new clusters, markers, and signaling networks, linking them to mammalian and planarian kidney structures.

A β-catenin-driven switch in TCF/LEF transcription factor binding to DNA target sites promotes commitment of mammalian nephron progenitor cells

The paper shows that β-catenin modulates TCF/LEF binding at gene targets, switching from inhibitory to activating complexes during nephron progenitor cell differentiation.

Generation of kidney ureteric bud and collecting duct organoids that recapitulate kidney branching morphogenesis

The paper generates kidney collecting duct organoids from ureteric bud progenitors and stem cells to study development and disease of the collecting system.

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

The paper uses single-cell RNA sequencing and lineage tracing in mouse kidneys to reveal sex differences, cell diversity, and lineage convergence in nephron development.

A simple bioreactor-based method to generate kidney organoids from pluripotent stem cells

This paper introduces a simple, inexpensive method to generate kidney organoids from human pluripotent stem cells, showing they develop tubular structures by day 8 and resemble fetal kidney structures by day 14.