Yoshiharu Muto

Macrophage SLC9A1 Links Endocytic Trafficking to Innate Immune Activation in Myocardial Injury

This study identifies SLC9A1 as a mediator linking macrophage endocytic trafficking to innate immune activation in myocardial injury, showing its role in inflammation and cardiac remodeling.

Cell Type-Specific and Diabetic Kidney Disease-Associated Expression of Long Non-Coding RNAs in Human Kidneys

The paper identifies cell type-specific lncRNAs in human kidneys and finds TARID, a podocyte-specific lncRNA, is upregulated in diabetic kidney disease and critical for actin cytoskeleton reorganization.

Multi-omics profiling of mouse polycystic kidney disease progression at a single cell resolution

This study uses single-nucleus multi-omics to analyze mouse PKD progression, identifying cell-type-specific gene and epigenetic changes and conserved regulatory pathways between mouse and human.

Epigenetic reprogramming driving successful and failed repair in acute kidney injury

This study maps epigenetic changes during AKI repair in mice and humans, identifying CREB5 as a regulator of both successful and failed tubular repair.

Predicting regulators of epithelial cell state through regularized regression analysis of single cell multiomic sequencing

The paper develops RENIN, a regularized regression method, to predict gene regulatory networks from single nucleus multiomic data and applies it to identify regulators of failed kidney injury response.

Quality assessment and refinement of chromatin accessibility data using a sequence-based predictive model

The paper introduces gkmQC, a sequence-based model to assess and refine chromatin accessibility data quality, improving peak calling and regulatory element alignment.

Defining cellular complexity in human autosomal dominant polycystic kidney disease by multimodal single cell analysis

This study uses single-cell multiomic analysis to define cellular complexity in ADPKD, identifying novel transcriptomic and epigenomic features in cystic kidney cells.

Multimodal single cell sequencing of human diabetic kidney disease implicates chromatin accessibility and genetic background in disease progression

This study uses multimodal single-cell sequencing to show that chromatin accessibility and genetic background influence diabetic kidney disease progression through cell-specific mechanisms.

Single cell transcriptional and chromatin accessibility profiling redefine cellular heterogeneity in the adult human kidney

This study integrates snATAC-seq and snRNA-seq data to redefine cellular heterogeneity in the adult human kidney by identifying functional differences in chromatin accessibility and gene expression.