Zhen Miao

Cellular senescence is associated with age-related loss of liver zonation and hepatocyte function

This study shows that cellular senescence disrupts liver zonation and hepatocyte function with age by altering gene expression and cell signaling.

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.

PACS allows comprehensive dissection of multiple factors governing chromatin accessibility from snATAC-seq data

PACS is a statistical model for analyzing snATAC-seq data that improves power and controls false positives in differential accessibility analysis.

Stepwise developmental mimicry generates proximal-biased kidney organoids

This paper develops a method to generate proximal tubule precursor cells in kidney organoids using transient Notch signaling activation, showing functional maturity and injury response.

Is single nucleus ATAC-seq accessibility a qualitative or quantitative measurement?

The paper shows quantitative counts in single nucleus ATAC-seq are informative for estimating regulatory states and proposes PIC as a uniform method for feature characterization.

Mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments

The paper maps genetic variants to cell types in the kidney to identify disease mechanisms and drug targets.

A Mendelian randomization study of the role of lipoprotein subfractions in coronary artery disease

This study uses Mendelian randomization to assess the causal effects of lipoprotein subfractions on coronary artery disease risk, finding protective effects for certain HDL particle traits.

Single cell resolution regulatory landscape of the mouse kidney highlights cellular differentiation programs and renal disease targets

The paper maps the regulatory landscape of the mouse kidney at single cell resolution, identifying key transcription factors and regulatory circuits, and linking variants to kidney disease.

Single-Cell Transcriptomic Analysis of mIHC Images via Antigen Mapping

The paper introduces STvEA, a method that integrates single-cell RNA-seq with mIHC data to improve cell population annotation in cytometry datasets.

Integrative single-cell and bulk RNA-seq analysis in human retina identified cell type-specific composition and gene expression changes for age-related macular degeneration

The paper uses single-cell and bulk RNA-seq to analyze gene expression changes in human retina with AMD, identifying cell type-specific alterations.