Chenchen Zhu

The paper presents the Human Gut Cell Atlas v1.0, a unified reference of gut cell diversity, revealing how tissue structure influences cellular composition and enabling disease and organoid analysis.

A free Meta Quest virtual reality app harmonizes CODEX, Visium, Xenium, volumetric immunofluorescence and electron microscopy data from 5 organs into 4 scale levels using the Human Reference Atlas.

This paper uses single-nuclei RNA sequencing and spatial transcriptomics to characterize KPGCT, showing neoplastic cells express HMGA2::NCOR2 fusions and activate the hippo pathway, driving CSF1 production and macrophage recruitment.

The paper analyzes endothelial cell environments across organs using spatially resolved omics data and provides an interactive tool for visualizing cell distances and neighborhoods.

This paper introduces scPRS, a deep learning model that deconvolves polygenic risk scores at the single-cell level to uncover cellular and molecular disease mechanisms in complex human diseases.

This study tracks microbiome changes across four body sites in 86 participants over six years, revealing site-specific stability, individualized dynamics, and altered patterns in insulin-resistant individuals.

The paper analyzes multi-omic data from two pig heart xenografts in human decedents to identify immune and metabolic responses associated with rejection and injury.

The paper develops a pipeline to identify and quantify full-length RNA isoforms, revealing disease-associated isoforms in cardiomyocytes with RBM20 mutations.

This study shows that tyrosine kinase inhibitors cause mitochondrial dysfunction in cardiomyocytes by altering GATA4-mediated networks, and GATA4 overexpression can rescue these effects.

The paper identifies a recurrent tumor-specific transcript fusion between CDKN1A and RAB44 caused by splice-site mutations and shows its correlation with TP53 inactivation and CDK activation.