Zhen Chen

Epigenome Alterations and 3D Chromatin Architecture Remodeling in Inflammatory Macrophage Activation under Diabetic Conditions

This study investigates how diabetic conditions alter the 3D chromatin architecture and epigenome of macrophages, revealing disease-associated rewiring of the 3D epigenome and potential therapeutic targets.

Mapping Endothelial-Macrophage Interactions in Diabetic Vasculature: Role of TREM2 in Vascular Inflammation and Ischemic Response

This study maps endothelial-macrophage interactions in diabetic vasculature using single-cell and spatial transcriptomics, identifying TREM2 as a key driver of vascular inflammation and ischemic response in diabetes.

Microfluidic low-input profiling reveals lncRNA roles in disease

The paper introduces a low-input microfluidic method to profile lncRNA-chromatin interactions in disease-relevant tissues and cell types, revealing distinct roles of two lncRNAs in schizophrenia.

Single-Cell Multimodal Profiling Highlights Persistent Aortic Smooth Muscle Cell Changes in Diabetic Mice Despite Glycemic Control

This study uses single-cell multi-omics to show that diabetic mice show persistent aortic smooth muscle cell dysfunction and phenotypic changes despite glycemic control, with partial reversal by dapagliflozin.

Single-Cell Metabolic Imaging Reveals Glycogen Driven-Adaptations in Endothelial Cells

This study uses SRS microscopy to show that endothelial cells store glycogen under diabetes-like stress, which helps them survive glucose starvation and may offer new therapeutic targets for diabetes-related endothelial dysfunction.

Endothelial AGO1 Drives Vascular Inflammation and Atherosclerosis via a Non-Canonical Nuclear Mechanism

This study shows that inhibiting endothelial AGO1 reduces vascular inflammation and atherosclerosis by blocking its non-canonical nuclear role in promoting NF-κB-driven inflammation.

Regulation of Nuclear Transcription by Mitochondrial RNA

The paper identifies mitochondrial RNAs (mtRNAs) as chromatin-associated RNAs (caRNAs) that regulate nuclear transcription in response to stress and disease.

Inhibition of DNMT1 methyltransferase activity via glucose-regulated O-GlcNAcylation alters the epigenome

This study shows that glucose-regulated O-GlcNAcylation of DNMT1 inhibits its methyltransferase activity, leading to epigenome changes and increased DNA damage.

Methyltransferase-like 3 modulates severe acute respiratory syndrome coronavirus-2 RNA N6-methyladenosine modification and replication

This study shows that SARS-CoV-2 RNA undergoes N6-methyladenosine modification, and host METTL3 interacts with viral RdRp to modulate viral replication.

Dynamic changes in RNA-chromatin interactome promote endothelial dysfunction

The paper investigates how RNA-chromatin interactions change in endothelial cells under high-glucose and TNF treatment, showing their role in inflammation and endothelial dysfunction.

Genome-wide co-localization of RNA-DNA interactions and fusion RNA pairs

The paper identifies a correlation between RNA-DNA interactions in normal cells and fusion RNA pairs in cancer, suggesting a mechanism for fusion transcript formation.

Rainbow-seq: combining cell lineage tracking with single-cell RNA sequencing in preimplantation embryos

Rainbow-seq combines lineage tracing with single-cell RNA-seq to track cell division history and reveal transcriptome differences in mouse embryos.