Yanxiang Deng

Live Droplet Single-Cell RNA Sequencing

The paper introduces Live D-seq, a method for longitudinal, non-destructive single-cell RNA sequencing, and demonstrates its ability to track cellular dynamics over time.

Live Spatial Transcriptomics Enables Longitudinal Tissue Mapping

This paper introduces Live-ST, a method for longitudinal spatial transcriptomics, and demonstrates its use in tracking drug response in melanoma tissues.

Integrative spatial profiling of 3D genome organization and gene expression in tissue

This paper introduces Spatial Hi-C-RNA, a spatial multi-omics technology that co-maps chromatin conformation and transcriptome in tissue, revealing spatially coherent domains and new insights into gene regulation.

OmicGlaze: Spatial Multi-Omic Mapping of Traumatic Brain Injury

OmicGlaze provides a spatial multi-omic framework to analyze TBI, identifying gene regulatory networks and region-specific biological changes.

Toward Computationally Complete Spatial Omics

COSIE is a computational framework that integrates multiple spatial omics modalities to generate high-resolution molecular landscapes, outperforming existing methods across diverse datasets.

Spatial joint profiling of DNA methylome and transcriptome in mammalian tissues

This paper introduces a method for spatial co-profiling of DNA methylation and transcriptome in mammalian tissues, revealing spatial patterns and their interplay in development and brain function.

Multiplexed spatial mapping of chromatin features, transcriptome, and proteins in tissues

The paper introduces spatial-Mux-seq, a multi-modal spatial technology that profiles five modalities in tissues, revealing new insights into cell types, gene regulation, and epigenetic gradients in mouse embryos and brains.

Spatial-ATAC-seq: spatially resolved chromatin accessibility profiling of tissues at genome scale and cellular level

This paper introduces spatial-ATAC-seq, a method for spatially resolved chromatin accessibility profiling at the cellular level, and demonstrates its application in mouse embryos and human tonsil tissue.

Spatial-CITE-seq: spatially resolved high-plex protein and whole transcriptome co-mapping

Spatial-CITE-seq profiles proteins and transcriptomes in tissues, revealing spatially distinct immune responses in mouse and human tissues.

Spatial Epigenome Sequencing at Tissue Scale and Cellular Level

This paper presents spatial epigenome profiling using CUT&Tag and microfluidic barcoding to map histone modifications at tissue scale and single-cell level in mouse embryos and olfactory bulbs.

High-Spatial-Resolution Multi-Omics Atlas Sequencing of Mouse Embryos via Deterministic Barcoding in Tissue

DBiT-seq enables high-spatial-resolution multi-omics mapping of mouse embryos by deterministic barcoding, revealing tissue types and fine features like retinal pigmented epithelium and microvasculature.

Spatial transcriptome sequencing of FFPE tissues at cellular level

The paper develops DBiT-seq for spatial transcriptome sequencing of FFPE tissues at the cellular level, demonstrating its application in mouse embryos and adult tissues.

High-Spatial-Resolution Multi-Omics Atlas Sequencing of Mouse Embryos via Deterministic Barcoding in Tissue

The paper was withdrawn due to a duplicate posting and directs readers to the current version on bioRxiv.