Haihong Yang

Extracellular vesicle-derived miRNA-mediated cell-cell communication inference for single-cell transcriptomic data with miRTalk

miRTalk infers EV-derived miRNA-mediated cell-cell communication from scRNA-seq data, showing high accuracy in simulated and real datasets.

De novo analysis of bulk RNA-seq data at spatially resolved single-cell resolution

Bulk2Space deconvolves bulk RNA-seq data to reveal spatial and cellular heterogeneity using single-cell and spatial transcriptomics references, identifying immune cell spatial variance and novel gene patterns in mouse brain regions.

Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data with SpaTalk

SpaTalk infers cell-cell communication from spatial transcriptomic data using a knowledge graph and graph network, outperforming existing methods on public datasets and revealing insights into tissue communication mechanisms.

Reference-free Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network

scDeepSort is a reference-free cell-type annotation tool for scRNA-seq data that outperforms reference-dependent methods in accuracy across human and mouse datasets.