Ziying Liu

Systematic benchmarking reveals pseudo-bulk biases and provides practical fixes for accurate RNA deconvolution.

The paper constructs a standardized BAL scRNA-seq atlas using BAL-EA, a novel annotation framework, revealing disease-associated shifts in COPD and validating findings in COVID-19 datasets.

This study examines metabolic, epigenetic, and transcriptomic changes in astrocytes from a mouse model of 16p11.2 deletion ASD syndrome, revealing sex-specific molecular alterations.

This study identifies Hmgb1 in astrocytes as critical for postnatal astrocyte morphogenesis and cerebrovascular maturation, affecting endothelial ultrastructure and neurovascular coupling in adult mice.

This paper uses transcriptomics to show ABA and GA treatments modulate wheat's response to Fusarium graminearum, affecting defense signaling, cell wall changes, and metabolism.

This study compares alignment strategies for dual-genome RNA-seq data from wheat and Fusarium, finding that combo-genome alignment improves mapping quality.

The paper introduces DEFE, a method to extract differential expression patterns from RNA-seq data, and applies it to identify genes associated with wheat resistance to Fusarium head blight.