Chiaowen Joyce Hsiao

The paper develops a method to quantify cell cycle progression in scRNA-seq data using a small number of genes, showing it can predict cell cycle phase within 14% accuracy.

The paper compares gene expression and DNA methylation across tissues and species in primates, finding that only 7-11% of inter-species expression differences are explained by methylation, with higher explanation in tissue-specific genes.

This study uses Hi-C and RNA-seq to analyze 3D chromatin interactions and gene expression in human and chimpanzee iPSCs, finding that lower-order interactions are conserved while higher-order structures like TADs are not, and that inter-species differences in 3D structure correlate with gene expression differences.

This study compares endoderm differentiation in humans and chimpanzees using iPSCs, finding high conservation of gene regulatory trajectories despite species-specific expression differences.

This study assesses genetic influences on inter-individual variation in three human phosphoproteomes and identifies genetic associations with phosphopeptide variation.

The paper applies grade of membership models to RNA-seq data to identify and summarize biological structure and heterogeneity in both bulk and single-cell datasets.