Yuanyuan Han

Bento enables subcellular analysis of spatial transcriptomics data by defining domains, annotating localization patterns, and quantifying gene colocalization, demonstrating its use on multiple datasets.

The paper investigates the interaction between long non-coding RNAs and chromatin accessibility during erythroid differentiation, identifying stage-specific regulatory networks and key lncRNAs involved in the process.

This study investigates how CTCF binding sites mediate transcriptional insulation in mouse embryonic stem cells, showing that insulation depends on CTCF site number, sequence context, and TAD boundary location.