Xingfan Huang

The paper introduces Cerberus, an improved regulatory sequence model using bidirectional state space blocks, achieving higher accuracy and efficiency than existing models like Borzoi.

The paper introduces Multi-ISM, a scalable framework for saturation mutagenesis that reduces computational cost while maintaining accuracy, and applies it to 5,000 genes to map regulatory elements and rare variant effects.

12.4 million single-nucleus transcriptomes from 83 staged mouse embryos (E8 to P0) yield 190 cell types, a zygote-to-pup cell-type tree, and rapid postnatal transcriptional shifts.

The paper creates a single-cell multi-omic atlas of the rhesus macaque brain, identifying cell-type-specific regulatory elements and providing insights into brain evolution and disease.

The paper uses single-cell RNA sequencing to systematically phenotype mouse genetic models, identifying molecular and cellular changes across multiple mutants and wildtypes.

This paper reconstructs cellular trajectories of mammalian embryogenesis using scRNA-seq data and identifies key transcription factors at branch points.

The paper identifies cell type-specific chromatin loops anchored at large DNA methylation nadirs, revealing their role in stem and progenitor cell function.

This study shows that loss of CTCF in mouse cardiomyocytes disrupts gene neighbourhoods, leading to ectopic enhancer-promoter interactions and heart failure.

The paper functionally classifies thousands of BRCA1 variants using saturation genome editing to determine their impact on cancer risk.

This study shows that cohesin loss eliminates loop domains, causing superenhancer links and gene downregulation, which are reversible upon cohesin restoration.