Hao Chen

SpaTRACE jointly infers gene regulatory networks and cell-cell signaling from spatial transcriptomics data, outperforming existing methods in synthetic benchmarks and revealing novel interactions in development and regeneration.

This paper introduces GIANT, a method for integrating atlas-scale single cell data from multiple modalities and tissues, creating a unified gene embedding space that reflects gene functions and regulations.

DeltaSplice predicts splicing-altering mutations and alternative splicing from genomic sequences, outperforming existing methods and identifying disease-related variants in neurodevelopmental disorders.

scResolve recovers single-cell expression profiles from multi-cellular spatial transcriptomics data, enabling cell type-specific analysis and rare population detection in human tissues.

SCS improves cell segmentation in sub-cellular spatial transcriptomics by combining imaging and sequencing data, achieving higher accuracy and better cell size estimation.