Jialin Liu

CytoSignal detects and quantifies ligand-receptor signaling interactions at cellular resolution from spatial transcriptomic data, enabling spatial gradient analysis and temporal dynamics prediction.

This study identifies MIF-CD74 axis regulation of myeloid cells in gliomas and shows that MIF inhibition enhances immune therapy efficacy in wtIDH1 gliomas.

This paper introduces TopoVelo, a method to infer spatial and temporal dynamics of cell fate transitions from spatial transcriptomic data, improving spatial coherence and accuracy in cell differentiation and migration analysis.

CytoSimplex visualizes cell differentiation trajectories using simplex geometry to represent cell fate commitment and potential in 2D and 3D plots.

The paper provides a protocol for using LIGER to jointly define cell types from multiple single-cell datasets, including RNA-seq and ATAC-seq data.