Education

Ph.D. in Statistics and Bioinformatics, Peking University, China, 2017-2022
B.S. in Mathematics and Applied Mathematics, Xi’an Jiaotong University, China, 2013-2017
- Visiting Student at Georgia Institute of Technology, Atlanta, U.S., 2016
Special class for the gifted young, Xi’an Jiaotong University, China, 2011-2013

Working Experience

Assistant Professor, School of Mathematics and Statistics, Beijing Institute of Technology, China, 2026-
Postdoc, International Cancer Institute, Health Science Center, Peking University, China, 2022-2026

Publications

SPADE: A Deep Learning Framework for Spatial Mapping and Quantitative Cell–Cell Interaction Inference

Li, X. et al. SPADE: A Deep Learning Framework for Spatial Mapping and Quantitative Cell–Cell Interaction Inference. Advanced Science:e76142. (2026)

Spatial-aware detection of copy number alterations from spatial transcriptomics using SpaCNA

Zhang, Z. et al. Spatial-aware detection of copy number alterations from spatial transcriptomics using SpaCNA. Nature Communications. (2026)

scComm: a contrastive learning framework for deciphering cell-cell communications at single-cell resolution

Jin, Z. et al. scComm: a contrastive learning framework for deciphering cell-cell communications at single-cell resolution. Genome Biology. (2026)

Detecting copy-number alterations from single-cell chromatin sequencing data by AtaCNA

Wang, X., Jin, Z., Shi, Y., & Xi, R. (2025). Detecting copy-number alterations from single-cell chromatin sequencing data by AtaCNA. Cell Reports Methods.

MetaCONNET: A metagenomic polishing tool for long-read assemblies

Sun, B., Guo, J., Jin, H. et al. MetaCONNET A metagenomic polishing tool for long-read assemblies. PLoS ONE 19(12) e0313515 (2024).

TAGET: a toolkit for analyzing full-length transcripts from long-read sequencing

Xia, Y., Jin, Z., Zhang, C. et al. TAGET a toolkit for analyzing full-length transcripts from long-read sequencing. Nat Commun 14, 5935 (2023).

Single cell gene fusion detection by scFusion

Jin, Z., Huang, W., Shen, N. et al. Single-cell gene fusion detection by scFusion. Nat Commun 13, 1084 (2022). https://doi.org/10.1038/s41467-022-28661-6

Global immune characterization of HBV/HCV-related hepatocellular carcinoma identifies macrophage and T-cell subsets associated with disease progression

Song, G., Shi, Y., ..., Jin, Z. et al. Global immune characterization of HBV/HCV-related hepatocellular carcinoma identifies macrophage and T-cell subsets associated with disease progression. Cell Discov 6, 90 (2020).