Xiangjie Li

Xiangjie Li

Associate Professor at Changping Laboratory

Publications

Peer-reviewed Publications

# co-first author, $^*$ corresponding author. $^\dagger$ Idea/evaluation contribution, $^\ddagger$ software contribution, Statistics contribution.

  1. Tianyi Ma(#), Xiaojing Chu(#), Jinyu Wang(#), Xiangjie Li(#), Yu Zhang, Dan Tong, Wenbin Xu, Guohui Dang, Lu Qi, Yuhui Miao, Zemin Zhang(*), Sijin Cheng(*). Pan-cancer analyses refine the single-cell portrait of tumor-infiltrating dendritic cells. Cancer Research, 2025. https://doi.org/10.1158/0008-5472.CAN-24-3595
  2. Xiangjie Li(#), Xiaojing Chu(#), Wenbin Xu(#) et al. Integrated spatial transcriptomic profiling to dissect the cellular characteristics of tumor-associated tertiary lymphoid structures. Cell Reports, 44(9):116250, 2025. https://doi.org/10.1016/j.celrep.2025.116250
  3. Sheng Fang(#), Xiaokang Yu(#), Xinyi Xu, Jingxiao Zhang(*), Xiangjie Li(*). scHSC: Enhancing Single-Cell RNA-Seq Clustering via Hard Sample Contrastive Learning. Briefings in Bioinformatics, 25(5):bbaf485, 2025. https://doi.org/10.1093/bib/bbaf485
  4. Xiaojing Chu(#), Xiangjie Li(#), Yu Zhang(#), Guohui Dang, Yuhui Miao, Wenbin Xu, Jinyu Wang, Sijin Cheng(*), Zemin Zhang(*). Integrative single-cell analysis of human colorectal cancer reveals patient stratification with distinct immune evasion mechanisms. Nature Cancer,5(9),2025. (IF=23+). https://doi.org/10.1038/s43018-024-00807-z
  5. Liang Chen(#), Haotong Li(#), Xiaorui Liu(#), Ningning Zhang, Deniz Akdis, Kui Wang, Anteng Shi, Hang Gao, Deniz Akdi, Ardan M. Saguner, Xinjie Xu, Elena Osto, Willem Van de Veen, Guangyu Li, Antoni Bayes-Genis, Firat Duru, Jiangping Song(*), Xiangjie Li(*), Shengshou Hu(*). PBX/Knotted 1 homeobox-2 (PKNOX2) is a novel regulator of myocardial fibrosis. Signal Transduction and Targeted Therapy, 9, 94 (2024). (IF=37+). https://doi.org/10.1038/s41392-024-01808-1
  6. Xiaokang Yu(#), Xinyi Xu(#), Jingxiao Zhang(*), Xiangjie Li(*). Batch alignment of single-cell transcriptomics data using deep metric learning. Nature Communications 14, 960. https://doi.org/10.1038/s41467-023-36635-5 (IF=17.7, 被引次数: 5)
  7. Xinyi Xu, Xiangjie Li(*). Structure preserved dimension reduction using joint triplets sampling for multi-batch integration of single-cell transcriptomic data. Briefings in Bioinformatics. https://doi.org/10.1093/bib/bbac608 (IF=11.6)
  8. Xinyi Xu, Xiaokang Yu, Gang Hu, Kui Wang, Jingxiao Zhang, Xiangjie Li(*). Propensity Score Matching enables batch effect corrected imputation in single-cell RNA-seq analysis.Briefings in Bioinformatics, 23(4):bbac275, 2022. https://doi.org/10.1093/bib/bbac275
  9. Shi Chen (#), Liang Chen(#), Ardan M. Saguner, Kai Chen, Deniz Akdis, Alessio Gasperetti, Corinna Brunckhorst, Hanwei Tand, Guangran Guo, Man Rao, Xiangjie Li (¶), Firat Duru(*), Jiangping Song(*), Shengshou Hu(*).(2022). Novel Risk Prediction Model to Determinie Adverse Heart Failure Outcomes in Arrhythmogenic Right Ventricular Cardiomyopathy. accepted by JAHA: Journal of the American Heart Association (IF=5.51, Q1)
  10. Jie Ren(#), Yuze Zhang(#), Shishi Liu, Xiangjie Li(*), Xiaogang Sun(*).(2021).Detailed Analyses of the Expression Patterns of Potential Severe Acute Respiratory Syndrome Coronavirus 2 Receptors in the Human Heart Using Single-Nucleus RNA-sequencing. accepted by frontiers in Cardiovascular Medicine (IF=4.79, Q1)
  11. Yuan Chang(#), Xiangjie Li(#), Qi Cheng(#), Yiqing Hu(#) ,Xiao Chen, Xiumeng Hua, Xuexin Fan, Menghao Tao, Jiangping Song (*), Shengshou Hu (*). Single-cell landscape of immune microenvironment during acute rejection in heart transplantation, accepted by Basis Research in Cardiology (IF=15.48, Q1).
  12. Jian Hu, Xiangjie Li $^{(\dagger)}$, Kyle Coleman, Amelia Schroeder, Nan Ma, David J. Irwin, Edward B. Lee, Russell T. Shinohara and Mingyao Li.(2021).SpaGCN: Integrating gene expression, spatial location and histology to identify spatial domains and spatially variable genes by graph convolutional network. Nat Methods,18:1342-1351. https://doi.org/10.1038/s41592-021-01255-8 (IF=28.54,Q1).
  13. Jie Ren(#), Ningning Zhang(#), Xiangjie Li(¶), Xiaogang Sun, Jinagping Song (*).(2021). Identification of reference genes for gene expression studies among different developmental stages of murine hearts. BMC Developmental Biology.21:13. https://doi.org/10.1186/s12861-021-00244-6 (IF=1.9, Q3).
  14. Hang Hu, Zhong Li(*) ,Xiangjie Li$^{(\ddagger)}$,Minzhe Yu adn Xiutao Pan.(2021) ScCAEs: deep clustering of single-cell RNA-seq via convolutional autoencoder embedding and soft K-means. Breifings in Bioinformatics, bbab321, https://doi.org/10.1093/bib/bbab321 (IF=11.62, Q1).
  15. Justin Lakkis, David Wang, Yuanchao Zhang, Gang Hu, Kui Wang, Huize Pan, Lyle Ungar, Muredach P. Reilly, Xiangjie Li(*) , Mingyao Li(*) . A joint deep learning model for simultaneous batch effect correction, denoising and clustering in single-cell transcriptomics. Published online in Genome Research. https://genome.cshlp.org/content/early/2021/05/25/gr.271874.120.abstract (IF=9.04, Q1).
  16. Xiangjie Li , Kui Wang, Yafei Lyu, Jingxiao Zhang, Dwight Stambolian,Katalin Susztak, Muredach P. Reilly, Gang Hu (*) and Mingyao Li (*) . (2020). Deep learning enables accurate clustering and batch effect removal in single-cell RNA-seq. Nature Communications 11, 2338 (2020). https://eleozzr.github.io/desc (IF=14.92, Q1).
  17. Liang Chen(#), Xiangjie Li (#) , Mingquan Chen, Yi Feng and Chenglong Xiong(*). (2020). The ACE2 expression in human heart indicates new potential mechanism of heart injury among patients infected with SARS-CoV-2. Cardiovascular Research. 116(6): 1097–1100.(ESI Hot Papers and ESI Highly Cited Papers, cited 659 times, IF=10.787, Q1)
  18. Mengmeng Li(#), Liang chen(#), Jingxiao Zhang, Chenglong Xiong(*) and Xiangjie Li(*) . (2020) The SARS-CoV-2 receptor ACE2 expression of maternal-fetal interface and fetal organs by single-cell transcriptome study. Plos One. 15(4):e0230295. (ESI Highly Cited Papers, cited 240 times, IF=3.24, Q1)
  19. Jie Ren(#), Liang Chen(#), Ningning Zhang, Xiao Chen, Qian Zhao, Kai Chen, Xiangjie Li(¶), Frank Ruschitzka, Firat Duru(*) and Jiangping Song(*). (2020). Plasma testosterone and arrhythmic events in male patients with arrhythmogenic right ventricular cardiomyopathy. ESC Heart Failure. 7(4): 1547–1559.
  20. Jian Hu, Xiangjie Li, Gang Hu, Yafei Lyu, Katalin Susztak and Mingyao Li(*).(2020). Iterative transfer learning with neural network for clustering and cell type classification in single-cell RNA-seq analysis. Nature Machine Intelligence. https://doi.org/10.1038/s42256-020-00233-7 (IF=16.65, Q1).
  21. Rou Zhong, Xiangjie Li$^{(\dagger)}$, Jingixao Zhang(*). (2021). Model-free robust conditional independence feature screening.Journal of Applied Statistics and Management (In Chinese). https://doi.org/10.13860/j.cnki.sltj.20200619-002 .
  22. Xinyi Xu, Xiangjie Li$^{(\dagger)}$, Jingxiao Zhang(*). (2020). Regularization methods for high-dimensional sparse control function models. Journal of Statistical Planning and Inference. 206:111-126
  23. Shishi Liu, Xiangjie Li$^{(\dagger)}$, Jingixao Zhang(*).(2020). Ultrahigh dimensional feature screening for additive model with multivariate response. Journal of Statistical Computation and Simulation. 90(5): 775-799.
  24. Xiangjie Li, Jingxiao Zhang(*). (2020). Sufficient dimension folding via tensor inverse regression. Journal of Statistical Computation and Simulation. 90(8):1413-1429.
  25. Xiangjie Li, Xuejun Ma, Jingxiao Zhang(*). (2018). Conditional quantile correlation screening procedure for ultrahigh-dimensional varying coefficient models. Journal of Statistical Planning and Inference. 197:69-92.
  26. Xinyi Xu, Xiangjie Li$^{(\dagger)}$, Jingixiao Zhang(*).(2018). Sufficient dimension reduction and prediction through cumulative slicing PFC. Journal of Statistical Computation and Simulation.88(6):1172-1190.
  27. Xiangjie Li, Yanyan Wu, Jingxiao Zhang (*). (2018). Robust dimension reduction method based on sliced inverse regression. Statistical Research (In Chinese), 5(7): 115-124.
  28. Xiangjie Li, Jingxiao Zhang(*). (2018). Robust rank conditional feature screening for ultrahigh dimensional data. Statistics & Information Forum (In Chinese), 33(4): 6-12.
  29. Xiangjie Li, Xuejun Ma and Jingxiao Zhang(*). (2017). Robust feature screening for varying coefficient models via quantile partial correlation. Metrika, 80(1): 17-49.
  30. Xiangjie Li, Lei Wang and Jingxiao Zhang(*). (2017). A model-free feature screening for ultrahigh-dimensional data based on kernel density estimation. Journal of Statistical Computation and Simulation. 87(12): 2450-2468.
  31. Jingxiao Zhang(*,#), Xiangjie Li(#), Haiming Guo. (2016). Robust variable screening for ultrahigh dimensional. Statistics & Information Forum (In Chinese), 32(4): 9-12.

Papers in preparation

  1. QUEST:A Quadruplet unified framework enables analysis of scRNA-seq and Spatial Resolved Transcriptomic. In preparation