Author
Fudan UniversityORCID 0000-0002-2471-0686Unclaimed ORCID profile · follow to get notified of new preprints
4 papers
Recent·Most cited
Yecheng Tan, Zezhou Wang, Ai Wang, Yan Yan, Wei Lin, Qing Nie, Jifan Shi
CODA aligns and compares spatial transcriptomics data across samples, identifying spatially differential genes associated with disease and sleep regulation.
Nature Communications · Jun 25, 2026Peer-reviewedBioinformatics
Yecheng Tan, Ai Wang, Zezhou Wang, Wei Lin, Yan Yan, Qing Nie, Jifan Shi
This paper introduces iSORT, a transfer learning method that integrates single-cell and spatial transcriptomics data to reconstruct spatial organization and identify key genes in multicellular systems.
PLoS Computational Biology · Apr 21, 2025Peer-reviewedBioinformatics
Tiejun Li, Jifan Shi, Yichong Wu, Peijie Zhou
This paper provides a mathematical analysis of the RNA velocity model, deriving analytical solutions and parameter inference frameworks to improve understanding and future development of RNA velocity methods.
CSIAM Transactions on Applied Mathematics · Feb 25, 2021Peer-reviewedBioinformatics
Jifan Shi, Andrew Erich Teschendorff, Weiyan Chen, Luonan Chen, Tiejun Li
The paper compares single-cell potency measures using 9 experiments and 6,600 RNA-Seq profiles, finding that graph entropy of a Markov Chain on a signaling network better estimates potency than other methods.
Briefings in Bioinformatics · Aug 30, 2018Peer-reviewedBioinformatics