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Science Advances|June 1, 2022
DIRECT-NET: An efficient method to discover cis-regulatory elements and construct regulatory networks from single-cell multiomics dataLihua Zhang, Jing Zhang, Qing NieGenome Biology|January 5, 2021
scMC learns biological variation through the alignment of multiple single-cell genomics datasetsLihua Zhang, Qing NieGenome Biology|February 5, 2020
scAI: an unsupervised approach for the integrative analysis of parallel single-cell transcriptomic and epigenomic profilesSuoqin Jin, Lihua Zhang, Qing NieCell Systems|February 5, 2026
Interpretable data integration for single-cell and spatial multi-omicsChenghui Yang, Zhentao He, Qing Nie, et al.Science Advances|December 23, 2020
Predicting transcription factor binding in single cells through deep learningLaiyi Fu, Lihua Zhang, Emmanuel Dollinger, et al.Nucleic Acids Research|September 21, 2022
Integrated analysis of multimodal single-cell data with structural similarityYingxin Cao, Laiyi Fu, Jie Wu, et al.Bioinformatics (Oxford, England)|July 12, 2021
SAILER: scalable and accurate invariant representation learning for single-cell ATAC-seq processing and integrationYingxin Cao, Laiyi Fu, Jie Wu, et al.Nature Communications|February 18, 2021
Inference and analysis of cell-cell communication using CellChatSuoqin Jin, Christian F Guerrero-Juarez, Lihua Zhang, et al.Journal of Computational Physics|October 22, 2015
A high-order boundary integral method for surface diffusions on elastically stressed axisymmetric rodsXiaofan Li, Qing NieBiophysical Journal|January 22, 2013
Stem cell niche structure as an inherent cause of undulating epithelial morphologiesJeremy Ovadia, Qing NiePageof 2,174