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2026	JGR-NMF: joint graph-regularized non-negative matrix factorization for spatial domain identification PeerJ Juan Liang, Jiuxi Huang, Chenxi Xi, Yun Wang, Juntao Li
2026	Single-cell distillation discriminative clustering based on asymmetric autoencoder Engineering Applications of Artificial Intelligence Junliang Shang, Aitian Fan, Baojuan Qin, Yan Zhao, Xiaohan Zhang, Shoujia Jiang, Feng Li, Jin-Xing Liu
2026	MISF: Multimodal Data Integration Through Adaptive Similarity Learning and Matrix Factorization IEEE Transactions on Computational Biology and Bioinformatics Fengfan Zhou, Xinqi Chen, Yusheng Jiang, Jinting Guan
2026	scSCDT: Self-contrastive neural network with deep topology mining for scRNA-seq data clustering Expert Systems with Applications Zhongyang Zhou, Bin Tang, Feiyu Chen, Wei Wang, Shangshang Zhao, Nanjun Yu
2025	2025 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) Junjie Lan, Nizhuan Wang, Jin Deng
2024	Integrating Multi-omics Data for Alzheimer’s Disease to Explore Its Biomarkers Via the Hypergraph-Regularized Joint Deep Semi-Non-Negative Matrix Factorization Algorithm Journal of Molecular Neuroscience Kun Tu, Wenhui Zhou, Shubing Kong
2023	GoM DE: interpreting structure in sequence count data with differential expression analysis allowing for grades of membership Genome Biology Peter Carbonetto, Kaixuan Luo, Abhishek Sarkar, Anthony Hung, Karl Tayeb, Sebastian Pott, Matthew Stephens
2023	Clustering single-cell multimodal omics data with jrSiCKLSNMF Frontiers in Genetics Dorothy Ellis, Arkaprava Roy, Susmita Datta
2023	scGMM-VGAE: a Gaussian mixture model-based variational graph autoencoder algorithm for clustering single-cell RNA-seq data Machine Learning: Science and Technology Eric Lin, Boyuan Liu, Leann Lac, Daryl L X Fung, Carson K Leung, Pingzhao Hu
2022	scINSIGHT for interpreting single-cell gene expression from biologically heterogeneous data Genome Biology Kun Qian, Shiwei Fu, Hongwei Li, Wei Vivian Li
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