| Single-cell expression variability implies cell function D Osorio, X Yu, Y Zhong, G Li, E Serpedin, JZ Huang, JJ Cai Cells 9 (1), 14, 2019 | 37 | 2019 |
| scTenifoldNet: a machine learning workflow for constructing and comparing transcriptome-wide gene regulatory networks from single-cell data D Osorio, Y Zhong, G Li, JZ Huang, JJ Cai Patterns 1 (9), 2020 | 28 | 2020 |
| scTenifoldKnk: an efficient virtual knockout tool for gene function predictions via single-cell gene regulatory network perturbation D Osorio, Y Zhong, G Li, Q Xu, Y Yang, Y Tian, RS Chapkin, JZ Huang, ... Patterns 3 (3), 2022 | 17 | 2022 |
| scTenifoldXct: a semi-supervised method for predicting cell-cell interactions and mapping cellular communication graphs Y Yang, G Li, Y Zhong, Q Xu, YT Lin, C Roman-Vicharra, RS Chapkin, ... Cell Systems 14 (4), 302-311. e4, 2023 | 10 | 2023 |
| Gene knockout inference with variational graph autoencoder learning single-cell gene regulatory networks Y Yang, G Li, Y Zhong, Q Xu, BJ Chen, YT Lin, RS Chapkin, JJ Cai Nucleic Acids Research 51 (13), 6578-6592, 2023 | 4 | 2023 |
| Fast replica exchange stochastic gradient Langevin dynamics G Li, G Lin, Z Zhang, Q Zhou arXiv preprint arXiv:2301.01898, 2023 | 4 | 2023 |
| scInTime: a computational method leveraging single-cell trajectory and gene regulatory networks to identify master regulators of cellular differentiation Q Xu, G Li, D Osorio, Y Zhong, Y Yang, YT Lin, X Zhang, JJ Cai Genes 13 (2), 371, 2022 | 4 | 2022 |
| scTenifoldKnk: a machine learning workflow performing virtual knockout experiments on single-cell gene regulatory networks D Osorio, Y Zhong, G Li, Q Xu, A Hillhouse, J Chen, LA Davidson, Y Tian, ... bioRxiv, 2021.03. 22.436484, 2021 | 3 | 2021 |
| Importance is Important: A Guide to Informed Importance Tempering Methods G Li, A Smith, Q Zhou arXiv preprint arXiv:2304.06251, 2023 | 2 | 2023 |
| E-values, Multiple Testing and Beyond G Li, X Zhang arXiv preprint arXiv:2312.02905, 2023 | 1 | 2023 |
| Bayesian Multi-task Variable Selection with an Application to Differential DAG Analysis G Li, Q Zhou Journal of Computational and Graphical Statistics 33 (1), 35-46, 2024 | | 2024 |
| Interpretable modeling of time-resolved single-cell gene–protein expression with CrossmodalNet Y Yang, YT Lin, G Li, Y Zhong, Q Xu, JJ Cai Briefings in Bioinformatics 24 (6), bbad342, 2023 | | 2023 |
| Robust Differential Abundance Analysis of Microbiome Sequencing Data G Li, L Yang, J Chen, X Zhang Genes 14 (11), 2000, 2023 | | 2023 |
| Interpretable modeling of time-resolved single-cell gene-protein expression using CrossmodalNet Y Yang, YT Lin, G Li, Y Zhong, Q Xu, JJ Cai bioRxiv, 2023.05. 16.541011, 2023 | | 2023 |
| Package ‘scTenifoldNet’ D Osorio, Y Zhong, G Li, J Huang, J Cai, MD Osorio | | 2022 |
| New Variational and Sampling Algorithms for Large-scale Bayesian Model Selection Problems G Li | | 2022 |
