Publications

You can view my author profiles on Google Scholar.

Notation: ^♯ corresponding author; ^* co-first author; ^† student supervised by me

Preprints

• Li, G. and Zhang, X. (2025). A General Framework for Multiple Testing via E-value Aggregation and Data-Dependent Weighting. (arXiv).
• Li, G., Smith, A., and Zhou, Q. (2024). Importance is Important: Generalized Markov Chain Importance Sampling Methods. (arXiv).
• Li, G., Lin, G., Zhang, Z., and Zhou, Q. (2023). Fast Replica Exchange Stochastic Gradient Langevin Dynamics. (arXiv).

Journal Publications

• Gao, J.^†, Chen, H., and Li, G.^♯ (2025). Data-Dependent Weighted E-value Aggregation for Fusion Learning. Mathematics.
• Li, X., Liu, X.^*,†, and Li, G.^♯ (2025). Adaptive Testing for Segmenting Watermarked Texts From Language Models. Stat, 14(4).
• Zhong, Y., Osorio, D., Li, G., Xu, Q., Yang, Y., Huang, J. Z., and Cai, J. J. (2025). scTenifoldNet and scTenifoldKnk: A package suite for single-cell gene regulatory network construction, comparison, and perturbation analysis. Statistical Theory and Related Fields, pp. 1–10.
• Li, G. and Zhang, X. (2025). A Note on E-values and Multiple Testing. Biometrika, 112(1).
• Li, G. and Zhou, Q. (2024). Bayesian Multi-Task Variable Selection with an Application to Differential DAG Analysis. Journal of Computational and Graphical Statistics, 33(1), pp. 35–46.
• Li, G., Lu, Y., Chen, J., and Zhang, X. (2023). Robust Differential Abundance Analysis of Microbiome Sequencing Data. Genes, 14(11), p. 2000.
• Yang, Y., Lin, Y. T., Li, G., Zhong, Y., Xu, Q., and Cai, J. J. (2023). Interpretable modeling of time-resolved single-cell gene–protein expression with CrossmodalNet. Briefings in Bioinformatics, 24(6), p. bbad342.
• Yang, Y., Li, G., Zhong, Y., Xu, Q., Chen, B. J., Lin, Y. T., Chapkin, R. S., and Cai, J. J. (2023). Gene knockout inference with variational graph autoencoder learning single-cell gene regulatory networks. Nucleic Acids Research, p. gkad450.
• Yang, Y., Li, G., Zhong, Y., Xu, Q., Lin, Y. T., Roman-Vicharra, C., Chapkin, R. S., and Cai, J. J. (2023). scTenifoldXct: A semi-supervised method for predicting cell–cell interactions and mapping cellular communication graphs. Cell Systems, 14(4), pp. 302–311.
• Osorio, D., Zhong, Y., Li, G., Xu, Q., Yang, Y., Tian, Y., Chapkin, R. S., Huang, J. Z., and Cai, J. J. (2022). scTenifoldKnk: An efficient virtual knockout tool for gene function predictions via single-cell gene regulatory network perturbation. Patterns, 3(3), p. 100434.
• Xu, Q., Li, G., Osorio, D., Zhong, Y., Yang, Y., Lin, Y. T., Zhang, X., and Cai, J. J. (2022). scInTime: A computational method leveraging single-cell trajectory and gene regulatory networks to identify master regulators of cellular differentiation. Genes, 13(2), p. 371.
• Osorio, D., Zhong, Y., Li, G., Huang, J. Z., and Cai, J. J. (2020). scTenifoldNet: A machine learning workflow for constructing and comparing transcriptome-wide gene regulatory networks from single-cell data. Patterns, 1(9), p. 100139.
• Osorio, D., Yu, X., Zhong, Y., Li, G., Serpedin, E., Huang, J. Z., and Cai, J. J. (2019). Single-cell expression variability implies cell function. Cells, 9(1), p. 14.

Conference Publications

• Li, X., Li, G.^*, and Zhang, X. (2025). A Likelihood-Based Approach for Watermark Detection. International Conference on Artificial Intelligence and Statistics (AISTATS) 2025.
• Li, X., Li, G.^*, and Zhang, X. (2024). Segmenting Watermarked Texts From Language Models. Conference on Neural Information Processing Systems (NeurIPS) 2024.