Research Interests

Bayesian statistics, bioinformatics (e.g., single-cell RNA sequencing, spatially resolved transcriptomics), multi-omics data integration, statistical computing.

Publications 

(note: * indicates the corresponding author, ^ represents current or previous supervised students, and # means first authors with equal contribution.)

14. Yinqiao Yan^, Xiangnan Feng, Xiangyu Luo* (2025) Spatially aware adjusted Rand index for evaluating spatial transcriptomics clustering. Biometrics, Volume 81, Issue 3. [paper link, software spARI on GitHub, software spARI on Bioconductor]

13. Yinqiao Yan^, Xiangyu Luo* (2025) BACT: nonparametric Bayesian cell typing for single-cell spatial transcriptomics data. Briefings in Bioinformatics, Volume 26, Issue 1. [paper link, software BACT]

12. Yinqiao Yan^, Xiangyu Luo* (2024) Bayesian integrative region segmentation in spatially resolved transcriptomic studies. Journal of the American Statistical Association, 119(547), 1709-1721. [paper link, software BINRES]

11. Yinqiao Yan^, Xiangyu Luo*  (2023) Bayesian tree-structured two-level clustering for nested data analysis. Journal of Computational and Graphical Statistics, Volume 32, Issue 3, pages 1185-1194. [paper link, code and data used in simulation&real application]

10. Jinge Yu^, Xiangyu Luo*  (2022) Identification of cell-type-specific spatially variable genes accounting for excess zeros. Bioinformatics, Volume 38, Issue 17, pages 4135-4144. [paper link, software CTSV, R code used in simulation&real application] 

9. Qiuyu Wu^, Xiangyu Luo* (2022) Estimating heterogeneous gene regulatory networks from zero-inflated single-cell expression data. The Annals of Applied Statistics, Vol. 16, No. 4, 2183-2200. [paper link, software BLGGM]

8. Jinge Yu^#, Qiuyu Wu^#, Xiangyu Luo* (2021) Bayesian joint modeling of single-cell expression data and bulk spatial transcriptomic data. Statistics in Biosciences. [paper link, software BayesEATS] (inivited paper for a special issue)

7. Jinge Yu^, Xiangyu Luo* (2021) Recovering spatially-varying cell-specific gene co-expression networks for single-cell spatial expression data. Frontiers in Genetics. [paper link, software CSSN] (inivited paper for a special issue)

6. Qiuyu Wu^, Xiangyu Luo* (2022) Nonparametric Bayesian two-level clustering for subject-level single-cell expression data. Statistica Sinica, Volume 32, Number 4, 1835-1856. [paper link, supplementary, software SCSC]

5. Xiangyu Luo, Joel Schwartz, Andrea Baccarelli, Zhonghua Liu* (2021) Testing cell-type-specific mediation effects in genome-wide epigenetic studies. Briefings in Bioinformatics, Volume 22, Issue 3. [paper link, software MICS]

4. Xiangyu Luo, Can Yang*, and Yingying Wei* (2019) Detection of cell-type-specific risk-CpG sites in epigenome-wide association studies. Nature Communications, Volume 10, Article number: 3113. [paper link, software HIREewas] 

3. Xiangyu Luo, and Yingying Wei* (2019) Batch effects correction with unknown subtypes. Journal of the American Statistical Association,  114:526, 581-594. [paper link, software BUScorrect]

2. Xiangyu Luo, and Yingying Wei* (2018) Nonparametric Bayesian learning of heterogeneous dynamic transcription factor networks. The Annals of Applied Statistics, Vol. 12, No. 3, 1749-1772. [paper link, C code]

1. Zhanfeng Wang, Xiangyu Luo, and Yuan-chin I. Chang* (2015) Assessing predictive power of newly added biomarkers. Biometrical Journal. 57(5): 797-807.