Nan Xiao, Qing-Song Xu, and Miao-Zhu Li. hdnom: building nomograms for penalized Cox models with high-dimensional survival data. bioRxiv. doi: 10.1101/065524.

PDF DOI Software Shiny App



Yuan Tang, Tao Gao, Nan Xiao. dml: Distance Metric Learning in R. Journal of Open Source Software 3(30), 1036, 2018. doi: 10.21105/joss.01036.

PDF DOI Software

interval variable selection methods

Li-Li Wang, You-Wu Lin, Xu-Fei Wang, Nan Xiao, Yuan-Da Xu, Hong-Dong Li, Qing-Song Xu. A selective review and comparison for interval variable selection in spectroscopic modeling. Chemometrics and Intelligent Laboratory Systems 172: 229-240, 2018. doi: 10.1016/j.chemolab.2017.11.008.



OHPL algorithm flowchart

You-Wu Lin, Nan Xiao, Li-Li Wang, Chuan-Quan Li, Qing-Song Xu. Ordered homogeneity pursuit lasso for group variable selection with applications to spectroscopic data. Chemometrics and Intelligent Laboratory Systems 168: 62-71, 2017. doi: 10.1016/j.chemolab.2017.07.004.

PDF DOI Website Software


manifold ranking k-nn

Liang Shen, Dong-Sheng Cao, Qing-Song Xu, Xin Huang, Nan Xiao, Yi-Zeng Liang. A novel local manifold-ranking based k-NN for modeling the regression between bioactivity and molecular descriptors. Chemometrics and Intelligent Laboratory Systems 151: 71-77, 2016. doi: 10.1016/j.chemolab.2015.12.005.




Nan Xiao and Qing-Song Xu. Multi-step adaptive elastic-net: reducing false positives in high-dimensional variable selection. Journal of Statistical Computation and Simulation 85(18): 3755-3765, 2015. doi: 10.1080/00949655.2015.1016944.

PDF DOI Software


Nan Xiao, Dong-Sheng Cao, Min-Feng Zhu, and Qing-Song Xu. protr/ProtrWeb: R package and web server for generating various numerical representation schemes of protein sequence. Bioinformatics 31(11): 1857-1859, 2015. doi: 10.1093/bioinformatics/btv042.

PDF DOI Software Shiny App


Dong-Sheng Cao*, Nan Xiao*, Qing-Song Xu and Alex F. Chen. Rcpi: R/Bioconductor package to generate various descriptors of proteins, compounds, and their interactions. Bioinformatics 31(2): 279-281, 2015. doi: 10.1093/bioinformatics/btu624. *Joint first authors.

PDF DOI Software

multiple evidence fusion

Dong-Sheng Cao, Nan Xiao, Yuan-Jian Li, Wen-Bin Zeng, Yi-Zeng Liang, Ai-Ping Lu, Qing-Song Xu, Alex F. Chen. Integrating multiple evidence sources to predict adverse drug reactions based on systems pharmacology model. CPT: Pharmacometrics & Systems Pharmacology 4(9): 498–506, 2015. doi: 10.1002/psp4.12002.

PDF DOI Code and Dataset

logd corrgram

Jian-Bing Wang, Dong-Sheng Cao, Min-Feng Zhu, Yong-Huan Yun, Nan Xiao, Yi-Zeng Liang. In silico evaluation of logD7.4 and comparison with other prediction methods. Journal of Chemometrics 29(7): 389-398, 2015. doi: 10.1002/cem.2718.

PDF DOI Dataset