A Novel Method for Progressive Multiple Sequence Alignment Based on Lempel-Ziv. - Guoli Ji; Congting Ye; Zijiang Yang 001; Zhenya Guo (ICONIP (1), 2009)

PAcluster: Clustering polyadenylation site data using canonical correlation analysis. - Guoli Ji; Qianmin Lin; Yuqi Long; Congting Ye; Wenbin Ye 002; Xiaohui Wu (J. Bioinform. Comput. Biol., 2017)

AEGS: identifying aberrantly expressed gene sets for differential variability analysis. - Jinting Guan; Moliang Chen; Congting Ye; James J. Cai; Guoli Ji (Bioinform., 2018)

TSAPA: identification of tissue-specific alternative polyadenylation sites in plants. - Guoli Ji; Moliang Chen; Wenbin Ye 002; Sheng Zhu; Congting Ye; Yaru Su; Haonan Peng; Xiaohui Wu (Bioinform., 2018)

APAtrap: identification and quantification of alternative polyadenylation sites from RNA-seq data. - Congting Ye; Yuqi Long; Guoli Ji; Qingshun Quinn Li; Xiaohui Wu (Bioinform., 2018)

A survey on identification and quantification of alternative polyadenylation sites from RNA-seq data. - Moliang Chen; Guoli Ji; Hongjuan Fu; Qianmin Lin; Congting Ye; Wenbin Ye 002; Yaru Su; Xiaohui Wu (Briefings Bioinform., 2020)

scHinter: imputing dropout events for single-cell RNA-seq data with limited sample size. - Pengchao Ye; Wenbin Ye 002; Congting Ye; Shuchao Li; Lishan Ye; Guoli Ji; Xiaohui Wu (Bioinform., 2020)

scDAPA: detection and visualization of dynamic alternative polyadenylation from single cell RNA-seq data. - Congting Ye; Qian Zhou; Xiaohui Wu; Chen Yu 007; Guoli Ji; Daniel R. Saban; Qingshun Quinn Li (Bioinform., 2020)

scAPAtrap: identification and quantification of alternative polyadenylation sites from single-cell RNA-seq data. - Xiaohui Wu; Tao Liu; Congting Ye; Wenbin Ye 002; Guoli Ji (Briefings Bioinform., 2021)

QuantifyPoly(A): reshaping alternative polyadenylation landscapes of eukaryotes with weighted density peak clustering. - Congting Ye; Danhui Zhao; Wenbin Ye 002; Xiaohui Wu; Guoli Ji; Qingshun Quinn Li; Juncheng Lin (Briefings Bioinform., 2021)

movAPA: modeling and visualization of dynamics of alternative polyadenylation across biological samples. - Wenbin Ye 002; Tao Liu; Hongjuan Fu; Congting Ye; Guoli Ji; Xiaohui Wu (Bioinform., 2021)

A Survey on Methods for Predicting Polyadenylation Sites from DNA Sequences, Bulk RNA-seq, and Single-cell RNA-seq. - Wenbin Ye 002; Qiwei Lian; Congting Ye; Xiaohui Wu (Genom. Proteom. Bioinform., 2023)