Dissecting Early Differentially Expressed Genes in a Mixture of Differentiating Embryonic Stem Cells. - Feng Hong; Fang Fang; Xuming He 002; Xiaoyi Cao; Hiram Chipperfield; Dan Xie; Wing Hung Wong; Huck H. Ng; Sheng Zhong 003 (PLoS Comput. Biol., 2009)

Network-based comparison of temporal gene expression patterns. - Wei Huang; Xiaoyi Cao; Sheng Zhong 003 (Bioinform., 2010)

Mapping personal functional data to personal genomes. - Marcelo Rivas-Astroza; Dan Xie; Xiaoyi Cao; Sheng Zhong 003 (Bioinform., 2011)

Towards an Evolutionary Model of Transcription Networks. - Dan Xie; Chieh-Chun Chen; Xin He; Xiaoyi Cao; Sheng Zhong 003 (PLoS Comput. Biol., 2011)

Enabling interspecies epigenomic comparison with CEpBrowser. - Xiaoyi Cao; Sheng Zhong 003 (Bioinform., 2013)

Understanding Variation in Transcription Factor Binding by Modeling Transcription Factor Genome-Epigenome Interactions. - Chieh-Chun Chen; Shu Xiao; Dan Xie; Xiaoyi Cao; Chun-Xiao Song; Ting Wang; Chuan He; Sheng Zhong 003 (PLoS Comput. Biol., 2013)

GeNemo: a search engine for web-based functional genomic data. - Yongqing Zhang; Xiaoyi Cao; Sheng Zhong 003 (Nucleic Acids Res., 2016)

A likelihood approach to testing hypotheses on the co-evolution of epigenome and genome. - Jia Lu; Xiaoyi Cao; Sheng Zhong 003 (PLoS Comput. Biol., 2018)

EpiAlignment: alignment with both DNA sequence and epigenomic data. - Jia Lu; Xiaoyi Cao; Sheng Zhong 003 (Nucleic Acids Res., 2019)

Retrieval of Fine-Resolution Aerosol Optical Depth (AOD) in Semiarid Urban Areas Using Landsat Data: A Case Study in Urumqi, NW China. - Xiangyue Chen; Jianli Ding; Jingzhe Wang; Xiangyu Ge; Mayira Raxidin; Jing Liang; Xiaoxiao Chen; Zipeng Zhang; Xiaoyi Cao; Yue Ding (Remote. Sens., 2020)

Chl-a Concentration Inversion Methods for Water Bodies With High TSM Concentrations Based on Waterbody Classification and Deep Learning. - Jianyong Cui; Xiaoyi Cao; Chao Du; Wen Dong 003; Shanwei Liu; Jie Guo; Mingming Xu; Muhammad Yasir (IEEE J. Sel. Top. Appl. Earth Obs. Remote. Sens., 2025)