Funneled Landscape Leads to Robustness of Cell Networks: Yeast Cell Cycle. - Jin Wang; Bo Huang; Xuefeng Xia; Zhirong Sun (PLoS Comput. Biol., 2006)

DBMLoc: a Database of proteins with multiple subcellular localizations. - Song Zhang; Xuefeng Xia; Jincheng Shen; Yun Zhou; Zhirong Sun (BMC Bioinform., 2008)

MICAlign: a sequence-to-structure alignment tool integrating multiple sources of information in conditional random fields. - Xuefeng Xia; Song Zhang; Yu Su; Zhirong Sun (Bioinform., 2009)

DELFMUT: duplex sequencing-oriented depth estimation model for stable detection of low-frequency mutations. - Guiying Wu; Mengmeng Song; Ke Wang; Tianyu Cui; Zicong Jiao; Liyan Ji; Xuan Gao; Jiayin Wang; Tao Liu; Xuefeng Xia; Huan Fang 005; Yanfang Guan; et al. (Briefings Bioinform., 2023)

Precise identification of somatic and germline variants in the absence of matched normal samples. - Hui Li; Lu Meng; Hongke Wang; Liang Cui; Heyu Sheng; Peiyan Zhao; Shuo Hong; Xinhua Du; Shi Yan; Yun Xing; Shicheng Feng; Yan Zhang; et al. (Briefings Bioinform., 2024)