Identifying Candidate Cancer Genes Based on Their Somatic Mutations Co-Occurring with Cancer Genes in Cancer Genome Profiling. - Jing Zhu 004; Xiaopei Shen; Yang Zhang 125; Zheng Guo 002; Hui Xiao; Yunyan Gu (BMEI, 2009)

Viewing cancer genes from co-evolving gene modules. - Jing Zhu 004; Hui Xiao; Xiaopei Shen; Jing Wang 004; Jinfeng Zou; Lin Zhang; Da Yang 003; Wencai Ma; Chen Yao; Xue Gong; Min Zhang 009; Yang Zhang 125; et al. (Bioinform., 2010)

Therapeutic target database update 2018: enriched resource for facilitating bench-to-clinic research of targeted therapeutics. - Ying Hong Li 002; Chun Yan Yu; Xiao Xu Li; Peng Zhang 033; Jing Tang; Qingxia Yang; Tingting Fu; Xiaoyu Zhang; Xuejiao Cui; Gao Tu; Yang Zhang 125; Shuang Li; et al. (Nucleic Acids Res., 2018)

RIscoper: a tool for RNA-RNA interaction extraction from the literature. - Yang Zhang 125; Tianyuan Liu; Liqun Chen; Jinxurong Yang; Jiayi Yin; Yuncong Zhang; Zhixi Yun; Hao Xu; Lin Ning 002; Feng-Biao Guo; Yongshuai Jiang; Hao Lin 001; et al. (Bioinform., 2019)

Convolutional neural network-based annotation of bacterial type IV secretion system effectors with enhanced accuracy and reduced false discovery. - Jiajun Hong; Yongchao Luo; Minjie Mou; Jianbo Fu; Yang Zhang 125; Weiwei Xue; Tian Xie; Lin Tao; Yan Lou; Feng Zhu 004 (Briefings Bioinform., 2020)

Protein functional annotation of simultaneously improved stability, accuracy and false discovery rate achieved by a sequence-based deep learning. - Jiajun Hong; Yongchao Luo; Yang Zhang 125; Junbiao Ying; Weiwei Xue; Tian Xie; Lin Tao; Feng Zhu 004 (Briefings Bioinform., 2020)

Application of artificial intelligence and machine learning for COVID-19 drug discovery and vaccine design. - Hao Lv; Lei Shi; Joshua William Berkenpas; Fu-Ying Dao; Hasan Zulfiqar; Hui Ding 005; Yang Zhang 125; Liming Yang; Renzhi Cao (Briefings Bioinform., 2021)

cncRNAdb: a manually curated resource of experimentally supported RNAs with both protein-coding and noncoding function. - Yan Huang; Jing Wang 004; Yue Zhao; Huafeng Wang; Tianyuan Liu; Yuhe Li; Tianyu Cui; Weiyi Li; Yige Feng; Jiaxin Luo; Jiaqi Gong; Lin Ning 002; et al. (Nucleic Acids Res., 2021)

Cellinker: a platform of ligand-receptor interactions for intercellular communication analysis. - Yang Zhang 125; Tianyuan Liu; Jing Wang 004; Bohao Zou; Le Li; Linhui Yao; Kechen Chen; Lin Ning 002; Bingyi Wu; Xiaoyang Zhao; Dong Wang 011 (Bioinform., 2021)

iRice-MS: An integrated XGBoost model for detecting multitype post-translational modification sites in rice. - Hao Lv; Yang Zhang 125; Jia-Shu Wang; Shi-Shi Yuan; Zi-Jie Sun; Fu-Ying Dao; Zheng-Xing Guan; Hao Lin 001; Ke-Jun Deng (Briefings Bioinform., 2022)

PSnoD: identifying potential snoRNA-disease associations based on bounded nuclear norm regularization. - Zijie Sun; Qinlai Huang; Yuhe Yang; Shihao Li; Hao Lv; Yang Zhang 125; Hao Lin 001; Lin Ning 002 (Briefings Bioinform., 2022)

VARIDT 2.0: structural variability of drug transporter. - Tingting Fu; Fengcheng Li; Yang Zhang 125; Jiayi Yin; Wenqi Qiu 003; Xuedong Li; Xingang Liu; Wenwen Xin; Chengzhao Wang; Lushan Yu; Jianqing Gao; Qingchuan Zheng; et al. (Nucleic Acids Res., 2022)

MetaboliteCOVID: A manually curated database of metabolite markers for COVID-19. - Liping Ren; Lin Ning 002; Yu Yang; Ting Yang; Xinyu Li; Shanshan Tan; Peixin Ge; Shun Li; Nanchao Luo; Pei Tao; Yang Zhang 125 (Comput. Biol. Medicine, 2023)

Attention is all you need: utilizing attention in AI-enabled drug discovery. - Yang Zhang 125; Caiqi Liu; Mujiexin Liu; Tianyuan Liu; Hao Lin 001; Cheng-Bing Huang; Lin Ning 002 (Briefings Bioinform., 2024)

ACVPred: Enhanced prediction of anti-coronavirus peptides by transfer learning combined with data augmentation. - Yi Xu; Tianyuan Liu; Yu Yang; Juanjuan Kang; Liping Ren; Hui Ding 005; Yang Zhang 125 (Future Gener. Comput. Syst., 2024)

Discovery of Potent Selective HDAC6 Inhibitors with 5-Phenyl-1H-indole Fragment: Virtual Screening, Rational Design, and Biological Evaluation. - Xuedong Li; Chengzhao Wang; Xu Chai; Xingang Liu; Kening Qiao; Yan Fu; Yanzhao Jin; Qingzhong Jia; Feng Zhu 004; Yang Zhang 125 (J. Chem. Inf. Model., 2024)