Graph-based prediction of Protein-protein interactions with attributed signed graph embedding. - Fang Yang; Kunjie Fan; Dandan Song; Huakang Lin (BMC Bioinform., 2020)

PgenePapers: a novel database and search tools of reported regulatory pseudogenes. - Achal Awasthi; Shenglong Tan; Travis S. Johnson; Xiaokui-Molly Mo; Kunjie Fan; Yan Zhang (Int. J. Comput. Biol. Drug Des., 2020)

Artificial intelligence and machine learning methods in predicting anti-cancer drug combination effects. - Kunjie Fan; Lijun Cheng; Lang Li 001 (Briefings Bioinform., 2021)

Multiple sampling schemes and deep learning improve active learning performance in drug-drug interaction information retrieval analysis from the literature. - Weixin Xie; Kunjie Fan; Shijun Zhang; Lang Li 001 (J. Biomed. Semant., 2023)

Synthetic lethal connectivity and graph transformer improve synthetic lethality prediction. - Kunjie Fan; Birkan Gokbag; Shan Tang; Shangjia Li; Yirui Huang; Lingling Wang; Lijun Cheng; Lang Li (Briefings Bioinform., 2024)

GenRCA: a user-friendly rare codon analysis tool for comprehensive evaluation of codon usage preferences based on coding sequences in genomes. - Kunjie Fan; Yuanyuan Li; Zhiwei Chen; Long Fan (BMC Bioinform., 2024)