MULTiPly: a novel multi-layer predictor for discovering general and specific types of promoters. - Meng Zhang 046; Fuyi Li; Tatiana T. Marquez-Lago; André Leier; Cunshuo Fan; Chee Keong Kwoh 001; Kuo-Chen Chou; Jiangning Song; Cangzhi Jia (Bioinform., 2019)

Formator: Predicting Lysine Formylation Sites Based on the Most Distant Undersampling and Safe-Level Synthetic Minority Oversampling. - Cangzhi Jia; Meng Zhang 046; Cunshuo Fan; Fuyi Li; Jiangning Song (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

Critical assessment of computational tools for prokaryotic and eukaryotic promoter prediction. - Meng Zhang 046; Cangzhi Jia; Fuyi Li; Chen Li 021; Yan Zhu 006; Tatsuya Akutsu; Geoffrey I. Webb; Quan Zou 001; Lachlan J. M. Coin; Jiangning Song (Briefings Bioinform., 2022)

pHisPred: a tool for the identification of histidine phosphorylation sites by integrating amino acid patterns and properties. - Jian Zhao 034; Minhui Zhuang; Jingjing Liu; Meng Zhang 046; Cong Zeng; Bin Jiang 001; Jing Wu; Xiaofeng Song (BMC Bioinform., 2022)

csORF-finder: an effective ensemble learning framework for accurate identification of multi-species coding short open reading frames. - Meng Zhang 046; Jian Zhao 034; Chen Li 021; Fang Ge; Jing Wu; Bin Jiang 001; Jiangning Song; Xiaofeng Song (Briefings Bioinform., 2022)

In-depth characterization and identification of translatable lncRNAs. - Meng Zhang 046; Jian Zhao 034; Jing Wu; Yulan Wang; Minhui Zhuang; Lingxiao Zou; Renlong Mao; Bin Jiang 001; Jingjing Liu; Xiaofeng Song (Comput. Biol. Medicine, 2023)

Genome-wide perturbations of A-to-I RNA editing dysregulated circular RNAs promoting the development of cervical cancer. - Yulan Wang; Jian Zhao 034; Jing Wu; Jingjing Liu; Yixuan Wang; Tianyi Xu; Meng Zhang 046; Minhui Zhuang; Lingxiao Zou; Wei Sun; Ping Han; Xiaofeng Song (Comput. Biol. Medicine, 2023)

DeepIRES: a hybrid deep learning model for accurate identification of internal ribosome entry sites in cellular and viral mRNAs. - Jian Zhao 034; Zhewei Chen; Meng Zhang 046; Lingxiao Zou; Shan He; Jingjing Liu; Quan Wang; Xiaofeng Song; Jing Wu (Briefings Bioinform., 2024)