iFeature: a Python package and web server for features extraction and selection from protein and peptide sequences. - Zhen Chen 009; Pei Zhao; Fuyi Li; André Leier; Tatiana T. Marquez-Lago; Yanan Wang 003; Geoffrey I. Webb; Alexander Ian Smith; Roger J. Daly; Kuo-Chen Chou; Jiangning Song (Bioinform., 2018)

Twenty years of bioinformatics research for protease-specific substrate and cleavage site prediction: a comprehensive revisit and benchmarking of existing methods. - Fuyi Li; Yanan Wang 003; Chen Li 021; Tatiana T. Marquez-Lago; André Leier; Neil D. Rawlings; Gholamreza Haffari; Jerico Nico De Leon Revote; Tatsuya Akutsu; Kuo-Chen Chou; Anthony W. Purcell; Robert N. Pike; et al. (Briefings Bioinform., 2019)

iProt-Sub: a comprehensive package for accurately mapping and predicting protease-specific substrates and cleavage sites. - Jiangning Song; Yanan Wang 003; Fuyi Li; Tatsuya Akutsu; Neil D. Rawlings; Geoffrey I. Webb; Kuo-Chen Chou (Briefings Bioinform., 2019)

Comprehensive review and assessment of computational methods for predicting RNA post-transcriptional modification sites from RNA sequences. - Zhen Chen 009; Pei Zhao; Fuyi Li; Yanan Wang 003; Alexander Ian Smith; Geoffrey I. Webb; Tatsuya Akutsu; Abdelkader Baggag; Halima Bensmail; Jiangning Song (Briefings Bioinform., 2020)

Procleave: Predicting Protease-specific Substrate Cleavage Sites by Combining Sequence and Structural Information. - Fuyi Li; André Leier; Quanzhong Liu; Yanan Wang 003; Dongxu Xiang; Tatsuya Akutsu; Geoffrey I. Webb; Alexander Ian Smith; Tatiana T. Marquez-Lago; Jian Li 052; Jiangning Song (Genom. Proteom. Bioinform., 2020)

nhKcr: a new bioinformatics tool for predicting crotonylation sites on human nonhistone proteins based on deep learning. - Yong-Zi Chen; Zhuo-Zhi Wang; Yanan Wang 003; Guoguang Ying; Zhen Chen 009; Jiangning Song (Briefings Bioinform., 2021)

OCTID: a one-class learning-based Python package for tumor image detection. - Yanan Wang 003; Litao Yang; Geoffrey I. Webb; Zongyuan Ge; Jiangning Song (Bioinform., 2021)

A Deep Learning-Based Method for Identification of Bacteriophage-Host Interaction. - Menglu Li; Yanan Wang 003; Fuyi Li; Yun Zhao; Mengya Liu; Sijia Zhang; Yannan Bin; Alexander Ian Smith; Geoffrey I. Webb; Jian Li 052; Jiangning Song; Junfeng Xia (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

HEAL: an automated deep learning framework for cancer histopathology image analysis. - Yanan Wang 003; Nicolas Coudray; Yun Zhao; Fuyi Li; Changyuan Hu; Yao-Zhong Zhang; Seiya Imoto; Aristotelis Tsirigos; Geoffrey I. Webb; Roger J. Daly; Jiangning Song (Bioinform., 2021)

DEMoS: a deep learning-based ensemble approach for predicting the molecular subtypes of gastric adenocarcinomas from histopathological images. - Yanan Wang 003; Changyuan Hu; Terry Kwok; Christopher A. Bain; Xiangyang Xue 001; Robin B. Gasser; Geoffrey I. Webb; Alex Boussioutas; Xian Shen; Roger J. Daly; Jiangning Song (Bioinform., 2022)

iFeatureOmega: an integrative platform for engineering, visualization and analysis of features from molecular sequences, structural and ligand data sets. - Zhen Chen 009; Xuhan Liu; Pei Zhao; Chen Li 021; Yanan Wang 003; Fuyi Li; Tatsuya Akutsu; Chris Bain; Robin B. Gasser; Junzhou Li; Zuoren Yang; Xin Gao 001; et al. (Nucleic Acids Res., 2022)