Computational analysis and prediction of lysine malonylation sites by exploiting informative features in an integrative machine-learning framework. - Yanju Zhang; Ruopeng Xie; Jiawei Wang 002; André Leier; Tatiana T. Marquez-Lago; Tatsuya Akutsu; Geoffrey I. Webb; Kuo-Chen Chou; Jiangning Song (Briefings Bioinform., 2019)

Bastion3: a two-layer ensemble predictor of type III secreted effectors. - Jiawei Wang 002; Jiahui Li 007; Bingjiao Yang; Ruopeng Xie; Tatiana T. Marquez-Lago; André Leier; Morihiro Hayashida; Tatsuya Akutsu; Yanju Zhang; Kuo-Chen Chou; Joel Selkrig; Tieli Zhou; et al. (Bioinform., 2019)

PeNGaRoo, a combined gradient boosting and ensemble learning framework for predicting non-classical secreted proteins. - Yanju Zhang; Sha Yu; Ruopeng Xie; Jiahui Li 007; André Leier; Tatiana T. Marquez-Lago; Tatsuya Akutsu; Alexander Ian Smith; Zongyuan Ge; Jiawei Wang 002; Trevor Lithgow; Jiangning Song (Bioinform., 2020)

PaCRISPR: a server for predicting and visualizing anti-CRISPR proteins. - Jiawei Wang 002; Wei Dai; Jiahui Li 007; Ruopeng Xie; Rhys A. Dunstan; Christopher Stubenrauch; Yanju Zhang; Trevor Lithgow (Nucleic Acids Res., 2020)

DeepVF: a deep learning-based hybrid framework for identifying virulence factors using the stacking strategy. - Ruopeng Xie; Jiahui Li 007; Jiawei Wang 002; Wei Dai; André Leier; Tatiana T. Marquez-Lago; Tatsuya Akutsu; Trevor Lithgow; Jiangning Song; Yanju Zhang (Briefings Bioinform., 2021)

AcrHub: an integrative hub for investigating, predicting and mapping anti-CRISPR proteins. - Jiawei Wang 002; Wei Dai; Jiahui Li 007; Qi Li; Ruopeng Xie; Yanju Zhang; Christopher Stubenrauch; Trevor Lithgow (Nucleic Acids Res., 2021)

BastionHub: a universal platform for integrating and analyzing substrates secreted by Gram-negative bacteria. - Jiawei Wang 002; Jiahui Li 007; Yi Hou; Wei Dai; Ruopeng Xie; Tatiana T. Marquez-Lago; André Leier; Tieli Zhou; Von Torres; Iain Hay; Christopher Stubenrauch; Yanju Zhang; et al. (Nucleic Acids Res., 2021)