A novel algorithm combining support vector machine with the discrete wavelet transform for the prediction of protein subcellular localization. - Ru-Ping Liang; Shu-Yun Huang; Shao-Ping Shi 001; Xing-Yu Sun; Sheng-Bao Suo; Jian-Ding Qiu (Comput. Biol. Medicine, 2012)

Incorporating key position and amino acid residue features to identify general and species-specific Ubiquitin conjugation sites. - Xiang Chen; Jian-Ding Qiu; Shao-Ping Shi 001; Sheng-Bao Suo; Shu-Yun Huang; Ru-Ping Liang (Bioinform., 2013)

Proteomic analysis and prediction of human phosphorylation sites in subcellular level reveal subcellular specificity. - Xiang Chen; Shao-Ping Shi 001; Sheng-Bao Suo; Hao-Dong Xu; Jian-Ding Qiu (Bioinform., 2015)

SuccFind: a novel succinylation sites online prediction tool via enhanced characteristic strategy. - Hao-Dong Xu; Shao-Ping Shi 001; Ping-Ping Wen; Jian-Ding Qiu (Bioinform., 2015)

Accurate in silico prediction of species-specific methylation sites based on information gain feature optimization. - Ping-Ping Wen; Shaoping Shi 001; Hao-Dong Xu; Li-na Wang; Jian-Ding Qiu (Bioinform., 2016)

Computational prediction of species-specific malonylation sites via enhanced characteristic strategy. - Li-na Wang; Shaoping Shi 001; Hao-Dong Xu; Ping-Ping Wen; Jian-Ding Qiu (Bioinform., 2017)

Computing Prediction and Functional Analysis of Prokaryotic Propionylation. - Lina Wang; Shao-Ping Shi 001; Ping-Ping Wen; Zhi-You Zhou; Jian-Ding Qiu (J. Chem. Inf. Model., 2017)

ProAcePred: prokaryote lysine acetylation sites prediction based on elastic net feature optimization. - Guodong Chen; Man Cao; Kun Luo; Lina Wang; Pingping Wen; Shaoping Shi 001 (Bioinform., 2018)

Computational Prediction and Analysis for Tyrosine Post-Translational Modifications via Elastic Net. - Man Cao; Guodong Chen; Lina Wang; Pingping Wen; Shaoping Shi 001 (J. Chem. Inf. Model., 2018)

Proteomic analysis and prediction of amino acid variations that influence protein posttranslational modifications. - Shaoping Shi 001; Lina Wang; Man Cao; Guodong Chen; Jialin Yu (Briefings Bioinform., 2019)

PredGly: predicting lysine glycation sites for Homo sapiens based on XGboost feature optimization. - Jialin Yu; Shaoping Shi 001; Fang Zhang; Guodong Chen; Man Cao (Bioinform., 2019)

Computational prediction and analysis of species-specific fungi phosphorylation via feature optimization strategy. - Man Cao; Guodong Chen; Jialin Yu; Shaoping Shi 001 (Briefings Bioinform., 2020)

DeepCLA: A Hybrid Deep Learning Approach for the Identification of Clathrin. - Ju Zhang; Jialin Yu; Dan Lin; Xinyun Guo; Huan He; Shaoping Shi 001 (J. Chem. Inf. Model., 2021)

PKSPS: a novel method for predicting kinase of specific phosphorylation sites based on maximum weighted bipartite matching algorithm and phosphorylation sequence enrichment analysis. - Xinyun Guo; Huan He; Jialin Yu; Shaoping Shi 001 (Briefings Bioinform., 2022)

DeepGpgs: a novel deep learning framework for predicting arginine methylation sites combined with Gaussian prior and gated self-attention mechanism. - Haiwei Zhou; Wenxi Tan; Shao-Ping Shi 001 (Briefings Bioinform., 2023)

STAGAN: An approach for improve the stability of molecular graph generation based on generative adversarial networks. - Jinping Zou; Jialin Yu; Pengwei Hu; Long Zhao; Shao-Ping Shi 001 (Comput. Biol. Medicine, 2023)

Uncertainty Quantification and Temperature Scaling Calibration for Protein-RNA Binding Site Prediction. - Ximin Zeng; Hongmei Wang; Long Zhao; Yue Cheng; Danping Zhou; Shaoping Shi 001 (J. Chem. Inf. Model., 2025)