Three-Level Prediction of Protein Function by Combining Profile-Sequence Search, Profile-Profile Search, and Domain Co-Occurrence Networks. - Zheng Wang 025; Renzhi Cao; Jianlin Cheng (BMC Bioinform., 2013)

SMOQ: a tool for predicting the absolute residue-specific quality of a single protein model with support vector machines. - Renzhi Cao; Zheng Wang 025; Yiheng Wang; Jianlin Cheng (BMC Bioinform., 2014)

MULTICOM: a large-scale conformation sampling and evaluation server for protein tertiary structure prediction. - Jilong Li; Renzhi Cao; Jianlin Cheng (BCB, 2015)

Large-scale model quality assessment for improving protein tertiary structure prediction. - Renzhi Cao; Debswapna Bhattacharya; Badri Adhikari; Jilong Li; Jianlin Cheng (Bioinform., 2015)

A large-scale conformation sampling and evaluation server for protein tertiary structure prediction and its assessment in CASP11. - Jilong Li; Renzhi Cao; Jianlin Cheng (BMC Bioinform., 2015)

Iterative reconstruction of three-dimensional models of human chromosomes from chromosomal contact data. - Jackson Nowotny; Sharif Ahmed; Lingfei Xu; Oluwatosin Oluwadare; Hannah Chen 002; Noelan Hensley; Tuan Trieu; Renzhi Cao; Jianlin Cheng (BMC Bioinform., 2015)

UniCon3D: de novo protein structure prediction using united-residue conformational search via stepwise, probabilistic sampling. - Debswapna Bhattacharya; Renzhi Cao; Jianlin Cheng (Bioinform., 2016)

DeepQA: improving the estimation of single protein model quality with deep belief networks. - Renzhi Cao; Debswapna Bhattacharya; Jie Hou 001; Jianlin Cheng (BMC Bioinform., 2016)

Evaluation of Protein Structural Models Using Random Forests. - Renzhi Cao; Taeho Jo 002; Jianlin Cheng (CoRR, 2016)

3Drefine: an interactive web server for efficient protein structure refinement. - Debswapna Bhattacharya; Jackson Nowotny; Renzhi Cao; Jianlin Cheng (Nucleic Acids Res., 2016)

QAcon: single model quality assessment using protein structural and contact information with machine learning techniques. - Renzhi Cao; Badri Adhikari; Debswapna Bhattacharya; Miao Sun; Jie Hou 001; Jianlin Cheng (Bioinform., 2017)

ProLanGO: Protein Function Prediction Using Neural Machine Translation Based on a Recurrent Neural Network. - Renzhi Cao; Colton Freitas; Leong Chan; Miao Sun; Haiqing Jiang; Zhangxin Chen (CoRR, 2017)

EMNets: A Convolutional Autoencoder for Protein Surface Retrieval Based on Cryo-Electron Microscopy Imaging. - Jingjing Yang; Renzhi Cao; Dong Si (BCB, 2018)

Predicting the DJIA with News Headlines and Historic Data Using Hybrid Genetic Algorithm/Support Vector Regression and BERT. - Benjamin Warner; Aaron Crook; Renzhi Cao (BigData, 2020)

Educational Application of Big Data Research: A Comparison of China and US. - Ting Zhang; Clara Elizabeth; Renzhi Cao (SERVICES, 2020)

High Definition image classification in Geoscience using Machine Learning. - Yajun An; Zachary Golden; Tarka Wilcox; Renzhi Cao (CoRR, 2020)

TopQA: a topological representation for single-model protein quality assessment with machine learning. - John Smith; Matthew Conover; Natalie Stephenson; Jesse Eickholt; Dong Si; Miao Sun; Renzhi Cao (Int. J. Comput. Biol. Drug Des., 2020)

Application of artificial intelligence and machine learning for COVID-19 drug discovery and vaccine design. - Hao Lv; Lei Shi; Joshua William Berkenpas; Fu-Ying Dao; Hasan Zulfiqar; Hui Ding 005; Yang Zhang 125; Liming Yang; Renzhi Cao (Briefings Bioinform., 2021)

Artificial Intelligence Advances for De Novo Molecular Structure Modeling in Cryo-EM. - Dong Si; Andrew Nakamura; Runbang Tang; Haowen Guan; Jie Hou 001; Ammaar Firozi; Renzhi Cao; Kyle Hippe; Minglei Zhao (CoRR, 2021)

Deep graph learning to estimate protein model quality using structural constraints from multiple sequence alignments. - Mahdi Rahbar; Rahul Kumar Chauhan; Pankil Nimeshbhai Shah; Renzhi Cao; Dong Si; Jie Hou 001 (BCB, 2022)

ZoomQA: residue-level protein model accuracy estimation with machine learning on sequential and 3D structural features. - Kyle Hippe; Cade Lilley; Joshua William Berkenpas; Ciri Chandana Pocha; Kiyomi Kishaba; Hui Ding; Jie Hou 001; Dong Si; Renzhi Cao (Briefings Bioinform., 2022)

Multi-Objective Optimization of Local Overlapping Community Detection: A Formal Model and Novel Evolutionary Algorithm. - Lei Zhang 060; Bin Li; Haipeng Yang; Fan Cheng 001; Cheng Zhang 010; Renzhi Cao (IEEE Trans. Netw. Sci. Eng., 2023)

Fast and automated protein-DNA/RNA macromolecular complex modeling from cryo-EM maps. - Andrew Nakamura; Hanze Meng; Minglei Zhao; Fengbin Wang; Jie Hou 001; Renzhi Cao; Dong Si (Briefings Bioinform., 2023)

ComplexQA: a deep graph learning approach for protein complex structure assessment. - Lei Zhang; Sheng Wang; Jie Hou 001; Dong Si; Junyong Zhu; Renzhi Cao (Briefings Bioinform., 2023)

Enhancing cryo-EM structure prediction with DeepTracer and AlphaFold2 integration. - Jason Chen; Ayisha Zia; Albert Luo; Hanze Meng; Fengbin Wang; Jie Hou 001; Renzhi Cao; Dong Si (Briefings Bioinform., 2024)

Integrated bulk and single-cell transcriptomes reveal pyroptotic signature in prognosis and therapeutic options of hepatocellular carcinoma by combining deep learning. - Yang Liu; Hanlin Li; Tianyu Zeng; Yang Wang; Hongqi Zhang; Ying Wan; Zheng Shi; Renzhi Cao; Hua Tang (Briefings Bioinform., 2024)

A Node Classification-Based Multiobjective Evolutionary Algorithm for Community Detection in Complex Networks. - Haipeng Yang; Bin Li; Fan Cheng 001; Peng Zhou 006; Renzhi Cao; Lei Zhang 060 (IEEE Trans. Comput. Soc. Syst., 2024)

Evolutionary Multitasking Local Community Detection on Attributed Networks. - Lei Zhang 060; Bin Li; Li Ni; Haipeng Yang; Renzhi Cao (IEEE Trans. Emerg. Top. Comput. Intell., 2024)

Fair Influence Maximization in Social Networks: A Community-Based Evolutionary Algorithm. - Kaicong Ma; Xinxiang Xu; Haipeng Yang; Renzhi Cao; Lei Zhang 060 (IEEE Trans. Emerg. Top. Comput., 2025)

A Diversified Population Migration-Based Multiobjective Evolutionary Algorithm for Dynamic Community Detection. - Lei Zhang 060; Chaofan Qin; Haipeng Yang; Zishan Xiong; Renzhi Cao; Fan Cheng 001 (IEEE Trans. Emerg. Top. Comput. Intell., 2025)