On the inapproximability of minimizing cascading failures under the deterministic threshold model. - Lei Nie; Jingjie Liu; Haicang Zhang; Zhiwei Xu 002 (Inf. Process. Lett., 2014)

FALCON@home: a high-throughput protein structure prediction server based on remote homologue recognition. - Chao Wang; Haicang Zhang; Wei-Mou Zheng; Dong Xu 002; Jianwei Zhu; Bing Wang; Kang Ning 001; Shiwei Sun; Shuai Cheng Li 001; Dongbo Bu (Bioinform., 2016)

Improving protein fold recognition by extracting fold-specific features from predicted residue-residue contacts. - Jianwei Zhu; Haicang Zhang; Shuai Cheng Li 001; Chao Wang; Lupeng Kong; Shiwei Sun; Wei-Mou Zheng; Dongbo Bu (Bioinform., 2017)

Improving prediction of burial state of residues by exploiting correlation among residues. - Hai'e Gong; Haicang Zhang; Jianwei Zhu; Chao Wang; Shiwei Sun; Wei-Mou Zheng; Dongbo Bu (BMC Bioinform., 2017)

Constructing effective energy functions for protein structure prediction through broadening attraction-basin and reverse Monte Carlo sampling. - Chao Wang; Yi Wei; Haicang Zhang; Lupeng Kong; Shiwei Sun; Wei-Mou Zheng; Dongbo Bu (BMC Bioinform., 2019)

Predicting protein inter-residue contacts using composite likelihood maximization and deep learning. - Haicang Zhang; Qi Zhang; Fusong Ju; Jianwei Zhu; Yujuan Gao; Ziwei Xie; Minghua Deng; Shiwei Sun; Wei-Mou Zheng; Dongbo Bu (BMC Bioinform., 2019)

Correction to: Predicting protein inter-residue contacts using composite likelihood maximization and deep learning. - Haicang Zhang; Qi Zhang; Fusong Ju; Jianwei Zhu; Yujuan Gao; Ziwei Xie; Minghua Deng; Shiwei Sun; Wei-Mou Zheng; Dongbo Bu (BMC Bioinform., 2019)

FALCON2: a web server for high-quality prediction of protein tertiary structures. - Lupeng Kong; Fusong Ju; Haicang Zhang; Shiwei Sun; Dongbo Bu (BMC Bioinform., 2021)

Predicting functional effect of missense variants using graph attention neural networks. - Haicang Zhang; Michelle S. Xu; Xiao Fan; Wendy K. Chung; Yufeng Shen (Nat. Mac. Intell., 2022)

Predicting mutational effects on protein-protein binding via a side-chain diffusion probabilistic model. - Shiwei Liu; Tian Zhu; Milong Ren; Chungong Yu; Dongbo Bu; Haicang Zhang (NeurIPS, 2023)

Protein Structure Prediction: Challenges, Advances, and the Shift of Research Paradigms. - Bin Huang; Lupeng Kong; Chao Wang; Fusong Ju; Qi Zhang; Jianwei Zhu; Tiansu Gong; Haicang Zhang; Chungong Yu; Wei-Mou Zheng; Dongbo Bu (Genom. Proteom. Bioinform., 2023)

Accurate and efficient protein sequence design through learning concise local environment of residues. - Bin Huang; Tingwen Fan; Kaiyue Wang; Haicang Zhang; Chungong Yu; Shuyu Nie; Yangshuo Qi; Wei-Mou Zheng; Jian Han; Zheng Fan; Shiwei Sun; Sheng Ye; et al. (Bioinform., 2023)

CarbonNovo: Joint Design of Protein Structure and Sequence Using a Unified Energy-based Model. - Milong Ren; Tian Zhu; Haicang Zhang (ICML, 2024)

Antibody Design Using a Score-based Diffusion Model Guided by Evolutionary, Physical and Geometric Constraints. - Tian Zhu; Milong Ren; Haicang Zhang (ICML, 2024)

Accurate and robust protein sequence design with CarbonDesign. - Milong Ren; Chungong Yu; Dongbo Bu; Haicang Zhang (Nat. Mac. Intell., 2024)

GPCR-BSD: a database of binding sites of human G-protein coupled receptors under diverse states. - Fan Liu; Han Zhou; Xiaonong Li; Liangliang Zhou; Chungong Yu; Haicang Zhang; Dongbo Bu; Xinmiao Liang (BMC Bioinform., 2024)

Multi-objective antibody design with constrained preference optimization. - Milong Ren; ZaiKai He; Haicang Zhang (ICLR, 2025)

ILETIA: An AI-enhanced method for individualized trigger-oocyte pickup interval estimation of progestin-primed ovarian stimulation protocol. - Binjian Wu; Qian Li; Zhe Kuang; Hongyuan Gao; Xinyi Liu 003; Haiyan Guo; Qiuju Chen; Xinyi Liu 003; Yangruizhe Jiang; Yuqi Zhang; Jinyin Zha; Mingyu Li; et al. (CoRR, 2025)

A survey on deep learning-based algorithms for the traveling salesman problem. - Jingyan Sui; Shizhe Ding; Xulin Huang; Yue Yu; Ruizhi Liu; Boyang Xia; Zhenxin Ding; Liming Xu; Haicang Zhang; Chungong Yu; Dongbo Bu (Frontiers Comput. Sci., 2025)