| LOMETS2: improved meta-threading server for fold-recognition and structure-based function annotation for distant-homology proteins W Zheng, C Zhang, Q Wuyun, R Pearce, Y Li, Y Zhang Nucleic acids research 47 (W1), W429-W436, 2019 | 155 | 2019 |
| FUpred: detecting protein domains through deep-learning-based contact map prediction W Zheng, X Zhou, Q Wuyun, R Pearce, Y Li, Y Zhang Bioinformatics 36 (12), 3749-3757, 2020 | 54 | 2020 |
| Detecting distant-homology protein structures by aligning deep neural-network based contact maps W Zheng, Q Wuyun, Y Li, SM Mortuza, C Zhang, R Pearce, J Ruan, ... PLoS computational biology 15 (10), e1007411, 2019 | 52 | 2019 |
| Improving deep learning protein monomer and complex structure prediction using DeepMSA2 with huge metagenomics data W Zheng, Q Wuyun, Y Li, C Zhang, PL Freddolino, Y Zhang Nature Methods 21 (2), 279-289, 2024 | 41 | 2024 |
| Improved species-specific lysine acetylation site prediction based on a large variety of features set Q Wuyun, W Zheng, Y Zhang, J Ruan, G Hu PloS one 11 (5), e0155370, 2016 | 39 | 2016 |
| LOMETS3: Integrating deep learning and profile alignment for advanced protein template recognition and function annotation W Zheng, Q Wuyun, X Zhou, Y Li, PL Freddolino, Y Zhang Nucleic acids research 50 (W1), W454-W464, 2022 | 34 | 2022 |
| A large-scale comparative assessment of methods for residue–residue contact prediction Q Wuyun, W Zheng, Z Peng, J Yang Briefings in bioinformatics 19 (2), 219-230, 2018 | 33 | 2018 |
| Integrating deep learning, threading alignments, and a multi‐MSA strategy for high‐quality protein monomer and complex structure prediction in CASP15 W Zheng, Q Wuyun, PL Freddolino, Y Zhang Proteins: Structure, Function, and Bioinformatics 91 (12), 1684-1703, 2023 | 28 | 2023 |
| Recent progress of protein tertiary structure prediction Q Wuyun, Y Chen, Y Shen, Y Cao, G Hu, W Cui, J Gao, W Zheng Molecules 29 (4), 832, 2024 | 16 | 2024 |
| Two-Level Protein Methylation Prediction using structure model-based features W Zheng, Q Wuyun, M Cheng, G Hu, Y Zhang Scientific reports 10 (1), 6008, 2020 | 14 | 2020 |
| PrAS: Prediction of amidation sites using multiple feature extraction T Wang, W Zheng, Q Wuyun, Z Wu, J Ruan, G Hu, J Gao Computational biology and chemistry 66, 57-62, 2017 | 8 | 2017 |
| gDNA-Prot: Predict DNA-binding proteins by employing support vector machine and a novel numerical characterization of protein sequence Y Zhang, W Zheng, S Liu, C Zhao Journal of Theoretical Biology 406, 8-16, 2016 | 7 | 2016 |
| Disentangling population history and character evolution among hybridizing lineages SP Mullen, NW VanKuren, W Zhang, S Nallu, EB Kristiansen, Q Wuyun, ... Molecular Biology and Evolution 37 (5), 1295-1305, 2020 | 6 | 2020 |
| Evolution of cooperation through genetic collective learning and imitation in multiagent societies H Bao, Q Wuyun, W Banzhaf Artificial Life Conference Proceedings, 436-443, 2018 | 6 | 2018 |
| Scalable statistical introgression mapping using approximate coalescent-based inference Q Wuyun, NW VanKuren, M Kronforst, SP Mullen, KJ Liu Proceedings of the 10th ACM International Conference on Bioinformatics …, 2019 | 5 | 2019 |
| Integrating deep neural network models with I-TASSER for accurate protein structure prediction W Zheng, Y Li, Q Wuyun, X Zhou, C Zhang, R Pearce, EW Bell, Y Zhu, ... 2022 [2023-02-01]. https://zhang‐group. org/DI-TASSER, 2022 | 4 | 2022 |
| A Novel Method for Drug Screen to Regulate G Protein‐Coupled Receptors in the Metabolic Network of Alzheimer’s Disease Y Li, W Zheng, W Qiqige, S Cao, J Ruan, Y Zhang BioMed Research International 2018 (1), 5486403, 2018 | 4 | 2018 |
| The Historical Evolution and Significance of Multiple Sequence Alignment in Molecular Structure and Function Prediction C Zhang, Q Wang, Y Li, A Teng, G Hu, Q Wuyun, W Zheng Biomolecules 14 (12), 1531, 2024 | 1 | 2024 |
| An application of random walk resampling to phylogenetic HMM inference and learning W Wang, Q Wuyun, KJ Liu IEEE Transactions on NanoBioscience 19 (3), 506-517, 2020 | 1 | 2020 |
| One step forward towards deep‐learning protein complex structure prediction by precise multiple sequence alignment construction W Zheng, Q Wuyun, Y Zhang Clinical and Translational Medicine 14 (6), 2024 | | 2024 |
