| Folding non-homologous proteins by coupling deep-learning contact maps with I-TASSER assembly simulations W Zheng, C Zhang, Y Li, R Pearce, EW Bell, Y Zhang Cell reports methods 1 (3), 2021 | 367 | 2021 |
| Deep‐learning contact‐map guided protein structure prediction in CASP13 W Zheng, Y Li, C Zhang, R Pearce, SM Mortuza, Y Zhang Proteins: Structure, Function, and Bioinformatics 87 (12), 1149-1164, 2019 | 205 | 2019 |
| ResPRE: high-accuracy protein contact prediction by coupling precision matrix with deep residual neural networks Y Li, J Hu, C Zhang, DJ Yu, Y Zhang Bioinformatics 35 (22), 4647-4655, 2019 | 154 | 2019 |
| DeepMSA: constructing deep multiple sequence alignment to improve contact prediction and fold-recognition for distant-homology proteins C Zhang, W Zheng, SM Mortuza, Y Li, Y Zhang Bioinformatics 36 (7), 2105-2112, 2020 | 150 | 2020 |
| 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 | 139 | 2019 |
| I-TASSER-MTD: a deep-learning-based platform for multi-domain protein structure and function prediction X Zhou, W Zheng, Y Li, R Pearce, C Zhang, EW Bell, G Zhang, Y Zhang Nature Protocols 17 (10), 2326-2353, 2022 | 136 | 2022 |
| Ensembling multiple raw coevolutionary features with deep residual neural networks for contact‐map prediction in CASP13 Y Li, C Zhang, EW Bell, DJ Yu, Y Zhang Proteins: Structure, Function, and Bioinformatics, 2019 | 104 | 2019 |
| Deducing high-accuracy protein contact-maps from a triplet of coevolutionary matrices through deep residual convolutional networks Y Li, C Zhang, EW Bell, W Zheng, X Zhou, DJ Yu, Y Zhang PLoS computational biology 17 (3), e1008865, 2021 | 81 | 2021 |
| Predicting protein-DNA binding residues by weightedly combining sequence-based features and boosting multiple SVMs J Hu, Y Li, M Zhang, X Yang, HB Shen, DJ Yu IEEE/ACM transactions on computational biology and bioinformatics 14 (6 …, 2016 | 78 | 2016 |
| Improving fragment-based ab initio protein structure assembly using low-accuracy contact-map predictions SM Mortuza, W Zheng, C Zhang, Y Li, R Pearce, Y Zhang Nature communications 12 (1), 5011, 2021 | 58 | 2021 |
| ATPbind: accurate protein–ATP binding site prediction by combining sequence-profiling and structure-based comparisons J Hu, Y Li, Y Zhang, DJ Yu Journal of chemical information and modeling 58 (2), 501-510, 2018 | 57 | 2018 |
| Protein structure prediction using deep learning distance and hydrogen‐bonding restraints in CASP14 W Zheng, Y Li, C Zhang, X Zhou, R Pearce, EW Bell, X Huang, Y Zhang Proteins: Structure, Function, and Bioinformatics 89 (12), 1734-1751, 2021 | 56 | 2021 |
| 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 | 50 | 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 | 48 | 2020 |
| TargetCrys: protein crystallization prediction by fusing multi-view features with two-layered SVM J Hu, K Han, Y Li, JY Yang, HB Shen, DJ Yu Amino acids 48, 2533-2547, 2016 | 40 | 2016 |
| Progressive assembly of multi-domain protein structures from cryo-EM density maps X Zhou, Y Li, C Zhang, W Zheng, G Zhang, Y Zhang Nature computational science 2 (4), 265-275, 2022 | 34 | 2022 |
| GPCR–drug interactions prediction using random forest with drug-association-matrix-based post-processing procedure J Hu, Y Li, JY Yang, HB Shen, DJ Yu Computational biology and chemistry 60, 59-71, 2016 | 29 | 2016 |
| KNN-based dynamic query-driven sample rescaling strategy for class imbalance learning J Hu, Y Li, WX Yan, JY Yang, HB Shen, DJ Yu Neurocomputing 191, 363-373, 2016 | 27 | 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 | 23 | 2022 |
| Protein inter‐residue contact and distance prediction by coupling complementary coevolution features with deep residual networks in CASP14 Y Li, C Zhang, W Zheng, X Zhou, EW Bell, DJ Yu, Y Zhang Proteins: Structure, Function, and Bioinformatics 89 (12), 1911-1921, 2021 | 22 | 2021 |
Yang ZhangNational University of Singaporenus.edu.sg üzerinde doğrulanmış e-posta adresine sahip
