| COFACTOR: improved protein function prediction by combining structure, sequence and protein–protein interaction information C Zhang, PL Freddolino, Y Zhang Nucleic acids research 45 (W1), W291-W299, 2017 | 596 | 2017 |
| 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 | 462 | 2021 |
| The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens N Zhou, Y Jiang, TR Bergquist, AJ Lee, BZ Kacsoh, AW Crocker, ... Genome biology 20, 1-23, 2019 | 403 | 2019 |
| Protein structure and sequence reanalysis of 2019-nCoV genome refutes snakes as its intermediate host and the unique similarity between its spike protein insertions and HIV-1 C Zhang, W Zheng, X Huang, EW Bell, X Zhou, Y Zhang Journal of proteome research 19 (4), 1351-1360, 2020 | 366 | 2020 |
| 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 | 276 | 2022 |
| PyMod 2.0: improvements in protein sequence-structure analysis and homology modeling within PyMOL G Janson, C Zhang, MG Prado, A Paiardini Bioinformatics 33 (3), 444-446, 2017 | 239 | 2017 |
| 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 | 222 | 2019 |
| US-align: universal structure alignments of proteins, nucleic acids, and macromolecular complexes C Zhang, M Shine, AM Pyle, Y Zhang Nature Methods 19 (9), 1109-1115, 2022 | 180 | 2022 |
| 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 | 169 | 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 | 168 | 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 | 155 | 2019 |
| BindProfX: assessing mutation-induced binding affinity change by protein interface profiles with pseudo-counts P Xiong, C Zhang, W Zheng, Y Zhang Journal of molecular biology 429 (3), 426-434, 2017 | 135 | 2017 |
| I-TASSER gateway: A protein structure and function prediction server powered by XSEDE W Zheng, C Zhang, EW Bell, Y Zhang Future Generation Computer Systems 99, 73-85, 2019 | 120 | 2019 |
| Template‐based and free modeling of I‐TASSER and QUARK pipelines using predicted contact maps in CASP12 C Zhang, SM Mortuza, B He, Y Wang, Y Zhang Proteins: Structure, Function, and Bioinformatics 86, 136-151, 2018 | 111 | 2018 |
| Assembling multidomain protein structures through analogous global structural alignments X Zhou, J Hu, C Zhang, G Zhang, Y Zhang Proceedings of the National Academy of Sciences 116 (32), 15930-15938, 2019 | 108 | 2019 |
| 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 87 (12), 1082-1091, 2019 | 106 | 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 | 90 | 2021 |
| MetaGO: Predicting Gene Ontology of non-homologous proteins through low-resolution protein structure prediction and protein–protein network mapping C Zhang, W Zheng, PL Freddolino, Y Zhang Journal of molecular biology 430 (15), 2256-2265, 2018 | 80 | 2018 |
| 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 | 74 | 2021 |
| 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 | 59 | 2021 |
Yang ZhangNational University of SingaporeVerified email at nus.edu.sg
