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Chengxin Zhang
Chengxin Zhang
Verified email at umich.edu - Homepage
Title
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Cited by
Year
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
5402017
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
3672021
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
3592020
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
3512019
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
2152017
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
2052019
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
1532019
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
1492020
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
1382019
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
1352022
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
1182017
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
1112022
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
1042019
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
1042018
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
1032019
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
1002019
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
812021
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
712018
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
572021
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
562021
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