Wei Zheng

18 papers Journal 18
YearRankTypeTitle / Venue / Authors
2025 J jnl
A comprehensive benchmarking of the AlphaFold3 for predicting biomacromolecules and their interactions.
Briefings Bioinform.
Chunxiang Peng, Wentao Ni, Quancheng Liu, Gang Hu, Wei Zheng
2024 J jnl
DEMO-EM2: assembling protein complex structures from cryo-EM maps through intertwined chain and domain fitting.
Briefings Bioinform.
Ziying Zhang, Yaxian Cai, Biao Zhang, Wei Zheng, P. L. Freddolino, Guijun Zhang, Xiaogen Zhou
2022 J jnl
DEMO2: Assemble multi-domain protein structures by coupling analogous template alignments with deep-learning inter-domain restraint prediction.
Nucleic Acids Res.
Xiaogen Zhou, Chunxiang Peng, Wei Zheng, Yang Li, Guijun Zhang, Yang Zhang
2022 J jnl
LOMETS3: integrating deep learning and profile alignment for advanced protein template recognition and function annotation.
Nucleic Acids Res.
Wei Zheng, Qiqige Wuyun, Xiaogen Zhou, Yang Li, P. L. Freddolino, Yang Zhang
2022 J jnl
Progressive assembly of multi-domain protein structures from cryo-EM density maps.
Nat. Comput. Sci.
Xiaogen Zhou, Yang Li, Chengxin Zhang, Wei Zheng, Guijun Zhang, Yang Zhang
2021 J jnl
Deducing high-accuracy protein contact-maps from a triplet of coevolutionary matrices through deep residual convolutional networks.
PLoS Comput. Biol.
Yang Li, Chengxin Zhang, Eric W. Bell, Wei Zheng, Xiaogen Zhou, Dong-Jun Yu, Yang Zhang
2021 J jnl
Protein structural features predict responsiveness to pharmacological chaperone treatment for three lysosomal storage disorders.
PLoS Comput. Biol.
Jaie C. Woodard, Wei Zheng, Yang Zhang
2020 J jnl
DeepMSA: constructing deep multiple sequence alignment to improve contact prediction and fold-recognition for distant-homology proteins.
Bioinform.
Chengxin Zhang, Wei Zheng, S. M. Mortuza, Yang Li, Yang Zhang
2020 J jnl
FUpred: detecting protein domains through deep-learning-based contact map prediction.
Bioinform.
Wei Zheng, Xiaogen Zhou, Qiqige Wuyun, Robin Pearce, Yang Li, Yang Zhang
2020 J jnl
SSIPe: accurately estimating protein-protein binding affinity change upon mutations using evolutionary profiles in combination with an optimized physical energy function.
Bioinform.
Xiaoqiang Huang, Wei Zheng, Robin Pearce, Yang Zhang
2019 J jnl
Detecting distant-homology protein structures by aligning deep neural-network based contact maps.
PLoS Comput. Biol.
Wei Zheng, Qiqige Wuyun, Yang Li, S. M. Mortuza, Chengxin Zhang, Robin Pearce, Jishou Ruan, Yang Zhang
2019 J jnl
I-TASSER gateway: A protein structure and function prediction server powered by XSEDE.
Future Gener. Comput. Syst.
Wei Zheng, Chengxin Zhang, Eric W. Bell, Yang Zhang
2019 J jnl
LOMETS2: improved meta-threading server for fold-recognition and structure-based function annotation for distant-homology proteins.
Nucleic Acids Res.
Wei Zheng, Chengxin Zhang, Qiqige Wuyun, Robin Pearce, Yang Li, Yang Zhang
2018 J jnl
A large-scale comparative assessment of methods for residue-residue contact prediction.
Briefings Bioinform.
Qiqige Wuyun, Wei Zheng, Zhenling Peng, Jianyi Yang
2017 J jnl
PrAS: Prediction of amidation sites using multiple feature extraction.
Comput. Biol. Chem.
Tong Wang, Wei Zheng, Qiqige Wuyun, Zhenfeng Wu, Jishou Ruan, Gang Hu, Jianzhao Gao
2014 J jnl
An ensemble method for prediction of conformational B-cell epitopes from antigen sequences.
Comput. Biol. Chem.
Wei Zheng, Chen Zhang, Michelle Hanlon, Jishou Ruan, Jianzhao Gao
2014 J jnl
Quad-PRE: A Hybrid Method to Predict Protein Quaternary Structure Attributes.
Comput. Math. Methods Medicine
Yajun Sheng, Xingye Qiu, Chen Zhang, Jun Xu, Yanping Zhang, Wei Zheng, Ke Chen
2014 J jnl
newDNA-Prot: Prediction of DNA-binding proteins by employing support vector machine and a comprehensive sequence representation.
Comput. Biol. Chem.
Yanping Zhang, Jun Xu, Wei Zheng, Chen Zhang, Xingye Qiu, Ke Chen, Jishou Ruan