Weiwei Xue

32 papers Journal 31Unranked 1
YearRankTypeTitle / Venue / Authors
2025 — conf
ADOptDiff - an Affinity Driven R-Chain Diffusion Model for Lead Compounds Optimization.
BIBM
Shengneng Chen, Cheng Cheng, Wanghong Fu, Yingjun Chen, Gao Tu, Xiaohong Zhang, Weiwei Xue
2025 J jnl
Artificial intelligence-driven framework for discovering synthetic binding protein-like scaffolds from the entire protein universe.
Briefings Bioinform.
Zixin Duan, Yafeng Liang, Jing Zhang, Zijian Chen, Liangcai Gu, Weiwei Xue
2025 J jnl
CNSGT: Generative Transformer for De Novo Drug Design Targeting the Central Nervous System.
J. Chem. Inf. Model.
Yingjun Chen, Ding Luo, Shengneng Chen, Tingting Hou, Chao Huang, Weiwei Xue
2025 J jnl
ConoDL: a deep learning framework for rapid generation and prediction of conotoxins.
J. Comput. Aided Mol. Des.
Menghan Guo, Zengpeng Li, Xuejin Deng, Ding Luo, Jingyi Yang, Yingjun Chen, Weiwei Xue
2025 J jnl
Expanding the sequence spaces of synthetic binding protein using deep learning-based framework ProteinMPNN.
Frontiers Comput. Sci.
Yanlin Li, Wantong Jiao, Ruihan Liu, Xuejin Deng, Feng Zhu, Weiwei Xue
2025 J jnl
Multiscale Motif-Aware Relation Graph Structure for Drug-Target Binding Affinity Prediction.
IEEE Trans. Comput. Biol. Bioinform.
Cheng Cheng, Xiaohong Zhang, Mianyang Yu, Yuqin Xia, Weiwei Xue
2024 J jnl
CNSMolGen: A Bidirectional Recurrent Neural Network-Based Generative Model for De Novo Central Nervous System Drug Design.
J. Chem. Inf. Model.
Rongpei Gou, Jingyi Yang, Menghan Guo, Yingjun Chen, Weiwei Xue
2024 J jnl
Computational Chemistry in Structure-Based Solute Carrier Transporter Drug Design: Recent Advances and Future Perspectives.
J. Chem. Inf. Model.
Gao Tu, Tingting Fu, Guoxun Zheng, Binbin Xu, Rongpei Gou, Ding Luo, Panpan Wang, Weiwei Xue
2024 J jnl
DTNPD: A comprehensive database of drugs and targets for neurological and psychiatric disorders.
Comput. Biol. Medicine
Ding Luo, Zhuohao Tong, Lu Wen, Mingze Bai, Xiaojie Jin, Zerong Liu, Yinghong Li, Weiwei Xue
2024 J jnl
MoDAFold: a strategy for predicting the structure of missense mutant protein based on AlphaFold2 and molecular dynamics.
Briefings Bioinform.
Lingyan Zheng, Shuiyang Shi, Xiuna Sun, Mingkun Lu, Yang Liao, Sisi Zhu, Hongning Zhang, Ziqi Pan, Pan Fang, Zhenyu Zeng, Honglin Li, Zhaorong Li, Weiwei Xue, Feng Zhu
2024 J jnl
Molecular Mechanism-Driven Discovery of Novel Small Molecule Inhibitors against Drug-Resistant SARS-CoV-2 M
J. Chem. Inf. Model.
Jingyi Yang, Beibei Fu, Rongpei Gou, Xiaoyuan Lin, Haibo Wu, Weiwei Xue
2024 J jnl
OPTICS: An interactive online platform for photosensory and bio-functional proteins in optogenetic systems.
Comput. Biol. Medicine
Zhao Zhang, Fengcheng Li, Zixin Duan, Chaoqun Shi, Xiaona Wang, Feng Zhu, Weiwei Xue
2024 J jnl
Structure-Based Discovery of the SARS-CoV-2 Main Protease Noncovalent Inhibitors from Traditional Chinese Medicine.
J. Chem. Inf. Model.
Xiaojie Jin, Min Zhang, Beibei Fu, Mi Li, Jingyi Yang, Zhiming Zhang, Chenghao Li, Huijuan Zhang, Haibo Wu, Weiwei Xue, Yongqi Liu
2023 J jnl
Mapping synthetic binding proteins epitopes on diverse protein targets by protein structure prediction and protein-protein docking.
Comput. Biol. Medicine
Arzu Mijit, Xiaona Wang, Yanlin Li, Hangwei Xu, Yingjun Chen, Weiwei Xue
2023 J jnl
Structure-Based Discovery of a Novel Allosteric Inhibitor against Human Dopamine Transporter.
J. Chem. Inf. Model.
Shengzhe Deng, Haiwei Zhang, Rongpei Gou, Ding Luo, Zerong Liu, Feng Zhu, Weiwei Xue
2023 J jnl
Unbiased molecular dynamics simulation of a first-in-class small molecule inhibitor binds to oncostatin M.
Comput. Biol. Medicine
Qingqing Du, Gao Tu, Yan Qian, Jingyi Yang, Xiaojun Yao, Weiwei Xue
2022 J jnl
Character embedding-based Bi-LSTM for Zircon similarity calculation with clustering.
Earth Sci. Informatics
Xiangben Hu, Zhichen Hu, Jielin Jiang, Weiwei Xue, Xiumian Hu, Xiaolong Xu
2022 J jnl
SYNBIP: synthetic binding proteins for research, diagnosis and therapy.
Nucleic Acids Res.
Xiaona Wang, Fengcheng Li, Wenqi Qiu, Binbin Xu, Yanlin Li, Xichen Lian, Hongyan Yu, Zhao Zhang, Jianxin Wang, Zhaorong Li, Weiwei Xue, Feng Zhu
2021 J jnl
GIMICA: host genetic and immune factors shaping human microbiota.
Nucleic Acids Res.
Jing Tang, Xianglu Wu, Minjie Mou, Chuan Wang, Lidan Wang, Fengcheng Li, Maiyuan Guo, Jiayi Yin, Wenqin Xie, Xiaona Wang, Yingxiong Wang, Yubin Ding, Weiwei Xue, Feng Zhu
2021 J jnl
Structure-Based Discovery of Novel Nonpeptide Inhibitors Targeting SARS-CoV-2 Mpro.
J. Chem. Inf. Model.
Jingyi Yang, Xiaoyuan Lin, Na Xing, Zhao Zhang, Haiwei Zhang, Haibo Wu, Weiwei Xue
2020 J jnl
A critical assessment of the feature selection methods used for biomarker discovery in current metaproteomics studies.
Briefings Bioinform.
Jing Tang, Yunxia Wang, Jianbo Fu, Ying Zhou, Yongchao Luo, Ying Zhang, Bo Li, Qingxia Yang, Weiwei Xue, Yan Lou, Yunqing Qiu, Feng Zhu
2020 J jnl
A novel bioinformatics approach to identify the consistently well-performing normalization strategy for current metabolomic studies.
Briefings Bioinform.
Qingxia Yang, Jiajun Hong, Yi Li, Weiwei Xue, Song Li, Hui Yang, Feng Zhu
2020 J jnl
ANPELA: analysis and performance assessment of the label-free quantification workflow for metaproteomic studies.
Briefings Bioinform.
Jing Tang, Jianbo Fu, Yunxia Wang, Bo Li, Yinghong Li, Qingxia Yang, Xuejiao Cui, Jiajun Hong, Xiaofeng Li, Yuzong Chen, Weiwei Xue, Feng Zhu
2020 J jnl
Clinical trials, progression-speed differentiating features and swiftness rule of the innovative targets of first-in-class drugs.
Briefings Bioinform.
Ying Hong Li, Xiao Xu Li, Jiajun Hong, Yunxia Wang, Jianbo Fu, Hong Yang, Chun Yan Yu, Feng Cheng Li, Jie Hu, Weiwei Xue, Yu Yang Jiang, Yuzong Chen, Feng Zhu
2020 J jnl
Consistent gene signature of schizophrenia identified by a novel feature selection strategy from comprehensive sets of transcriptomic data.
Briefings Bioinform.
Qingxia Yang, Bo Li, Jing Tang, Xuejiao Cui, Yunxia Wang, Xiaofeng Li, Jie Hu, Yuzong Chen, Weiwei Xue, Yan Lou, Yunqing Qiu, Feng Zhu
2020 J jnl
Convolutional neural network-based annotation of bacterial type IV secretion system effectors with enhanced accuracy and reduced false discovery.
Briefings Bioinform.
Jiajun Hong, Yongchao Luo, Minjie Mou, Jianbo Fu, Yang Zhang, Weiwei Xue, Tian Xie, Lin Tao, Yan Lou, Feng Zhu
2020 J jnl
Genome-wide identification and analysis of the eQTL lncRNAs in multiple sclerosis based on RNA-seq data.
Briefings Bioinform.
Zhijie Han, Weiwei Xue, Lin Tao, Yan Lou, Yunqing Qiu, Feng Zhu
2020 J jnl
Protein functional annotation of simultaneously improved stability, accuracy and false discovery rate achieved by a sequence-based deep learning.
Briefings Bioinform.
Jiajun Hong, Yongchao Luo, Yang Zhang, Junbiao Ying, Weiwei Xue, Tian Xie, Lin Tao, Feng Zhu
2017 J jnl
NOREVA: normalization and evaluation of MS-based metabolomics data.
Nucleic Acids Res.
Bo Li, Jing Tang, Qingxia Yang, Shuang Li, Xuejiao Cui, Yinghong Li, Yuzong Chen, Weiwei Xue, Xiaofeng Li, Feng Zhu
2014 J jnl
Computational Study on the Drug Resistance Mechanism against HCV NS3/4A Protease Inhibitors Vaniprevir and MK-5172 by the Combination Use of Molecular Dynamics Simulation, Residue Interaction Network, and Substrate Envelope Analysis.
J. Chem. Inf. Model.
Weiwei Xue, Yihe Ban, Huanxiang Liu, Xiaojun Yao
2013 J jnl
Exploring the Molecular Mechanism of Cross-Resistance to HIV-1 Integrase Strand Transfer Inhibitors by Molecular Dynamics Simulation and Residue Interaction Network Analysis.
J. Chem. Inf. Model.
Weiwei Xue, Xiaojie Jin, Lulu Ning, Meixia Wang, Huanxiang Liu, Xiaojun Yao
2012 J jnl
Molecular mechanism of HIV-1 integrase-vDNA interactions and strand transfer inhibitor action: A molecular modeling perspective.
J. Comput. Chem.
Weiwei Xue, Huanxiang Liu, Xiaojun Yao