Hai-Feng Chen (Haifeng Chen)

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 58

Top Topics

Molecular Dynamics Simulations

Amyotrophic Lateral Sclerosis

Helicobacter Pylori

Top Venues

Journal of chemical information and modeling

Bioinformatics (Oxford, England)

Journal of chemical theory and computation

Chemical biology & drug design

This page only lists publications with an associated author ORCID identifier.

Publications

Mueed Ur Rahman, Saira Bano, Xiaokun Hong, Ruo-Xu Gu, Hai-Feng Chen
Early Aggregation Mechanism of SOD1 28-38 Based on Force Field Parameter of 5-Cyano-Tryptophan. Journal of chemical information and modeling 64 (9) (2024)
Jinyu Yu, Junxi Mu, Ting Wei, Hai-Feng Chen
Multi-indicator comparative evaluation for deep learning-based protein sequence design methods. Bioinformatics (Oxford, England) 40 (2) (2024)
Jinyu Yu, Junxi Mu, Ting Wei, Hai-Feng Chen
Multi-indicator comparative evaluation for deep learning-based protein sequence design methods. Bioinformatics (Oxford, England) 40 (2) (2024)
Mueed Ur Rahman, Saira Bano, Xiaokun Hong, Ruo-Xu Gu, Hai-Feng Chen
Early Aggregation Mechanism of SOD1 28-38 Based on Force Field Parameter of 5-Cyano-Tryptophan. Journal of chemical information and modeling (2024)
Taeyoung Choi, Zhengxin Li, Ge Song, Hai-Feng Chen
Comprehensive Comparison and Critical Assessment of RNA-Specific Force Fields. Journal of chemical theory and computation 20 (6) (2024)
Zhengxin Li, Ge Song, Junjie Zhu, Junxi Mu, Yutong Sun, Xiaokun Hong, Taeyoung Choi, Xiaochen Cui, Hai-Feng Chen
Excited-Ground-State Transition of the RNA Strand Slippage Mechanism Captured by the Base-Specific Force Field. Journal of chemical theory and computation 20 (14) (2024)
Mueed Ur Rahman, Saira Bano, Xiaokun Hong, Ruo-Xu Gu, Hai-Feng Chen
Early Aggregation Mechanism of SOD1 28-38 Based on Force Field Parameter of 5-Cyano-Tryptophan. Journal of chemical information and modeling 64 (9) (2024)
Jinyu Yu, Junxi Mu, Ting Wei, Hai-Feng Chen
Multi-indicator comparative evaluation for deep learning-based protein sequence design methods. Bioinformatics (Oxford, England) 40 (2) (2024)
Jinyu Yu, Junxi Mu, Ting Wei, Hai-Feng Chen
Multi-indicator comparative evaluation for deep learning-based protein sequence design methods. Bioinformatics (Oxford, England) 40 (2) (2024)
Junxi Mu, Zhengxin Li, Bo Zhang, Qi Zhang, Jamshed Iqbal, Abdul Wadood, Ting Wei, Yan Feng, Hai-Feng Chen
Graphormer supervised de novo protein design method and function validation. Briefings in bioinformatics 25 (3) (2024)
Taeyoung Choi, Zhengxin Li, Ge Song, Hai-Feng Chen
Comprehensive Comparison and Critical Assessment of RNA-Specific Force Fields. Journal of chemical theory and computation 20 (6) (2024)
Zhengxin Li, Ge Song, Junjie Zhu, Junxi Mu, Yutong Sun, Xiaokun Hong, Taeyoung Choi, Xiaochen Cui, Hai-Feng Chen
Excited-Ground-State Transition of the RNA Strand Slippage Mechanism Captured by the Base-Specific Force Field. Journal of chemical theory and computation (2024)
Taeyoung Choi, Zhengxin Li, Ge Song, Hai-Feng Chen
Comprehensive Comparison and Critical Assessment of RNA-Specific Force Fields. Journal of chemical theory and computation (2024)
Xiaokun Hong, Kaiyuan Song, Mueed Ur Rahman, Ting Wei, Yan Zhang, Lin-Tai Da, Hai-Feng Chen
Phosphorylation Regulation Mechanism of β2 Integrin for the Binding of Filamin Revealed by Markov State Model. Journal of chemical information and modeling 63 (2) (2023)
Jun-Jie Zhu, Ning-Jie Zhang, Ting Wei, Hai-Feng Chen
Enhancing Conformational Sampling for Intrinsically Disordered and Ordered Proteins by Variational Autoencoder. International journal of molecular sciences 24 (8) (2023)
Xiaoyue Ji, Xiaochen Cui, Zhengxin Li, Taeyoung Choi, Ying Wang, Wen Xiao, Yunshuo Zhao, Jinyin Zha, Jian Zhang, Hai-Feng Chen, Zhengtian Yu
Research and Evaluation of the Allosteric Protein-Specific Force Field Based on a Pre-Training Deep Learning Model. Journal of chemical information and modeling (2023)
Xiaokun Hong, Ningshan Li, Jiyang Lv, Yan Zhang, Jing Li, Jian Zhang, Hai-Feng Chen
PTMint database of experimentally verified PTM regulation on protein-protein interaction. Bioinformatics (Oxford, England) 39 (1) (2023)
Jun-Jie Zhu, Ning-Jie Zhang, Ting Wei, Hai-Feng Chen
Enhancing Conformational Sampling for Intrinsically Disordered and Ordered Proteins by Variational Autoencoder. International journal of molecular sciences 24 (8) (2023)
Xi-Peng Liu, Dong Song, Wei-Wei Wang, Lei Feng, Zheng-Xin Li, Hai-Feng Chen, Xiang Xiao, Xi-Peng Liu
Synthesis and degradation of the cyclic dinucleotide messenger c-di-AMP in the hyperthermophilic archaeon Pyrococcus yayanosii. Protein science : a publication of the Protein Society (2023)
Junjie Zhu, Zhengxin Li, Haowei Tong, Zhouyu Lu, Ningjie Zhang, Ting Wei, Hai-Feng Chen
Phanto-IDP: compact model for precise intrinsically disordered protein backbone generation and enhanced sampling. Briefings in bioinformatics 25 (1) (2023)
Xiaokun Hong, Ningshan Li, Jiyang Lv, Yan Zhang, Jing Li, Jian Zhang, Hai-Feng Chen
PTMint database of experimentally verified PTM regulation on protein-protein interaction. Bioinformatics (Oxford, England) 39 (1) (2023)
Ge Song, Bozitao Zhong, Bo Zhang, Ashfaq Ur Rehman, Hai-Feng Chen
Phosphorylation Modification Force Field FB18CMAP Improving Conformation Sampling of Phosphoproteins. Journal of chemical information and modeling 63 (5) (2023)
Ge Song, Bozitao Zhong, Bo Zhang, Ashfaq Ur Rehman, Hai-Feng Chen
Phosphorylation Modification Force Field FB18CMAP Improving Conformation Sampling of Phosphoproteins. Journal of chemical information and modeling (2023)
Jun-Jie Zhu, Ning-Jie Zhang, Ting Wei, Hai-Feng Chen
Enhancing Conformational Sampling for Intrinsically Disordered and Ordered Proteins by Variational Autoencoder. International journal of molecular sciences 24 (8) (2023)
Xiaokun Hong, Kaiyuan Song, Mueed Ur Rahman, Ting Wei, Yan Zhang, Lin-Tai Da, Hai-Feng Chen
Phosphorylation Regulation Mechanism of β2 Integrin for the Binding of Filamin Revealed by Markov State Model. Journal of chemical information and modeling 63 (2) (2023)
Xiaokun Hong, Kaiyuan Song, Mueed Ur Rahman, Ting Wei, Yan Zhang, Lin-Tai Da, Hai-Feng Chen
Phosphorylation Regulation Mechanism of β2 Integrin for the Binding of Filamin Revealed by Markov State Model. Journal of chemical information and modeling (2023)
Zhengsong Pan, Junxi Mu, Hai-Feng Chen
Balanced Three-Point Water Model OPC3-B for Intrinsically Disordered and Ordered Proteins. Journal of chemical theory and computation (2023)
Ge Song, Bozitao Zhong, Bo Zhang, Ashfaq Ur Rehman, Hai-Feng Chen
Phosphorylation Modification Force Field FB18CMAP Improving Conformation Sampling of Phosphoproteins. Journal of chemical information and modeling 63 (5) (2023)
Xiaokun Hong, Ningshan Li, Jiyang Lv, Yan Zhang, Jing Li, Jian Zhang, Hai-Feng Chen
PTMint database of experimentally verified PTM regulation on protein-protein interaction. Bioinformatics (Oxford, England) 39 (1) (2023)
Xiaochen Cui, Hao Liu, Hai-Feng Chen
Polarizable Force Field of Intrinsically Disordered Proteins with CMAP and Reweighting Optimization. Journal of chemical information and modeling 62 (20) (2022)
Xiaoyue Ji, Hao Liu, Yangpeng Zhang, Jun Chen, Hai-Feng Chen
Personal Precise Force Field for Intrinsically Disordered and Ordered Proteins Based on Deep Learning. Journal of chemical information and modeling (2022)
Jun Chen, Hao Liu, Xiaochen Cui, Zhengxin Li, Hai-Feng Chen
RNA-Specific Force Field Optimization with CMAP and Reweighting. Journal of chemical information and modeling 62 (2) (2022)
Xiaoyue Ji, Hao Liu, Yangpeng Zhang, Jun Chen, Hai-Feng Chen
Personal Precise Force Field for Intrinsically Disordered and Ordered Proteins Based on Deep Learning. Journal of chemical information and modeling 63 (1) (2022)
Xiaoyue Ji, Hao Liu, Yangpeng Zhang, Jun Chen, Hai-Feng Chen
Personal Precise Force Field for Intrinsically Disordered and Ordered Proteins Based on Deep Learning. Journal of chemical information and modeling 63 (1) (2022)
Asad Ullah Saeed, Mueed Ur Rahman, Hai-Feng Chen, Jianting Zheng
Structural Insight of KSIII (β-Ketoacyl-ACP Synthase)-like Acyltransferase ChlB3 in the Biosynthesis of Chlorothricin. Molecules (Basel, Switzerland) 27 (19) (2022)
Xiaoyue Ji, Hao Liu, Yangpeng Zhang, Jun Chen, Hai-Feng Chen
Personal Precise Force Field for Intrinsically Disordered and Ordered Proteins Based on Deep Learning. Journal of chemical information and modeling 63 (1) (2022)
Bozitao Zhong, Ge Song, Hai-Feng Chen
Balanced Force Field ff03CMAP Improving the Dynamics Conformation Sampling of Phosphorylation Site. International journal of molecular sciences 23 (19) (2022)
Yuxin Jiang, Hai-Feng Chen
Performance evaluation of the balanced force field ff03CMAP for intrinsically disordered and ordered proteins. Physical chemistry chemical physics : PCCP (2022)
Wen-Wen Song, Zhi-Gang Qian, Hao Liu, Hai-Feng Chen, David Lee Kaplan, Xiao-Xia Xia
On-Demand Regulation of Dual Thermosensitive Protein Hydrogels. ACS macro letters 10 (4) (2021)
Xiaochen Cui, Hao Liu, Ashfaq Ur Rehman, Hai-Feng Chen
Extensive evaluation of environment-specific force field for ordered and disordered proteins. Physical chemistry chemical physics : PCCP 23 (21) (2021)
Junxi Mu, Zhengsong Pan, Hai-Feng Chen
Balanced Solvent Model for Intrinsically Disordered and Ordered Proteins. Journal of chemical information and modeling 61 (10) (2021)
Xiaopian Tian, Hao Liu, Hai-Feng Chen
Catalytic mechanism of butane anaerobic oxidation for alkyl-coenzyme M reductase. Chemical biology & drug design 98 (5) (2021)
Ashfaq Ur Rehman, Guodong Zhen, Bozitao Zhong, Duan Ni, Jiayi Li, Abdul Nasir, Moustafa T Gabr, Humaira Rafiq, Abdul Wadood, Shaoyong Lu, Jian Zhang, Hai-Feng Chen
Mechanism of zinc ejection by disulfiram in nonstructural protein 5A. Physical chemistry chemical physics : PCCP 23 (21) (2021)
Junxi Mu, Hao Liu, Jian Zhang, Ray Luo, Hai-Feng Chen
Recent Force Field Strategies for Intrinsically Disordered Proteins. Journal of chemical information and modeling 61 (3) (2021)
Dong Song, Hao Liu, Ray Luo, Hai-Feng Chen
Environment-Specific Force Field for Intrinsically Disordered and Ordered Proteins. Journal of chemical information and modeling 60 (4) (2020)
Mueed Ur Rahman, Ashfaq Ur Rehman, Hao Liu, Hai-Feng Chen
Comparison and Evaluation of Force Fields for Intrinsically Disordered Proteins. Journal of chemical information and modeling 60 (10) (2020)
Ashfaq Ur Rehman, Humaira Rafiq, Mueed Ur Rahman, Jiayi Li, Hao Liu, Shenggan Luo, Taaha Arshad, Abdul Wadood, Hai-Feng Chen
Gain-of-Function SHP2 E76Q Mutant Rescuing Autoinhibition Mechanism Associated with Juvenile Myelomonocytic Leukemia. Journal of chemical information and modeling 59 (7) (2019)
Sheng Yang, Hao Liu, Yangpeng Zhang, Hui Lu, Hai-Feng Chen
Residue-Specific Force Field Improving the Sample of Intrinsically Disordered Proteins and Folded Proteins. Journal of chemical information and modeling 59 (11) (2019)
Yangpeng Zhang, Hao Liu, Sheng Yang, Ray Luo, Hai-Feng Chen
Well-Balanced Force Field ff03CMAP for Folded and Disordered Proteins. Journal of chemical theory and computation 15 (12) (2019)
Yumeng Tan, Ram W Sabnis, Yunbin Han, Hao Liu, Hai-Feng Chen, Fuqiang Ma, Stephen G Withers, Fan Jiang, Guang-Yu Yang
Directed evolution of an α1,3-fucosyltransferase using a single-cell ultrahigh-throughput screening method. Science advances 5 (10) (2019)
Ashfaq Ur Rehman, Muhammad Tahir Khan, Hao Liu, Abdul Wadood, Shaukat Iqbal Malik, Hai-Feng Chen
Exploring the Pyrazinamide Drug Resistance Mechanism of Clinical Mutants T370P and W403G in Ribosomal Protein S1 of Mycobacterium tuberculosis. Journal of chemical information and modeling 59 (4) (2019)
Yangpeng Zhang, Hai-Feng Chen
Allosteric mechanism of an oximino-piperidino-piperidine antagonist for the CCR5 chemokine receptor. Chemical biology & drug design 95 (1) (2019)
Quan Li, Hai-Feng Chen
Synergistic regulation mechanism of iperoxo and LY2119620 for muscarinic acetylcholine M2 receptor. RSC advances 8 (24) (2018)
Hao Liu, Dong Song, Hui Lu, Ray Luo, Hai-Feng Chen
Intrinsically disordered protein-specific force field CHARMM36IDPSFF. Chemical biology & drug design 92 (4) (2018)
Aohuan Dan, Hai-Feng Chen
Secondary structures transition of tau protein with intrinsically disordered proteins specific force field. Chemical biology & drug design 93 (3) (2018)
Dong Song, Ray Luo, Hai-Feng Chen
The IDP-Specific Force Field ff14IDPSFF Improves the Conformer Sampling of Intrinsically Disordered Proteins. Journal of chemical information and modeling 57 (5) (2017)
Yi Cai, Hao Liu, Hai-Feng Chen
Allosteric mechanism of quinoline inhibitors for HIV RT-associated RNase with MD simulation and dynamics fluctuation network. Chemical biology & drug design 91 (3) (2017)
Wei Ye, Tianle Qian, Hao Liu, Ray Luo, Hai-Feng Chen
Allosteric Autoinhibition Pathway in Transcription Factor ERG: Dynamics Network and Mutant Experimental Evaluations. Journal of chemical information and modeling 57 (5) (2017)