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AntiFormer: graph enhanced large language model for binding affinity prediction Journal article
Wang, Qing, Feng, Yuzhou, Wang, Yanfei, Li, Bo, Wen, Jianguo, Zhou, Xiaobo, Song, Qianqian. AntiFormer: graph enhanced large language model for binding affinity prediction[J]. Briefings in Bioinformatics, 2024, 25(5), bbae403.
Authors:  Wang, Qing;  Feng, Yuzhou;  Wang, Yanfei;  Li, Bo;  Wen, Jianguo; et al.
Favorite | TC[WOS]:0 TC[Scopus]:0  IF:6.8/7.9 | Submit date：2024/09/03
Antibody Binding Affinity  Antibody Maturation  Large Language Model  Single-cell Bcr  
Comprehensive classification of TP53 somatic missense variants based on their impact on p53 structural stability Journal article
Benjamin Tam, Philip Naderev P. Lagniton, Mariano da Luz, Bojin Zhao, Siddharth Sinha, Chon Lok Lei, San Ming Wang. Comprehensive classification of TP53 somatic missense variants based on their impact on p53 structural stability[J]. Briefings in Bioinformatics, 2024, 25(5), bbae400.
Authors:  Benjamin Tam;  Philip Naderev P. Lagniton;  Mariano da Luz;  Bojin Zhao;  Siddharth Sinha; et al.
Favorite | TC[WOS]:0 TC[Scopus]:0  IF:6.8/7.9 | Submit date：2024/08/07
Ramachandran Plot  Molecular Dynamics Simulations  Tp53  Somatic Missense Variants  
Introducing enzymatic cleavage features and transfer learning realizes accurate peptide half-life prediction across species and organs Journal article
Tan, Xiaorong, Liu, Qianhui, Fang, Yanpeng, Yang, Sen, Chen, Fei, Wang, Jianmin, Ouyang, Defang, Dong, Jie, Zeng, Wenbin. Introducing enzymatic cleavage features and transfer learning realizes accurate peptide half-life prediction across species and organs[J]. Briefings in Bioinformatics, 2024, 25(4), bbae350.
Authors:  Tan, Xiaorong;  Liu, Qianhui;  Fang, Yanpeng;  Yang, Sen;  Chen, Fei; et al.
Favorite | TC[WOS]:1 TC[Scopus]:1  IF:6.8/7.9 | Submit date：2024/08/05
Drug Design  Enzymatic Cleavage Features  Half-life  Machine Learning  Peptide Drugs  Transfer Learning  
MMP3C: an in-silico framework to depict cancer metabolic plasticity using gene expression profiles Journal article
Chen, Xingyu, Deng, Min, Wang, Zihan, Huang, Chen. MMP3C: an in-silico framework to depict cancer metabolic plasticity using gene expression profiles[J]. Briefings in bioinformatics, 2024, 25(1), bbad471.
Authors:  Chen, Xingyu;  Deng, Min;  Wang, Zihan;  Huang, Chen
Favorite | TC[WOS]:2 TC[Scopus]:2  IF:6.8/7.9 | Submit date：2024/01/10
Metabolism Plasticity  Pan-cancer  Tumor Microenvironment  
FormulationAI: a novel web-based platform for drug formulation design driven by artificial intelligence Journal article
Dong, Jie, Wu, Zheng, Xu, Huanle, Ouyang, Defang. FormulationAI: a novel web-based platform for drug formulation design driven by artificial intelligence[J]. Briefings in Bioinformatics, 2024, 25(1), bbad419.
Authors:  Dong, Jie;  Wu, Zheng;  Xu, Huanle;  Ouyang, Defang
Favorite | TC[WOS]:5 TC[Scopus]:11  IF:6.8/7.9 | Submit date：2024/02/22
Artificial Intelligence  Computational Pharmaceutics  Drug Design  Drug Formulation  Formulationai  Webserver  
Classification of PTEN missense VUS through exascale simulations Journal article
Sinha, Siddharth, Li, Jiaheng, Tam, Benjamin, Wang, San Ming. Classification of PTEN missense VUS through exascale simulations[J]. Briefings in Bioinformatics, 2023, 24(6), bbad361.
Authors:  Sinha, Siddharth;  Li, Jiaheng;  Tam, Benjamin;  Wang, San Ming
Favorite | TC[WOS]:1 TC[Scopus]:1  IF:6.8/7.9 | Submit date：2023/12/04
Evolution Selection  Lipid Phosphatase Activity  Md Simulations  Pten  Replica Exchange Molecular Dynamics (Remd) Simulations  Variants Of Uncertain Significance (Vus)  
FungiExpresZ: an intuitive package for fungal gene expression data analysis, visualization and discovery Journal article
Parsania, Chirag, Chen, Ruiwen, Sethiya, Pooja, Miao, Zhengqiang, Dong, Liguo, Wong, Koon Ho. FungiExpresZ: an intuitive package for fungal gene expression data analysis, visualization and discovery[J]. Briefings in Bioinformatics, 2023, 24(2), 1–12.
Authors:  Parsania, Chirag;  Chen, Ruiwen;  Sethiya, Pooja;  Miao, Zhengqiang;  Dong, Liguo; et al.
Favorite | TC[WOS]:2 TC[Scopus]:2  IF:6.8/7.9 | Submit date：2023/04/03
Fungiexpresz  Bioinformatics Tool  Rna-seq Database  Data Visualization  Data Analysis  Fungi  
PIWI-interacting RNAs in human diseases: databases and computational models Review article
2022
Authors:  Zhang, Tianjiao;  Chen, Liang;  Li, Rongzhen;  Liu, Ning;  Huang, Xiaobing; et al.
Favorite | TC[WOS]:6 TC[Scopus]:8  IF:6.8/7.9 | Submit date：2022/08/02
Argonaute Protein  Bioinformatics  Database  Pirna  Transposon  
Hiplot: A comprehensive and easy-To-use web service for boosting publication-ready biomedical data visualization Journal article
Li, Jianfeng, Miao, Benben, Wang, Shixiang, Dong, Wei, Xu, Houshi, Si, Chenchen, Wang, Wei, Duan, Songqi, Lou, Jiacheng, Bao, Zhiwei, Zeng, Hailuan, Yang, Zengzeng, Cheng, Wenyan, Zhao, Fei, Zeng, Jianming, Liu, Xue Song, Wu, Renxie, Shen, Yang, Chen, Zhu, Chen, Saijuan, Wang, Mingjie. Hiplot: A comprehensive and easy-To-use web service for boosting publication-ready biomedical data visualization[J]. Briefings in Bioinformatics, 2022, 23(4), 1-15.
Authors:  Li, Jianfeng;  Miao, Benben;  Wang, Shixiang;  Dong, Wei;  Xu, Houshi; et al.
Favorite | TC[WOS]:130 TC[Scopus]:132  IF:6.8/7.9 | Submit date：2022/10/07
Data Mining  Data Visualization  Risk Models  Translational Medicine  Web Service  
ChemGenerator: A web server for generating potential ligands for specific targets Journal article
Jing Yang, Ling Hou, Kun-Meng Liu, Wen-Bin He, Yong Cai, Feng-Qing Yang, Yuan-Jia Hu. ChemGenerator: A web server for generating potential ligands for specific targets[J]. Briefings in Bioinformatics, 2021, 22(4).
Authors:  Jing Yang;  Ling Hou;  Kun-Meng Liu;  Wen-Bin He;  Yong Cai; et al.
Favorite | TC[WOS]:0 TC[Scopus]:2  IF:6.8/7.9 | Submit date：2021/12/08
Autoencoder  Deep Learning  Long Short-term Memory (Lstm)  Molecular Generation  Web Server