MvG-NRLMF: Multi-view graph neighborhood regularized logistic matrix factorization for identifying drug-target interaction

被引:0
|
作者
Zhang, Yu [3 ]
Liao, Qian
Tiwari, Prayag
Chu, Ying [1 ]
Wang, Yu [1 ]
Ding, Yi [1 ]
Zhao, Xianyi [1 ]
Wan, Jie [4 ]
Ding, Yijie [5 ]
Han, Ke [1 ,2 ]
机构
[1] Harbin Univ Commerce, Sch Comp & Informat Engn, Harbin, Peoples R China
[2] Harbin Univ Commerce, Pharmaceut Engn Technol Res Ctr, Harbin, Peoples R China
[3] Halmstad Univ, Sch Informat Technol, Halmstad, Sweden
[4] Harbin Inst Technol, Lab Space Environm & Phys Sci, Harbin, Peoples R China
[5] Univ Elect Sci & Technol China, Yangtze Delta Reg Inst Quzhou, Quzhou, Peoples R China
基金
中国国家自然科学基金;
关键词
Laplacian matrices; Drug-target interactions; Bipartite network; Multi-view; INTERACTION PREDICTION; INFORMATION; IDENTIFICATION; INTEGRATION; KERNELS; SYSTEMS;
D O I
10.1016/j.future.2024.06.046
中图分类号
TP301 [理论、方法];
学科分类号
081202 ;
摘要
Traditional methods for predicting drug-target interactions (DTIs) have significant room for improvement in terms of time period and monetary overhead. At present, machine learning-based approaches are commonly used in the drug discovery field. In this study, a multi-view graph neighborhood regularized logical matrix factorization (MvG-NRLMF) model was proposed to predict unknown DTIs. Multiple similarity matrices (kernels) were constructed from the space of drugs and targets, the corresponding Laplacian matrices were generated, and these were fused. Finally, the MvG-NRLMF model was adjusted using an alternating gradient ascent procedure for training. On the four benchmark datasets, our method was competitive, and on some datasets, our method even outperformed existing models.
引用
收藏
页码:844 / 853
页数:10
相关论文
共 50 条
  • [1] Neighborhood Regularized Logistic Matrix Factorization for Drug-Target Interaction Prediction
    Liu, Yong
    Wu, Min
    Miao, Chunyan
    Zhao, Peilin
    Li, Xiao-Li
    [J]. PLOS COMPUTATIONAL BIOLOGY, 2016, 12 (02)
  • [2] NRLMFβ: Beta-distribution-restored neighborhood regularized logistic matrix factorization for improving the performance of drug-target interaction prediction
    Ban, Tomohiro
    Ohue, Masahito
    Akiyama, Yutaka
    [J]. BIOCHEMISTRY AND BIOPHYSICS REPORTS, 2019, 18
  • [3] Drug-Target Interaction Prediction with Graph Regularized Matrix Factorization
    Ezzat, Ali
    Zhao, Peilin
    Wu, Min
    Li, Xiao-Li
    Kwoh, Chee-Keong
    [J]. IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, 2017, 14 (03) : 646 - 656
  • [4] Drug-Target Interaction Prediction via Dual Laplacian Graph Regularized Logistic Matrix Factorization
    Wang, Aizhen
    Wang, Minhui
    [J]. BIOMED RESEARCH INTERNATIONAL, 2021, 2021
  • [5] LPI-NRLMF: lncRNA-protein interaction prediction by neighborhood regularized logistic matrix factorization
    Liu, Hongsheng
    Ren, Guofei
    Hu, Huan
    Zhang, Li
    Ai, Haixin
    Zhang, Wen
    Zhao, Qi
    [J]. ONCOTARGET, 2017, 8 (61) : 103975 - 103984
  • [6] Identification of drug-target interactions via multi-view graph regularized link propagation model
    Ding, Yijie
    Tang, Jijun
    Guo, Fei
    [J]. NEUROCOMPUTING, 2021, 461 : 618 - 631
  • [7] Incomplete Multi-view Clustering via Graph Regularized Matrix Factorization
    Wen, Jie
    Zhang, Zheng
    Xu, Yong
    Zhong, Zuofeng
    [J]. COMPUTER VISION - ECCV 2018 WORKSHOPS, PT IV, 2019, 11132 : 593 - 608
  • [8] Drug-Target Interaction Prediction Based on Multi-Similarity Fusion and Sparse Dual-Graph Regularized Matrix Factorization
    Lian, Majun
    Du, Wenli
    Wang, Xinjie
    Yao, Qian
    [J]. IEEE ACCESS, 2021, 9 : 99718 - 99730
  • [9] Multi-View Clustering via Graph Regularized Symmetric Nonnegative Matrix Factorization
    Zhang, Xianchao
    Wang, Zhongxiu
    Zong, Linlin
    Yu, Hong
    [J]. PROCEEDINGS OF 2016 IEEE INTERNATIONAL CONFERENCE ON CLOUD COMPUTING AND BIG DATA ANALYSIS (ICCCBDA 2016), 2016, : 109 - 114
  • [10] Robust Dual-Graph Regularized Deep Matrix Factorization for Multi-view Clustering
    Shu, Zhenqiu
    Li, Bin
    Hu, Cong
    Yu, Zhengtao
    Wu, Xiao-Jun
    [J]. NEURAL PROCESSING LETTERS, 2023, 55 (05) : 6067 - 6087