Table 5.
Overview of Recommendation Algorithm-Based Computational Methods for Inferring lncRNA-Disease Association
| Method Name | Computational Principle | Data Types | Available Tool (Package or Code) | References |
|---|---|---|---|---|
| ILDMSF | similarity network fusion | lncRNA-disease association, lncRNA-lncRNA association, disease-disease association | NA | Chen et al.38 |
| NBCLDA | naive Bayesian, collaborative filtering | miRNA-disease association, miRNA-lncRNA association, lncRNA-disease association, disease-disease association | NA | Yu et al.66 |
| NCPLDA | network consistency projection | lncRNA-disease association, lncRNA-lncRNA association, disease-disease association | code (https://github.com/ghli16/NCPLDA) | Li et al.64 |
| MFLDA | matrix factorization | lncRNA-miRNA association, lncRNA-gene association, lncRNA-Gene Ontology (GO) association, lncRNA-disease association, miRNA-gene association, miRNA-disease association, gene-disease association, gene-gene association, gene-drug association, drug-drug association, gene-GO association | code (http://mlda.swu.edu.cn/codes.php?name=MFLDA) | Fu et al.70 |
| WMFLDA | matrix factorization | lncRNA-miRNA association, lncRNA-gene association, lncRNA-GO association, lncRNA-disease association, miRNA-gene association, miRNA-disease association, gene-disease association, gene-gene association, gene-drug association, drug-drug association, gene-GO association | code (http://mlda.swu.edu.cn/codes.php?name=WMFLDA) | Wang et al.83 |
| PMFILDA | probabilities matrix factorization | lncRNA-disease association, lncRNA-lncRNA association, disease-disease association, miRNA-disease association, miRNA-lncRNA association | NA | Xuan et al.71 |
| DNILMF-LDA | logistic matrix factorization, Bayesian optimization | lncRNA-disease association, lncRNA-lncRNA association, disease-disease association | NA | Li et al.73 |
| DSCMF | collaborative matrix factorization | lncRNA-disease association, lncRNA-lncRNA association, disease-disease association | NA | Gao et al.75 |
| NNLDA | matrix factorization | lncRNA-disease association | code (https://github.com/gao793583308/NNLDA) | Hu et al.74 |
| NA | SimRank measure, common neighbor-based | lncRNA-disease association | NA | Ping et al.69 |
| CFNBC | naive Bayesian, collaborative filtering | miRNA-disease association, miRNA-lncRNA association, lncRNA-disease association, disease-disease association | code (https://github.com/jingwenyu18/CFNBC) | Yu et al.65 |
| DCSLDA | distance correlation set | disease-disease association, lncRNA-disease association, miRNA-disease association, miRNA-LncRNA association, lncRNA-lncRNA association | NA | Zhao et al.40 |
| SKF-LDA | similarity kernel fusion | lncRNA-disease association, lncRNA-lncRNA association, disease-disease association | NA | Xie et al.67 |
| BLM-NPAI | bipartite local model | lncRNA-disease association, lncRNA-lncRNA association, disease-disease association | NA | Cui et al.84 |
NA, not applicable.