TABLE 1.
The online tools and resources of network‐based multi‐omics knowledge bases.
| Tool name | Biological entities | Implementation | Ref |
|---|---|---|---|
| netOmics | Genes, RNAs, proteins, metabolites | R package | 110 |
| HetioNet | Genes, SNPs, proteins, compounds, tissues, diseases | Online | 112 |
| MergeOmics 2.0 | Genes, SNPs, RNAs, proteins, metabolites | Online | 111 |
| MetaboAnalyst 5.0 | Genes, metabolites | Online | |
| MiBiOmics | Genes, RNAs, proteins, metabolites | Online | 113 |
| PathMe Viewer | Genes, proteins, metabolites | Online | 114 |
| OmicsNet 2.0 | Genes, proteins, TFs, miRNAs, metabolites | Online | 115 |
| PathwayCommons | Proteins, metabolites, drugs | Online CyPath2 a | 116 |
| Recon3D | Genes, metabolites | Online | 117 |
| BioCyc | Genes, proteins, metabolites | Online | 118 |
| PaintOmics3 | Genes, proteins, metabolites | Online | 119 |
| MetExplore | Genes, enzymes, metabolites | Online | 120 |
a
Applicable in Cytoscape software.