Table 1 Comparison of network-based analysis approaches considering availability and input data
From: Analysis of miRNA, mRNA, and TF interactions through network-based methods
Tool | Implementation | Input data | Input data grouping | Format of input data |
|---|---|---|---|---|
dChip-GemiNi [42] | Web server - R script | mRNA-miRNA expression data grouped into two classes | Two-class data. Paired and not paired | Textual matrices |
MAGIA 2[44] | Web server | mRNA-miRNA expression data. Time series and two-class data | Two-class and time series data | Textual matrices |
mirConnX [47] | Web server | mRNA-miRNA expression data | Two-class data | Textual matrices. Only human and mouse |
IntegraMiR [54] | R script | mRNA-miRNA expression data grouped into two classes | Two-class data | Textual matrices |