Table 1 Comparison between CircNetVis and existing tools
From: CircNetVis: an interactive web application for visualizing interaction networks of circular RNAs
Method | CircNetVis | circlncRNAnet [8] | RAID [9] | circPlant [10] | CircMiMi [11] | Circr [12] |
|---|---|---|---|---|---|---|
Can work with new circRNA | Yes | No | No | Yes | No | No |
Allow circRNA-sequence input | Yes | No | No | Yes | No | Yes |
Species | Human/mouse | Human | Bacteria, fungi, insects, nematodes, plants, vertebrates, viruses | Plant | 18 species (16 animals and 2 plants) | Human/mouse |
Online/offline | Online and offline | Online | Online | Offline | Online and offline | Offline |
circRNA—miRNA interaction prediction | Yes | Yes | Yes | Yes | Yes | Yes |
circRNA—miRNA—mRNA network construction | Yes | Yes | No | Yes | Yes | No |
circRNA-RNA binding proteins interaction | Yes | Yes | Yes | No | No | No |
Pathway analysis | Yes | Yes | No | No | No | No |
circRNA-miRNA interaction predictors | miRanda, RNAhybrid, TargetScan | miRanda, RNAhybrid, TarPmiR | EIMMo, miRanda, miRDB, TargetScan | TargetFinder, Tapir | miRDB, miRTarBase, MirTarget | miRanda, RNAhybrid, TargetScan |