Table 1 Comparisons of MonaGO with existing GO analysis systems with visualisation capabilities
From: MonaGO: a novel gene ontology enrichment analysis visualisation system
System | Interactive | Visualisation of enriched GO terms | Platform/dependency | Download/save data | Find similar terms/select important terms | Show relationship between GO terms | Flexible switching between pages | Flexible threshold (p-value, etc.) | Input list | Examples |
|---|---|---|---|---|---|---|---|---|---|---|
MonaGO | Yes | Chord diagram | Browser | Yes | Yes | Yes | Yes | Yes | Genes, GO terms, previous visualisation | Yes |
agriGO [24] | No | Node-link diagram | Browser | Yes | Yes | Yes | No (visualisation a subsequent step/page) | Yes | Genes, Probes | Yes |
AmiGO [25] | No | Node-link diagram | Browser | Yes | Yes | Yes | No | Yes | Genes | No |
BiNGO [20] | Yes | Node-link diagram | Cytoscape | Yes | Yes | Yes | Yes | Yes | Graph or gene list input | Yes |
DAVID [2] | No | Clustering, map | Browser, programmatically (Java, Perl, Python) | Yes | Yes | Yes | No (several pages | No | Genes | Yes |
GOEAST [21] | No | Node-link diagram | Browser | Yes | Yes | Yes | Yes | Yes | Probe set ID | No |
GOplot [19] | No | Circle plot, chord plot | R | Yes | Yes | Yes | No | Yes | GO terms only | Yes |
Gorilla [17] | No | Node-link diagram with highlights | Browser | Yes | No (abstract and redundant hierarchy) | Yes | No | Yes | Genes, proteins | Yes |
g:Profiler [16] | No | Bar chart, Word cloud | Browser | Yes | Yes (by ranking) | No (matrix denotes common genes between GO terms) | No | Yes | Genes, proteins, probes | Yes |
Metascape [26] | No | Node-link diagram, Bar chart | Browser, Cytoscape | Yes | Yes | Yes | Yes | No | RetSeq, Ensembl, Uniprot, UCSC | Yes |
PANTHER [3] | Yes | Pie chart | Browser | Yes | Yes | Yes | No (several pages) | No | Genes, proteins | Yes (only format, no complete examples) |
REVIGO [10] | Yes | Node link diagram, Treemap Word cloud, Scatterplot | Browser | Yes | Yes | Yes | Yes | Yes | GO terms | Yes |
WebGestalt [18] | Yes | Node link diagram | Cytoscape | Yes | Yes | Yes (but no interactive details about common gene lists | Yes | Yes | Genes | Yes |