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Table 1 Comparison of GOTM with related software*
| FatiGO | Onto-Express | GOSurfer | GoMiner | GOTM | |
|---|---|---|---|---|---|
| Interface/OS | Web | Web | Windows | Windows/Mac | Web |
| Input Identifier | Unigene ID, Gene symbol, Swiss-Prot ID, Ensembl ID, GenBank ID | GenBank ID, Affymetrix probe set ID, Unigene ID | Affymetrix probe set ID, LocusID, Unigene ID | HUGO gene names | LocusID, Gene symbol, Affymetrix probe set ID, UnigeneID, Swiss-Prot ID, Ensembl ID |
| Multi-level analysis | No | Yes | Yes | Yes | Yes |
| Visualization of classification | Bar chart, Table, Fixed tree | Bar chart, Table | Fixed tree | Expandable tree, DAG | Expandable tree, Bar chart, Fixed tree |
| Statistical Analysis | Fisher's exact test | Binomial test, χ2 test, Fisher's exact test | χ2 test | Fisher's exact test | Hypergeometric test |
| Correction for multiple tests | Yes | Yes | No | No | No |
| Visualization of enriched GO categories | Bar chart, Table | Bar chart, Table | Highlight in the full GOTree | Highlight in the full DAG | Sub-tree and DAG of enriched GO categories; Highlight in the full GOTree and bar chart |
| Availability | Free | Partially free | Free | Free | Free |
