Table 3 |
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| Comparison with Similar Tools | ||||
| Tool Name | Average Interactions | Background Knowledge | Unique Genes in database | Organisms |
| Genes2FANs | 72.1 ± 51 | PPI, literature co-occurrence, miRNAs, co-regulation, domains, drug signatures & targets, gene signatures, metabolites, and phenotypes | 35,078 | H.sapiens, M.musculus, R.norvegicus |
| PIPs | 10.1 ± 25.2 | Co-expression, orthology, domains, co-localization, and PTMs | 5,338 | H.sapiens |
| HEFalMp | 681.3 ± 1123.2 | Functionally mapped data from microarray experiments and sequence comparisons | 24,433 | H.sapiens |
| GeneMania | 78.7 ± 39.2 | Co-expression, physical & genetic interactions, domains, co-localization, pathways, and orthology | 155,238 | H.sapiens, A.thaliana, C.elegans, D.melanogaster, M.musculus, R.norvegicus, and S.cerevisiae |
| STRING 9.0 | 24.3 ± 14.4 | Co-localization, fusion, co-occurrence, co-expression, literature co-occurrence, and orthology | 5,214,234 | 1,133 Organisms |
| FunCoup | 47.7 ± 21.9 | PPI, orthology, co-expression, miRNA, co-localization, phylogenetics, co-regulation, genetic interactions, and domains | 1,800,000 | H.sapiens, M.musculus, R.norvegicus, D.melanogaster, A.thaliana, C.elegans, S.cerevisiae,and C.intestinalis |
Comparison of Genes2FANs with five similar tools; examining the average number of interactions returned for single gene queries, the types of background knowledge for each tool, the number of unique genes/proteins in each knowledgebase, and the supported organisms.
Dannenfelser et al. BMC Bioinformatics 2012 13:156 doi:10.1186/1471-2105-13-156
