If you know of any other database, please edit this page directly or contact us. The detailed table is the new preferred format–please help us complete it
| Database | Description / Scientific focus applications (Max. 2 sentences) | Last updated | Update frequency | QFO Reference Proteomes | Taxonomic range covered | Number of organisms | Web service available | OrthoXML available |
|---|---|---|---|---|---|---|---|---|
| DIOPT | Integrative ortholog prediction tool of 10 algorithms | 2016 | partially | major model organisms | 9 | yes | no | |
| eggNOG | A database for phylogenetically refined Orthologous Groups and functional annotation. | 2016 | biennial | no | all domains of life (plus viruses) | 1793 prokaryote proteomes, 238 eukaryotes, 352 viruses | yes | no |
| Ensembl Compara | Evolutionary relationships among Ensembl species genes; Projection of gene names and GO annotations | 2016 | 4-5x / year | no | all domains of life through 6 divisions (sets of species) | 66 chordates and 240 others | yes | yes |
| FUNGIpath | FUNGIpath is a web service dedicated to the exploration of fungal metabolism. More info on the database here. More info on the orthologs detection method here. | 2014 | variable | yes http://bim.igmors.u-psud.fr/mario/ | Fungi | 165 | yes | yes for the QFO reference proteomes |
| GreenPhylDB | Database for comparative and functional genomics in plants. gene family clustering, manual curation and phylogenomic inference of orthologs | 2014 | variable | no | Viridiplantae | 37 | yes | no |
| HieranoiDB | Database of ortholog trees inferred by Hieranoid; speciation and duplication nodes are marked; inparalogs are assigned a confidence score | 2016 | yes | all domains of life | 66 | no | yes | |
| InParanoiDB | Database of 2-species full-length protein and domain ortholog groups with inparalogs; inparalogs and seed orthologs are assigned a confidence score | 2023 | yes | all domains of life | 640 | no | yes | |
| metaPhOrs | Phylogeny-based orthologs and paralogs computed using a consistency-based algorithms and phylogenetic trees available in 12 public repositories | 2021 | yes | all domains of life | 6,384 | yes | no | |
| OMA | Phylogenetic reconstruction, function prediction and ancestral genome content through different types of orthologous groups | 2023 | 2x / year | partially | all domains of life | >2500 | yes | yes |
| OrthoDB | Comparative genomics, gene function inference, phylogenomics | 2016 | yearly | no | all domains of life and viruses | >4000 Prok., 588 Euk., & >3000 vir. | yes | no |
| OrthoInspector | Databases of pairwise orthology and inparalogy relationships | 2015 | yes | all domains of life | 259 Eukaryotes, 1688 Prokaryotes | yes | yes | |
| OrtholugeDB | Ortholog predictions for completely sequenced bacterial and archaeal genomes, with additional assessment using Ortholuge to improve specificity | 2016 | 1x / year | no | bacteria and archaea | >2000 | yes | yes |
| PANTHER | Evolutionary relationships among model organism genes; Inference of gene function using GO terms | 2023 | yearly | yes | all domains of life | 143 | yes | yes |
| PhylomeDB | Genome-wide collection of gene evolutionary histories, and phylogeny-based orthology and paralogy prediction | 2023 | yes | all domains of life | >1000 | yes | yes | |
| PLAZA | Plant comparative genomics database, focusing on dicots, monocots and green algae. More info about data types here | 2014 | no | Viridiplantae | Dicots 3.0 31, Monocots 3.0 16 | no | no | |
| TreeFam | Catalogue of gene families; Phylogenetic reconstruction | 2012 | Next update in 2015 | no | metazoans + model eukaryotes | 109 | no | no |
| WORMHOLE | Machine learning-based integration of 17 ortholog prediction methods. | 2016 | variable | no | major model organisms | 6 | yes | no |
