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orthology_databases [2017/11/30 15:44] Admin |
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| | [[http://inparanoid.sbc.su.se/|InParanoid]] | Database of 2-species ortholog groups with inparalogs; inparalogs and seed orthologs are assigned a confidence score | 2014 | | yes | all domains of life, mostly eukaryotic | [[http://inparanoid.sbc.su.se/cgi-bin/summary.cgi|273]] | no | yes | | | [[http://inparanoid.sbc.su.se/|InParanoid]] | Database of 2-species ortholog groups with inparalogs; inparalogs and seed orthologs are assigned a confidence score | 2014 | | yes | all domains of life, mostly eukaryotic | [[http://inparanoid.sbc.su.se/cgi-bin/summary.cgi|273]] | no | yes | | ||
| | [[http://betaorthology.phylomedb.org/|metaPhOrs]] | Phylogeny-based orthologs and paralogs computed using a consistency-based algorithms and phylogenetic trees available in 12 public repositories | 2015 | | yes | all domains of life | 2,714 | yes | no | | | [[http://betaorthology.phylomedb.org/|metaPhOrs]] | Phylogeny-based orthologs and paralogs computed using a consistency-based algorithms and phylogenetic trees available in 12 public repositories | 2015 | | yes | all domains of life | 2,714 | yes | no | | ||
| - | | [[http://omabrowser.org/|OMA]] | [[http://omabrowser.org/oma/about|Phylogenetic reconstruction, function prediction and ancestral genome content through different types of orthologous groups]] | 2017 | 2x / year | partially | all domains of life | >2000 | [[http://omabrowser.org/oma/APISOAP|yes]] | yes | | + | | [[http://omabrowser.org/|OMA]] | [[http://omabrowser.org/oma/about|Phylogenetic reconstruction, function prediction and ancestral genome content through different types of orthologous groups]] | [[https://omabrowser.org/static/image/history.png|2021]] | 2x / year | partially | all domains of life | >2000 | [[http://omabrowser.org/oma/APISOAP|yes]] | yes | |
| | [[http://orthodb.org/|OrthoDB]] | Comparative genomics, gene function inference, phylogenomics | [[http://www.ncbi.nlm.nih.gov/pubmed?cmd=Search&term=27899580|2016]] | yearly | no | all domains of life and viruses | >4000 Prok., 588 Euk., & >3000 vir. | [[http://www.orthodb.org/?page=api|yes]] | no | | | [[http://orthodb.org/|OrthoDB]] | Comparative genomics, gene function inference, phylogenomics | [[http://www.ncbi.nlm.nih.gov/pubmed?cmd=Search&term=27899580|2016]] | yearly | no | all domains of life and viruses | >4000 Prok., 588 Euk., & >3000 vir. | [[http://www.orthodb.org/?page=api|yes]] | no | | ||
| | [[http://www.lbgi.fr/orthoinspector/|OrthoInspector]] | Databases of pairwise orthology and inparalogy relationships | 2015 | | yes | all domains of life | 259 Eukaryotes, 1688 Prokaryotes | yes |yes | | | [[http://www.lbgi.fr/orthoinspector/|OrthoInspector]] | Databases of pairwise orthology and inparalogy relationships | 2015 | | yes | all domains of life | 259 Eukaryotes, 1688 Prokaryotes | yes |yes | | ||