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orthology_databases [2017/07/07 14:32]
Erik Sonnhammer
orthology_databases [2017/08/10 14:12]
odilelecompte
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 genome content through different types of orthologous groups]] | 2017 | 2x / year  | partially | all domains of life | >2000 | [[http://​omabrowser.org/​oma/​APISOAP|yes]] ​ | yes | 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://​www.pathogenomics.sfu.ca/​ortholugedb/​|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 | | [[http://​www.pathogenomics.sfu.ca/​ortholugedb/​|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 |
 +| [[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.pantherdb.org/​|PANTHER]] ​  | Evolutionary relationships among model organism genes; Inference of gene function using GO terms    | 2016 | yearly | yes | all domains of life | [[http://​pantherdb.org/​panther/​summaryStats.jsp|104]] ​ | [[http://​pantherdb.org/​help/​PANTHERhelp.jsp#​V.A.|yes]] ​ | no | | [[http://​www.pantherdb.org/​|PANTHER]] ​  | Evolutionary relationships among model organism genes; Inference of gene function using GO terms    | 2016 | yearly | yes | all domains of life | [[http://​pantherdb.org/​panther/​summaryStats.jsp|104]] ​ | [[http://​pantherdb.org/​help/​PANTHERhelp.jsp#​V.A.|yes]] ​ | no |
 | [[http://​bioinformatics.psb.ugent.be/​plaza/​|PLAZA]] | Plant comparative genomics database, focusing on dicots, monocots and green algae. More info about data types [[http://​bioinformatics.psb.ugent.be/​knowledge/​wiki-plaza/​data_content|here]]| 2014 | | no | Viridiplantae ​ | Dicots 3.0 [[http://​bioinformatics.psb.ugent.be/​plaza/​versions/​plaza_v3_dicots/​|31]],​ Monocots 3.0 [[http://​bioinformatics.psb.ugent.be/​plaza/​versions/​plaza_v3_monocots/​|16]] ​ | no | no | | [[http://​bioinformatics.psb.ugent.be/​plaza/​|PLAZA]] | Plant comparative genomics database, focusing on dicots, monocots and green algae. More info about data types [[http://​bioinformatics.psb.ugent.be/​knowledge/​wiki-plaza/​data_content|here]]| 2014 | | no | Viridiplantae ​ | Dicots 3.0 [[http://​bioinformatics.psb.ugent.be/​plaza/​versions/​plaza_v3_dicots/​|31]],​ Monocots 3.0 [[http://​bioinformatics.psb.ugent.be/​plaza/​versions/​plaza_v3_monocots/​|16]] ​ | no | no |
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   - [[http://​cegg.unige.ch/​orthodb|OrthoDB]] ([[http://​en.wikipedia.org/​wiki/​OrthoDB|OrthoDB on Wikipedia]])   - [[http://​cegg.unige.ch/​orthodb|OrthoDB]] ([[http://​en.wikipedia.org/​wiki/​OrthoDB|OrthoDB on Wikipedia]])
   - [[http://​nypg.bio.nyu.edu/​orthologid/​|OrthologID]]   - [[http://​nypg.bio.nyu.edu/​orthologid/​|OrthologID]]
-  - [[http://​lbgi.igbmc.fr/​orthoinspector/​|OrthoInspector]] 
   - [[http://​www.orthomcl.org/​|OrthoMCL]]   - [[http://​www.orthomcl.org/​|OrthoMCL]]
   - PhIGs   - PhIGs