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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 |