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Resource:InParanoid: Eukaryotic Ortholog Groups

Name: Resource:InParanoid: Eukaryotic Ortholog Groups
Description: Collection of pairwise comparisons between 100 whole genomes generated by a fully automatic method for finding orthologs and in-paralogs between TWO species. Ortholog clusters in the InParanoid are seeded with a two-way best pairwise match, after which an algorithm for adding in-paralogs is applied. The method bypasses multiple alignments and phylogenetic trees, which can be slow and error-prone steps in classical ortholog detection. Still, it robustly detects complex orthologous relationships and assigns confidence values for in-paralogs. The original data sets can be downloaded.
Other Name(s): Inparanoid eukaryotic ortholog database
Parent Organization: Stockholm University; Stockholm; Sweden
Supporting Agency: Swedish Research Council, Karolinska Institutet; Stockholm; Sweden, Pfizer Corporation
Resource Type(s): Database, Data analysis service
Keywords: protein, ortholog, genome, drosophila pseudoobscura, duplication, entamoeba histolytica, escherichia colik12, eukaryotic, gasterosteus aculeatus, gene, aedes aegypti, apis mellifera, bos taurus, caenorhabditis remanei, candida glabrata, canis familiaris, ciona intestinalis, cryptococcus neoformans, debaromyces hansenii, dictyostelium discoideum, genomic, homolog, inparalog, kluyveromyces lactis, macaca mulatta, monodelphis domestica, orthology, oryza sativa, outparalog, proteome, tetraodon nigroviridis, xenopus tropicalis, BLAST, proteome, ortholog cluster, cluster, in-paralog, paralog, automatic clustering, genome comparison
Abbreviation: InParanoid
Resource: Resource
URL: http://inparanoid.sbc.su.se/cgi-bin/index.cgi
PMID: PMID 19892828, 18055500, 15608241, 11743721
Availability: Please cite
Address: Department of Biochemistry and Biophysics, Stockholm Bioinformatics Centre, AlbaNova University Centre, Stockholm University, SE-10691 Stockholm, Sweden.
Id: nif-0000-03024
Organism: Eukaryote, Escherichia coli, Anopheles gambiae, Caenorhabditis briggsae, Caenorhabditis elegans, Drosophila melanogaster, Zebrafish, Takifugu rubripes, Chicken, Human, Mouse, Chimpanzee, Rat, Oryza sativa, Plasmodium falciparum, Arabidopsis thaliana, Saccharomyces cerevisiae, Schizosaccharomyces pombe
Link to OWL / RDF: Download this content as OWL/RDF

Curation status: Uncurated

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Old URL: http://www.cgb.ki.se/inparanoid/

Contributors

Aarnaud, Ccdbuser, Nifbot2



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Facts about Resource:InParanoid: Eukaryotic Ortholog GroupsRDF feed
AbbrevInParanoid  +
AddressDepartment of Biochemistry and Biophysics  +, Stockholm Bioinformatics Centre  +, AlbaNova University Centre  +, Stockholm University  +, SE-10691 Stockholm  +, and Sweden.  +
AvailabilityPlease cite  +
CurationStatuscurated  +
DefiningCitationhttp://inparanoid.sbc.su.se/cgi-bin/index.cgi  +
DefinitionCollection of pairwise comparisons between Collection of pairwise comparisons between 100 whole genomes generated by a fully automatic method for finding orthologs and in-paralogs between TWO species. Ortholog clusters in the InParanoid are seeded with a two-way best pairwise match, after which an algorithm for adding in-paralogs is applied. The method bypasses multiple alignments and phylogenetic trees, which can be slow and error-prone steps in classical ortholog detection. Still, it robustly detects complex orthologous relationships and assigns confidence values for in-paralogs. The original data sets can be downloaded. The original data sets can be downloaded.
ExampleImageInParanoid.PNG  +
Has default formThis property is a special property in this wiki.Resource  +
Has roleDatabase  +, and Data analysis service  +
Idnif-0000-03024  +
Is part ofStockholm University; Stockholm; Sweden  +
KeywordsProtein  +, Ortholog  +, Genome  +, Drosophila pseudoobscura  +, Duplication  +, Entamoeba histolytica  +, Escherichia colik12  +, Eukaryotic  +, Gasterosteus aculeatus  +, Gene  +, Aedes aegypti  +, Apis mellifera  +, Bos taurus  +, Caenorhabditis remanei  +, Candida glabrata  +, Canis familiaris  +, Ciona intestinalis  +, Cryptococcus neoformans  +, Debaromyces hansenii  +, Dictyostelium discoideum  +, Genomic  +, Homolog  +, Inparalog  +, Kluyveromyces lactis  +, Macaca mulatta  +, Monodelphis domestica  +, Orthology  +, Oryza sativa  +, Outparalog  +, Proteome  +, Tetraodon nigroviridis  +, Xenopus tropicalis  +, BLAST  +, Ortholog cluster  +, Cluster  +, In-paralog  +, Paralog  +, Automatic clustering  +, and Genome comparison  +
LabelResource:InParanoid: Eukaryotic Ortholog Groups  +
ModifiedDate18 March 2013  +
PMID19892828, 18055500, 15608241, 11743721  +
Page has default formThis property is a special property in this wiki.Resource  +
SpeciesEukaryote  +, Escherichia coli  +, Anopheles gambiae  +, Caenorhabditis briggsae  +, Caenorhabditis elegans  +, Drosophila melanogaster  +, Zebrafish  +, Takifugu rubripes  +, Chicken  +, Human  +, Mouse  +, Chimpanzee  +, Rat  +, Oryza sativa  +, Plasmodium falciparum  +, Arabidopsis thaliana  +, Saccharomyces cerevisiae  +, and Schizosaccharomyces pombe  +
SuperCategoryResource  +
Supporting AgencySwedish Research Council  +, Karolinska Institutet; Stockholm; Sweden  +, and Pfizer Corporation  +
SynonymInparanoid eukaryotic ortholog database  +