Allliance of Genome Resources Orthology

Tab separated formatted spreadsheet of orthology annotations from the Alliance of Genome Resources. The Alliance provides the results of all methods that have been benchmarked by the Quest for Orthologs Consortium (QfO), as well as curated ortholog inferences from HGNC (for human and mouse genes), Xenbase (for frog genes), and ZFIN (relating zebrafish genes to orthologs in human, mouse, and fly). The ortholog inferences from the different methods have been integrated using the DRSC Integrative Ortholog Prediction Tool (DIOPT). DIOPT integrates a number of existing methods including those used by the Alliance: Ensembl Compara, HGNC, Hieranoid, InParanoid, OMA, OrthoFinder, OrthoInspector, PANTHER, PhylomeDB, SonicParanoid, Xenbase, and ZFIN. See the DIOPT documentation for additional information and references related to the included methods. DIOPT assigns a score/count based on the number of methods that call a specific ortholog. For noncoding RNA genes, currently only HGNC and ZFIN curated orthologs are included. File includes orthology relationships among genes from the following organisms: Homo sapiens (human; NCBI:txid 9606) Caenorhabditis elegans (nematode; NCBI:txid 6239) Danio rerio (zebrafish;NCBI:txid 7955) Drosophila melanogaster (fruit fly; NCBI:txid 7227) Mus musculus (mouse; NCBI:txid10090) Rattus norvegicus (rat; NCBI:txid 10116) Saccharomyces cerevisiae (yeast; NCBI:txid 559292) Xenopus laevis (African clawed frog; NCBI:txid 8355) Xenopus tropicalis (Western clawed frog; NCBI:txid 8364)