Find Orthologs

There are many ortholog prediction tools out there. Among the popular ones for identifying disease-relevant human gene-to-fly gene relationships are DIOPT and DIOPT-DIST (see below) and Homophila (developed and maintained by the Bier lab at UCSD).

The ortholog tool most familiar to the blog founder is the DRSC Integrative Ortholog Prediction Tools (DIOPT). DIOPT compiles results from several different tools. DIOPT Diseases and Traits (DIOPT-DIST) is a spin-off of DIOPT that makes the connection from model species genes to disease-associated human genes to disease terms. At DIOPT-DIST you can (1) search with a disease or trait and generate an output list of corresponding fly orthologs of the disease- or trait-associated human genes or (2) search with a fly gene(s) and get a list of human gene orthologs of your input that have been associated through genetic study or GWAS with diseases or traits. With both tools you can click from results pages to view protein alignments, functional domains and individual tool scores.

    DIOPT-DIST's sources for disease-to-human gene links include the NCBI Online Mendelian Inheritance in Man (OMIM) resource and the NHGRI catalog of genome-wide association study (GWAS) data. Read more about DIOPT and DIOPT-DIST in Hu et al. An integrative approach to ortholog prediction for disease-focused and other functional studies. BMC Bioinformatics. 2011 Aug 31;12:357. PubMed PMID: 21880147; PubMed Central PMCID: PMC3179972.

    No comments:

    Post a Comment