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  • UCSC gene name to ensembl

    Hello everyone,

    I found Wnt target genes on:
    http://www.stanford.edu/group/nussel...t/target_genes
    Parsed those names with php, now I want to convert those names to ensembl IDs.
    For this I wanted to use UCSC mysql database, but I don't know which table I have to use for this.
    The only one I found was geneName, but then I only get an crc (Checksum of name, which is used to speedup the update of this table).

    Which table do I need, or is there another solution to get these ensembl IDs?

  • #2
    Have you tried the BioMart tool on the ensembl site? It is pretty intuitive to use and there is a link for it up at the top of the Ensembl webpage next to Blast/Blat.

    If you are coding savvy then you can use their API: http://www.ensembl.org/info/docs/api..._tutorial.html
    Last edited by GenoMax; 12-14-2012, 08:46 AM.

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