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  • Getting gene coordinate not exons

    Hi:
    Is there a way to get gene coordinates rather exon coordinates for Hg19 as a bed file.

    I do not want exon coordinates since it is repeating my values from a different file.

    I want to have:

    Chr1 x y Gene1
    Chr1 x1 y1 Gene2
    chr1 x1 y3 Gene3

    Thanks
    Adrian

  • #2
    You can use the Biomart of Ensembl to recover this file.



    Choose your dataset (human, mouse, ...)

    Select the attributes you want. Here:

    Features => GENE :

    Ensembl Gene ID
    Gene Start (bp)
    Gene End (bp)
    Chromosome Name

    (clear "Ensembl Transcript ID", which is checked by default)

    Click on "Results" and export the data.

    Comment


    • #3
      thank you. it was helpful

      Comment


      • #4
        You're welcome

        Comment

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