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  • dafil
    Junior Member
    • Nov 2009
    • 6

    #1

    Need Help On NCBI ref Gene coordinates File

    Hi,
    I am a bit new about browsing genome . In my study, i require a flat file containing UCSC hg18 ref known gene coordinates for the forward strand.
    i.e. example
    chr start end geneName
    chr1 1000 2000 geneX

    I have tried and browsed ucsc but couldn't figure out a way to produce a flat file with these info. Can anyone please help me on this .
    thanks.
  • adamdeluca
    Member
    • Jul 2010
    • 95

    #2
    Use the table browser, select your favorite gene table (refFlat etc.), select BED as the output format.

    Comment

    • dafil
      Junior Member
      • Nov 2009
      • 6

      #3
      thanks a lot.

      Comment

      • jsp
        Junior Member
        • Nov 2008
        • 5

        #4
        Need Help On NCBI ref Gene coordinates File

        Hi,

        I need the geneName to be CBFB, SOX2, etc, which group/track should I choose?

        Comment

        • shruti
          Member
          • Mar 2010
          • 35

          #5
          Change the track to RefSeq Genes.
          Download the primary info format. You can choose to remove the info u don't want.
          Last edited by shruti; 02-10-2011, 04:00 AM.

          Comment

          • jsp
            Junior Member
            • Nov 2008
            • 5

            #6
            shruti, thanks a lot.

            Comment

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