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  • The Sixth Base: 5-hydroxymethylcytosine enriched in mammalian brains

    This is undoubtedly a big finding that will cause all sorts of controversy and reevaluation of theories of epigenetics. Not to mention that it's probably of interest to the sequencing community that there is a sixth base to worry about!

    Skirmantas Kriaucionis of the Heintz lab at the Rockefeller University has just published a paper in Science which describes the discovery of yet another modified cytosine nucleotide, 5-hydroxymethylcytosine, which seems particularly enriched in neuronal cells. A partner paper suggests one mechanism for the conversion from 5mC.

    The structure of 5-hydroxymethylcytosine at PubChem.

  • #2
    Oh, but I'm afraid this isn't the sixth base! That title probably belongs to base J (β-d-glucopyranosyloxymethyluracil), which to my knowledge is still impossible to sequence directly!

    I don't want to show my hand, but I've been mentally challenging myself to come up with a strategy for sequencing it. Throw 5-Hydroxymethylcytosine on the "to-do" list.
    Mendelian Disorder: A blogshare of random useful information for general public consumption. [Blog]
    Breakway: A Program to Identify Structural Variations in Genomic Data [Website] [Forum Post]
    Projects: U87MG whole genome sequence [Website] [Paper]

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    • #3
      What is the difference with methylated DNA? is it the same thing?

      Comment


      • #4
        nanopores !

        Comment


        • #5
          ? nanopores?

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