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  • novel plany miRNA prediction without reference

    Hy, we made a 454 run of a miRNA library of a non sequenced plant. What pipeline you would suggest to predict novel miRNA considering that we have not any reference ?

    Thank you very much

  • #2
    You can use the genome of a very related plant.

    Otherwise I don't know how to do such prediction without a reference genome..

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    • #3
      There are some tools which predict the precursor mirna structure from the sequence. If im not mistaken they used HMM to do that, but I cannot remember the name of the tool.

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      • #4
        Thank you very much. I am in diffuculty about this, i'll try different ways.

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