Hi,
has anyone had any experience with sequence capture from Nimblegen?
If I am not wrong, when you capture your sequence you end up with DNA fragments of around 400bases which have linkers 20bases-long at each side, and after DNase treatment, some of the 100b-fragments will still have these linkers. I think it is not possible to get rid of these when running Solexa machine, but is it possible in the analysis step? How do you get rid of, or handle, the linkers in the analysis?
Cheers
has anyone had any experience with sequence capture from Nimblegen?
If I am not wrong, when you capture your sequence you end up with DNA fragments of around 400bases which have linkers 20bases-long at each side, and after DNase treatment, some of the 100b-fragments will still have these linkers. I think it is not possible to get rid of these when running Solexa machine, but is it possible in the analysis step? How do you get rid of, or handle, the linkers in the analysis?
Cheers
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