Hi everyone,
In order to reduce the library preparation cost, I am thinking of use my own barcode system by incorporating the 6bp barcodes at the 5' of forward primers. However, if I only have, say 4 samples, the base complexity would be rather low as I imagined. Therefore, I am posting out another of my thoughts for you to evaluate.
How about add extra 4 degenerated bases before the barcode? Each forward primer would look like this:
XXXX-GACTTA-forward primer
------
XXXX Degenerated bases
GACTTA one of the 6base barcodes
If this design would work, we should be able to pool as few as two samples for deep sequencing.
The price for primers with a few degenerated bases is the same as the regular primer.
Any comments?
Thanks.
Jim
In order to reduce the library preparation cost, I am thinking of use my own barcode system by incorporating the 6bp barcodes at the 5' of forward primers. However, if I only have, say 4 samples, the base complexity would be rather low as I imagined. Therefore, I am posting out another of my thoughts for you to evaluate.
How about add extra 4 degenerated bases before the barcode? Each forward primer would look like this:
XXXX-GACTTA-forward primer
------
XXXX Degenerated bases
GACTTA one of the 6base barcodes
If this design would work, we should be able to pool as few as two samples for deep sequencing.
The price for primers with a few degenerated bases is the same as the regular primer.
Any comments?
Thanks.
Jim
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