Hi Pauline,
The worst I got was actually 30% and this was using a cassette that fail the test the user is supposed to do every time.
Typically I get around 70% (same target size than you or lower). Amount of DNA doesn't seem to matter.
I always change the elution buffer in the casette.
However, I find that when I run a gel after the Covaris shearing for QC purpose the size I input in the PippinPrep are sometime different. I haven't troubleshooted this, but it could be that the different reagents (i.e. different kits to extract gDNA) could impact the precision of the run.
The advantage of not using an automated system is that you see your material and the ladder. You could run the PippinPrep "manually". I would suggest yo and try to extract bands in a DNA ladder to get familiar with the process before extracting your real material this way.
My recommendation is to contact Sage Science directly, they are very nice.
The worst I got was actually 30% and this was using a cassette that fail the test the user is supposed to do every time.
Typically I get around 70% (same target size than you or lower). Amount of DNA doesn't seem to matter.
I always change the elution buffer in the casette.
However, I find that when I run a gel after the Covaris shearing for QC purpose the size I input in the PippinPrep are sometime different. I haven't troubleshooted this, but it could be that the different reagents (i.e. different kits to extract gDNA) could impact the precision of the run.
The advantage of not using an automated system is that you see your material and the ladder. You could run the PippinPrep "manually". I would suggest yo and try to extract bands in a DNA ladder to get familiar with the process before extracting your real material this way.
My recommendation is to contact Sage Science directly, they are very nice.
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