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Old 05-10-2016, 02:05 AM   #2
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Location: Cambridge

Join Date: Sep 2010
Posts: 115
Default Try lowering the concentration by 10x when loading the bioanalyzer.

Those traces resemble the "broad peaks" artefacts from Sanger sequencing machine, which were a result of sequencing reaction working too well (or too long injection time), which basically causes a congestion in the capillary, causing loss of size separation.

If you check those traces on the time scale, you should see, that they take a bit longer to come out, than normally.

Also you can see from the makers, that the sample concentration is ~10X higher, than in the first case. So try rerunning your libraries with 10x or more dilution, and see what you get.

Also some sort of proteins/etc bound to DNA may cause similar "Gel - shift" pattern.
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