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Old 04-08-2011, 07:10 AM   #3
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Location: Austria

Join Date: Apr 2009
Posts: 181

Originally Posted by Heisman View Post
A high duplicate percentage comes from (generally) too many PCR cycles pre-hybridization. For standard exomes we typically see < 5% PCR duplicates using Agilent SureSelect.

5% is impressively low. Would the target size range have an affect? We are sampling just 500 genes and not a whole exome. I've noticed PCR duplicates from 14% to 50% in our data. I am trying to convince the wet lab people to lower their PCR cycles.

How many cycles are you doing? I think wetlab is doing 16 cycles..
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