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Old 12-09-2014, 01:16 PM   #1
sequencingfan
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Default PCR duplicates

Hello,

what is PCR duplicate in NGS sequencing? Is there a detailed explanation of this problem? What is the impact of PCR duplictes to data analysis.
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Old 12-09-2014, 05:35 PM   #2
jlei_face
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Here's a good link:
http://www.cureffi.org/2012/12/11/ho...on-sequencing/
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Old 12-17-2014, 12:25 AM   #3
sequencingfan
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What about applications in which we use only Pcr to prepare libraries ( 16 s metagenomics,ion torrent ampliseq etc.).in my opinion most of reads for target region will start and end in the same positions.how to calculate real level of pcr duplication?
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Old 12-18-2014, 03:28 AM   #4
Zaag
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Quote:
Originally Posted by sequencingfan View Post
What about applications in which we use only Pcr to prepare libraries ( 16 s metagenomics,ion torrent ampliseq etc.).in my opinion most of reads for target region will start and end in the same positions.how to calculate real level of pcr duplication?
If you are building an amplicon library you will only have PCR duplicates, so you leave them in. If you build a shotgun library you'll want to remove them.
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