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Old 04-15-2013, 07:29 AM   #1
kate0007
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Location: Minneapolis

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Default Illumina TruSeq ChIP Library Prep Size Selection

I am using the Illumina TruSeq ChIP Library prep kit to generate a library following chromatin immunoprecipitation. I will then sequence 100 bp, paired-end reads on the Illumina HiSeq platform. Before adapter ligation, most of my DNA fragments had a length of 200-250 bp.

What size should I cut out and recover following the adaptor ligation and PCR amplification? Thank you.
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Old 04-23-2013, 12:55 AM   #2
huguesparri
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Adapter total length is around 120pb. So if you want 2*100nt PE sequencing, try to cut your gel around 320-350pb to avoid redundant sequences.
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