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Old 10-15-2013, 12:02 PM   #2
Location: Ohio

Join Date: Jul 2012
Posts: 68

Originally Posted by Mabeuf View Post

We are running a genomic library on a multiplexed miseq but we have space left for another library and were wondering if it is technically feasible to fill the space with a cDNA library?

I figure that the nucleic content is equivalent but the read structure may bias the samples? but I hope not.

This is a research design specific question, and entails understanding whether your library is targeted or not. If targeted, and the gDNA targets are different than the cDNA targets, then yes these can be demultiplexed subsequently. If they are whole genome/transcriptome library preps than a large number of areas will be difficult to discern if they came from the gDNA or cDNA, unless an obvious splice-junction was observed.

I recommend revisiting your library designs to determine if they could be parsed apart computationally. -Tom
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