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Library prep inquiry
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Sindhuja Devanapally
Mar 6, 2012, 2:40:27 PM3/6/12
to aut...@magpie.bio.indiana.edu
Hi,
I have a question related to library prep of genomic DNA (*C.elegans*)
prior to whole genome sequencing using Illumina platform.
With previous samples, my lab had used fragmented DNA of size range 100-250
bp before sending it for sequencing. However, the Bioanalyzer results gave
us an unwanted DNA smear at 90 bp region which we presumed were
adapter-dimers. We had then performed gel extraction/purification for a
second time before sequencing.
To avoid that again with our new samples, we thought it would be better to
use fragmented DNA of the size range 300-600 bp.
- What difference, if any, will this make in any aspect (e.g.: number of
reads for each base)?
- Will this affect the amount of coverage as compared to before?
Thank you for your time.
Best,
Sindhuja
I have a question related to library prep of genomic DNA (*C.elegans*)
prior to whole genome sequencing using Illumina platform.
With previous samples, my lab had used fragmented DNA of size range 100-250
bp before sending it for sequencing. However, the Bioanalyzer results gave
us an unwanted DNA smear at 90 bp region which we presumed were
adapter-dimers. We had then performed gel extraction/purification for a
second time before sequencing.
To avoid that again with our new samples, we thought it would be better to
use fragmented DNA of the size range 300-600 bp.
- What difference, if any, will this make in any aspect (e.g.: number of
reads for each base)?
- Will this affect the amount of coverage as compared to before?
Thank you for your time.
Best,
Sindhuja
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