Question: Use whole genome bisulfite sequencing to find DNA mutations
gravatar for segelmichael
24 months ago by
United Kingdom
segelmichael0 wrote:

Hello all, Our lab currently has a large amount of bisulfite sequencing data that a collaborator of mine is looking at. He has methylation sequencing between two conditions. I was wondering whether I could use this same sequencing data to look at genomic variations/mutations (i.e. NHEJ, SNPs, Frame Shift, etc...) between the two samples. I understand how bisulfite sequencing works and what it is used for, but just want to know if there is a tool for this—i.e. something that converts that converted uracils/thymine back into the original cytosine. From there I could proceed from normal!

Thoughts? Thank you all.

Worst comes to worst we will have to repeat with normal WG DNA seq

dna bisulfite sequencing snp • 685 views
ADD COMMENTlink modified 24 months ago by Devon Ryan1.9k • written 24 months ago by segelmichael0
gravatar for Devon Ryan
24 months ago by
Devon Ryan1.9k
Devon Ryan1.9k wrote:

You can do that with BisSNP (note that it's incredibly slow), but as far as I can tell no one has bothered putting it in Galaxy yet (presumably someone could). I should note that bisulfite treatment really lowers the sequencing quality, so don't expect equivalent results to doing WGS at half the depth (half since at Cs you can only use one strand).

ADD COMMENTlink written 24 months ago by Devon Ryan1.9k
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