Entering edit mode
5.6 years ago
dralka.vet
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0
I wish to know about method to confirm that insertions shown in alignment are real and not artifacts of alignment.
Thanks Alka
Do sanger sequencing.
fin swimmer
The sequence obtained by sanger sequencing only and electropherogram files looks clean, sending samples again for sequencing will economically burden the lab. However, before reporting I want to be sure.
Regards
So we are talking about Sanger Sequencing data only? Is the insertion homozygous or heterozygous?
The sequence received is by Sanger sequencing and it is RNA virus gene.
Sanger is the usual method for confirming variants. If you want another method, think about something like real-time PCR or MLPA, with primers/probes targeting the inserted sequence. As an example, real-time PCR can accurately measure HER2 duplications in HER2-positive breast cancer (I know because I have developed assays for this).