Question: Number of private variants/singletons in identical twins
1
gravatar for TimK
2.9 years ago by
TimK10
TimK10 wrote:

Hi,

I was wondering how many singletons/private variants there might be (on average) between identical twins (WGS). Any suggestions?

Cheers, Tim

snp genome • 752 views
ADD COMMENTlink modified 2.9 years ago by WouterDeCoster38k • written 2.9 years ago by TimK10
2
gravatar for WouterDeCoster
2.9 years ago by
Belgium
WouterDeCoster38k wrote:

There will be a few, but these might also be sequencing artefacts. You never know until you validate. If you want to play around with real twin data (generated by Complete Genomics), you can do that here: http://genomecomb.sourceforge.net/publications/filters/filterselection.php You can customize the filter properties.Depending on how stringent you are you'll get less false positive differences and more true positive real differences between the two genomes.

Disclaimer: data and tool from my department

ADD COMMENTlink modified 2.9 years ago • written 2.9 years ago by WouterDeCoster38k
1
gravatar for Zaag
2.9 years ago by
Zaag720
Amsterdam
Zaag720 wrote:

Most research suggests none:

http://www.nature.com/nature/journal/v464/n7293/full/nature08990.html

http://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-15-564

Or 5:

http://www.sciencedirect.com/science/article/pii/S1872497313002275

ADD COMMENTlink written 2.9 years ago by Zaag720
2

If you single cell sequenced two cells from just one human, I would imagine that there would be from dozens to hundreds (if not more) SNPs. But perhaps the question is how many SNPs there are between the consensus genome sequences of twins? I imagine in this case SNP count drops dramatically..

ADD REPLYlink modified 2.9 years ago • written 2.9 years ago by 5heikki8.4k
1

You are right about the single cell genome sequencing.

ADD REPLYlink written 2.9 years ago by WouterDeCoster38k
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