Question: Combining fastq reads of twin pairs to increase coverage
0
gravatar for KJ
3.6 years ago by
KJ10
Netherlands
KJ10 wrote:

Suppose I have fastq reads of both co-twins of monozygotic twins. Would it be beneficial to combine the fastq reads of these two people to increase coverage? Is this commonly done?

I'd assume that coverage would increase hugely, with the only drawback being less sensitive to detect post-twinning mutations since the mutation in one twin would not be seen in sequence reads in the other twin.

 

All suggestions / links are more than welcome!

sequencing twins next-gen fastq • 677 views
ADD COMMENTlink modified 3.6 years ago by andrew.j.skelton735.7k • written 3.6 years ago by KJ10

Are you talking about genome sequencing? (Not ChIP-seq/RNA-seq).

ADD REPLYlink written 3.6 years ago by jotan1.2k

Whole genome sequencing, yes.

ADD REPLYlink written 3.0 years ago by KJ10
0
gravatar for andrew.j.skelton73
3.6 years ago by
London
andrew.j.skelton735.7k wrote:

As an exploratory measure, maybe. It depends what your experimental question is. 

ADD COMMENTlink written 3.6 years ago by andrew.j.skelton735.7k

I was thinking, maybe to discovere pre-twinning mutations

ADD REPLYlink written 3.0 years ago by KJ10

In that case, don't combine. Keep them separate and look for differences between call sets.

ADD REPLYlink written 3.0 years ago by andrew.j.skelton735.7k
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