This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Amount of mappable circulating DNA

Hi guys,

Does any one of you have an Idea / a link to a reference how much of circulating DNA should be mappable to the human reference genome (at the moment I don't care which version of it).

Thanks, in advance!

Best,
Phil

mapping human dna
• 2,634 views • link
updated by Ram Ram • written by Phil S. Phil S.

If the dna source is human, it will map like any other. If the dna source is non-human, that will probably vary a lot on a case-by-case basis.

• 3 views • link
written by karl.stamm karl.stamm

so basically you mean that you are able to map like 95% of reads coming from human CNAPS to the human reference genome?

• 3 views • link
updated by Ram Ram • written by Phil S. Phil S.

1 answer

Hello!

I believe the answer to your question has a strong dependence on sample quality and source (serum/plasma) and library preparation procedure.

The literature contains some info on your question. See e.g. this paper, especially Table 2 with around 10% unaligned and 20% ambiguously mapped sequences

• 0 views • link
updated by Ram Ram • written by mikhail.shugay mikhail.shugay

Log in to answer this question.

More posts like this