Question: Appending sequence decoys and virus sequences to reference genome (GRCh38)
0
gravatar for newbio17
2.4 years ago by
newbio17300
newbio17300 wrote:

Hello,

While I was experimenting with Genomic Data Commons (GDC) pipelines, I noticed that the reference genome that they have available for download is based on GRCh38 patch from 2013.

Would it be okay to append sequence decoys (hs38d1) and virus sequences to the latest GRCh38 in attempt to create an "updated" version of the reference genome used in GDC pipelines?

The sequence decoys and virus sequences shown on this page.

Also, NCBI says that hs38d1 from 2014 is the latest version of the decoys. Should I be looking for decoy sequences from somewhere else?

Thank you.

alignment assembly genome • 1.2k views
ADD COMMENTlink modified 2.4 years ago by WouterDeCoster44k • written 2.4 years ago by newbio17300
2
gravatar for WouterDeCoster
2.4 years ago by
Belgium
WouterDeCoster44k wrote:

GRCh38 will always have the same sequence, regardless of the version/patch. The primary sequence hasn't changed - but the annotation might. So the GRCh38 patch from 2013 with decoys is still valid.

ADD COMMENTlink written 2.4 years ago by WouterDeCoster44k
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