How to download Grch38p7 database associated DBSNP151
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2.1 years ago
clear.choi ▴ 30

Hi,

I downloaded dbsnp 151 version of vcf file. I found that vcf file is using the Grch38p7 database.

I have HG38 database which sequence name like "chr1,chr2,chr3 ...".

And VCF file looks like 1,2,3 instead of chr1, chr2 and chr3...

I'd like to use the correct reference for dbsnp151.

I found one in the below location.

https://www.ncbi.nlm.nih.gov/assembly/GCF_000001405.33/

However, sequence name like "NC_000001.11 Homo sapiens chromosome 1, GRCh38.p7 Primary Assembly"

Which is not like only "1,2,3"..

could someone help me to find the correct database for dbsnp151?

Thank you!

vcf fasta hg38 dbsnp SNP • 724 views
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Entering edit mode
2.1 years ago
Ahill ★ 1.9k

Believe this thread answers your question: https://bioinformatics.stackexchange.com/questions/4272/update-dbsnp-id

Also worth reviewing threads like: Human dna reference file with no prefix 'chr'

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