Question: Did dbSNP not get the memo about hg38 chromosome names?
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gravatar for Jeremy Leipzig
3.5 years ago by
Philadelphia, PA
Jeremy Leipzig18k wrote:

I thought everyone was switching over to 'chr1' style chromosome names for hg38. Why do I still see the Ensembl-style chromosome names here?

tabix -l ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b146_GRCh38p2/VCF/00-All.vcf.gz
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hg38 grch38 • 1.3k views
ADD COMMENTlink modified 3.5 years ago by Dan Gaston7.1k • written 3.5 years ago by Jeremy Leipzig18k
2

I never heard that there was any kind of consensus, and FWIW I'd have argued that "chr" prefixes are dumb and should go away. ;)

ADD REPLYlink written 3.5 years ago by Chris Miller20k
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gravatar for Dan Gaston
3.5 years ago by
Dan Gaston7.1k
Canada
Dan Gaston7.1k wrote:

Last I had heard there was a failure with standardizing on the chromosome names as planned. I thought NBCI was going to follow the UCSC convention though, but Ensemble wasn't switching their naming scheme due to worry about breaking existing pipelines, etc.

ADD COMMENTlink written 3.5 years ago by Dan Gaston7.1k
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