Is a human genome file with reference as NCBI37 the same as hg19?
1
0
Entering edit mode
13 months ago
a5864557 • 0

In other words, are NCBI37 and hg19 synonymous? I can't find much information for what NCBI37 is in a human (not mouse) genome.

Relevant line from VCF: "##reference=NCBI37"

vcf hg19 genome reference-genome • 1.2k views
ADD COMMENT
0
Entering edit mode

Note: I've also asked this here

ADD REPLY
0
Entering edit mode

Don't cross-post, especially on weekends. It looks like you're in a hurry and you don't care about annoying multiple communities.

ADD REPLY
1
Entering edit mode
13 months ago
GenoMax 144k

If you go to the GRCh37 page at NCBI you will see that hg19 is a synonym (mostly used by UCSC as I recall): https://www.ncbi.nlm.nih.gov/assembly/GCF_000001405.13/

Description:
    Genome Reference Consortium Human Build 37 (GRCh37)
Organism name:
    Homo sapiens (human)
BioProject:
    PRJNA31257
Submitter:
    Genome Reference Consortium
Date:
    2009/02/27
Synonyms:
    hg19

Mitochondrial genome has some differences according to the past thread: what is the difference between GRCh37 and hg19 ?

ADD COMMENT
0
Entering edit mode

I know GRCh37 is synonymous (with minor differences) with hg19. However, I'm wondering if NCBI37 is synonymous with GRCh37 and hg19. Maybe it's obvious that NCBI37 refers to GRCh37, but I haven't seen it referred to as NCBI37 before today.

ADD REPLY
0
Entering edit mode

NCBI did not use GRCm37 designation for mouse genome build. As you can see from the table below that can be found here:

enter image description here

NCBI37 should be human genome.

ADD REPLY

Login before adding your answer.

Traffic: 2950 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6