Is Human_G1K_V37.Fasta Hg19?
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10.0 years ago
Bioscientist ★ 1.7k

Recently got humang1kv37.fasta file Just curious if this is hg19 sequence? Because hg19 is also called GRCh37. What does "g1k" mean?

If not, from where can I get the chromosome sequence for humang1kv37.fasta?

thanks

hg • 12k views
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10.0 years ago
Wen.Huang ★ 1.2k

http://www.1000genomes.org/category/assembly

g1k = 1000 genomes

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It is one version of hg19, but not the only one. From the linked page: "For the phase1 analysis we mapped to GRCh37. Our fasta file which can be found here called human_g1k_v37.fasta.gz, it contains the autosomes, X, Y and MT but no haplotype sequence or EBV"

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thanks! so human_g1k_v37 = hg19 ?

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human_g1k_v37 is a version of hg19

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7 months ago
desouzareis.r ▴ 250

There is a good documentation about 4 commonly used "hg19" references here.

hg19 (ucsc.hg19.fasta, MD5sum: a244d8a32473650b25c6e8e1654387d6)

b37 (Homo_sapiens_assembly19.fasta, MD5sum: 886ba1559393f75872c1cf459eb57f2d)

GRCh37 (GRCh37.p13.genome.fasta, MD5sum: c140882eb2ea89bc2edfe934d51b66cc)

humanG1Kv37 (human_g1k_v37.fasta, MD5sum: 0ce84c872fc0072a885926823dcd0338)

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