Thursday, October 31, 2013

1000genomes data, note


ftp://ftp-trace.ncbi.nih.gov/1000genomes/ftp/

2010 July SNP
ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/pilot_data/release/2010_07/exon/snps/

Populations are described at
http://www.1000genomes.org/about

697 total samples from 7 populations

              CEU: 90 samples, utah
              TSI: 66 samples, Toscani, Italy
              CHB: 109 samples, beijing
              CHD: 107 samples, ? 
              JPT: 105 samples, Japanese
              LWK: 108 samples, Luhya, Kenya
              YRI: 112 samples Yoruba, Nigeria

Initial target selection targeted ~1,000 genes (~10,000 exons or 2.3Mb), using CCDS annotations. The current data release only includes SNP calls that fell into regions 
that were successfully captured by all four data producing centers. The number of these regions is ~8496 , of total target length of ~1.43Mb.


NameSizeDate Modified
[parent directory]
CEU.exon.2010_03.genotypes.vcf.gz592 kB11/11/10 12:00:00 AM
CEU.exon.2010_03.genotypes.vcf.gz.tbi20.9 kB11/11/10 12:00:00 AM
CEU.exon.2010_03.sites.vcf.gz53.1 kB7/7/10 12:00:00 AM
CEU.exon.2010_03.sites.vcf.gz.tbi19.1 kB7/7/10 12:00:00 AM
CHB.exon.2010_03.genotypes.vcf.gz627 kB11/11/10 12:00:00 AM
CHB.exon.2010_03.genotypes.vcf.gz.tbi20.7 kB11/11/10 12:00:00 AM
CHB.exon.2010_03.sites.vcf.gz49.4 kB7/7/10 12:00:00 AM
CHB.exon.2010_03.sites.vcf.gz.tbi18.9 kB7/7/10 12:00:00 AM
CHD.exon.2010_03.genotypes.vcf.gz649 kB11/11/10 12:00:00 AM
CHD.exon.2010_03.genotypes.vcf.gz.tbi20.8 kB11/11/10 12:00:00 AM
CHD.exon.2010_03.sites.vcf.gz48.6 kB7/7/10 12:00:00 AM
CHD.exon.2010_03.sites.vcf.gz.tbi19.0 kB7/7/10 12:00:00 AM
JPT.exon.2010_03.genotypes.vcf.gz545 kB11/11/10 12:00:00 AM
JPT.exon.2010_03.genotypes.vcf.gz.tbi19.7 kB11/11/10 12:00:00 AM
JPT.exon.2010_03.sites.vcf.gz44.1 kB7/7/10 12:00:00 AM
JPT.exon.2010_03.sites.vcf.gz.tbi17.9 kB7/7/10 12:00:00 AM
LWK.exon.2010_03.genotypes.vcf.gz910 kB11/11/10 12:00:00 AM
LWK.exon.2010_03.genotypes.vcf.gz.tbi23.9 kB11/11/10 12:00:00 AM
LWK.exon.2010_03.sites.vcf.gz74.0 kB7/7/10 12:00:00 AM
LWK.exon.2010_03.sites.vcf.gz.tbi22.0 kB7/7/10 12:00:00 AM
README.2010_03.exon_snps4.9 kB6/18/10 12:00:00 AM
TSI.exon.2010_03.genotypes.vcf.gz424 kB11/11/10 12:00:00 AM
TSI.exon.2010_03.genotypes.vcf.gz.tbi20.4 kB11/11/10 12:00:00 AM
TSI.exon.2010_03.genotypes.vcf.tbi72 B6/30/10 12:00:00 AM
TSI.exon.2010_03.sites.vcf.gz49.3 kB7/7/10 12:00:00 AM
TSI.exon.2010_03.sites.vcf.gz.tbi18.7 kB7/7/10 12:00:00 AM
YRI.exon.2010_03.genotypes.vcf.gz976 kB11/11/10 12:00:00 AM
YRI.exon.2010_03.genotypes.vcf.gz.tbi23.9 kB11/11/10 12:00:00 AM
YRI.exon.2010_03.sites.vcf.gz75.5 kB7/7/10 12:00:00 AM
YRI.exon.2010_03.sites.vcf.gz.tbi21.9 kB7/7/10 12:00:00 AM
exon.snps.LOF.txt7.7 kB7/19/10 12:00:00 AM
experimental_validation/7/20/10 12:00:00 AM

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