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human genomic variation studies
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Database info
Project Genome Build dbSNP
VarioWatch
NCBI 36.3 dbSNP 130
PrimerZ
NCBI 36.3 (Human)
Ensembl v54
dbSNP 130 (Human)


Detail source Information
VarioWatch Data Size Release Date Source Species
DNA Sequence 36 version (hs_ref_chr*.fa.gz) *
2008/03/24
NCBI FTP
Human
ideogram.gz 53K
2006/02/08
NCBI FTP
Human
UniVariation.bcp.gz 6448K
2010/05/28
NCBI FTP
Human
SNP.bcp.gz 215512K
2009/06/04
NCBI FTP
Human
b130_ContigInfo_36_3.bcp.gz 158K
2010/02/26
NCBI FTP
Human
b130_SNPContigLoc_36_3.bcp.gz 1445912K
2009/05/08
NCBI FTP
Human
protein.fa.gz 8396K
N/A
NCBI FTP
Human
rna.fa.gz 30508K
N/A
NCBI FTP
Human
human.protein.gpff.gz 76706K
N/A
NCBI FTP
Human
seq_gene.md.gz 20763K
2010/04/05
NCBI FTP
Human
seq_gene.q.gz 6091K
2010/04/05
NCBI FTP
Human
nr.gz N/A
N/A
NCBI FTP
Human
blast-2.2.22-x64-linux.tar.gz 32961K
2009/09/27
NCBI FTP
Human
UniSTS.sts 74M
2010/11
NCBI FTP
Human
UniSTS.aliases 17M
2010/11
NCBI FTP
Human
TNG.txt 1248K
2008/03/04
NCBI FTP
Human
seq_sts.md.gz 21M
2010/11/10
NCBI FTP
Human
seq_contig.md.gz 141K
2010/04/05
NCBI FTP
Human
GO (go_201011-assocdb-data.gz) 1.2GB
2010/11
Gene Ontology
Human
ESE.txt 1666B
2002/11/22
genes.mit.edu
Human
fas-hex2.txt 1232B
2005/01/17
genes.mit.edu
Human
sift4.0tar 5980K
2009/11/25
SIFT
Human
uniprot_sprot.dat.gz 406M
2010/11/02
EMBL-EBI
Human
Allele frequencies (2010/08_phaseII+III) *
2010/08/18
HapMap FTP
Human
Allele frequencies (Han Chinese in Taiwan) *
2009
NGC
Human
Affy 10K (Mapping10K_Xba142.na30.annot.csv.zip) 3.1M
2009/11/15
Affymetrix
Human
Affy 100K (Mapping50K_Hind240.na30.annot.csv.zip / Mapping50K_Xba240.na30.annot.csv.zip) 12M / 12M
2009/11/15
Affymetrix
Human
Affy 500K (Mapping250K_Nsp.na30.annot.csv.zip / Mapping250K_Sty.na30.annot.csv.zip) 81M / 74M
2009/11/15
Affymetrix
Human
Affy 5.0 (GenomeWideSNP_5.na30.annot.csv.zip) 136M
2009/11/15
Affymetrix
Human
Affy 6.0 (GenomeWideSNP_6.na30.annot.csv.zip) 284M
2009/11/15
Affymetrix
Human
1000 Genomes Project 2010_10 pilot 1 - low coverage
  • CEU.low_coverage.2010_09.genotypes.vcf.gz
  • CEU.low_coverage.2010_09.xchr.genotypes.vcf.gz
  • CHBJPT.low_coverage.2010_09.genotypes.vcf.gz
  • CHBJPT.low_coverage.2010_09.xchr.genotypes.vcf.gz
  • YRI.low_coverage.2010_09.genotypes.vcf.gz
  • YRI.low_coverage.2010_09.xchr.genotypes.vcf.gz

  • 747M
  • 30M
  • 567M
  • 25M
  • 969M
  • 61M
2010/10
ftp.1000genomes.ebi.ac.uk
Human
1000 Genomes Project 2010_10 pilot 3 - gene regions
  • CEU.exon.2010_09.genotypes.vcf.gz
  • CHB.exon.2010_09.genotypes.vcf.gz
  • CHD.exon.2010_09.genotypes.vcf.gz
  • JPT.exon.2010_09.genotypes.vcf.gz
  • LWK.exon.2010_09.genotypes.vcf.gz
  • TSI.exon.2010_09.genotypes.vcf.gz
  • YRI.exon.2010_09.genotypes.vcf.gz

  • 625K
  • 661K
  • 684K
  • 573K
  • 963K
  • 454K
  • 1.1M
2010/10
ftp.1000genomes.ebi.ac.uk
Human
Pubmed
Real time
NCBI Web
Human
gwascatalog.txt 3.9M
National Human Genome Research Institute (NHGRI)
Human
mirdsnp-dsnps-v11.03.csv 189K
2011/03 (v11.03)
miRdSNP
Human
SNPedia.gff 4.0M
2012/02/08
SNPedia
Human
PrimerZ Data Size Release Date Source Species
DNA Sequence 36 version (hs_ref_chr*.fa.gz) *
2008/03/24
NCBI FTP
Human
ideogram.gz 53K
2006/02/08
NCBI FTP
Human
UniVariation.bcp.gz 6448K
2010/05/28
NCBI FTP
Human
SNP.bcp.gz 215512K
2009/06/04
NCBI FTP
Human
b130_ContigInfo_36_3.bcp.gz 158K
2010/02/26
NCBI FTP
Human
b130_SNPContigLoc_36_3.bcp.gz 1445912K
2009/05/08
NCBI FTP
Human
seq_gene.md.gz 20763K
2010/04/05
NCBI FTP
Human
seq_gene.q.gz 6091K
2010/04/05
NCBI FTP
Human
NCBI 37.2
Real time
NCBI Web
Mouse
Ensembl v54 (homo_sapiens_core_54_36p) *
2009/5/1
Ensembl FTP
Human