Ensembl Variation Sources Documentation

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List of Variation sources for each species - Ensembl 63

# Bos taurus

SourceVersionDescription
dbSNP 130 Variants (including SNPs and indels) imported from dbSNP

# Canis familiaris

SourceVersionDescription
dbSNP 126 Variants (including SNPs and indels) imported from dbSNP
DGVa 05/2011 Database of Genomic Variants Archive

# Danio rerio

SourceVersionDescription
dbSNP 130 Variants (including SNPs and indels) imported from dbSNP [remapped from build 7]
Sanger - Variants called by the Stemple Lab at Sanger for the SATMap project

# Drosophila melanogaster

SourceVersionDescription
DPGP 1 Variation features from DPGP, with Ensembl identifiers

# Equus caballus

SourceVersionDescription
dbSNP 130 Variants (including SNPs and indels) imported from dbSNP

# Felis catus

SourceVersionDescription
dbSNP 127 Variants (including SNPs and indels) imported from dbSNP [http://www.ncbi.nlm.nih.gov/projects/SNP/] and mapped to the CAT assembly

# Gallus gallus

SourceVersionDescription
dbSNP 128 Variants (including SNPs and indels) imported from dbSNP

# Homo sapiens

SourceVersionDescription
dbSNP 132 Variants (including SNPs and indels) imported from dbSNP [http://www.ncbi.nlm.nih.gov/projects/SNP/]
Affy GeneChip 100K Array - Variants from the Affymetrix GeneChip Human Mapping 100K Array Set
Affy GeneChip 500K Array - Variants from the Affymetrix GeneChip Human Mapping 500K Array Set
Affy GenomeWideSNP_6.0 - Variants from the Affymetrix Genome-Wide Human SNP Array 6.0
Illumina_CytoSNP12v1 - Variants from the Illumina Cyto SNP-12 v1 whole genome SNP genotyping chip designed for cytogenetic analysis
Illumina_Human660W-quad - Variants from the Illumina Human 660W-Quad whole genome SNP genotyping chip designed for association studies
Illumina_Human1M-duoV3 - Variants from the Illumina Human 1M-DuoV3 whole genome SNP genotyping chip designed for association studies
Affy GenomeWideSNP_6.0 CNV - Copy Number Variation (CNV) probes from the Affymetrix Genome-Wide Human SNP Array 6.0
DGVa 05/2011 Database of Genomic Variants Archive
ENSEMBL - Variants called by Ensembl
NHGRI_GWAS_catalog 13/05/2011 Variants associated with phenotype data from the NHGRI GWAS catalog
COSMIC 53 Somatic mutations found in human cancers from the COSMIC project
EGA 05/2011 Variants imported from the European Genome-phenome Archive with phenotype association
Uniprot 05/2011 Variants annotated by Uniprot
HGMD-PUBLIC 01/2011 Variants from HGMD-PUBLIC data set January 2011 [remapped from build NCBI36]
OMIM 05/2011 Variations linked to entries in the Online Mendelian Inheritance in Man (OMIM) database
Open Access GWAS Database - Johnson & O'Donnell 'An Open Access Database of Genome-wide Association Results' PMID:19161620
LSDB_LEPRE1 08/04/2011 LEPRE1 homepage - Osteogenesis Imperfecta Variant Database - Leiden Open Variation Database
LSDB_PPIB 17/02/2011 PPIB homepage - Osteogenesis Imperfecta Variant Database - Leiden Open Variation Database
LSDB_CRTAP 08/04/2011 CRTAP homepage - Osteogenesis Imperfecta Variant Database - Leiden Open Variation Database
LSDB_FKBP10 16/05/2011 FKBP10 homepage - Osteogenesis Imperfecta Variant Database - Leiden Open Variation Database

# Monodelphis domestica

SourceVersionDescription
dbSNP 128 Variants (including SNPs and indels) imported from dbSNP [http://www.ncbi.nlm.nih.gov/projects/SNP/]

# Mus musculus

SourceVersionDescription
dbSNP 132 Variants (including SNPs and indels) imported from dbSNP [http://www.ncbi.nlm.nih.gov/projects/SNP/]
ENSEMBL:Sanger - Variants called by the Ensembl pipeline
DGVa 05/2011 Database of Genomic Variants Archive

# Ornithorhynchus anatinus

SourceVersionDescription
ENSEMBL - Variants called by the ENSEMBL pipeline
dbSNP - Variants (including SNPs and indels) imported from dbSNP

# Pan troglodytes

SourceVersionDescription
dbSNP 125 Variants (including SNPs and indels) imported from dbSNP

# Pongo abelii

SourceVersionDescription
ENSEMBL - Variants called by the ENSEMBL pipeline

# Rattus norvegicus

SourceVersionDescription
dbSNP 130 Variants (including SNPs and indels) imported from dbSNP
ENSEMBL:celera - Variants from Celera called by the ENSEMBL pipeline
ENSEMBL:STAR-4strain - Variants in STAR-4strain called by the ENSEMBL pipeline
ENSEMBL:STAR-gtype - Variants in STAR-gtype called by the ENSEMBL pipeline
ENSEMBL:RNB1 - Variants in RNB1 called by the ENSEMBL pipeline

# Saccharomyces cerevisiae

SourceVersionDescription
SGRP - Variation features from SGRP, with Ensembl identifiers

# Sus scrofa

SourceVersionDescription
dbSNP 128 Variants (including SNPs and indels) imported from dbSNP [remapped from NCBI Sus scrofa build 1.1]
Illumina_PorcineSNP60 60 PorcineSNP60 BeadChip
DGVa 05/2011 Database of Genomic Variants Archive

# Taeniopygia guttata

SourceVersionDescription
dbSNP 131 Variants (including SNPs and indels) imported from dbSNP [http://www.ncbi.nlm.nih.gov/projects/SNP/] and mapped to the Taeniopygia_guttata-3.2.4 assembly

# Tetraodon nigroviridis

SourceVersionDescription
dbSNP 132 Variants (including SNPs and indels) imported from dbSNP [http://www.ncbi.nlm.nih.gov/projects/SNP/] and mapped to the TETRAODON 8.0 assembly