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Ensembl Variation - Sources Documentation

List of Variation sources for each species - Ensembl 67

Bos taurus

Source		Version	Description
	dbSNP	133	Variants (including SNPs and indels) imported from dbSNP [http://www.ncbi.nlm.nih.gov/projects/SNP/]

Canis familiaris

Source		Version	Description
	dbSNP	126	Variants (including SNPs and indels) imported from dbSNP
	DGVa	10/2011	Database of Genomic Variants Archive

Danio rerio

Source		Version	Description
	dbSNP	136	Variants (including SNPs and indels) imported from dbSNP	New version

Drosophila melanogaster

Source		Version	Description
	DPGP	1	Variation features from DPGP, with Ensembl identifiers

Equus caballus

Source		Version	Description
	dbSNP	130	Variants (including SNPs and indels) imported from dbSNP

Felis catus

Source		Version	Description
	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

Source		Version	Description
	dbSNP	128	Variants (including SNPs and indels) imported from dbSNP

Homo sapiens

Source		Version	Description
	dbSNP	135	Variants (including SNPs and indels) imported from dbSNP
	DGVa	03/2012	Database of Genomic Variants Archive	New version
	NHGRI_GWAS_catalog	20/03/2012	Variants associated with phenotype data from the NHGRI GWAS catalog	New version
	COSMIC	58	Somatic mutations found in human cancers from the COSMIC project	New version
	EGA	03/2012	Variants imported from the European Genome-phenome Archive with phenotype association	New version
	Uniprot	21/03/2012	Variants with protein annotation imported from Uniprot	New version
	HGMD-PUBLIC	2012.1	Variants from HGMD-PUBLIC dataset March 2012	New version
	OMIM	26/03/2012	Variations linked to entries in the Online Mendelian Inheritance in Man (OMIM) database	New version
	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

Chip Source		Version	Description
	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

Macaca mulatta

New species!

Source		Version	Description
	dbSNP	136	Variants (including SNPs and indels) imported from dbSNP	New source
	DGVa	10/2011	Database of Genomic Variants Archive	New source

Monodelphis domestica

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

Mus musculus

Source		Version	Description
	dbSNP	132	Variants (including SNPs and indels) imported from dbSNP [http://www.ncbi.nlm.nih.gov/projects/SNP/]
	DGVa	10/2011	Database of Genomic Variants Archive

Ornithorhynchus anatinus

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

Pan troglodytes

Source		Version	Description
	dbSNP	136	Variants (including SNPs and indels) imported from dbSNP	New version

Pongo abelii

Source		Version	Description
	dbSNP	136	Variants (including SNPs and indels) imported from dbSNP	New source

Rattus norvegicus

Source		Version	Description
	dbSNP	136	Variants (including SNPs and indels) imported from dbSNP	New version

Saccharomyces cerevisiae

Source		Version	Description
	SGRP	-	Variation features from SGRP, with Ensembl identifiers

Sus scrofa

Source		Version	Description
	dbSNP	136	Variants (including SNPs and indels) imported from dbSNP	New version
	Illumina_PorcineSNP60	60	PorcineSNP60 BeadChip

Taeniopygia guttata

Source		Version	Description
	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

Source		Version	Description
	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