PigVar

1.Mapping Information

Human SNP ID	rs2282679
Human chromosome	chr4
Human SNP position	71742666
Pig chromosome	chr8
Pig SNP position	72228777

2.Annotation Information

PubMed ID	20418485
Journal	Hum Mol Genet
Link	www.ncbi.nlm.nih.gov/pubmed/20418485
Study	Genome-wide association study of circulating vitamin D levels.
Disease/Trait	Vitamin D levels
Initial sample	4,501 European ancestry individuals
Replication sample	2,221 European ancestry individuals
Region	4q13.3
Chromosome id	chr4
Chromosome position	71742666
Reported gene	GC
Mapped gene	GC
Upstream gene id
Downstream gene id
SNP gene ids	2638
Upstream gene distance
Downstream gene distance
SNP risk allele	rs2282679-C
SNPs	rs2282679
Merged	0
SNP id current	2282679
Context	intron_variant
Intergenic	0
Allele frequency	0.26
P value	2E-49
Pvalue mlog	48.698970004336
P value text
Or beta	0.38
%95 Ci	[0.32-0.44] unit decrease
Platform	Affymetrix, Illumina [593253] (imputed)
CNV	N
Mapped trait	vitamin D measurement
Mapped trait URI	http://www.ebi.ac.uk/efo/EFO_0004631
Study accession	GCST000664

PubMed ID	20541252
Journal	Lancet
Link	www.ncbi.nlm.nih.gov/pubmed/20541252
Study	Common genetic determinants of vitamin D insufficiency: a genome-wide association study.
Disease/Trait	Vitamin D insufficiency
Initial sample	16,125 European ancestry individuals
Replication sample	17,871 European ancestry individuals
Region	4q13.3
Chromosome id	chr4
Chromosome position	71742666
Reported gene	GC
Mapped gene	GC
Upstream gene id
Downstream gene id
SNP gene ids	2638
Upstream gene distance
Downstream gene distance
SNP risk allele	rs2282679-?
SNPs	rs2282679
Merged	0
SNP id current	2282679
Context	intron_variant
Intergenic	0
Allele frequency	0.29
P value	2E-109
Pvalue mlog	108.698970004336
P value text
Or beta
%95 Ci
Platform	Affymetrix, Illumina [up to 2548976] (imputed)
CNV	N
Mapped trait	vitamin D deficiency
Mapped trait URI	http://www.ebi.ac.uk/efo/EFO_0003762
Study accession	GCST000697

PubMed ID	22673963
Journal	Hum Genet
Link	www.ncbi.nlm.nih.gov/pubmed/22673963
Study	Genome-wide association analysis of circulating vitamin D levels in children with asthma.
Disease/Trait	Vitamin D levels
Initial sample	422 European ancestry trios with asthmatic children, 150 European ancestry asthmatic child cases
Replication sample	1,108 Hispanic asthmatic child cases
Region	4q13.3
Chromosome id	chr4
Chromosome position	71742666
Reported gene	GC
Mapped gene	GC
Upstream gene id
Downstream gene id
SNP gene ids	2638
Upstream gene distance
Downstream gene distance
SNP risk allele	rs2282679-?
SNPs	rs2282679
Merged	0
SNP id current	2282679
Context	intron_variant
Intergenic	0
Allele frequency	0.29
P value	0.00000000000002
Pvalue mlog	13.698970004336
P value text
Or beta
%95 Ci
Platform	Illumina [547645]
CNV	N
Mapped trait	vitamin D measurement
Mapped trait URI	http://www.ebi.ac.uk/efo/EFO_0004631
Study accession	GCST001560

THE PIG VARIATIONS AND POSITIVE SELECTION DATABASE