SNP Detail For rs1689800
1.Mapping Information
Human SNP ID rs1689800
Human chromosome chr1
Human SNP position 182199750
Pig chromosome chr9
Pig SNP position 135780321
2.Annotation Information
PubMed ID20686565
JournalNature
Linkwww.ncbi.nlm.nih.gov/pubmed/20686565
StudyBiological, clinical and population relevance of 95 loci for blood lipids.
Disease/TraitHDL cholesterol
Initial sample99,900 European ancestry individuals
Replication sampleNA
Region1q25.3
Chromosome idchr1
Chromosome position182199750
Reported geneZNF648
Mapped geneLOC105371641
Upstream gene id
Downstream gene id
SNP gene ids105371641
Upstream gene distance
Downstream gene distance
SNP risk allelers1689800-G
SNPsrs1689800
Merged0
SNP id current1689800
Contextintron_variant
Intergenic0
Allele frequency0.35
P value0.0000000003
Pvalue mlog9.52287874528033
P value text
Or beta0.47
%95 Ci[0.31-0.63] mg/dL decrease
PlatformAffymetrix, Illumina, Perlegen [~ 2600000] (imputed)
CNVN
Mapped traithigh density lipoprotein cholesterol measurement
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004612
Study accessionGCST000755
PubMed ID24097068
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/24097068
StudyDiscovery and refinement of loci associated with lipid levels.
Disease/TraitHDL cholesterol
Initial sample94,595 European ancestry individuals
Replication sample93,982 European ancestry individuals
Region1q25.3
Chromosome idchr1
Chromosome position182199750
Reported geneZNF648
Mapped geneLOC105371641
Upstream gene id
Downstream gene id
SNP gene ids105371641
Upstream gene distance
Downstream gene distance
SNP risk allelers1689800-G
SNPsrs1689800
Merged0
SNP id current1689800
Contextintron_variant
Intergenic0
Allele frequency0.35
P value5E-20
Pvalue mlog19.3010299956639
P value text
Or beta0.034
%95 Ci[NR] unit decrease
PlatformNR [NR] (imputed)
CNVN
Mapped traithigh density lipoprotein cholesterol measurement
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004612
Study accessionGCST002223