SNP Detail For rs174570
1.Mapping Information
Human SNP ID rs174570
Human chromosome chr11
Human SNP position 61829740
Pig chromosome chr2
Pig SNP position 9120847
2.Annotation Information
PubMed ID19060911
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/19060911
StudyLoci influencing lipid levels and coronary heart disease risk in 16 European population cohorts.
Disease/TraitCholesterol, total
Initial sample21,848 European ancestry individuals, 714 Orcadian individuals
Replication sampleNA
Region11q12.2
Chromosome idchr11
Chromosome position61829740
Reported geneFADS2, FADS3
Mapped geneFADS2
Upstream gene id
Downstream gene id
SNP gene ids9415
Upstream gene distance
Downstream gene distance
SNP risk allelers174570-G
SNPsrs174570
Merged0
SNP id current174570
Contextintron_variant
Intergenic0
Allele frequency0.83
P value0.0000000002
Pvalue mlog9.69897000433601
P value text
Or beta0.09
%95 Ci[NR] s.d. increase
PlatformAffymetrix, Illumina [up to 600000]
CNVN
Mapped traittotal cholesterol measurement
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004574
Study accessionGCST000285
PubMed ID19060911
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/19060911
StudyLoci influencing lipid levels and coronary heart disease risk in 16 European population cohorts.
Disease/TraitLDL cholesterol
Initial sample17,083 European ancestry individuals, 714 Orcadian individuals
Replication sampleNA
Region11q12.2
Chromosome idchr11
Chromosome position61829740
Reported geneFADS2, FADS3
Mapped geneFADS2
Upstream gene id
Downstream gene id
SNP gene ids9415
Upstream gene distance
Downstream gene distance
SNP risk allelers174570-G
SNPsrs174570
Merged0
SNP id current174570
Contextintron_variant
Intergenic0
Allele frequency0.83
P value0.0000000000004
Pvalue mlog12.397940008672
P value text
Or beta0.11
%95 Ci[NR] s.d. increase
PlatformAffymetrix, Illumina [up to 600000]
CNVN
Mapped traitlow density lipoprotein cholesterol measurement
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004611
Study accessionGCST000282
PubMed ID19060911
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/19060911
StudyLoci influencing lipid levels and coronary heart disease risk in 16 European population cohorts.
Disease/TraitHDL cholesterol
Initial sample20,697 European ancestry individuals, 715 Orcadian individuals
Replication sampleNA
Region11q12.2
Chromosome idchr11
Chromosome position61829740
Reported geneFADS2, FADS3
Mapped geneFADS2
Upstream gene id
Downstream gene id
SNP gene ids9415
Upstream gene distance
Downstream gene distance
SNP risk allelers174570-G
SNPsrs174570
Merged0
SNP id current174570
Contextintron_variant
Intergenic0
Allele frequency0.83
P value0.000004
Pvalue mlog5.39794000867203
P value text
Or beta0.06
%95 Ci[NR] s.d. increase
PlatformAffymetrix, Illumina [up to 600000]
CNVN
Mapped traithigh density lipoprotein cholesterol measurement
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004612
Study accessionGCST000288
PubMed ID24647736
JournalDiabetes
Linkwww.ncbi.nlm.nih.gov/pubmed/24647736
StudyMultiple nonglycemic genomic loci are newly associated with blood level of glycated hemoglobin in East Asians.
Disease/TraitGlycated hemoglobin levels
Initial sample17,290 East Asian ancestry individuals, 1,727 Malay ancestry individuals
Replication sampleup to 13,585 East Asian ancestry individuals
Region11q12.2
Chromosome idchr11
Chromosome position61829740
Reported geneFADS2
Mapped geneFADS2
Upstream gene id
Downstream gene id
SNP gene ids9415
Upstream gene distance
Downstream gene distance
SNP risk allelers174570-C
SNPsrs174570
Merged0
SNP id current174570
Contextintron_variant
Intergenic0
Allele frequency0.55
P value0.0000002
Pvalue mlog6.69897000433601
P value text
Or beta0.04
%95 Ci[0.020-0.060] unit increase
PlatformAffymetrix, Illumina [up to 2400000] (imputed)
CNVN
Mapped traitA1C measurement
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004541
Study accessionGCST002390
PubMed ID25646338
JournalAm J Clin Nutr
Linkwww.ncbi.nlm.nih.gov/pubmed/25646338
StudyGenetic loci associated with circulating phospholipid trans fatty acids: a meta-analysis of genome-wide association studies from the CHARGE Consortium.
Disease/TraitTrans fatty acid levels
Initial sample8,013 European ancestry individuals
Replication sample1,082 African American individuals, 669 Chinese ancestry individuals, 657 Hispanic individuals
Region11q12.2
Chromosome idchr11
Chromosome position61829740
Reported geneNR
Mapped geneFADS2
Upstream gene id
Downstream gene id
SNP gene ids9415
Upstream gene distance
Downstream gene distance
SNP risk allelers174570-T
SNPsrs174570
Merged0
SNP id current174570
Contextintron_variant
Intergenic0
Allele frequency0.1353
P value0.0000001
Pvalue mlog7
P value text(Cis/trans-18:2, EA)
Or beta0.0032
%95 Ci[0.002-0.0044] unit increase
PlatformAffymetrix, Illumina [~ 2500000] (imputed)
CNVN
Mapped traitcis/trans-18:2 fatty acid measurement, trans fatty acid measurement
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0006824, http://www.ebi.ac.uk/efo/EFO_0006821
Study accessionGCST002721