SNP Detail For rs174538
1.Mapping Information
Human SNP ID rs174538
Human chromosome chr11
Human SNP position 61792609
Pig chromosome chr2
Pig SNP position 9241225
2.Annotation Information
PubMed ID21829377
JournalPLoS Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/21829377
StudyGenetic loci associated with plasma phospholipid n-3 fatty acids: a meta-analysis of genome-wide association studies from the CHARGE Consortium.
Disease/TraitPhospholipid levels (plasma)
Initial sample8,866 European ancestry individuals
Replication sampleNA
Region11q12.2
Chromosome idchr11
Chromosome position61792609
Reported geneC11orf10
Mapped geneTMEM258
Upstream gene id
Downstream gene id
SNP gene ids746
Upstream gene distance
Downstream gene distance
SNP risk allelers174538-A
SNPsrs174538
Merged0
SNP id current174538
Context5_prime_UTR_variant
Intergenic0
Allele frequencyNR
P value5E-58
Pvalue mlog57.3010299956639
P value text(EPA)
Or beta0.08
%95 Ci[NR] % decrease
PlatformAffymetrix, Illumina [NR]
CNVN
Mapped traitphospholipid measurement
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004639
Study accessionGCST001178
PubMed ID24816252
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/24816252
StudyAn atlas of genetic influences on human blood metabolites.
Disease/TraitBlood metabolite levels
Initial sample7,824 European ancestry individuals
Replication sampleNA
Region11q12.2
Chromosome idchr11
Chromosome position61792609
Reported geneFADS1
Mapped geneTMEM258
Upstream gene id
Downstream gene id
SNP gene ids746
Upstream gene distance
Downstream gene distance
SNP risk allelers174538-A
SNPsrs174538
Merged0
SNP id current174538
Context5_prime_UTR_variant
Intergenic0
Allele frequency0.3
P value0.00000000000009
Pvalue mlog13.0457574905606
P value text(docosapentaenoate (n3 DPA; 22:5n3))
Or beta0.026
%95 Ci[0.018-0.034] unit decrease
PlatformAffymetrix, Illumina [2100000] (imputed)
CNVN
Mapped traitblood metabolite measurement
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0005664
Study accessionGCST002443
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 position61792609
Reported geneNR
Mapped geneTMEM258
Upstream gene id
Downstream gene id
SNP gene ids746
Upstream gene distance
Downstream gene distance
SNP risk allelers174538-A
SNPsrs174538
Merged0
SNP id current174538
Context5_prime_UTR_variant
Intergenic0
Allele frequency0.2955
P value0.000000000001
Pvalue mlog12
P value text(Cis/trans-18:2, EA)
Or beta0.0031
%95 Ci[0.0023-0.0039] 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