SNP Detail For rs13130484
1.Mapping Information
Human SNP ID rs13130484
Human chromosome chr4
Human SNP position 45173674
Pig chromosome chr8
Pig SNP position 37334405
2.Annotation Information
PubMed ID23563607
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/23563607
StudyGenome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.
Disease/TraitObesity
Initial sample93,015 European ancestry overweight individuals, 32,858 European ancestry class I obese individuals, 9,889 European ancestry class II obese individuals, 2,896 European ancestry class III obese individuals, up to 65,840 European ancestry controls
Replication sample65,332 European ancestry overweight individuals, 22,373 European ancestry class I obese individuals, 5,476 European ancestry class II obese individuals, 1,162 European ancestry class III obese individuals, up to 39,294 European ancestry controls
Region4p12
Chromosome idchr4
Chromosome position45173674
Reported geneGNPDA2
Mapped geneLOC105374441 - PRKRIRP9
Upstream gene id105374441
Downstream gene id100131309
SNP gene ids
Upstream gene distance249087
Downstream gene distance150071
SNP risk allelers13130484-T
SNPsrs13130484
Merged0
SNP id current13130484
Contextintergenic_variant
Intergenic1
Allele frequency0.43
P value4E-28
Pvalue mlog27.397940008672
P value text(Overweight)
Or beta1.08
%95 Ci[NR]
PlatformAffymetrix, Illumina [~ 2800000] (imputed)
CNVN
Mapped traitobesity
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0001073
Study accessionGCST001953
PubMed ID23669352
JournalHum Mol Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/23669352
StudyGenome-wide analysis of BMI in adolescents and young adults reveals additional insight into the effects of genetic loci over the life course.
Disease/TraitBody mass index
Initial sampleUp to 13,627 European ancestry individuals
Replication sampleUp to 16,253 European ancestry individuals
Region4p12
Chromosome idchr4
Chromosome position45173674
Reported geneGNPDA2
Mapped geneLOC105374441 - PRKRIRP9
Upstream gene id105374441
Downstream gene id100131309
SNP gene ids
Upstream gene distance249087
Downstream gene distance150071
SNP risk allelers13130484-T
SNPsrs13130484
Merged0
SNP id current13130484
Contextintergenic_variant
Intergenic1
Allele frequency0.43
P value0.000000006
Pvalue mlog8.22184874961635
P value text
Or beta0.05
%95 Ci[0.032-0.068] unit increase
PlatformAffymetrix, Illumina [557887] (imputed)
CNVN
Mapped traitbody mass index
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004340
Study accessionGCST002021
PubMed ID23563607
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/23563607
StudyGenome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.
Disease/TraitObesity
Initial sample93,015 European ancestry overweight individuals, 32,858 European ancestry class I obese individuals, 9,889 European ancestry class II obese individuals, 2,896 European ancestry class III obese individuals, up to 65,840 European ancestry controls
Replication sample65,332 European ancestry overweight individuals, 22,373 European ancestry class I obese individuals, 5,476 European ancestry class II obese individuals, 1,162 European ancestry class III obese individuals, up to 39,294 European ancestry controls
Region4p12
Chromosome idchr4
Chromosome position45173674
Reported geneGNPDA2
Mapped geneLOC105374441 - PRKRIRP9
Upstream gene id105374441
Downstream gene id100131309
SNP gene ids
Upstream gene distance249087
Downstream gene distance150071
SNP risk allelers13130484-T
SNPsrs13130484
Merged0
SNP id current13130484
Contextintergenic_variant
Intergenic1
Allele frequency0.43
P value0.000000000000000003
Pvalue mlog17.5228787452803
P value text(Obesity class II)
Or beta1.14
%95 Ci[NR]
PlatformAffymetrix, Illumina [~ 2800000] (imputed)
CNVN
Mapped traitobesity
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0001073
Study accessionGCST001953
PubMed ID26604143
JournalHum Mol Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/26604143
StudyGenome-wide association analysis identifies three new susceptibility loci for childhood body mass index.
Disease/TraitChildhood body mass index
Initial sample34,744 European ancestry children
Replication sample11,313 European ancestry children
Region4p12
Chromosome idchr4
Chromosome position45173674
Reported geneGNPDA2
Mapped geneLOC105374441 - PRKRIRP9
Upstream gene id105374441
Downstream gene id100131309
SNP gene ids
Upstream gene distance249087
Downstream gene distance150071
SNP risk allelers13130484-T
SNPsrs13130484
Merged0
SNP id current13130484
Contextintergenic_variant
Intergenic1
Allele frequency0.44
P value2E-23
Pvalue mlog22.698970004336
P value text
Or beta0.067
%95 Ci[0.053-0.081] unit increase
PlatformAffymetrix, Illumina [2499691] (imputed)
CNVN
Mapped traitbody mass index
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004340
Study accessionGCST003177