SNP Detail For rs228769
1.Mapping Information
Human SNP ID rs228769
Human chromosome chr17
Human SNP position 44115817
Pig chromosome chr12
Pig SNP position 19310618
2.Annotation Information
PubMed ID19801982
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/19801982
StudyTwenty bone-mineral-density loci identified by large-scale meta-analysis of genome-wide association studies.
Disease/TraitBone mineral density (spine)
Initial sample19,195 European ancestry individuals
Replication sampleNA
Region17q21.31
Chromosome idchr17
Chromosome position44115817
Reported geneHDAC5
Mapped geneLOC105371789, HDAC5
Upstream gene id
Downstream gene id
SNP gene ids105371789, 10014
Upstream gene distance
Downstream gene distance
SNP risk allelers228769-G
SNPsrs228769
Merged0
SNP id current228769
Contextintron_variant
Intergenic0
Allele frequency0.2
P value0.000004
Pvalue mlog5.39794000867203
P value text
Or beta0.07
%95 Ci[0.04-0.10] s.d. increase
PlatformAffymetrix, Illumina [2543686] (imputed)
CNVN
Mapped traitbone density
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0003923
Study accessionGCST000494
PubMed ID19801982
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/19801982
StudyTwenty bone-mineral-density loci identified by large-scale meta-analysis of genome-wide association studies.
Disease/TraitBone mineral density (hip)
Initial sample19,195 European ancestry individuals
Replication sampleNA
Region17q21.31
Chromosome idchr17
Chromosome position44115817
Reported geneHDAC5
Mapped geneLOC105371789, HDAC5
Upstream gene id
Downstream gene id
SNP gene ids105371789, 10014
Upstream gene distance
Downstream gene distance
SNP risk allelers228769-G
SNPsrs228769
Merged0
SNP id current228769
Contextintron_variant
Intergenic0
Allele frequency0.2
P value0.00000002
Pvalue mlog7.69897000433601
P value text
Or beta0.08
%95 Ci[0.05-0.11] s.d. increase
PlatformAffymetrix, Illumina [2543686] (imputed)
CNVN
Mapped traitbone density
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0003923
Study accessionGCST000495