SNP Detail For rs5945619
1.Mapping Information
Human SNP ID rs5945619
Human chromosome chrX
Human SNP position 51498820
Pig chromosome chrX
Pig SNP position 50060231
2.Annotation Information
PubMed ID22219177
JournalCarcinogenesis
Linkwww.ncbi.nlm.nih.gov/pubmed/22219177
StudyA genome-wide search for loci interacting with known prostate cancer risk-associated genetic variants.
Disease/TraitProstate cancer (gene x gene interaction)
Initial sample4,723 European ancestry cases, 4,792 European ancestry controls
Replication sampleNA
Region18q12.1 x Xp11.22
Chromosome idchr18 x X
Chromosome position33347811 x 51498820
Reported geneC18orf34 x NUDT10
Mapped geneCCDC178 x NUDT11 - LINC01496
Upstream gene id
Downstream gene id
SNP gene ids
Upstream gene distance
Downstream gene distance
SNP risk allelers6507016-? x rs5945619-?
SNPsrs6507016 x rs5945619
Merged0
SNP id current
Contextintron_variant x upstream_gene_variant
Intergenic
Allele frequencyNR
P value0.000004
Pvalue mlog5.39794000867203
P value text
Or beta1.2821
%95 Ci[1.15-1.41]
PlatformAffymetrix, Illumina [1117531] (imputed)
CNVN
Mapped traitprostate carcinoma
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0001663
Study accessionGCST001370
PubMed ID18264097
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/18264097
StudyMultiple newly identified loci associated with prostate cancer susceptibility.
Disease/TraitProstate cancer
Initial sample1,854 European ancestry cases, 1,894 European ancestry controls
Replication sample3,268 European ancestry cases, 3,366 European ancestry controls
RegionXp11.22
Chromosome idchrX
Chromosome position51498820
Reported geneNUDT10, NUDT11
Mapped geneNUDT11 - LINC01496
Upstream gene id55190
Downstream gene id102723426
SNP gene ids
Upstream gene distance2213
Downstream gene distance1089
SNP risk allelers5945619-C
SNPsrs5945619
Merged0
SNP id current5945619
Contextupstream_gene_variant
Intergenic1
Allele frequency0.36
P value0.000000002
Pvalue mlog8.69897000433601
P value text
Or beta1.19
%95 Ci[1.07-1.31]
PlatformIllumina [541129]
CNVN
Mapped traitprostate carcinoma
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0001663
Study accessionGCST000152