SNP Detail For rs9364554
1.Mapping Information
Human SNP ID rs9364554
Human chromosome chr6
Human SNP position 160412632
Pig chromosome chr1
Pig SNP position 8837235
2.Annotation Information
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
Region6q25.3
Chromosome idchr6
Chromosome position160412632
Reported geneSLC22A3
Mapped geneSLC22A3
Upstream gene id
Downstream gene id
SNP gene ids6581
Upstream gene distance
Downstream gene distance
SNP risk allelers9364554-T
SNPsrs9364554
Merged0
SNP id current9364554
Contextintron_variant
Intergenic0
Allele frequency0.29
P value0.0000000006
Pvalue mlog9.22184874961635
P value text
Or beta1.17
%95 Ci[1.08-1.26]
PlatformIllumina [541129]
CNVN
Mapped traitprostate carcinoma
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0001663
Study accessionGCST000152
PubMed ID26034056
JournalCancer Discov
Linkwww.ncbi.nlm.nih.gov/pubmed/26034056
StudyA large multi-ethnic genome-wide association study of prostate cancer identifies novel risk variants and substantial ethnic differences.
Disease/TraitProstate cancer
Initial sample6,406 European ancestry cases, 601 African American cases, 288 East Asian ancestry cases, 488 Latino cases30,866 European ancestry controls, 1,650 African American controls, 2,938 East Asian ancestry controls, 3,141 Latino controls
Replication sample4,599 European ancestry cases, 2,265 African American cases, 2,940 European ancestry controls, 2,414 African American controls
Region6q25.3
Chromosome idchr6
Chromosome position160412632
Reported geneSLC22A3
Mapped geneSLC22A3
Upstream gene id
Downstream gene id
SNP gene ids6581
Upstream gene distance
Downstream gene distance
SNP risk allelers9364554-T
SNPsrs9364554
Merged0
SNP id current9364554
Contextintron_variant
Intergenic0
Allele frequency0.279
P value0.000000000006
Pvalue mlog11.2218487496163
P value text
Or beta1.14
%95 Ci[1.10-1.18]
PlatformAffymetrix [up to 19977088] (imputed)
CNVN
Mapped traitprostate carcinoma
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0001663
Study accessionGCST002944
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
Region6q12 x 6q25.3
Chromosome idchr6 x 6
Chromosome position68584593 x 160412632
Reported geneBAI3 x NR
Mapped geneLOC101928280 - LOC105369208 x SLC22A3
Upstream gene id
Downstream gene id
SNP gene ids
Upstream gene distance
Downstream gene distance
SNP risk allelers9351730-? x rs9364554-?
SNPsrs9351730 x rs9364554
Merged0
SNP id current
Contextintergenic_variant x intron_variant
Intergenic
Allele frequencyNR
P value0.000005
Pvalue mlog5.30102999566398
P value text
Or beta1.25
%95 Ci[1.13-1.37]
PlatformAffymetrix, Illumina [1117531] (imputed)
CNVN
Mapped traitprostate carcinoma
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0001663
Study accessionGCST001370