SNP Detail For rs2969540
1.Mapping Information
Human SNP ID rs2969540
Human chromosome chr7
Human SNP position 155109147
Pig chromosome chr18
Pig SNP position 3136065
2.Annotation Information
PubMed ID24662972
JournalCarcinogenesis
Linkwww.ncbi.nlm.nih.gov/pubmed/24662972
StudyGenome-wide interaction study of smoking and bladder cancer risk.
Disease/TraitBladder cancer (smoking interaction)
Initial sample560 European ancestry never smoker cases, 2,442 European ancestry ever smoker cases, 1,406 European ancestry never smoker controls, 3,005 European ancestry ever smoker controls
Replication sample494 European ancestry never smoker cases, 1,927 European ancestry ever smoker cases, 2,257 European ancestry never smoker controls, 3,490 European ancestry ever smoker controls
Region7q36.2
Chromosome idchr7
Chromosome position155109147
Reported geneHTR5A, PAXIP1, INSIG1
Mapped geneHTR5A - LOC105375584
Upstream gene id3361
Downstream gene id105375584
SNP gene ids
Upstream gene distance21755
Downstream gene distance60189
SNP risk allelers2969540-?
SNPsrs2969540
Merged0
SNP id current2969540
Contextupstream_gene_variant
Intergenic1
Allele frequencyNR
P value0.000002
Pvalue mlog5.69897000433601
P value text(multiplicative, retrospective analysis)
Or beta
%95 Ci
PlatformIllumina [491011]
CNVN
Mapped traitbladder carcinoma
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0000292
Study accessionGCST002397