SNP Detail For rs10510452
1.Mapping Information
Human SNP ID rs10510452
Human chromosome chr3
Human SNP position 16583541
Pig chromosome chr13
Pig SNP position 3941673
2.Annotation Information
PubMed ID23666240
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/23666240
StudyIdentification of nine new susceptibility loci for testicular cancer, including variants near DAZL and PRDM14.
Disease/TraitTesticular germ cell tumor
Initial sample986 European ancestry cases, 4,946 European ancestry controls
Replication sample1,064 European ancestry cases, 10,082 European ancestry controls
Region3p24.3
Chromosome idchr3
Chromosome position16583541
Reported geneDAZL
Mapped geneLINC00690 - DAZL
Upstream gene id100996597
Downstream gene id1618
SNP gene ids
Upstream gene distance42168
Downstream gene distance3251
SNP risk allelers10510452-A
SNPsrs10510452
Merged0
SNP id current10510452
Contextdownstream_gene_variant
Intergenic1
Allele frequency0.69
P value0.00000001
Pvalue mlog8
P value text
Or beta1.24
%95 Ci[1.12-1.37]
PlatformIllumina [307291]
CNVN
Mapped traittesticular carcinoma
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0005088
Study accessionGCST002022
PubMed ID25877299
JournalHum Mol Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/25877299
StudyTwo new loci and gene sets related to sex determination and cancer progression are associated with susceptibility to testicular germ cell tumor.
Disease/TraitTesticular germ cell tumor
Initial sample1,326 European ancestry cases, 6,687 European ancestry controls
Replication sample710 European ancestry case-parent triads, 289 European ancestry cases, 290 European ancestry controls
Region3p24.3
Chromosome idchr3
Chromosome position16583541
Reported geneDAZL
Mapped geneLINC00690 - DAZL
Upstream gene id100996597
Downstream gene id1618
SNP gene ids
Upstream gene distance42168
Downstream gene distance3251
SNP risk allelers10510452-A
SNPsrs10510452
Merged0
SNP id current10510452
Contextdownstream_gene_variant
Intergenic1
Allele frequency0.729
P value0.000000003
Pvalue mlog8.52287874528033
P value text
Or beta1.32
%95 Ci[NR]
PlatformIllumina [610240]
CNVN
Mapped traitTesticular Germ Cell Tumor
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_1000566
Study accessionGCST002855