Human SNP ID | rs12621278 |
---|---|
Human chromosome | chr2 |
Human SNP position | 172446825 |
Pig chromosome | chr15 |
Pig SNP position | 87851480 |
PubMed ID | 19767753 |
---|---|
Journal | Nat Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/19767753 |
Study | Identification of seven new prostate cancer susceptibility loci through a genome-wide association study. |
Disease/Trait | Prostate cancer |
Initial sample | 1,854 European ancestry cases, 1,894 European ancestry controls |
Replication sample | 19,879 cases and 18,761 controls of European, East Asian, African American, Latino, and Hawaiian ancestry |
Region | 2q31.1 |
Chromosome id | chr2 |
Chromosome position | 172446825 |
Reported gene | ITGA6 |
Mapped gene | ITGA6 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 3655 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs12621278-? |
SNPs | rs12621278 |
Merged | 0 |
SNP id current | 12621278 |
Context | intron_variant |
Intergenic | 0 |
Allele frequency | 0.94 |
P value | 9E-23 |
Pvalue mlog | 22.0457574905606 |
P value text | |
Or beta | 1.33 |
%95 Ci | [1.25-1.43] |
Platform | Illumina [541129] |
CNV | N |
Mapped trait | prostate carcinoma |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0001663 |
Study accession | GCST000488 |
PubMed ID | 22219177 |
Journal | Carcinogenesis |
Link | www.ncbi.nlm.nih.gov/pubmed/22219177 |
Study | A genome-wide search for loci interacting with known prostate cancer risk-associated genetic variants. |
Disease/Trait | Prostate cancer (gene x gene interaction) |
Initial sample | 4,723 European ancestry cases, 4,792 European ancestry controls |
Replication sample | NA |
Region | 3q13.2 x 2q31.1 |
Chromosome id | chr3 x 2 |
Chromosome position | 112779033 x 172446825 |
Reported gene | CD200R1L x ITAGA6 |
Mapped gene | LOC101929694 - CD200R1L x ITGA6 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs1002979-? x rs12621278-? |
SNPs | rs1002979 x rs12621278 |
Merged | 0 |
SNP id current | |
Context | regulatory_region_variant x intron_variant |
Intergenic | |
Allele frequency | NR |
P value | 0.000003 |
Pvalue mlog | 5.52287874528033 |
P value text | |
Or beta | 1.5873 |
%95 Ci | [1.32-1.92] |
Platform | Affymetrix, Illumina [1117531] (imputed) |
CNV | N |
Mapped trait | prostate carcinoma |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0001663 |
Study accession | GCST001370 |