SNP Detail For rs3824999
1.Mapping Information
Human SNP ID rs3824999
Human chromosome chr11
Human SNP position 74634505
Pig chromosome chr9
Pig SNP position 9788156
2.Annotation Information
PubMed ID22634755
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/22634755
StudyCommon variation near CDKN1A, POLD3 and SHROOM2 influences colorectal cancer risk.
Disease/TraitColorectal cancer
Initial sample8,323 European ancestry cases, 9,457 European ancestry controls
Replication sample19,513 European ancestry cases, 17,657 European ancestry controls, 1,583 Japanese ancestry cases, 1,898 Japanese ancestry controls
Region11q13.4
Chromosome idchr11
Chromosome position74634505
Reported genePOLD3
Mapped genePOLD3
Upstream gene id
Downstream gene id
SNP gene ids10714
Upstream gene distance
Downstream gene distance
SNP risk allelers3824999-?
SNPsrs3824999
Merged0
SNP id current3824999
Contextintron_variant
Intergenic0
Allele frequencyNR
P value0.0000000004
Pvalue mlog9.39794000867203
P value text
Or beta1.08
%95 Ci[1.05-1.10]
PlatformIllumina [NR] (imputed)
CNVN
Mapped traitcolorectal cancer
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0005842
Study accessionGCST001544
PubMed ID25990418
JournalSci Rep
Linkwww.ncbi.nlm.nih.gov/pubmed/25990418
StudyA new GWAS and meta-analysis with 1000Genomes imputation identifies novel risk variants for colorectal cancer.
Disease/TraitColorectal cancer
Initial sample7,577 European ancestry cases, 9,979 European ancestry controls
Replication sampleNA
Region11q13.4
Chromosome idchr11
Chromosome position74634505
Reported genePOLD3
Mapped genePOLD3
Upstream gene id
Downstream gene id
SNP gene ids10714
Upstream gene distance
Downstream gene distance
SNP risk allelers3824999-C
SNPsrs3824999
Merged0
SNP id current3824999
Contextintron_variant
Intergenic0
Allele frequency0.47
P value0.00000000008
Pvalue mlog10.096910013008
P value text
Or beta1.15
%95 Ci[NR]
PlatformAffymetrix, Illumina [~ 10000000] (imputed)
CNVN
Mapped traitcolorectal cancer
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0005842
Study accessionGCST002919
PubMed ID26151821
JournalNat Commun
Linkwww.ncbi.nlm.nih.gov/pubmed/26151821
StudyGenome-wide association study of colorectal cancer identifies six new susceptibility loci.
Disease/TraitColorectal cancer
Initial sample18,299 European ancestry cases, 19,656 European ancestry controls
Replication sample4,725 East Asian ancestry cases, 9,969 East Asian ancestry controls
Region11q13.4
Chromosome idchr11
Chromosome position74634505
Reported genePOLD3
Mapped genePOLD3
Upstream gene id
Downstream gene id
SNP gene ids10714
Upstream gene distance
Downstream gene distance
SNP risk allelers3824999-G
SNPsrs3824999
Merged0
SNP id current3824999
Contextintron_variant
Intergenic0
Allele frequency0.53
P value0.000001
Pvalue mlog6
P value text
Or beta1.0752687
%95 Ci[1.05-1.1]
PlatformAffymetrix, Illumina [~ 2500000] (imputed)
CNVN
Mapped traitcolorectal cancer
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0005842
Study accessionGCST003017