SNP Detail For rs17085007
1.Mapping Information
Human SNP ID rs17085007
Human chromosome chr13
Human SNP position 26957130
Pig chromosome chr11
Pig SNP position 3964307
2.Annotation Information
PubMed ID21297633
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/21297633
StudyMeta-analysis identifies 29 additional ulcerative colitis risk loci, increasing the number of confirmed associations to 47.
Disease/TraitUlcerative colitis
Initial sample6,687 European ancestry cases, 19,718 European ancestry controls
Replication sample9,628 European ancestry cases, 12,917 European ancestry controls
Region13q12.13
Chromosome idchr13
Chromosome position26957130
Reported geneintergenic
Mapped geneLOC105370123 - LOC105370124
Upstream gene id105370123
Downstream gene id105370124
SNP gene ids
Upstream gene distance76189
Downstream gene distance89029
SNP risk allelers17085007-C
SNPsrs17085007
Merged0
SNP id current17085007
Contextintergenic_variant
Intergenic1
Allele frequency0.18
P value0.0000000000000001
Pvalue mlog16
P value text
Or beta1.16
%95 Ci[1.10-1.21]
PlatformAffymetrix, Illumina [~ 1100000] (imputed)
CNVN
Mapped traitulcerative colitis
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0000729
Study accessionGCST000964
PubMed ID19915573
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/19915573
StudyA genome-wide association study identifies three new susceptibility loci for ulcerative colitis in the Japanese population.
Disease/TraitUlcerative colitis
Initial sample376 Japanese ancestry cases, 934 Japanese ancestry controls
Replication sample376 Japanese ancestry cases, 1,097 Japanese ancestry controls
Region13q12.13
Chromosome idchr13
Chromosome position26957130
Reported geneUSP12
Mapped geneLOC105370123 - LOC105370124
Upstream gene id105370123
Downstream gene id105370124
SNP gene ids
Upstream gene distance76189
Downstream gene distance89029
SNP risk allelers17085007-C
SNPsrs17085007
Merged0
SNP id current17085007
Contextintergenic_variant
Intergenic1
Allele frequency0.23
P value0.00000007
Pvalue mlog7.15490195998574
P value text
Or beta1.35
%95 Ci[1.21-1.51]
PlatformIllumina [513923]
CNVN
Mapped traitulcerative colitis
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0000729
Study accessionGCST000529
PubMed ID23511034
JournalInflamm Bowel Dis
Linkwww.ncbi.nlm.nih.gov/pubmed/23511034
StudyGenome-wide association study of ulcerative colitis in Koreans suggests extensive overlapping of genetic susceptibility with Caucasians.
Disease/TraitUlcerative colitis
Initial sample388 Korean ancestry cases, 739 Korean ancestry controls
Replication sample810 Korean ancestry cases, 1709 Korean ancestry controls
Region13q12.13
Chromosome idchr13
Chromosome position26957130
Reported geneintergenic
Mapped geneLOC105370123 - LOC105370124
Upstream gene id105370123
Downstream gene id105370124
SNP gene ids
Upstream gene distance76189
Downstream gene distance89029
SNP risk allelers17085007-C
SNPsrs17085007
Merged0
SNP id current17085007
Contextintergenic_variant
Intergenic1
Allele frequency0.17
P value0.0000003
Pvalue mlog6.52287874528033
P value text
Or beta1.37
%95 Ci[1.22-1.55]
PlatformIllumina [581060]
CNVN
Mapped traitulcerative colitis
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0000729
Study accessionGCST001934
PubMed ID23511034
JournalInflamm Bowel Dis
Linkwww.ncbi.nlm.nih.gov/pubmed/23511034
StudyGenome-wide association study of ulcerative colitis in Koreans suggests extensive overlapping of genetic susceptibility with Caucasians.
Disease/TraitUlcerative colitis
Initial sample388 Korean ancestry cases, 739 Korean ancestry controls
Replication sample417 Korean ancestry cases, 732 Korean ancestry controls
Region13q12.13
Chromosome idchr13
Chromosome position26957130
Reported geneIntergernic
Mapped geneLOC105370123 - LOC105370124
Upstream gene id105370123
Downstream gene id105370124
SNP gene ids
Upstream gene distance76189
Downstream gene distance89029
SNP risk allelers17085007-C
SNPsrs17085007
Merged0
SNP id current17085007
Contextintergenic_variant
Intergenic1
Allele frequency0.18
P value0.000008
Pvalue mlog5.09691001300805
P value text
Or beta1.4
%95 Ci[1.21-1.63]
PlatformIllumina [581060]
CNVN
Mapped traitulcerative colitis
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0000729
Study accessionGCST001938
PubMed ID23128233
JournalNature
Linkwww.ncbi.nlm.nih.gov/pubmed/23128233
StudyHost-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
Disease/TraitInflammatory bowel disease
Initial sample12,924 European ancestry cases, 21,442 European ancestry controls
Replication sample25,683 European ancestry cases, 17,015 European ancestry controls
Region13q12.13
Chromosome idchr13
Chromosome position26957130
Reported geneintergenic
Mapped geneLOC105370123 - LOC105370124
Upstream gene id105370123
Downstream gene id105370124
SNP gene ids
Upstream gene distance76189
Downstream gene distance89029
SNP risk allelers17085007-C
SNPsrs17085007
Merged0
SNP id current17085007
Contextintergenic_variant
Intergenic1
Allele frequency0.183
P value3E-19
Pvalue mlog18.5228787452803
P value text
Or beta1.106
%95 Ci[1.065-1.147]
PlatformAffymetrix, Illumina [1230000] (imputed)
CNVN
Mapped traitinflammatory bowel disease
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0003767
Study accessionGCST001725
PubMed ID26192919
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/26192919
StudyAssociation analyses identify 38 susceptibility loci for inflammatory bowel disease and highlight shared genetic risk across populations.
Disease/TraitUlcerative colitis
Initial sample6,968 European ancestry cases, 20,464 European ancestry controls
Replication sample10,679 European ancestry cases, 26,715 European ancestry controls, 397 Iranian ancestry cases, 342 Iranian ancestry controls, 1,239 Indian ancestry cases, 990 Indian ancestry controls, 1,134 East Asian ancestry cases, 3,719 East Asian ancestry controls
Region13q12.13
Chromosome idchr13
Chromosome position26957130
Reported geneNR
Mapped geneLOC105370123 - LOC105370124
Upstream gene id105370123
Downstream gene id105370124
SNP gene ids
Upstream gene distance76189
Downstream gene distance89029
SNP risk allelers17085007-G
SNPsrs17085007
Merged0
SNP id current17085007
Contextintergenic_variant
Intergenic1
Allele frequency0.1799
P value0.0000000000000001
Pvalue mlog16
P value text(EA)
Or beta1.1413064
%95 Ci[1.11-1.17]
PlatformAffymetrix, Illumina [~ 9000000] (imputed)
CNVN
Mapped traitulcerative colitis
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0000729
Study accessionGCST003045