SNP Detail For rs6933404
1.Mapping Information
Human SNP ID rs6933404
Human chromosome chr6
Human SNP position 137638098
Pig chromosome chr1
Pig SNP position 30046789
2.Annotation Information
PubMed ID26394269
JournalNat Commun
Linkwww.ncbi.nlm.nih.gov/pubmed/26394269
StudyInternational genome-wide meta-analysis identifies new primary biliary cirrhosis risk loci and targetable pathogenic pathways.
Disease/TraitPrimary biliary cirrhosis
Initial sample2,764 European ancestry cases, 10,475 European ancestry controls
Replication sample3,716 European ancestry cases, 4,261 European ancestry controls
Region6q23.3
Chromosome idchr6
Chromosome position137638098
Reported geneLOC102723649, LOC442263, OLIG3, TNFAIP3
Mapped geneOLIG3 - LOC105378018
Upstream gene id
Downstream gene id
SNP gene ids
Upstream gene distance
Downstream gene distance
SNP risk allelers6933404-C
SNPsrs6933404
Merged
SNP id current6933404
Contextintergenic_variant
Intergenic
Allele frequency
P value0.0000000001
Pvalue mlog10
P value text
Or beta1.18
%95 Ci[1.09鈥?.27]
PlatformIllumina [1143634] (imputed)
CNVN
Mapped traitprimary biliary cirrhosis
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_1001486
Study accessionGCST003129
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/TraitInflammatory bowel disease
Initial sample12,882 European ancestry cases, 21,770 European ancestry controls
Replication sample25,273 European ancestry cases, 26,715 European ancestry controls, 548 Iranian ancestry cases, 342 Iranian ancestry control, 1,423 Indian ancestry cases, 990 Indian ancestry controls, 2,824 East Asian ancestry cases, 3,719 East Asian ancestry controls
Region6q23.3
Chromosome idchr6
Chromosome position137638098
Reported geneNR
Mapped geneOLIG3 - LOC105378018
Upstream gene id167826
Downstream gene id105378018
SNP gene ids
Upstream gene distance143704
Downstream gene distance25968
SNP risk allelers6933404-?
SNPsrs6933404
Merged
SNP id current6933404
Contextintergenic_variant
Intergenic1
Allele frequencyNR
P value0.000000000000006
Pvalue mlog14.2218487496163
P value text(EA)
Or beta
%95 Ci
PlatformAffymetrix, Illumina [~ 9000000] (imputed)
CNVN
Mapped traitinflammatory bowel disease
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0003767
Study accessionGCST003043