SNP Detail For rs2057178
1.Mapping Information
Human SNP ID rs2057178
Human chromosome chr11
Human SNP position 32342641
Pig chromosome chr2
Pig SNP position 30982551
2.Annotation Information
PubMed ID22306650
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/22306650
StudyCommon variants at 11p13 are associated with susceptibility to tuberculosis.
Disease/TraitTuberculosis
Initial sample1,329 African ancestry cases, 1,847 African ancestry controls
Replication sample2,024 African ancestry cases, 5,154 African ancestry controls, 1,025 Indonesian ancestry cases, 983 Indonesian ancestry controls, 4,441 European ancestry cases, 5,874 European ancestry controls
Region11p13
Chromosome idchr11
Chromosome position32342641
Reported geneWT1
Mapped geneRCN1 - WT1
Upstream gene id5954
Downstream gene id7490
SNP gene ids
Upstream gene distance236915
Downstream gene distance45134
SNP risk allelers2057178-?
SNPsrs2057178
Merged0
SNP id current2057178
Contextintron_variant
Intergenic1
Allele frequencyNR
P value0.00000000003
Pvalue mlog10.5228787452803
P value text
Or beta1.1
%95 Ci[1.01-1.22] Russian samples
PlatformAffymetrix [793964]
CNVN
Mapped traitTuberculosis
Mapped trait URIhttp://www.orpha.net/ORDO/Orphanet_3389
Study accessionGCST001398
PubMed ID24057671
JournalHum Mol Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/24057671
StudyGenome-wide association study of ancestry-specific TB risk in the South African Coloured population.
Disease/TraitTuberculosis
Initial sample642 South African coloured cases, 91 South African coloured controls
Replication sampleNA
Region11p13
Chromosome idchr11
Chromosome position32342641
Reported geneWT1
Mapped geneRCN1 - WT1
Upstream gene id5954
Downstream gene id7490
SNP gene ids
Upstream gene distance236915
Downstream gene distance45134
SNP risk allelers2057178-A
SNPsrs2057178
Merged0
SNP id current2057178
Contextintron_variant
Intergenic1
Allele frequency0.92
P value0.000003
Pvalue mlog5.52287874528033
P value text
Or beta1.6129
%95 Ci[NR]
PlatformAffymetrix [up to 4467279] (imputed)
CNVN
Mapped traitTuberculosis
Mapped trait URIhttp://www.orpha.net/ORDO/Orphanet_3389
Study accessionGCST002198
PubMed ID24057671
JournalHum Mol Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/24057671
StudyGenome-wide association study of ancestry-specific TB risk in the South African Coloured population.
Disease/TraitTuberculosis
Initial sample642 South African coloured cases, 91 South African coloured controls, (see Thye 2010)
Replication sampleNA
Region11p13
Chromosome idchr11
Chromosome position32342641
Reported geneWT1
Mapped geneRCN1 - WT1
Upstream gene id5954
Downstream gene id7490
SNP gene ids
Upstream gene distance236915
Downstream gene distance45134
SNP risk allelers2057178-?
SNPsrs2057178
Merged0
SNP id current2057178
Contextintron_variant
Intergenic1
Allele frequencyNR
P value0.000000000001
Pvalue mlog12
P value text(binary model)
Or beta
%95 Ci
PlatformAffymetrix [1009364] (imputed)
CNVN
Mapped traitTuberculosis
Mapped trait URIhttp://www.orpha.net/ORDO/Orphanet_3389
Study accessionGCST002197