SNP Detail For rs1738074
1.Mapping Information
Human SNP ID rs1738074
Human chromosome chr6
Human SNP position 159044945
Pig chromosome chr1
Pig SNP position 10042299
2.Annotation Information
PubMed ID18311140
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/18311140
StudyNewly identified genetic risk variants for celiac disease related to the immune response.
Disease/TraitCeliac disease
Initial sample767 European ancestry cases, 1,422 European ancestry controls
Replication sample1,643 European ancestry cases, 3,406 European ancestry controls
Region6q25.3
Chromosome idchr6
Chromosome position159044945
Reported geneTAGAP
Mapped geneTAGAP, LOC105378082
Upstream gene id
Downstream gene id
SNP gene ids117289, 105378082
Upstream gene distance
Downstream gene distance
SNP risk allelers1738074-A
SNPsrs1738074
Merged0
SNP id current1738074
Context5_prime_UTR_variant
Intergenic0
Allele frequencyNR
P value0.00000007
Pvalue mlog7.15490195998574
P value text
Or beta1.21
%95 Ci[1.13-1.30]
PlatformIllumina [310605]
CNVN
Mapped traitceliac disease
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0001060
Study accessionGCST000157
PubMed ID22190364
JournalAnn Neurol
Linkwww.ncbi.nlm.nih.gov/pubmed/22190364
StudyGenome-wide meta-analysis identifies novel multiple sclerosis susceptibility loci.
Disease/TraitMultiple sclerosis
Initial sample5,545 European ancestry cases, 12,153 European ancestry controls
Replication sampleNA
Region6q25.3
Chromosome idchr6
Chromosome position159044945
Reported geneTAGAP
Mapped geneTAGAP, LOC105378082
Upstream gene id
Downstream gene id
SNP gene ids117289, 105378082
Upstream gene distance
Downstream gene distance
SNP risk allelers1738074-C
SNPsrs1738074
Merged0
SNP id current1738074
Context5_prime_UTR_variant
Intergenic0
Allele frequency0.58
P value0.0000004
Pvalue mlog6.39794000867203
P value text
Or beta1.15
%95 Ci[NR]
PlatformAffymetrix, Illumina [2529394]
CNVN
Mapped traitmultiple sclerosis
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0003885
Study accessionGCST001341
PubMed ID20190752
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/20190752
StudyMultiple common variants for celiac disease influencing immune gene expression.
Disease/TraitCeliac disease
Initial sample4,533 European ancestry cases, 10,750 European ancestry controls
Replication sample4,918 European ancestry cases, 5,684 European ancestry controls
Region6q25.3
Chromosome idchr6
Chromosome position159044945
Reported geneTAGAP
Mapped geneTAGAP, LOC105378082
Upstream gene id
Downstream gene id
SNP gene ids117289, 105378082
Upstream gene distance
Downstream gene distance
SNP risk allelers1738074-A
SNPsrs1738074
Merged0
SNP id current1738074
Context5_prime_UTR_variant
Intergenic0
Allele frequency0.43
P value0.000000000000003
Pvalue mlog14.5228787452803
P value text
Or beta1.16
%95 Ci[1.12-1.21]
PlatformIllumina [292387]
CNVN
Mapped traitceliac disease
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0001060
Study accessionGCST000612
PubMed ID21833088
JournalNature
Linkwww.ncbi.nlm.nih.gov/pubmed/21833088
StudyGenetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis.
Disease/TraitMultiple sclerosis
Initial sample9,772 European ancestry cases, 16,849 European ancestry controls
Replication sample4,218 European ancestry cases, 7,296 European ancestry controls
Region6q25.3
Chromosome idchr6
Chromosome position159044945
Reported geneTAGAP
Mapped geneTAGAP, LOC105378082
Upstream gene id
Downstream gene id
SNP gene ids117289, 105378082
Upstream gene distance
Downstream gene distance
SNP risk allelers1738074-G
SNPsrs1738074
Merged0
SNP id current1738074
Context5_prime_UTR_variant
Intergenic0
Allele frequencyNR
P value0.000000000000007
Pvalue mlog14.1549019599857
P value text
Or beta1.13
%95 Ci[1.12-1.15]
PlatformIllumina [465434]
CNVN
Mapped traitmultiple sclerosis
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0003885
Study accessionGCST001198