SNP Detail For rs2178146
1.Mapping Information
Human SNP ID rs2178146
Human chromosome chr16
Human SNP position 86430089
Pig chromosome chr6
Pig SNP position 2927434
2.Annotation Information
PubMed ID24121790
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/24121790
StudyA genome-wide association study identifies new susceptibility loci for esophageal adenocarcinoma and Barrett__s esophagus.
Disease/TraitEsophageal adenocarcinoma
Initial sample1,516 European ancestry cases, 3,209 European ancestry controls
Replication sample874 European ancestry cases, 6,911 European ancestry controls
Region16q24.1
Chromosome idchr16
Chromosome position86430089
Reported geneFOXF1
Mapped geneLINC00917 - FENDRR
Upstream gene id732275
Downstream gene id400550
SNP gene ids
Upstream gene distance84410
Downstream gene distance44436
SNP risk allelers2178146-A
SNPsrs2178146
Merged0
SNP id current2178146
Contextdownstream_gene_variant
Intergenic1
Allele frequency0.587
P value0.000004
Pvalue mlog5.39794000867203
P value text
Or beta1.1765
%95 Ci[1.1-1.27]
PlatformIllumina [922031]
CNVN
Mapped traitesophageal adenocarcinoma
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0000478
Study accessionGCST002232
PubMed ID24121790
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/24121790
StudyA genome-wide association study identifies new susceptibility loci for esophageal adenocarcinoma and Barrett__s esophagus.
Disease/TraitDigestive system disease (Barrett__s esophagus and esophageal adenocarcinoma combined)
Initial sample3,928 European ancestry cases, 3,207 European ancestry controls
Replication sample1,636 European ancestry cases, 6,911 European ancestry controls
Region16q24.1
Chromosome idchr16
Chromosome position86430089
Reported geneFOXF1
Mapped geneLINC00917 - FENDRR
Upstream gene id732275
Downstream gene id400550
SNP gene ids
Upstream gene distance84410
Downstream gene distance44436
SNP risk allelers2178146-A
SNPsrs2178146
Merged0
SNP id current2178146
Contextdownstream_gene_variant
Intergenic1
Allele frequency0.587
P value0.000001
Pvalue mlog6
P value text
Or beta1.1364
%95 Ci[1.09-1.2]
PlatformIllumina [922031]
CNVN
Mapped traitesophageal adenocarcinoma, digestive system disease, Barrett__s esophagus
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0000478, http://www.ebi.ac.uk/efo/EFO_0000405, http://www.ebi.ac.uk/efo/EFO_0000280
Study accessionGCST002231