Human SNP ID | rs11465804 |
---|---|
Human chromosome | chr1 |
Human SNP position | 67236843 |
Pig chromosome | chr6 |
Pig SNP position | 134231276 |
PubMed ID | 18587394 |
---|---|
Journal | Nat Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/18587394 |
Study | Genome-wide association defines more than 30 distinct susceptibility loci for Crohn__s disease. |
Disease/Trait | Crohn__s disease |
Initial sample | 3,230 European ancestry cases, 4,829 European ancestry controls |
Replication sample | 1,339 European ancestry trios, 2,325 European ancestry cases, 1,809 European ancestry controls |
Region | 1p31.3 |
Chromosome id | chr1 |
Chromosome position | 67236843 |
Reported gene | IL23R |
Mapped gene | IL23R |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 149233 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs11465804-T |
SNPs | rs11465804 |
Merged | 0 |
SNP id current | 11465804 |
Context | intron_variant |
Intergenic | 0 |
Allele frequency | 0.93 |
P value | 7E-63 |
Pvalue mlog | 62.1549019599857 |
P value text | |
Or beta | 2.5 |
%95 Ci | [NR] |
Platform | Affymetrix, Illumina [635547] (imputed) |
CNV | N |
Mapped trait | Crohn__s disease |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0000384 |
Study accession | GCST000207 |
PubMed ID | 20570966 |
Journal | Hum Mol Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/20570966 |
Study | Fucosyltransferase 2 (FUT2) non-secretor status is associated with Crohn__s disease. |
Disease/Trait | Crohn__s disease |
Initial sample | 896 European ancestry cases, 3,204 European ancestry controls |
Replication sample | 1,174 European ancestry cases, 357 European ancestry controls |
Region | 1p31.3 |
Chromosome id | chr1 |
Chromosome position | 67236843 |
Reported gene | IL23R |
Mapped gene | IL23R |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 149233 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs11465804-? |
SNPs | rs11465804 |
Merged | 0 |
SNP id current | 11465804 |
Context | intron_variant |
Intergenic | 0 |
Allele frequency | NR |
P value | 0.000001 |
Pvalue mlog | 6 |
P value text | |
Or beta | 1.89 |
%95 Ci | [1.47-2.44] |
Platform | Illumina [304825] |
CNV | N |
Mapped trait | Crohn__s disease |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0000384 |
Study accession | GCST000705 |
PubMed ID | 17804789 |
Journal | Proc Natl Acad Sci U S A |
Link | www.ncbi.nlm.nih.gov/pubmed/17804789 |
Study | Genome-wide association study for Crohn__s disease in the Quebec Founder Population identifies multiple validated disease loci. |
Disease/Trait | Crohn__s disease |
Initial sample | 382 French Canadian founder trios |
Replication sample | 750 European ancestry cases, 828 European ancestry controls, 521 European ancestry trios |
Region | 1p31.3 |
Chromosome id | chr1;1;1;1;1;1;1;1;1;1;1;1;1;1;1;1 |
Chromosome position | 67264945;67240275;67253446;67264372;67256884;67135449;67262335;67124778;67236843;67259437;67228519;67204530;67260421;67205233;67187327;67219915 |
Reported gene | IL23R |
Mapped gene | IL23R - LOC100130497; IL23R; IL23R; IL23R - LOC100130497; IL23R; C1orf141; IL23R - LOC100130497; C1orf141; IL23R; IL23R; IL23R; IL23R; IL23R - RNU4ATAC4P; IL23R; IL23R; IL23R |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs10789230-?; rs11209026-?; rs1343151-?; rs6669582-?; rs10889676-?; rs11209003-?; rs12567232-?; rs11209002-?; rs11465804-?; rs10889677-?; rs2201841-?; rs1004819-?; rs9988642-?; rs2902440-?; rs2064689-?; rs11465802-? |
SNPs | rs10789230; rs11209026; rs1343151; rs6669582; rs10889676; rs11209003; rs12567232; rs11209002; rs11465804; rs10889677; rs2201841; rs1004819; rs9988642; rs2902440; rs2064689; rs11465802 |
Merged | 0 |
SNP id current | |
Context | downstream_gene_variant; missense_variant; intron_variant; downstream_gene_variant; intron_variant; intron_variant; downstream_gene_variant; intron_variant; intron_variant; 3_prime_UTR_variant; intron_variant; intron_variant; downstream_gene_variant; intr |
Intergenic | |
Allele frequency | 0.23 |
P value | 0.00000001 |
Pvalue mlog | 8 |
P value text | |
Or beta | 1.38 |
%95 Ci | [1.23-1.53] |
Platform | Perlegen [164279] |
CNV | N |
Mapped trait | Crohn__s disease |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0000384 |
Study accession | GCST000071 |
PubMed ID | 17804789 |
Journal | Proc Natl Acad Sci U S A |
Link | www.ncbi.nlm.nih.gov/pubmed/17804789 |
Study | Genome-wide association study for Crohn__s disease in the Quebec Founder Population identifies multiple validated disease loci. |
Disease/Trait | Crohn__s disease |
Initial sample | 382 French Canadian founder trios |
Replication sample | 750 European ancestry cases, 828 European ancestry controls, 521 European ancestry trios |
Region | 1p31.3 |
Chromosome id | chr1;1;1;1;1;1;1;1;1;1;1;1;1;1;1;1 |
Chromosome position | 67264945;67240275;67253446;67264372;67256884;67135449;67262335;67124778;67236843;67259437;67228519;67204530;67260421;67205233;67187327;67219915 |
Reported gene | IL23R |
Mapped gene | IL23R - LOC100130497; IL23R; IL23R; IL23R - LOC100130497; IL23R; C1orf141; IL23R - LOC100130497; C1orf141; IL23R; IL23R; IL23R; IL23R; IL23R - RNU4ATAC4P; IL23R; IL23R; IL23R |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs10789230-?; rs11209026-?; rs1343151-?; rs6669582-?; rs10889676-?; rs11209003-?; rs12567232-?; rs11209002-?; rs11465804-?; rs10889677-?; rs2201841-?; rs1004819-?; rs9988642-?; rs2902440-?; rs2064689-?; rs11465802-? |
SNPs | rs10789230; rs11209026; rs1343151; rs6669582; rs10889676; rs11209003; rs12567232; rs11209002; rs11465804; rs10889677; rs2201841; rs1004819; rs9988642; rs2902440; rs2064689; rs11465802 |
Merged | 0 |
SNP id current | |
Context | downstream_gene_variant; missense_variant; intron_variant; downstream_gene_variant; intron_variant; intron_variant; downstream_gene_variant; intron_variant; intron_variant; 3_prime_UTR_variant; intron_variant; intron_variant; downstream_gene_variant; intr |
Intergenic | |
Allele frequency | 0.97 |
P value | 0.0000002 |
Pvalue mlog | 6.69897000433601 |
P value text | |
Or beta | 2.56 |
%95 Ci | [1.75-3.70] |
Platform | Perlegen [164279] |
CNV | N |
Mapped trait | Crohn__s disease |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0000384 |
Study accession | GCST000071 |