rs11190140

This is a upstream gene variant variant in the NKX2-3 gene.

GWAS Catalog Trait Associations (2)

Genome-wide significant associations (p < 5×10⁻⁸) from the NHGRI-EBI GWAS Catalog.

Crohn's disease

Allele T
OR 1.20
p 3.0e-16
N 8,059
Large GWAS
European

ulcerative colitis

Allele T
OR 1.23
p 1.0e-8
N 9,484
Large GWAS
European

Research that mentions this SNP (3)

Risk for myasthenia gravis maps to a 151 Pro→Ala change in TNIP1 and to human leukocyte antigen‐B*08
AssociationN=3,245Peter K. Gregersen et al.(2012)· Annals of Neurology

A two-stage genome-wide association study of 649 early-onset myasthenia gravis patients identified HLA-B*08 as the major genetic risk factor (OR=6.41, p=2.87×10⁻¹¹³) and TNIP1 Pro151Ala (rs2233290, OR=1.92, p=3.4×10⁻⁹) as a novel non-HLA locus. Together with PTPN22 (rs2476601, OR=1.71, p=8.2×10⁻¹⁰), these loci account for 62.9% of population attributable risk, implicating dysregulation of NF-κB signaling pathways in myasthenia gravis pathogenesis.

Traits studied:Autoimmune thyroid diseaseEarly-onset myasthenia gravis (EOMG)PsoriasisRheumatoid arthritisSystemic lupus erythematosusSystemic sclerosisType 1 diabetes
Distinct and overlapping genetic loci in crohnʼs disease and ulcerative colitis: Correlations with pathogenesis
AssociationN=3,431Matti Waterman et al.(2011)· Inflammatory Bowel Diseases

This study examined 40 SNPs (34 CD-associated and 6 UC-associated) in 2374 Canadian IBD patients (1144 CD, 1230 UC/IBDU) and 1057 healthy controls. While most immune-related variants showed similar frequencies between CD and UC, the two diseases diverged significantly in genes related to innate immunity and autophagy (NOD2, ATG16L1, IRGM), which were more prevalent in CD. In patients with colon-only CD, genetic overlap with UC was nearly complete, suggesting a shared genetic basis for colonic disease.

Traits studied:Crohn's diseaseInflammatory bowel disease (IBD)Ulcerative colitis
Association between genome-wide association studies reported SNPs and pediatric-onset Crohn’s disease in Canadian children
AssociationN=1,116Devendra K. Amre et al.(2010)· Human Genetics

This case-control study of 563 Canadian children with pediatric-onset Crohn's disease and 553 controls confirmed associations between SNPs at two novel pediatric-specific loci (rs1250550 at 10q22.3, p=0.026; rs8049439 at 16p11.2, p=0.04) and disease susceptibility. Additionally, 6 of 16 previously reported adult CD loci were significantly associated with pediatric CD, demonstrating substantial genetic overlap between disease forms.

Traits studied:Crohn's diseaseInflammatory bowel disease

About NKX2-3

This gene encodes a homeodomain-containing transcription factor. The encoded protein is a member of the NKX family of homeodomain transcription factors. Studies of similar proteins in mouse and rat have indicated a potential role in cellular differentiation.[provided by RefSeq, Mar 2010]

View all NKX2-3 variants →

Gene information from NCBI Gene. Variant classifications from ClinVar.

Community Wiki

No community notes yet for this variant. Sign in to start one.

Comments

Sign in to join the discussion.

Loading comments…