title: Sequencing of TNFAIP3 and association of variants with multiple autoimmune diseases.
abstract: The TNFAIP3 locus at 6q23, encoding A20, has been associated with multiple autoimmune diseases (AIDs). In this study, we sequence the coding portions of the gene to identify contributing causal polymorphisms that may explain some of the observed associations. A collection of 123 individuals from the Multiple Autoimmune Disease Genetics Consortium (MADGC) collection, each with multiple AIDs (mean=2.2 confirmed diagnoses), and 397 unrelated healthy controls were used for initial sequencing. A total of 32 polymorphisms were identified in the sequencing experiments, including 16 novel and 11 coding variants. Association testing in the entire MADGC collection (1,008 Caucasians with one or more AIDs and 770 unaffected family controls) revealed association of a novel intronic insertion-deletion polymorphism with rheumatoid arthritis (RA) (odds ratio (OR)=2.48, P=0.041). Genotyping of the most common coding polymorphism, rs2230926, in the MADGC collection and additional control individuals revealed a significant association with Sjögren's syndrome (OR=3.38, P=0.038), Crohn's disease (OR=2.25, P=0.041), psoriasis (OR=0.037, P=0.036) and RA (OR=1.9, P=0.025). Finally, haplotype and additional testing of polymorphisms revealed that cases were enriched for 5' and 3' untranslated region variants (one-sided P-value=0.04), but not specifically for common (>2% minor allele frequency), rare, exonic, intronic, non-synonymous or synonymous variants.
authors.affiliation: Cardiovascular Research Institute and Institute for Human Genetics, University of California San Francisco, San Francisco, CA, USA.
authors.forename: S L
authors.initials: SL
authors.lastname: Musone
authors.forename: K E
authors.initials: KE
authors.lastname: Taylor
authors.forename: J
authors.initials: J
authors.lastname: Nititham
authors.forename: C
authors.initials: C
authors.lastname: Chu
authors.forename: A
authors.initials: A
authors.lastname: Poon
authors.forename: W
authors.initials: W
authors.lastname: Liao
authors.forename: E T
authors.initials: ET
authors.lastname: Lam
authors.forename: A
authors.initials: A
authors.lastname: Ma
authors.forename: P-Y
authors.initials: PY
authors.lastname: Kwok
authors.forename: L A
authors.initials: LA
authors.lastname: Criswell
mesh_terms: D000483:Alleles; D001327:Autoimmune Diseases / Q000235:genetics*; D001483:Base Sequence; D004268:DNA-Binding Proteins; D005787:Gene Frequency; D020022:Genetic Predisposition to Disease / Q000235:genetics*; D005838:Genotype; D006801:Humans; D047908:Intracellular Signaling Peptides and Proteins / Q000235:genetics*; D009687:Nuclear Proteins / Q000235:genetics*; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D000072598:Tumor Necrosis Factor alpha-Induced Protein 3
chemical_list: D004268:DNA-Binding Proteins; D047908:Intracellular Signaling Peptides and Proteins; D009687:Nuclear Proteins; C076529:TNFAIP3 protein, human; D000072598:Tumor Necrosis Factor alpha-Induced Protein 3