Four novel coeliac disease regions replicated in an association study of a Swedish-Norwegian family cohort.
Artikel i vetenskaplig tidskrift, 2010

Recent genome-wide association studies have identified 1q31 (RGS1), 2q11-12 (IL18RAP), 3p21 (CCR1/CCR3/CCR2), 3q25-26 (IL12A/SCHIP1), 3q28 (LPP), 4q27 (IL2/IL21), 6q25 (TAGAP) and 12q24 (SH2B3) as susceptibility regions for coeliac disease (CD). We have earlier replicated association with the IL2/IL21 region. This study aimed at replicating the remaining regions in a family cohort using the transmission disequilibrium test, which is not prone to population stratification as a source of false-positive results. Nine single nucleotide polymorphisms (SNPs) within these regions were genotyped in 325 Swedish-Norwegian CD families. We found significant associations with the same alleles in the regions 1q31 (rs2816316; P(nc)=0.0060), 3p21 (rs6441961; P(nc)=0.0006), 3q25-26 (rs17810564; P(nc)=0.0316 and rs9811792; P(nc)=0.0434) and 3q28 (rs1464510; P(nc)=0.0037). Borderline, but non-significant, associations were found for rs917997 (IL18RAP), whereas no evidence for association could be obtained for rs13015714 (IL18RAP) or rs1738074 (TAGAP). The lack of replication of the latter SNPs could be because of limited power. rs3184504 (SH2B3) was not analysed because of assay failure. The most significantly associated region, 3p21 (CCR1/CCR3/CCR2), was further analysed by typing of 30 SNPs, with the aim of identifying the causal variant responsible for the initial association. Several SNPs showed association with CD, but none displayed associations stronger than rs6441961, nor did any of them add to the effect initially marked by rs6441961 in a conditional analysis. However, differential effects of rs6441961(*)C carrying haplotypes were indicated, and we thus cannot exclude the possibility that our inability to obtain evidence for multiple independent effects in the CCR1/CCR3/CCR2 gene region was related to a power issue.

Författare

Silja Svanström Amundsen

Universitetet i Oslo

Julia Rundberg

Göteborgs universitet

Svetlana Adamovic

Göteborgs universitet

Audur Gudjonsdottir

Göteborgs universitet

Henry Ascher

Göteborgs universitet

Johan Ek

Buskerud Central Hospital

Staffan Nilsson

Göteborgs universitet

Chalmers, Matematiska vetenskaper, matematisk statistik

Benedicte Alexandra Lie

Universitetet i Oslo

Åsa Torinsson Naluai

Göteborgs universitet

Ludvig M Sollid

Universitetet i Oslo

Genes and Immunity

1466-4879 (ISSN) 1476-5470 (eISSN)

Vol. 11 79-86

Ämneskategorier

MEDICIN OCH HÄLSOVETENSKAP

DOI

10.1038/gene.2009.67

PubMed

19693089