Association analysis of 3p21 with Crohn's disease in a New Zealand population

Human Immunology

Volumn 71, Issue 6, 2010, Pages 602-609

  Morgan, Angharad R ^a,b   Han, Dug Yeo ^a,b   Lam, Wen Jiun ^a,b   Fraser, Alan G ^a,b   Ferguson, Lynnette R ^a,b  

^a THE UNIVERSITY OF AUCKLAND   (New Zealand)

^b Nutrigenomics New Zealand   (New Zealand)

Author keywords

3p21 locus; Crohn's disease; Genetic association; Phenotype; SNP

Indexed keywords

CASPASE RECRUITMENT DOMAIN PROTEIN 15; NOD2 PROTEIN, HUMAN;

ADOLESCENT; ADULT; ARTICLE; CASE CONTROL STUDY; CHROMOSOME 3P; CONTROLLED STUDY; CROHN DISEASE; DISEASE ACTIVITY; FEMALE; GENE FREQUENCY; GENE LOCUS; GENETIC ASSOCIATION; GENETIC DIFFERENCE; GENOTYPE; HUMAN; INTESTINE RESECTION; MAJOR CLINICAL STUDY; MALE; NEW ZEALAND; PHENOTYPE; PRIORITY JOURNAL; PROTEIN DNA INTERACTION; SINGLE NUCLEOTIDE POLYMORPHISM; CHROMOSOME 3; GENE LINKAGE DISEQUILIBRIUM; GENETIC PREDISPOSITION; GENETICS; HAPLOTYPE; IMMUNOLOGY; MIDDLE AGED; NUCLEOTIDE SEQUENCE;

ADULT; CASE-CONTROL STUDIES; CHROMOSOMES, HUMAN, PAIR 3; CROHN DISEASE; DNA MUTATIONAL ANALYSIS; FEMALE; GENE FREQUENCY; GENETIC ASSOCIATION STUDIES; GENETIC PREDISPOSITION TO DISEASE; GENOTYPE; HAPLOTYPES; HUMANS; LINKAGE DISEQUILIBRIUM; MALE; MIDDLE AGED; NEW ZEALAND; NOD2 SIGNALING ADAPTOR PROTEIN; POLYMORPHISM, SINGLE NUCLEOTIDE;

EID: 77952888586     PISSN: 01988859     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.humimm.2010.03.003     Document Type: Article

References (27)

1. Raelson J.V., Little R.D., Ruether A., Fournier H., Paguin B., Eerdewegh P., et al. Genome-wide association study for Crohn's disease in the Quebec founder population identifies multiple validated disease loci. Proc Natl Acad Sci USA 2007, 104:14747-14752.
2. Esworthy R.S., Aranda R., Martin M.G., Doroshow J.H., Binder S.W., et al. Mice with combined disruption of Gpx1 and Gpx2 genes have colitis. Am J Physiol 2001, 281:G848-G855.
3. Segain J.P., Raingeard de la Blétière D., Sauzeau V., Bourreille A., Hilaret G., Cario-Toumaniantz C., et al. Rho kinase blockade prevents inflammation via nuclear factor kappa B inhibition: Evidence in Crohn's disease and experimental colitis. Gastroenterology 2003, 124:1180-1187.
4. Nguyen K.T., Pe I.D. Purification and characterization of enzymes involved in the degradation of chemotactic N-formyl peptides. Biochemistry 2005, 44:8514-8522.
5. Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls. Nature 2007, 447:661-678. Wellcome Trust, Case Control Consortium.
6. Satsangi J., Parkes M., Louis E., Hashimoto L., Kato N., Welsh K., et al. Two stage genome-wide search in inflammatory bowel disease provides evidence for susceptibility loci on chromosomes 3, 7 and 12. Nat Genet 1996, 14:199-202.
7. Hampe J., Schreiber S., Shaw S.H., Lau K.F., Bridger S., Macpherson A.J., et al. A genomewide analysis provides evidence for novel linkages in inflammatory bowel disease in a large European cohort. Am J Hum Genet 1999, 64:808-816.
8. Rioux J.D., Silverberg M.S., Daly M.J., Steinhart A.H., McLeod R.S., Griffiths A.M., et al. Genomewide search in Canadian families with inflammatory bowel disease reveals two novel susceptibility loci. Am J Hum Genet 2000, 66:1863-1870.
9. Hampe J., Lynch N.J., Daniels S., Bridger S., Macpherson A.J., Stokkers P., et al. Fine mapping of the chromosome 3p susceptibility locus in inflammatory bowel disease. Gut 2001, 48:191-197.
10. Duerr R.H., Barmada M.M., Zhang L., Achkar J.P., Cho J.H., Hanauer S.B., et al. Evidence for an inflammatory bowel disease locus on chromosome 3p26: Linkage, transmission/disequilibrium and partitioning of linkage. Hum Mol Genet 2002, 11:2599-2606.
11. Fisher S.A., Tremelling M., Anderson C.A., Gwilliam R., Bumpstead S., Prescott N.J., et al. Genetic determinants of ulcerative colitis include the ECM1 locus and five loci implicated in Crohn's disease. Nat Genet 2008, 40:710-712.
12. Franke A., Balschun T., Karlsen T.H., Hedderich J., May S., Schuldt D., et al. Replication of signals from recent studies of Crohn's disease identifies previously unknown disease loci for ulcerative colitis. Nat Genet 2008, 40:713-715.
13. Goyette P., Lefebvre C., Ng A., Brant S.R., Cho J.H., Duerr R.H., et al. Gene-centric association mapping of chromosome 3p implicates MST1 in IBD pathogenesis. Mucosal Immunol 2008, 1:131-138.
14. Gearry R.B., Richardson A., Frampton C.M., Collett J.A., Burt M.J., Chapman B.A., et al. High incidence of Crohn's disease in Canterbury, New Zealand: Results of an epidemiologic study. Inflamm Bowel Dis 2006, 12:936-943.
15. Yap J., Wesley A., Mouat S., Chin S. Paediatric inflammatory bowel disease in New Zealand. N Z Med J 2008, 121:19-34.
16. Tarrant K.M., Barclay M.L., Frampton C.M., Gearry R.B. Perianal disease predicts changes in Crohn's disease phenotype-results of a population-based study of inflammatory bowel disease phenotype. Am J Gastroenterol 2008, 103:3082-3093.
17. Lennard-Jones J.E. Classification of inflammatory bowel disease. Scand J Gastroenterol 1989, 170:2-6.
18. Jurinke C., van der Boom D., Cantor C.R., Köster H. The use of massARRAY technology for high throughput genotyping. Adv Biochem Eng/Biotechnol 2002, 77:57-74.
19. Storm N., Darnhofer-Patel B., van der Boom D., Rodi C.P. MALDI-TOF mass spectrometry-based SNP genotyping. Methods Mol Biol 2003, 212:241-262.
20. Barrett J.C., Fry B., Maller J., Daly M.J. Haploview: Analysis and visualization of LD and haplotype maps. Bioinformatics 2005, 21:263-265.
21. Gabriel S.B., Schaffner S.F., Nguyen H., Moore J.M., Roy J., Blumenstiel B., et al. The structure of haplotype blocks in the human genome. Science 2002, 296:2225-2229.
22. Ihaka R., Gentleman R.R. A language for data analysis and graphics. J Comput Graph Stat 1996, 5:299-314.
23. Hampe J., Franke A., Rosenstiel P., Till A., Teuber M., Huse K., et al. A genome-wide association scan of nonsynonymous SNPs identifies a susceptibility variant for Crohn's disease in ATG16L1. Nat Genet 2007, 39:207-211.
24. Storey J.D. A direct approach to false discovery rates. J R Stat Soc 2002, 64:479-498.
25. Márquez A., Condit M.C., Núñez C., Mendoza J.L., Taxonera C., Díaz-Rubio M., et al. Effect of BSN-MST1 locus on inflammatory bowel disease and multiple sclerosis susceptibility. Genes Immun 2009, 10:631-635.
26. Beckly J.B., Hancock L., Geremia A., Cummings J.R., Morris A., Cooney R., et al. Two-stage candidate gene study of chromosome 3p demonstrates an association between nonsynonymous variants in the MST1R gene and Crohn's disease. Inflamm Bowel Dis 2009, 14:500-507.
27. Latiano A., Palmieri O., Corritore G., Valvano M.R., Bossa F., Cucchiara S., et al. Variants at the 3p21 locus influence susceptibility and phenotype both in adults and early-onset patients with inflammatory bowel disease. Inflamm Bowel Dis 2009, Dec 18, [Epub ahead of print].