Genome-wide association studies in type 1 diabetes

Current Diabetes Reports

Volumn 9, Issue 2, 2009, Pages 157-163

  Grant, Struan F A ^b   Hakonarson, Hakon ^a  

^a UNIVERSITY OF PENNSYLVANIA   (United States)

^b NONE

Author keywords

[No Author keywords available]

Indexed keywords

C TYPE LECTIN DOMAIN FAMILY 16 MEMBER A; HELICASE; HLA ANTIGEN CLASS 2; HLA DQB1 ANTIGEN; HLA DR ANTIGEN; INTERFERON INDUCED WITH HELICASE C DOMAIN 1; LECTIN; MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 1; NON RECEPTOR PROTEIN TYROSINE PHOSPHATASE 22; UBIQUITIN; UBIQUITIN ASSOCIATED AND SH3 DOMAIN CONTAINING PROTEIN A; UNCLASSIFIED DRUG;

AMINO ACID SUBSTITUTION; DNA MICROARRAY; FOLLOW UP; GENE FUNCTION; GENE LOCUS; GENETIC ASSOCIATION; GENETIC RISK; GENETIC SCREENING; GENOME ANALYSIS; HIGH THROUGHPUT SCREENING; HUMAN; INSULIN DEPENDENT DIABETES MELLITUS; MAJOR HISTOCOMPATIBILITY COMPLEX; MULTIFACTORIAL GENETIC DISORDER; PATHOGENESIS; REVIEW; RISK ASSESSMENT; SINGLE NUCLEOTIDE POLYMORPHISM;

DIABETES MELLITUS, TYPE 1; DIABETES MELLITUS, TYPE 2; GENOME-WIDE ASSOCIATION STUDY; HUMANS; MAJOR HISTOCOMPATIBILITY COMPLEX; META-ANALYSIS AS TOPIC; POLYMORPHISM, SINGLE NUCLEOTIDE;

EID: 63349108409     PISSN: 15344827     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11892-009-0026-5     Document Type: Review

References (50)

1. Variation and trends in incidence of childhood diabetes in Europe. EURODIAB ACE Study Group [no authors listed]. Lancet 2000, 355:873-876.
2. Onkamo P, Vaananen S, Karvonen M, Tuomilehto J: Worldwide increase in incidence of type I diabetes: The analysis of the data on published incidence trends. Diabetologia 1999, 42:1395-1403.
3. Bell GI, Horita S, Karam JH: A polymorphic locus near the human insulin gene is associated with insulin-dependent diabetes mellitus. Diabetes 1984, 33:176-183.
4. Bennett ST, Lucassen AM, Gough SC, et al.: Susceptibility to human type 1 diabetes at IDDM2 is determined by tandem repeat variation at the insulin gene minisatellite locus. Nat Genet 1995, 9:284-292.
5. Vafiadis P, Bennett ST, Todd JA, et al.: Insulin expression in human thymus is modulated by INS VNTR alleles at the IDDM2 locus. Nat Genet 1997, 15:289-292.
6. Barratt BJ, Payne F, Lowe CE, et al.: Remapping the insulin gene/IDDM2 locus in type 1 diabetes. Diabetes 2004, 53:1884-1889.
7. Kristiansen OP, Larsen ZM, Pociot F: CTLA-4 in autoimmune diseases - a general susceptibility gene to autoimmunity? Genes Immun 2000, 1:170-184.
8. Ueda H, Howson JM, Esposito L, et al.: Association of the T-cell regulatory gene CTLA4 with susceptibility to autoimmune disease. Nature 2003, 423:506-511.
9. Anjos SM, Tessier MC, Polychronakos C: Association of the cytotoxic T lymphocyte-associated antigen 4 gene with type 1 diabetes: Evidence for independent effects of two polymorphisms on the same haplotype block. J Clin Endocrinol Metab 2004, 89:6257-6265.
10. Nisticò L, Buzzetti R, Pritchard LE, et al.: The CTLA-4 gene region of chromosome 2q33 is linked to, and associated with, type 1 diabetes. Belgian Diabetes Registry. Hum Mol Genet 1996, 5:1075-1080.
11. Bottini N, Musumeci L, Alonso A, et al.: A functional variant of lymphoid tyrosine phosphatase is associated with type I diabetes. Nat Genet 2004, 36:337-338.
12. Smyth D, Cooper JD, Collins JE, et al.: Replication of an association between the lymphoid tyrosine phosphatase locus (LYP/PTPN22) with type 1 diabetes, and evidence for its role as a general autoimmunity locus. Diabetes 2004, 53:3020-3023.
13. Vella A, Cooper JD, Lowe CE, et al.: Localization of a type 1 diabetes locus in the IL2RA/CD25 region by use of tag single-nucleotide polymorphisms. Am J Hum Genet 2005, 76:773-779.
14. Qu HQ, Montpetit A, Ge B, et al.: Toward further mapping of the association between the IL2RA locus and type 1 diabetes. Diabetes 2007, 56:1174-1176.
15. Lowe CE, Cooper JD, Brusko T, et al.: Large-scale genetic fine mapping and genotype-phenotype associations implicate polymorphism in the IL2RA region in type 1 diabetes. Nat Genet 2007, 39:1074-1082.
16. Guo D, Li M, Zhang Y, et al.: A functional variant of SUMO4, a new I kappa B alpha modifier, is associated with type 1 diabetes. Nat Genet 2004, 36:837-841.
17. Mirel DB, Valdes AM, Lazzeroni LC, et al.: Association of IL4R haplotypes with type 1 diabetes. Diabetes 2002, 51:3336-3341.
18. Biason-Lauber A, Boehm B, Lang-Muritano M, et al.: Association of childhood type 1 diabetes mellitus with a variant of PAX4: Possible link to beta cell regenerative capacity. Diabetologia 2005, 48:900-905.
19. The International HapMap Consortium: The International HapMap Project. Nature 2003, 426:789-796.
20. Smyth DJ, Cooper JD, Bailey R, et al.: A genome-wide association study of nonsynonymous SNPs identifies a type 1 diabetes locus in the interferon-induced helicase (IFIH1) region. Nat Genet 2006, 38:617-619.
21. Knip M, Veijola R, Virtanen SM, et al.: Environmental triggers and determinants of type 1 diabetes. Diabetes 2005, 54(Suppl 2):S125-S136.
22. Hakonarson H, Grant SF, Bradfield JP, et al.: A genome-wide association study identifies KIAA0350 as a type 1 diabetes gene. Nature 2007, 448:591-594.
23. Wellcome Trust Case Control Consortium: Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls. Nature 2007, 447:661-678.
24. Todd JA, Walker NM, Cooper JD, et al.: Robust associations of four new chromosome regions from genome-wide analyses of type 1 diabetes. Nat Genet 2007, 39:857-864.
25. Hakonarson H, Qu HQ, Bradfield JP, et al.: A novel susceptibility locus for type 1 diabetes on Chr12q13 identified by a genome-wide association study. Diabetes 2008, 57:1143-1146.
26. Nejentsev S, Howson JM, Walker NM, et al.: Localization of type 1 diabetes susceptibility to the MHC class I genes HLA-B and HLA-A. Nature 2007, 450:887-892.
27. Grant SF, Qu HQ, Bradfield JP, et al.: Follow-up analysis of genome-wide association data identifies novel loci for type 1 diabetes. Diabetes 2009, 58:290-295.
28. Muto A, Hoshino H, Madisen L, et al.: Identification of Bach2 as a B-cell-specific partner for small maf proteins that negatively regulate the immunoglobulin heavy chain gene 3′ enhancer. Embo J 1998, 17:5734-5743.
29. Concannon P, Onengut-Gumuscu S, Todd JA, et al.: A human type 1 diabetes susceptibility locus maps to chromosome 21q22.3. Diabetes 2008, 57:2858-2861.
30. Bergholdt R, Eising S, Nerup J, Pociot F: Increased prevalence of Down's syndrome in individuals with type 1 diabetes in Denmark: A nationwide population-based study. Diabetologia 2006, 49:1179-1182.
31. Van Goor JC, Massa GG, Hirasing R: Increased incidence and prevalence of diabetes mellitus in Down's syndrome. Arch Dis Child 1997, 77:186.
32. Anwar AJ, Walker JD, Frier BM: Type 1 diabetes mellitus and Downs syndrome: Prevalence, management and diabetic complications. Diabet Med 1998, 15:160-163.
33. Tsygankov AY: Multidomain STS/TULA proteins are novel cellular regulators. IUBMB Life 2008, 60:224-231.
34. Cohen S, Dadi H, Shaoul E, et al.: Cloning and characterization of a lymphoid-specific, inducible human protein tyrosine phosphatase, Lyp. Blood 1999, 93:2013-2024.
35. Cooper JD, Smyth DJ, Smiles AM, et al.: Meta-analysis of genome-wide association study data identifies additional type 1 diabetes risk loci. Nat Genet 2008, 40:1399-1401.
36. Mueller PW, Rogus JJ, Cleary PA, et al.: Genetics of Kidneys in Diabetes (GoKinD) study: A genetics collection available for identifying genetic susceptibility factors for diabetic nephropathy in type 1 diabetes. J Am Soc Nephrol 2006, 17:1782-1790.
37. GAIN Collaborative Research Group, Manolio TA, Rodriguez LL, et al.: New models of collaboration in genome-wide association studies: The Genetic Association Information Network. Nat Genet 2007, 39:1045-1051.
38. Hayashi K, Altman A: Protein Ainase C theta (PKCtheta): a key player in T cell life and death. Pharmacol Res 2007, 55:537-544.
39. Wilkin TJ: The accelerWtor hypothesis: weight gain as the missing link between type I and type II diabetes. Diabetologia 2001, 44:914-922.
40. Huxtable SJ, Saker PJ, Haddad L, et al.: Analysis of parentoffspring trios provides evidence for linkage and association between the insulin gene and type 2 diabetes mediated exclusively through paternally transmitted class III variable number tandem repeat alleles. Diabetes 2000, 49:126-130.
41. Grant SF, Thorleifsson G, Reynisdottir I, et al.: Variant of transcription factor 7-like 2 (TCF7L2) gene confers risk of type 2 diabetes. Nat Genet 2006, 38:320-323.
42. Qu HQ, Polychronakos C: The TCF7L2 locus and type 1 diabetes. BMC Med Genet 2007, 8:51.
43. Field SF, Howson JM, Smyth DJ, et al.: Analysis of the type 2 diabetes gene, TCF7L2, in 13,795 type 1 diabetes cases and control subjects. Diabetologia 2007, 50:212-213.
44. Cervin C, Lyssenko V, Bakhtadze E, et al.: Genetic similarities between latent autoimmune diabetes in adults, type 1 diabetes, and type 2 diabetes. Diabetes 2008, 57:1433-1437.
45. Qu HQ, Grant SF, Bradfield JP, et al.: Association analysis of type 2 diabetes Loci in type 1 diabetes. Diabetes 2008, 57:1983-1986.
46. Frayling TM, Timpson NJ, Weedon MN, et al.: A common variant in the FTO gene is associated with body mass index and predisposes to childhood and adult obesity. Science 2007, 316:889-894.
47. Virtanen SM, Knip M: Nutritional risk predictors of beta cell autoimmunity and type 1 diabetes at a young age. Am J Clin Nutr 2003, 78:1053-1067.
48. Field SF, Howson JM, Walker NM, et al.: Analysis of the obesity gene FTO in 14,803 type 1 diabetes cases and controls. Diabetologia 2007, 50:2218-2220.
49. Barrett JC, Hansoul S, Nicolae DL, et al.: Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease. Nat Genet 2008.
50. International Multiple Sclerosis Genetics Consortium, Hafler DA, Compston A, et al.: Risk alleles for multiple sclerosis identified by a genomewide study. N Engl J Med 2007, 357:851-862.