Follow-up association study of linkage regions reveals multiple candidate genes for carotid plaque in Dominicans

Atherosclerosis

Volumn 223, Issue 1, 2012, Pages 177-183

  Dong, Chuanhui ^a   Beecham, Ashley ^a   Wang, Liyong ^a   Blanton, Susan H ^a   Rundek, Tatjana ^a   Sacco, Ralph L ^a  

^a UNIVERSITY OF MIAMI MILLER SCHOOL OF MEDICINE   (United States)

Author keywords

Atherosclerosis; Carotid plaque; Fine mapping; Hispanics; Linkage

Indexed keywords

AGBL1 GENE; ARTICLE; ATHEROSCLEROTIC PLAQUE; CAROTID ATHEROSCLEROSIS; DOMINICAN REPUBLIC; EFCAB11 GENE; FAMILY STUDY; FOLLOW UP; GENE; GENETIC ASSOCIATION; GENETIC LINKAGE; GENETIC SUSCEPTIBILITY; GENOTYPE; HUMAN; MAJOR CLINICAL STUDY; NAV2 GENE; PRIORITY JOURNAL; SINGLE NUCLEOTIDE POLYMORPHISM;

CAROTID ARTERIES; CAROTID ARTERY DISEASES; DOMINICAN REPUBLIC; FOLLOW-UP STUDIES; GENE FREQUENCY; GENETIC ASSOCIATION STUDIES; GENETIC LINKAGE; GENETIC PREDISPOSITION TO DISEASE; HEREDITY; HUMANS; LINEAR MODELS; LINKAGE DISEQUILIBRIUM; NEW YORK CITY; PEDIGREE; PHENOTYPE; PLAQUE, ATHEROSCLEROTIC; POLYMORPHISM, SINGLE NUCLEOTIDE; PRINCIPAL COMPONENT ANALYSIS; RISK ASSESSMENT; RISK FACTORS;

EID: 84863089480     PISSN: 00219150     EISSN: 18791484     Source Type: Journal    
DOI: 10.1016/j.atherosclerosis.2012.03.025     Document Type: Article

References (43)

1. Inaba Y., Chen J.A., Bergmann S.R. Carotid plaque, compared with carotid intima-media thickness, more accurately predicts coronary artery disease events: a meta-analysis. Atherosclerosis 2012, 220:128-133.
2. Spence J.D., Rundek T. Toward clinical applications of carotid ultrasound: intima-media thickness, plaque area, and three-dimensional phenotypes 2012, Springer-Verlag London Ltd., London.
3. Dong C., Beecham A., Slifer S., Wang L., Blanton S.H., Wright C.B., et al. Genomewide linkage and peakwide association analyses of carotid plaque in Caribbean Hispanics. Stroke 2010, 41(12):2750-2756.
4. Hunt K.J., Duggirala R., Goring H.H., Williams J.T., Almasy L., Blangero J., et al. Genetic basis of variation in carotid artery plaque in the San Antonio Family Heart Study. Stroke 2002, 33(12):2775-2780.
5. Bis J.C., Kavousi M., Franceschini N., Isaacs A., Abecasis G.R., Schminke U., et al. Meta-analysis of genome-wide association studies from the CHARGE consortium identifies common variants associated with carotid intima media thickness and plaque. Nat Genet 2011, 43(10):940-947.
6. Laird N.M., Lange C. Family-based methods for linkage and association analysis. Adv Genet 2008, 60:219-252.
7. Sacco R.L., Sabala E.A., Rundek T., Juo S.H., Huang J.S., DiTullio M., et al. Design of a family study among high-risk Caribbean Hispanics: the Northern Manhattan Family Study. Ethn Dis 2007, 17(2):351-357.
8. Sacco R.L., Khatri M., Rundek T., Xu Q., Gardener H., Boden-Albala B., et al. Improving global vascular risk prediction with behavioral and anthropometric factors. The multiethnic NOMAS (Northern Manhattan Cohort Study). J Am Coll Cardiol 2009, 54(24):2303-2311.
9. Rundek T., Arif H., Boden-Albala B., Elkind M.S., Paik M.C., Sacco R.L. Carotid plaque, a subclinical precursor of vascular events: the Northern Manhattan Study. Neurology 2008, 70(14):1200-1207.
10. Almasy L., Blangero J. Multipoint quantitative-trait linkage analysis in general pedigrees. Am J Hum Genet 1998, 62(5):1198-1211.
11. Abecasis G.R., Cardon L.R., Cookson W.O. A general test of association for quantitative traits in nuclear families. Am J Hum Genet 2000, 66(1):279-292.
12. Lange C., DeMeo D., Silverman E.K., Weiss S.T., Laird N.M. PBAT: tools for family-based association studies. Am J Hum Genet 2004, 74(2):367-369.
13. Price A.L., Patterson N.J., Plenge R.M., Weinblatt M.E., Shadick N.A., Reich D. Principal components analysis corrects for stratification in genome-wide association studies. Nat Genet 2006, 38(8):904-909.
14. Li J.Z., Absher D.M., Tang H., Southwick A.M., Casto A.M., Ramachandran S., et al. Worldwide human relationships inferred from genome-wide patterns of variation. Science (New York, NY) 2008, 319(5866):1100-1104.
15. Lange L.A., Lange E.M., Bielak L.F., Langefeld C.D., Kardia S.L., Royston P., et al. Autosomal genome-wide scan for coronary artery calcification loci in sibships at high risk for hypertension. Arterioscler Thromb Vasc Biol 2002, 22(3):418-423.
16. O'Donnell C.J., Cupples L.A., D'Agostino R.B., Fox C.S., Hoffmann U., Hwang S.J., et al. Genome-wide association study for subclinical atherosclerosis in major arterial territories in the NHLBI's Framingham Heart Study. BMC Med Genet 2007, 8(Suppl. 1):S4.
17. Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., et al. Complete sequencing and characterization of 21,243 full-length human cDNAs. Nat Genet 2004, 36(1):40-45.
18. Das B.B., Antony S., Gupta S., Dexheimer T.S., Redon C.E., Garfield S., et al. Optimal function of the DNA repair enzyme TDP1 requires its phosphorylation by ATM and/or DNA-PK. EMBO J 2009, 28(23):3667-3680.
19. El-Khamisy S.F., Saifi G.M., Weinfeld M., Johansson F., Helleday T., Lupski J.R., et al. Defective DNA single-strand break repair in spinocerebellar ataxia with axonal neuropathy-1. Nature 2005, 434(7029):108-113.
20. Miyagawa T., Kawashima M., Nishida N., Ohashi J., Kimura R., Fujimoto A., et al. Variant between CPT1B and CHKB associated with susceptibility to narcolepsy. Nat Genet 2008, 40(11):1324-1328.
21. Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls. Nature 2007, 447(7145):661-678.
22. Pati D., Keller C., Groudine M., Plon S.E. Reconstitution of a MEC1-independent checkpoint in yeast by expression of a novel human fork head cDNA. Mol Cell Biol 1997, 17(6):3037-3046.
23. Strachan D.P., Rudnicka A.R., Power C., Shepherd P., Fuller E., Davis A., et al. Lifecourse influences on health among British adults: effects of region of residence in childhood and adulthood. Int J Epidemiol 2007, 36(3):522-531.
24. Florez J.C., Manning A.K., Dupuis J., McAteer J., Irenze K., Gianniny L., et al. A 100K genome-wide association scan for diabetes and related traits in the Framingham Heart Study: replication and integration with other genome-wide datasets. Diabetes 2007, 56(12):3063-3074.
25. Harold D., Abraham R., Hollingworth P., Sims R., Gerrish A., Hamshere M.L., et al. Genome-wide association study identifies variants at CLU and PICALM associated with Alzheimer's disease. Nat Genet 2009, 41(10):1088-1093.
26. McNeill E.M., Roos K.P., Moechars D., Clagett-Dame M. Nav2 is necessary for cranial nerve development and blood pressure regulation. Neural Dev 2010, 5:6.
27. Ligthart L., de Vries B., Smith A.V., Ikram M.A., Amin N., Hottenga J.J., et al. Meta-analysis of genome-wide association for migraine in six population-based European cohorts. Eur J Hum Genet 2011, 19(8):901-907.
28. Sullivan P.F., Lin D., Tzeng J.Y., van den Oord E., Perkins D., Stroup T.S., et al. Genomewide association for schizophrenia in the CATIE study: results of stage 1. Mol Psychiatry 2008, 13(6):570-584.
29. Mi S., Lee X., Shao Z., Thill G., Ji B., Relton J., et al. LINGO-1 is a component of the Nogo-66 receptor/p75 signaling complex. Nat Neurosci 2004, 7(3):221-228.
30. Inoue H., Lin L., Lee X., Shao Z., Mendes S., Snodgrass-Belt P., et al. Inhibition of the leucine-rich repeat protein LINGO-1 enhances survival, structure, and function of dopaminergic neurons in Parkinson's disease models. Proc Natl Acad Sci USA 2007, 104(36):14430-14435.
31. Stefansson H., Steinberg S., Petursson H., Gustafsson O., Gudjonsdottir I.H., Jonsdottir G.A., et al. Variant in the sequence of the LINGO1 gene confers risk of essential tremor. Nat Genet 2009, 41(3):277-279.
32. Gu M., Warshawsky I., Majerus P.W. Cloning and expression of a cytosolic megakaryocyte protein-tyrosine-phosphatase with sequence homology to retinaldehyde-binding protein and yeast SEC14p. Proc Natl Acad Sci USA 1992, 89(7):2980-2984.
33. Okada Y., Kamatani Y., Takahashi A., Matsuda K., Hosono N., Ohmiya H., et al. A genome-wide association study in 19 633 Japanese subjects identified LHX3-QSOX2 and IGF1 as adult height loci. Hum Mol Genet 2010, 19(11):2303-2312.
34. van Es M.A., van Vught P.W., Blauw H.M., Franke L., Saris C.G., Van den Bosch L., et al. Genetic variation in DPP6 is associated with susceptibility to amyotrophic lateral sclerosis. Nat Genet 2008, 40(1):29-31.
35. Alders M., Koopmann T.T., Christiaans I., Postema P.G., Beekman L., Tanck M.W., et al. Haplotype-sharing analysis implicates chromosome 7q36 harboring DPP6 in familial idiopathic ventricular fibrillation. Am J Hum Genet 2009, 84(4):468-476.
36. Barrett J.C., Clayton D.G., Concannon P., Akolkar B., Cooper J.D., Erlich H.A., et al. Genome-wide association study and meta-analysis find that over 40 loci affect risk of type 1 diabetes. Nat Genet 2009, 41(6):703-707.
37. Palmer N.D., McDonough C.W., Hicks P.J., Roh B.H., Wing M.R., An S.S., et al. A genome-wide association search for type 2 diabetes genes in African Americans. PLoS One 2010, 7(1):e29202.
38. Debette S., Bis J.C., Fornage M., Schmidt H., Ikram M.A., Sigurdsson S., et al. Genome-wide association studies of MRI-defined brain infarcts: meta-analysis from the CHARGE Consortium. Stroke 2010, 41(2):210-217.
39. Morrison A.C., Felix J.F., Cupples L.A., Glazer N.L., Loehr L.R., Dehghan A., et al. Genomic variation associated with mortality among adults of European and African ancestry with heart failure: the cohorts for heart and aging research in genomic epidemiology consortium. Circ Cardiovasc Genet 2010, 3(3):248-255.
40. Gottlieb D.J., O'Connor G.T., Wilk J.B. Genome-wide association of sleep and circadian phenotypes. BMC Med Genet 2007, 8(Suppl. 1):S9.
41. Wu J., Wang Y., Zhang Y., Li L. Association between interleukin-16 polymorphisms and risk of coronary artery disease. DNA Cell Biol 2011, 30(5):305-308.
42. Casserly I., Topol E. Convergence of atherosclerosis and Alzheimer's disease: inflammation, cholesterol, and misfolded proteins. Lancet 2004, 363(9415):1139-1146.
43. Lanktree M.B., Hegele R.A., Schork N.J., Spence J.D. Extremes of unexplained variation as a phenotype: an efficient approach for genome-wide association studies of cardiovascular disease. Circ Cardiovasc Genet 2010, 3(2):215-221.