Genome-wide admixture mapping for coronary artery calcification in African Americans: The NHLBI family heart study

Genetic Epidemiology

Volumn 32, Issue 3, 2008, Pages 264-272

  Zhang, Qunyuan ^a   Lewis, Cora E ^b   Wagenknecht, Lynne E ^c   Myers, Richard H ^d   Pankow, James S ^e   Hunt, Steven C ^f   North, Kari E ^g   Hixson, James E ^h   Carr, J Jeffrey ^c   Shimmin, Lawrence C ^h   Borecki, Ingrid ^a   Province, Michael A ^a  

^a WASHINGTON UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b UNIVERSITY OF ALABAMA AT BIRMINGHAM   (United States)

^c WAKE FOREST SCHOOL OF MEDICINE   (United States)

^d BOSTON UNIVERSITY SCHOOL OF MEDICINE   (United States)

^e UNIVERSITY OF MINNESOTA   (United States)

^f UNIVERSITY OF UTAH SCHOOL OF MEDICINE   (United States)

^g IL   (United States)

^h UNIVERSITY OF TEXAS SCHOOL OF PUBLIC HEALTH   (United States)

Author keywords

Admixture mapping; African Americans; Atherosclerosis; Coronary artery calcification; Genome scan

Indexed keywords

ADULT; AFRICAN AMERICAN; AGED; ARTERY CALCIFICATION; ARTICLE; COMPUTER PROGRAM; CONTROLLED STUDY; CORONARY ARTERY; FEMALE; GENE LOCUS; GENE MAPPING; GENE MUTATION; GENOME ANALYSIS; GENOTYPE; HUMAN; MAJOR CLINICAL STUDY; MALE; MICROSATELLITE MARKER;

ADULT; AFRICAN AMERICANS; AGED; AGED, 80 AND OVER; ATHEROSCLEROSIS; CHROMOSOME MAPPING; CORONARY ARTERY DISEASE; FAMILY HEALTH; FEMALE; GENETIC MARKERS; GENETIC PREDISPOSITION TO DISEASE; GENOME, HUMAN; HUMANS; MALE; MARKOV CHAINS; MICROSATELLITE REPEATS; MIDDLE AGED; MONTE CARLO METHOD; NATIONAL HEART, LUNG, AND BLOOD INSTITUTE (U.S.); QUANTITATIVE TRAIT LOCI; UNITED STATES;

EID: 42249087163     PISSN: 07410395     EISSN: 10982272     Source Type: Journal    
DOI: 10.1002/gepi.20301     Document Type: Article

References (62)

1. Abecasis GR, Cherny SS, Cookson WO, Cardon LR. 2001. GRR: graphical representation of relationship errors. Bioinformatics 17:742-743.
2. Benjamini Y, Hochberg Y. 1995. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc (Ser B) 57:289-300.
3. Bild DE, Detrano R, Peterson D, Guerci A, Liu K, Shahar E, Ouyang P, Jackson S, Saad MF. 2005. Ethnic differences in coronary calcification: the Multi-Ethnic Study of Atherosclerosis (MESA). Circulation 111:1313-1320.
4. Blom G. 1958. Statistical Estimates and Transformed Beta-Variables. New York: Wiley.
5. Bostrom K, Watson KE, Horn S, Wortham C, Herman IM, Demer LL. 1993. Bone morphogenetic protein expression in human artherosclerotic lesions. J Clin Invest 91:1800-1809.
6. Briscoe D, Stephens JC, O'Brien SJ. 1994. Linkage disequilibrium in admixed populations: applications in gene mapping. J Hered 85:59-63.
7. Burdon KP, Lehtinen AB, Lewis JP, Langefeld CD, Ziegler JT, Freedman BI, Bowde DW. 2005. AHSG gene polymorphisms are associated with coronary artery calcification in the Diabetes Heart Study. ASHG 2005 Meeting Abstract CDROM: Program 1754/w.
8. Carr JJ, Nelson JC, Wong ND, McNitt-Gray M, Arad Y, Jacobs Jr DR, Sidney S, Bild DE, Williams OD, Detrano RC. 2005. Calcified coronary artery plaque measurement with cardiac CT in population-based studies: standardized protocol of Multi-Ethnic Study of Atherosclerosis (MESA) and Coronary Artery Risk Development in Young Adults (CARDIA) study. Radiology 234:35-43.
9. Chakraborty R, Weiss KM. 1988. Admixture as a tool for finding linked genes and detecting that difference from allelic association between loci. Proc Natl Acad Sci USA 85:9119-9123.
10. Chikhi L, Bruford MW, Beaumont MA. 2001. Estimation of admixture proportions: a likelihood-based approach using Markov chain Monte Carlo. Genetics 158:1347-1362.
11. Cupples LA, Liu CY, Hoffman U, Massaro JM, Hwang SJ, Larson MJ, Manders E, Fox CS, O'Donnell CJ. 2005. Subclinical atherosclerotic traits are heritable: the Framingham heart study. ASHG 2005 Meeting Abstract CDROM: Program 2313/T.
12. Darvasi A, Shifman S. 2005. The beauty of admixture. Nat Genet 37:118-119.
13. Djoussé L, Arnett DK, Carr JJ, Eckfeldt JH, Hopkins PN, Province MA, Ellison RC. 2005. Dietary linolenic acid is inversely associated with calcified atherosclerotic plaque in the coronary arteries: the National Heart, Lung, and Blood Institute Family Heart Study. Circulation 111:2921-2926.
14. Doherty TM, Tang W, Detrano RC. 1999. Racial differences in the significance of coronary calcium in asymptomatic black and white subjects with coronary risk factors. J Am Coll Cardiol 34:787-794.
15. Ellison RC, Zhang Y, Wagenknecht LE, Eckfeldt JH, Hopkins PN, Pankow JS, Djoussé L, Carr JJ. 2005. Relation of the metabolic syndrome to calcified atherosclerotic plaque in the coronary arteries and aorta. Am J Cardiol 95:1180-1186.
16. Ellsworth DL, Bielak LF, Turner ST, Sheedy PF, Boerwinkle E, Peyser PA. 2001. Gender and age dependent relationships between the E-selectin S128R polymorphism and coronary artery calcification. J Mol Med 79:390-398.
17. Falush D, Stephens M, Pritchard JK. 2003. Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics 164:1567-1587.
18. Feitosa MF, Borecki IB, Rich SS, Arnett DK, Sholinsky P, Myers RH, Leppert M, Province MA. 2002. Quantitative-trait loci influencing body-mass index reside on chromosomes 7 and 13: the National Heart, Lung, and Blood Institute Family Heart Study. Am J Hum Genet 70:72-82.
19. Fornage M, Boerwinkle E, Doris PA, Jacobs D, Liu K, Wong ND. 2004. Polymorphism of the soluble epoxide hydrolase is associated with coronary artery calcification in African-American subjects: the coronary artery risk development in young adults (CARDIA) study. Circulation 109:335-339.
20. Hanis CL, Chakraborty R, Ferrell RE, Schull WJ. 1986. Individual admixture estimates: disease associations and individual risk of diabetes and gallbladder disease among Mexican-Americans in Starr County, Texas. Am J Phys Anthropol 70:433-441.
21. Higgins, M, Province, MA, Heiss, G, Eckfeldt J, Ellison RC, Folsom AR, Rao DC, Sprafka JM, Williams R. 1996. NHLBI Family Heart Study: objectives and design. Am J Epidemiol 143:1219-1228.
22. Hoggart CJ, Parra EJ, Shriver MD, Bonilla C, Kittles RA, Clayton DG, McKeigue PM. 2003. Control of confounding of genetic associations in stratified populations. Am J Hum Genet 72:1492-1504.
23. Hoggart CJ, Shriver MD, Kittles RA, Clayton DG, McKeigue PM. 2004. Design and analysis of admixture mapping studies. Am J Hum Genet 74:965-978.
24. Jin X, Iwasa S, Okada K, Ooi A, Mitsui K, Mitsumata M. 2003. Shear stress-induced collagen XII expression is associated with atherogenesis. Biochem Biophys Res Commun 308:152-158.
25. Kardia SLR, Haviland MB, Ferrell RE, Sing CF. 1999. The relationship between risk factor levels and presence of coronary artery calcification is dependent on apolipoprotein E genotype. Arterioscler Thromb Vasc Biol 19:427-435.
26. Lange LA, Lange EM, Bielak LF, Bielak LF, Langefeld CD, Kardia SL, Royston P, Turner ST, Sheedy II PF, Boerwinkle E, Peyser PA. 2002. Autosomal genome-wide scan for coronary artery calcification loci in sibships at high risk for hypertension. Arterioscler Thromb Vasc Biol 22:418-423.
27. Lee TC, O'Malley PG, Feuerstein I, Taylor AJ. 2003. The prevalence and severity of coronary artery calcification on coronary artery computed tomography in black and white subjects. J Am Coll Cardiol 41:39-44.
28. McKeigue PM. 1997. Mapping genes underlying ethnic differences in disease risk by linkage disequilibrium in recently admixed populations. Am J Hum Genet 60:188-196.
29. McKeigue PM. 1998. Mapping genes that underlie ethnic differences in disease risk: methods for detecting linkage in admixed populations, by conditioning on parental admixture. Am J Hum Genet 63:241-251.
30. McKeigue PM. 2005. Prospects for admixture mapping of complex traits. Am J Hum Genet 76:1-7.
31. McKeigue PM, Carpenter J, Parra EJ, Shriver MD. 2000. Estimation of admixture and detection of linkage in admixed populations by a Bayesian approach: application to African-American populations. Ann Hum Genet 64:171-186.
32. Newman AB, Naydeck BL, Whittle J, Sutton-Tyrrell K, Edmundowicz D, Kuller LH. 2002. Racial differences in coronary artery calcification in older adults. Arterioscler Thromb Vasc Biol 22:424-430.
33. North KE, Carr JJ, Borecki IB, Kraja A, Province M, Pankow JS, Wilk J, Hixson JE, Heiss G, FHS Investigators. 2007. QTL-specific genotype-by-smoking interaction and burden of coronary atherosclerosis: the NHLBI Family Heart Study. Atherosclerosis 193:11-19.
34. O'Connell JR, Weeks DE. 1998. PedCheck: a program for identifying genotype incompatibilities in linkage analysis. Am J Hum Genet 63:259-266.
35. O'Donnell CJ, Liu CY, Larson M, Fox CS, Masarro JM, Hwang SJ, Manders E, Hoffmann U, Cupples LA. 2006. Evidence for Heritability and Genetic Linkage for Vascular Calcification in the Framingham Heart Study. 46th Annual Conference on Cardiovascular Disease Epidemiology and Prevention in association with the Council on Nutrition, Physical Activity, and Metabolism, Abstract No. 28.
36. Parra EJ, Marcini A, Akey J, Martinson J, Batzer MA, Cooper R, Forrester T, Allison DB, Deka R, Ferrell RE, Shriver MD. 1998. Estimating African-American admixture proportions by use of population-specific alleles. Am J Hum Genet 63:1839-1851.
37. Patterson N, Hattangadi N, Lane B, Lohmueller KE, Hafler DA, Oksenberg JR, Hauser SL, Smith MW, O'Brien SJ, Altshuler D, Daly MJ, Reich D. 2004. Methods for high-density admixture mapping of disease genes. Am J Hum Genet 74:979-1000.
38. Peyser PA, Bielak LF, Chu JS, Turner ST, Ellsworth DL, Boerwinkle E, Sheedy PF. 2002. Heritability of coronary artery calcium quantity measured by electron beam computed tomography in asymptomatic adults. Circulation 106:304-308.
39. Pfaff CL, Kittles RA, Shriver MD. 2002. Adjusting for population structure in admixed populations. Genet Epidemiol 22:196-201.
40. Pfohl M, Athanasiadis A, Koch M, Clemens P, Benda N, Haring HU, Karsch KR. 1998. Insertion-deletion polymorphism of the angiotensin I-converting enzyme gene is associated with coronary artery plaque calcification as assessed by intravascular ultrasound. J Am Coll Cardiol 31:987-991.
41. Pritchard JK, Stephens M, Donelly P. 2000. Inference of population structure using multilocus genotype data. Genetics 155:945-959.
42. Reilly MP, Wolfe ML, Picoult-Newberg L, de Lemos AS, Mohler ER, Pohl M, Grant DM, Gefter W, Boyce-Jacino M, Rader DJ. 2001. Interaction of the paraoxonase genes PON1, and PON2, and the methylenetetrahydrofolate reductase gene and association with coronary artery calcification using electron-beam computed tomography. Am J Cardiol 88:84-90.
43. Reilly MP, Wolfe ML, Dykhouse J, Reddy K, Localio AR, Rader DJ. 2004. Intercellular adhesion molecule 1 (ICAM-1) gene variant is associated with coronary artery calcification independent of soluble ICAM-1 levels. J Investig Med 52:515-522.
44. Rife DC. 1954. Populations of hybrid origin as source material for the detection of linkage. Am J Hum Genet 6:26-33.
45. Risch N. 1992. Mapping genes for complex diseases using association studies with recently admixed populations. Am J Hum Genet Suppl 51:13.
46. Rumberger JA, Brundage BH, Rader DJ, Kondos G. 1999. Electron beam computed tomographic coronary calcium scanning: a review and guidelines for use in asymptomatic persons. Mayo Clin Proc 74:243-252.
47. Salari K, Choudhry S, Tang H, Naqvi M, Lind D, Avila PC, Coyle NE, Ung N, Nazario S, Casal J, Torres-Palacios A, Clark S, Phong A, Gomez I, Matallana H, Perez-Stable EJ, Shriver MD, Kwok PY, Sheppard D, Rodriguez-Cintron W, Risch NJ, Burchard EG, Ziv E. 2005. Genetic admixture and asthma-related phenotypes in Mexican American and Puerto Rican asthmatics. Genet Epidemiol 29:76-86.
48. Seldin MF, Morii T, Collins-Schramm HE, Chima B, Kittles R, Criswell LA, Li H. 2004. Putative ancestral origins of chromosomal segments in individual African Americans: implications for admixture mapping. Genome Res 14:1076-1084.
49. Shriver MD, Parra EJ, Dios S, Bonilla C, Norton H, Jovel C, Pfaff C, Jones C, Massac A, Cameron N, Baron A, Jackson T, Argyropoulos G, Jin L, Hoggart CJ, McKeigue PM, Kittles RA. 2003. Skin pigmentation, biogeographical ancestry and admixture mapping. Hum Genet 112:387-399.
50. Smith MW, O'Brien SJ. 2005. Mapping by admixture linkage disequilibrium: advances, limitations and guidelines. Nat Rev Genet 6:623-632.
51. Stephens JC, Briscoe D, O'Brien SJ. 1994. Mapping by admixture linkage disequilibrium in human populations: limits and guidelines. Am J Hum Genet 55:809-824.
52. Tang H, Peng J, Wang P, Risch NJ. 2005. Estimation of individual admixture: analytical and study design considerations. Genet Epidemiol 28:289-301.
53. Tsai HJ, Choudhry S, Naqvi M, Rodriguez-Cintron W, Burchard EG, Ziv E. 2005a. Comparison of three methods to estimate genetic ancestry and control for stratification in genetic association studies among admixed populations. Hum Genet 118:424-433.
54. Tsai HJ, Kho JY, Shaikh N, Choudhry S, Naqvi M, Navarro D, Matallana H, Castro R, Lilly CM, Watson HG, Meade K, LeNoir M, Thyne S, Ziv1 E, Burchard EG. 2005b. Admixture-matched case-control study: a practical approach for genetic association studies in admixed populations. Hum Genet 118:626-639.
55. Wagenknecht LE, Bowden DW, Carr JJ, Langefeld CD, Freedman BI, Rich SS. 2001. Familial aggregation of coronary artery calcium in families with type 2 diabetes. Diabetes 50:861-866.
56. Wang J. 2003. Maximum-likelihood estimation of admixture proportions from genetic data. Genetics 164:747-765.
57. Wexler L, Brundage B, Crouse J, Detrano R, Fuster V, Maddahi J, Rumberger J, Stanford W, White R, Taubert K. 1996. Coronary artery calcification: pathophysiology, epidemiology, imaging methods and clinical implications. Circulation 94:1175-1192.
58. Williams RR, Rao DC, Ellison RC, Arnett DK, Heiss G, Oberman A, Eckfeldt JH, Leppert MF, Province MA, Mockrin SC, Hunt SC. 2000. NHLBI family blood pressure program: methodology and recruitment in the HyperGEN network. Hypertension genetic epidemiology network. Ann Epidemiol 10:389-400.
59. Zhang C, Chen K, Seldin MF, Li H. 2004. A hidden Markov modeling approach for admixture mapping based on case-control data. Genet Epidemiol 27:225-239.
60. Zhu X, Cooper RS, Elston RC. 2004. Linkage analysis for complex disease using admixed populations. Am J Hum Genet 74:1136-1153.
61. Zhu X, Cohen J, Cooper RS, Hobbs HH. 2005a. Admixture mapping for genomic regions linked to hypertension in African Americans and Mexican Americans. ASHG 2005 Meeting Abstract CDROM: Program 113.
62. Zhu X, Luke L, Cooper RS, Quertermous T, Hanis C, Mosley T, Gu CC, Tang H, Rao DC, Risch N, Weder A. 2005b. Admixture mapping for hypertension loci with genome-scan markers. Nat Genet 37:177-181.