Genotype-environment interactions for quantitative traits in Korea Associated Resource (KARE) cohorts

BMC Genetics

Volumn 15, Issue , 2014, Pages

  Kim, Jaemin ^a   Lee, Taeheon ^a   Lee, Hyun Jeong ^a,b   Kim, Heebal ^a  

^a Seoul National University   (South Korea)

^b National Institute of Animal Science   (South Korea)

Author keywords

Genotype environment interaction; Heritability; Obesity; Supra iliac skinfold thickness

Indexed keywords

ADULT; AGED; ASIAN CONTINENTAL ANCESTRY GROUP; FEMALE; GENE-ENVIRONMENT INTERACTION; GENETICS, POPULATION; GENOME-WIDE ASSOCIATION STUDY; GENOTYPE; HUMANS; INHERITANCE PATTERNS; MALE; MIDDLE AGED; MODELS, GENETIC; MODELS, STATISTICAL; POLYMORPHISM, SINGLE NUCLEOTIDE; QUANTITATIVE TRAIT LOCI; REPUBLIC OF KOREA; SKINFOLD THICKNESS;

EID: 84893175603     PISSN: None     EISSN: 14712156     Source Type: Journal    
DOI: 10.1186/1471-2156-15-18     Document Type: Article

References (37)

1. Manolio TA, Collins FS, Cox NJ, Goldstein DB, Hindorff LA, Hunter DJ, McCarthy MI, Ramos EM, Cardon LR, Chakravarti A. Finding the missing heritability of complex diseases. Nature 2009, 461(7265):747-753. 10.1038/nature08494, 2831613, 19812666.
2. Murcray CE, Lewinger JP, Gauderman WJ. Gene-environment interaction in genome-wide association studies. Am J Epidemiol 2009, 169(2):219-226. 2732981, 19022827.
3. Frazer KA, Murray SS, Schork NJ, Topol EJ. Human genetic variation and its contribution to complex traits. Nat Rev Genet 2009, 10(4):241-251.
4. Falconer DS, Mackay TFC, Frankham R. Introduction to quantitative genetics (4th edn). Trends Genet 1996, 12(7):280.
5. Via S, Lande R. Genotype-environment interaction and the evolution of phenotypic plasticity. Evol 1985, 39(3):505-522.
6. Fuller T, Sarkar S, Crews D. The use of norms of reaction to analyze genotypic and environmental influences on behavior in mice and rats. Neurosci Biobehav Rev 2005, 29(3):445-456. 10.1016/j.neubiorev.2004.12.005, 15820549.
7. Ottman R. Gene-environment interaction: definitions and study designs. Prev Med 1996, 25(6):764. 10.1006/pmed.1996.0117, 2823480, 8936580.
8. Leve LD, Kerr DCR, Shaw D, Ge X, Neiderhiser JM, Scaramella LV, Reid JB, Conger R, Reiss D. Infant pathways to externalizing behavior: evidence of Genotype × Environment interaction. Child Dev 2010, 81(1):340-356. 10.1111/j.1467-8624.2009.01398.x, 2845990, 20331671.
9. Hunter DJ. Gene-environment interactions in human diseases. Nat Rev Genet 2005, 6(4):287-298.
10. Dempfle A, Scherag A, Hein R, Beckmann L, Chang-Claude J, Schäfer H. Gene-environment interactions for complex traits: definitions, methodological requirements and challenges. Eur J Hum Genet 2008, 16(10):1164-1172. 10.1038/ejhg.2008.106, 18523454.
11. Maier LA. Genetic and exposure risks for chronic beryllium disease. Clin Chest Med 2002, 23(4):827. 10.1016/S0272-5231(02)00029-1, 12516537.
12. Memisoglu A, Hu FB, Hankinson SE, Manson JAE, De Vivo I, Willett WC, Hunter DJ. Interaction between a peroxisome proliferator-activated receptor γ gene polymorphism and dietary fat intake in relation to body mass. Hum Mol Genet 2003, 12(22):2923-2929. 10.1093/hmg/ddg318, 14506127.
13. Clausen J, Keck D, Hiesey W. Experimental studies on the nature of species. III. Environresponses of climatic races of Achillea. Experimental Studies on the Nature of Species III Environresponses of Climatic Races of Achillea 1948, Carnegie Institution of Washington, Publ. 581.
14. Bouchard C. Gene-environment interactions in the etiology of obesity: defining the fundamentals. Obesity 2008, 16:S5-S10.
15. Visscher PM, Hill WG, Wray NR. Heritability in the genomics era-concepts and misconceptions. Nat Rev Gen 2008, 9(4):255-266.
16. Satagopan JM, Elston RC. Evaluation of removable statistical interaction for binary traits. Stat Med 2012, 32(7):1164-1190. 3744333, 23018341.
17. An P, Mukherjee O, Chanda P, Yao L, Engelman CD, Huang CH, Zheng T, Kovac IP, Dubé MP, Liang X. The challenge of detecting epistasis (G × G interactions): genetic analysis workshop 16. Gen Epidemiol 2009, 33(S1):S58-S67.
18. Cho YS, Go MJ, Kim YJ, Heo JY, Oh JH, Ban H-J, Yoon D, Lee MH, Kim D-J, Park M. A large-scale genome-wide association study of Asian populations uncovers genetic factors influencing eight quantitative traits. Nat Gen 2009, 41(5):527-534.
19. Yang J, Lee T, Kim J, Cho M-C, Han B-G, Lee J-Y, Lee H-J, Cho S, Kim H. Ubiquitous polygenicity of human complex traits: genome-wide analysis of 49 traits in Koreans. PLoS Gen 2013, 9(3):e1003355.
20. Yang J, Lee SH, Goddard ME, Visscher PM. GCTA: a tool for genome-wide complex trait analysis. Am J Hum Gen 2011, 88(1):76-82.
21. Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MA, Bender D, Maller J, Sklar P, De Bakker PI, Daly MJ. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Gen 2007, 81(3):559-575.
22. Durnin J, Womersley J. Body fat assessed from total body density and its estimation from skinfold thickness: measurements on 481 men and women aged from 16 to 72 years. Br J Nutr 1974, 32(01):77-97. 10.1079/BJN19740060, 4843734.
23. Schapira DV, Kumar NB, Lyman GH, Cox CE. Abdominal obesity and breast cancer risk. Ann Intern Med 1990, 112(3):182-186. 10.7326/0003-4819-112-3-182, 2297194.
24. Zheng J-S, Arnett DK, Lee Y-C, Shen J, Parnell LD, Smith CE, Richardson K, Li D, Borecki IB, Ordovás JM. Genome-wide contribution of genotype by environment interaction to variation of diabetes-related traits. PLoS One 2013, 8(10):e77442. 10.1371/journal.pone.0077442, 3810463, 24204828.
25. Cornes B, Lind P, Medland S, Montgomery G, Nyholt D, Martin N. Replication of the association of common rs9939609 variant of FTO with increased BMI in an Australian adult twin population but no evidence for gene by environment (G×E) interaction. Int J Obesity 2008, 33(1):75-79.
26. Levy D, Ehret GB, Rice K, Verwoert GC, Launer LJ, Dehghan A, Glazer NL, Morrison AC, Johnson AD, Aspelund T. Genome-wide association study of blood pressure and hypertension. Nat Genet 2009, 41(6):677-687. 10.1038/ng.384, 2998712, 19430479.
27. Huang DW, Sherman BT, Lempicki RA. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc 2009, 4(1):44-57.
28. Albelda SM, Buck CA. Integrins and other cell adhesion molecules. FASEB J 1990, 4(11):2868-2880.
29. Raven P, Johnson G. Biology 6th ed 2002, NY: McGraw-Hill Publishing.
30. Schwartz MW, Woods SC, Porte D, Seeley RJ, Baskin DG. Central nervous system control of food intake. Nat London 2000, 404(6778):661-671.
31. Woods S, Seeley R. Understanding the physiology of obesity: review of recent developments in obesity research. Int J Obes Relat Metab Disord 2002, 26:S8. 10.1038/sj.ijo.0802211, 12457292.
32. Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT. Gene ontology: tool for the unification of biology. Nat Genet 2000, 25(1):25. 10.1038/75556, 3037419, 10802651.
33. Ebrahim S, Kinra S, Bowen L, Andersen E, Ben-Shlomo Y, Lyngdoh T, Ramakrishnan L, Ahuja R, Joshi P, Das SM. The effect of rural-to-urban migration on obesity and diabetes in India: a cross-sectional study. PLoS Med 2010, 7(4):e1000268. 10.1371/journal.pmed.1000268, 2860494, 20436961.
34. Taylor A, Sandeep M, Janipalli C, Giambartolomei C, Evans D, Kranthi Kumar M, Vinay D, Smitha P, Gupta V, Aruna M. Associations of FTO and MC4R variants with obesity traits in Indians and the role of rural/urban environment as a possible effect modifier. J Obes 2011, 2011:7.
35. Eichler EE, Flint J, Gibson G, Kong A, Leal SM, Moore JH, Nadeau JH. Missing heritability and strategies for finding the underlying causes of complex disease. Nat Rev Genet 2010, 11(6):446-450. 10.1038/nrg2809, 2942068, 20479774.
36. Cho YS, Go MJ, Kim YJ, Heo JY, Oh JH, Ban HJ, Yoon D, Lee MH, Kim DJ, Park M. A large-scale genome-wide association study of Asian populations uncovers genetic factors influencing eight quantitative traits. Nat Genet 2009, 41(5):527-534. 10.1038/ng.357, 19396169.
37. Perusse L, Bouchard C. Genotype-environment interaction in human obesity. Nutr Rev 1999, 57(5):31-38.