Exploring Trans-acting regulators of gene expression associated with metabolic syndrome: A coupled application of factor analysis and linkage analysis

Genes and Genomics

Volumn 35, Issue 1, 2013, Pages 59-67

  Kim, Kyee Zu ^a   Min, Jin Young ^a   Kim, Kyunga ^b   Sung, Joohon ^a   Cho, Sung Il ^a  

^a Seoul National University   (South Korea)

^b Sookmyung Women's University   (South Korea)

Author keywords

Expression quantitative trait; Gene regulation; Mixed application

Indexed keywords

ADIPOPHILIN; INSULIN; PROTEIN; PROTEIN IRS2; UNCLASSIFIED DRUG;

ARTICLE; EXPRESSION QUANTITATIVE TRAIT; GENE EXPRESSION; GENE LOCUS; GENE REGULATORY NETWORK; GENETIC TRAIT; LIMIT OF DETECTION; METABOLIC SYNDROME X;

EID: 84874445930     PISSN: 19769571     EISSN: 20929293     Source Type: Journal    
DOI: 10.1007/s13258-013-0059-7     Document Type: Article

References (55)

1. Bonnet F, Patel S, Laville M, Balkau B, Favuzzi A, Monti LD, Lalic N, Walker M (2008) Influence of the ACE gene insertion/deletion polymorphism on insulin sensitivity and impaired glucose tolerance in healthy subjects. Diabetes Care 31:789-794
2. Bouzakri K, Zachrisson A, Al-Khalili L, Zhang BB, Koistinen HA, Krook A, Zierath JR (2006) siRNA-based gene silencing reveals specialized roles of IRS-1/Akt2 and IRS-2/Akt1 in glucose and lipid metabolism in human skeletal muscle. Cell Metab 4:89-96
3. Brasaemle D (2007) The perilipin family of structural lipid droplet proteins: stabilization of lipid droplets and control of lipolysis. J Lipid Res 48:2547-2559
4. Breeden L, Nasmyth K (1987) Cell cycle control of the yeast HO gene: cis- and trans- acting regulations. Cell 48:389-397
5. Chang BHJ, Chan L (2007) Regulation of triglyceride metabolism. III. Emerging role of lipid droplet protein ADFP in health and disease. Am J Physiol Gastrointest Liver Physiol 292:G1465-G1468
6. Cheung VG, Spielman RS (2007) Data for genetic analysis workshop (GAW) 15, Problem 1: genetics of gene expression variation in humans. BMC Proc. 1(Suppl 1):S2
7. Cheung VG, Nayak RR, Wang IX, Elwyn S, Cousins SM, Morley M, Spielman RS (2010) Polymorphic cis- and trans-regulation of human gene expression. PLoS Biol 8:e1000480
8. Cookson W, Liang L, Abecasis G, Moffatt M, Lathrop M (2009) Mapping complex disease traits with global gene expression. Nat Rev Genet 10:184-194
9. De Jong H (2002) Modeling and simulation of genetic regulatory systems: a literature review. J Comput Biol 9:67-103
10. Despres JP, Lemieux I (2006) Abdominal obesity and metabolic syndrome. Nature 444:881-887
11. Ducharme NA, Bickel PE (2008) Minireview: lipid droplets in lipogenesis and lipolysis. Endocrinology 149:942-949
12. Falek DM, Ali K, Roat R, Graham MJ, Crooke RM, Battisti R, Garcia E, Ahima RS, Imai Y (2010) Adipose differentiation-related protein regulates lipid and insulin in pancreatic islets. Am J Physiol Endocrinol Metab 299:E249-E257
13. Ford ES, Giles WH, William HD (2002) Prevalence of the metabolic syndrome among US adults: findings from the third National Health and Nutrition Examination Survey. JAMA 287:356-359
14. Frazer KA, Murray SS, Schork NJ, Topol EJ (2009) Human genetic variation and its contribution to complex traits. Nat Rev Genet 10:241-251
15. Glessner JT, Wang K, Cai G, Korvatska O, Kim CE, Wood S, Zhang H, Estes A, Brune CW, Bradfield JP et al (2009) Autism genome-wide copy number variation reveals ubiquitin and neuronal genes. Nature 459:569-573
16. Groop L (2000) Genetics of the metabolic syndrome. Br J Nutr 83(Suppl 1):S39-S48
17. Grundy SM (1998) Hypertriglyceridemia, atherogenic dyslipidemia, and the metabolic syndrome. Am J Cardiol 81:18B-25B
18. Hasty J, McMillen D, Issacs F, Collins JJ (2001) Computational studies of gene regulatory networks: in numero molecular biology. Nat Rev Genet 2:268-279
19. Horenstein RB, Shuldiner AR (2004) Genetics of diabetes. Rev Endocr Metab Disord 5:25-36
20. Hunter DJ, Kraft P, Jacobs KB, Cox DG, Yeager M, Hankinson SE, Wacholder S, Wang Z, Welch R, Hutchinson A et al (2007) A genome-wide association study identifies alleles in FGFR2 associated with risk of sporadic postmenopausal breast cancer. Nat Genet 39:870-874
21. Kwiterovich PO Jr (2000) The metabolic pathways of high-density lipoprotein, low-density lipoprotein, and triglycerides: a current review. Am J Cardiol 86:5L-10L
22. Londos C, Sztalryd C, Tansey JT, Kimmel AR (2005) Role of PAT proteins in lipid metabolism. Biochimie 87:45-49
23. Ma L, Hanson RL, Que LN, Cali AMG, Fu M, Mack JL, Infante AM, Kobes S, the International Type 2 Diabetes 1q Consortium, et al. (2007) Variants in ARHGEF11, a candidate gene for the linkage to type 2 diabetes on chromosome 1q, are nominally associated with insulin resistance and type 2 diabetes in Pima Indians, Diabetes 56:1454-1459
24. Matise TC, Chen F, Chen W, De La Vega FM, Hansen M, He C, Hyland FCL, Kennedy GC, Kong X, Murray SS et al (2007) A second-generation combined linkage physical map of the human genome. Genome Res 17(12):1783-1786
25. Mercado MM, McLenithan JC, Silver KD, Shuldiner AR (2002) Genetics of insulin resistance. Curr Diab Rep 2:83-95
26. Molavi BN, Rasouli N, Kern PA (2006) The prevention and treatment of metabolic syndrome and high-risk obesity. Curr Opin Cardiol 21:479-485
27. Mooradian AD (2009) Dyslipidemia in type 2 diabetes mellitus. Nat Clin Pract Endocrinol Metab 5:150-159
28. Morley M, Molony CM, Weber TM, Delvin JL, Ewens KG, Spielman RS, Cheung VG (2004) Genetic analysis of genome-wide variation in human gene expression. Nature 430:743-747
29. Park YW, Zhu S, Palaniappan L, Heshka S, Carnethon MR, Heymsfield SB (2003) The metabolic syndrome: prevalence and associated risk factor findings in the US population from the Third National Health and Nutrition Examination Survey, 1988-1994. Arch Intern Med 163:427-436
30. Park HS, Kim SM, Lee JS, Lee J, Han JH, Yoon DK, Baik SH, Choi DS, Choi KM (2007) Prevalence and trends of metabolic syndrome in Korea: Korean National Health and Nutrition Survey 1998-2001. Diabetes Obes Metab 9:50-58
31. Pett M, Lackey N, Sullivan J (2003) The use of factor analysis for instrument development in health care research. Sage Publications Inc, Thousand Oaks
32. Pollex RL, Hegele RA (2006) Genetic determinants of the metabolic syndrome, Nat Clin Pract. Cardiovasc Med 3:482-489
33. Previs SF, Withers DJ, Ren JM, White MF, Shulman GI (2000) Contrasting effects of IRS-1 versus IRS-2 gene disruption on carbohydrate and lipid metabolism in vivo. J Biol Chem 275:38990-38994
34. Price AL, Patterson NJ, Plenge RM, Weinblatt ME, Shadick NA, Reich D (2006) Principal components analysis corrects for stratification in genome-wide association studies. Nat Genet 38:904-909
35. Quackenbush J (2001) Computational analysis of microarray data. Nat Rev Genet 2:418-427
36. Reaven GM (1988) Banting lecture 1988. Role of insulin resistance in human disease, Diabetes 37:1595-1607
37. Reaven G (2002) Metabolic syndrome: pathophysiology and implications for management of cardiovascular disease. Circulation 106:286-288
38. Rockman MV, Kruglyak L (2006) Genetics of global gene expression. Nat Rev Genet 7:862-872
39. Sale MM, Woods J, Freedman BI (2006) Genetic determinants of the metabolic syndrome. Curr Hypertens Rep 8:16-22
40. Saltiel AR, Kahn CR (2001) Insulin signalling and the regulation of glucose and lipid metabolism. Nature 414:799-806
41. Schormair B, Kemlink D, Roeske D, Eckstein G, Xiong L, Lichtner P, Ripke S, Trenkwalder C, Zimpruch A, Stiasny-Kolster K et al (2008) PTPRD (protein tyrosine phosphatase receptor type delta) is associated with restless legs syndrome. Nat Genet 40:946-948
42. Schulingkamp RJ, Pagano TC, Roeske D, Eckstein G, Xiong L, Lichtner P, Ripke S, Trenkwalder C, Zimprich A, Stiasny-Kolster K et al (2000) Insulin receptors and insulin action in the brain: review and clinical implications. Neurosci Biobehav Rev 24:855-872
43. Schwartz MW (2001) Progress in the search for neuronal mechanisms coupling type 2 diabetes to obesity. J Clin Invest 108:963-964
44. Sladek R, Rocheleau G, Rung J, Dina C, Shen L, Serre D, Boutin P, Vincent D, Belisle A, Hadjadj S et al (2007) A genome-wide association study identifies novel risk loci for type 2 diabetes. Nature 445:881-885
45. Stern MP (2003) Genetics of insulin resistance syndrome. Endocr Pract 9(Suppl 2):35-38
46. Tabor HK, Risch NJ, Myers RM (2002) Candidate-gene approaches for studying complex genetic traits: practical considerations. Nat Rev Genet 3:391-397
47. Taniguchi CM, Ueki K, Kahn CR (2005) Complementary roles of IRS-1 and IRS-2 in the hepatic regulation of metabolism. J Clin Invest 115:718-727
48. Uno K, Katagiri H, Yamada T, Ishigaki Y, Ogihara T, Imai J, Hasegawa Y, Gao J, Kaneko K, Iwasaki H et al (2006) Neuronal pathway from the liver modulates energy expenditure and systemic insulin sensitivity. Science 312:1656-1659
49. Vasseur F, Meyre D, Froguel P (2006) Adiponectin, type 2 diabetes and the metabolic syndrome: lessons from human genetic studies. Expert Rev Mol Med 8:1-12
50. Wang HH, Zhang H, Jia W, Zhang Z, Craig R, Wang Z, Elbein SC (2004) Adiponectin receptor 1 gene (ADIPOR1) as a candidate for type 2 diabetes and insulin resistance. Diabetes 53:2132-2136
51. Wang X, Kammerer CM, Anderson S, Lu J, Feingold E (2009) A comparison of principal component analysis and factor analysis strategies for uncovering pleiotropic factors. Genet Epidemiol 33:325-331
52. Wessels LF, Van Someren EP and Reinders MJT (2001) A comparison of genetic network models. Pac Symp Biocomput: 508-519
53. Yamada Y, Ichihara S, Kato K, Yoshida T, Yokoi K, Matsuo H, Watanabe S, Metoki N, Yoshida H, Satoh K et al (2008) Genetic risk for metabolic syndrome: examination of candidate gene polymorphisms related to lipid metabolism in Japanese people. J Med Genet 45:22-28
54. Yang WS, Chuang LM (2006) Human genetics of adiponectin in the metabolic syndrome. J Mol Med 84:112-121
55. Yvert G, Brem RB, Whittle J, Akey JM, Foss E, Smith EN, Mackelprang R, Kruglyak L (2003) Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors. Nat Genet 35:57-64