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Published in: Journal of Translational Medicine 1/2018

Open Access 01-12-2018 | Research

Harnessing Qatar Biobank to understand type 2 diabetes and obesity in adult Qataris from the First Qatar Biobank Project

Authors: Ehsan Ullah, Raghvendra Mall, Reda Rawi, Naima Moustaid-Moussa, Adeel A. Butt, Halima Bensmail

Published in: Journal of Translational Medicine | Issue 1/2018

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Abstract

Background

Human tissues are invaluable resources for researchers worldwide. Biobanks are repositories of such human tissues and can have a strategic importance for genetic research, clinical care, and future discoveries and treatments. One of the aims of Qatar Biobank is to improve the understanding and treatment of common diseases afflicting Qatari population such as obesity and diabetes.

Methods

In this study we apply a panorama of state-of-the-art statistical methods and machine learning algorithms to investigate associations and risk factors for diabetes and obesity on a sample of 1000 Qatari population.

Results

Regarding diabetes, we identified pronounced associations and risk factors in Qatari population including magnesium, chloride, c-peptide of insulin, insulin, and uric acid. Similarly, for obesity, significant associations and risk factors include insulin, c-peptide of insulin, albumin, and uric acid. Moreover, our study has revealed interactions of hypomagnesemia with HDL-C, triglycerides, and free thyroxine.

Conclusions

Our study strongly confirms known associations and risk factors associated with diabetes and obesity in Qatari population as previously found in other population studies in different parts of the world. Moreover, interactions of hypomagnesemia with other associations and risk factors merit further investigations.
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Literature
2.
go back to reference Kolb H, Martin S. Environmental/lifestyle factors in the pathogenesis and prevention of type 2 diabetes. BMC Med. 2017;15(1):131.CrossRef Kolb H, Martin S. Environmental/lifestyle factors in the pathogenesis and prevention of type 2 diabetes. BMC Med. 2017;15(1):131.CrossRef
3.
go back to reference He H, Sun D, Zeng Y, Wang R, Zhu W, Cao S, Bray GA, Chen W, Shen H, Sacks FM, Qi L, Deng HW. A systems genetics approach identified gpd1l and its molecular mechanism for obesity in human adipose tissue. Sci Rep. 2017;7(1):1799.CrossRef He H, Sun D, Zeng Y, Wang R, Zhu W, Cao S, Bray GA, Chen W, Shen H, Sacks FM, Qi L, Deng HW. A systems genetics approach identified gpd1l and its molecular mechanism for obesity in human adipose tissue. Sci Rep. 2017;7(1):1799.CrossRef
4.
go back to reference Hong CB, Kim YJ, Moon S, Shin YA, Cho YS, Lee JY. Karebrowser: SNP database of korea association resource project. BMB Rep. 2012;45(1):47–50.CrossRef Hong CB, Kim YJ, Moon S, Shin YA, Cho YS, Lee JY. Karebrowser: SNP database of korea association resource project. BMB Rep. 2012;45(1):47–50.CrossRef
5.
go back to reference Al Safar HS, Cordell HJ, Jafer O, Anderson D, Jamieson SE, Fakiola M, Khazanehdari K, Tay GK, Blackwell JM. A genome-wide search for type 2 diabetes susceptibility genes in an extended arab family. Ann Hum Genet. 2013;77(6):488–503.CrossRef Al Safar HS, Cordell HJ, Jafer O, Anderson D, Jamieson SE, Fakiola M, Khazanehdari K, Tay GK, Blackwell JM. A genome-wide search for type 2 diabetes susceptibility genes in an extended arab family. Ann Hum Genet. 2013;77(6):488–503.CrossRef
6.
go back to reference Al Kuwari H, Al Thani A, Al Marri A, Al Kaabi A, Abderrahim H, Afifi N, Qafoud F, Chan Q, Tzoulaki I, Downey P, Ward H, Murphy N, Riboli E, Elliott P. The qatar biobank: background and methods. BMC Public Health. 2015;15(1):1208.CrossRef Al Kuwari H, Al Thani A, Al Marri A, Al Kaabi A, Abderrahim H, Afifi N, Qafoud F, Chan Q, Tzoulaki I, Downey P, Ward H, Murphy N, Riboli E, Elliott P. The qatar biobank: background and methods. BMC Public Health. 2015;15(1):1208.CrossRef
7.
go back to reference van Buuren S, Groothuis-Oudshoorn K. mice: Multivariate imputation by chained equations in R. J Stat Softw. 2011;45(3):1548–7660.CrossRef van Buuren S, Groothuis-Oudshoorn K. mice: Multivariate imputation by chained equations in R. J Stat Softw. 2011;45(3):1548–7660.CrossRef
8.
go back to reference Team RC. R: A language and environment for statistical computing. Vienna: R Foundation for Statistical Computing; 2016. Team RC. R: A language and environment for statistical computing. Vienna: R Foundation for Statistical Computing; 2016.
10.
go back to reference Zou H, Hastie T. Regularization and variable selection via the elastic net. J R Stat Soc Ser B. 2005;67:301–20.CrossRef Zou H, Hastie T. Regularization and variable selection via the elastic net. J R Stat Soc Ser B. 2005;67:301–20.CrossRef
11.
go back to reference Friedman J, Hastie T, Tibshirani R. Regularization paths for generalized linear models via coordinate descent. J Stat Software. 2010;33(1):1.CrossRef Friedman J, Hastie T, Tibshirani R. Regularization paths for generalized linear models via coordinate descent. J Stat Software. 2010;33(1):1.CrossRef
12.
go back to reference Lim M, Hastie T. Learning interactions via hierarchical group-lasso regularization. J Comput Graph Stat. 2015;24(3):627–54.CrossRef Lim M, Hastie T. Learning interactions via hierarchical group-lasso regularization. J Comput Graph Stat. 2015;24(3):627–54.CrossRef
14.
go back to reference Zhang C-H, Zhang SS. Confidence intervals for low dimensional parameters in high dimensional linear models. J R Stat Soc Ser B (Stat Methodol). 2014;76(1):217–42.CrossRef Zhang C-H, Zhang SS. Confidence intervals for low dimensional parameters in high dimensional linear models. J R Stat Soc Ser B (Stat Methodol). 2014;76(1):217–42.CrossRef
15.
go back to reference Bühlmann P, van de Geer S. High-dimensional inference in misspecified linear models. Electron J Stat. 2015;9(1):1449–73.CrossRef Bühlmann P, van de Geer S. High-dimensional inference in misspecified linear models. Electron J Stat. 2015;9(1):1449–73.CrossRef
16.
go back to reference Meier L, Dezeure R, Meinshausen N, Maechler M, Büehlmann P. hdi: High-dimensional inference. 2016. Meier L, Dezeure R, Meinshausen N, Maechler M, Büehlmann P. hdi: High-dimensional inference. 2016.
17.
go back to reference Meinshausen N, Meier L, Bühlmann P. p-values for high-dimensional regression. J Am Stat Assoc. 2009;104(488):1671–81.CrossRef Meinshausen N, Meier L, Bühlmann P. p-values for high-dimensional regression. J Am Stat Assoc. 2009;104(488):1671–81.CrossRef
18.
go back to reference Kuhn M. Building predictive models in r using the caret package. J Stat Softw. 2008;28(5):1–26.CrossRef Kuhn M. Building predictive models in r using the caret package. J Stat Softw. 2008;28(5):1–26.CrossRef
20.
go back to reference Breiman L. Bagging predictors. Mach Learn. 1996;24(2):123–40. Breiman L. Bagging predictors. Mach Learn. 1996;24(2):123–40.
21.
go back to reference Schapire R. The boosting approach to machine learning: an overview. Non linear Estim Classif Lecture Notes Stat. 2002;171:149–71.CrossRef Schapire R. The boosting approach to machine learning: an overview. Non linear Estim Classif Lecture Notes Stat. 2002;171:149–71.CrossRef
22.
go back to reference Friedman JH. Greedy function approximation: a gradient boosting machine. Ann Stat. 2001;29(5):1189–232.CrossRef Friedman JH. Greedy function approximation: a gradient boosting machine. Ann Stat. 2001;29(5):1189–232.CrossRef
23.
go back to reference Mall R, Kunji K. RGBM: LS-TreeBoost and LAD-TreeBoost for gene regulatory network reconstruction. 2017. Mall R, Kunji K. RGBM: LS-TreeBoost and LAD-TreeBoost for gene regulatory network reconstruction. 2017.
24.
go back to reference Gabriel KR. The biplot graphical display of matrices with applications to principal component analysis. Biometrika. 1971;58:453–67.CrossRef Gabriel KR. The biplot graphical display of matrices with applications to principal component analysis. Biometrika. 1971;58:453–67.CrossRef
25.
go back to reference Hosmer David W, Jr SLSM. Applied survival analysis: regression modeling of time to event data. New Jersey: Wiley; 2008.CrossRef Hosmer David W, Jr SLSM. Applied survival analysis: regression modeling of time to event data. New Jersey: Wiley; 2008.CrossRef
26.
go back to reference Kleinbaum DG. Survival analysis. 3rd ed. New York: Springer; 2010. Kleinbaum DG. Survival analysis. 3rd ed. New York: Springer; 2010.
27.
go back to reference Kaplan EL, Meier P. Nonparametric estimation from incomplete observations. J Am Stat Assoc. 1958;53(282):457–81.CrossRef Kaplan EL, Meier P. Nonparametric estimation from incomplete observations. J Am Stat Assoc. 1958;53(282):457–81.CrossRef
28.
go back to reference Therneau TM, Grambsch PM. Modeling survival data: extending the Cox model. New York: Springer; 2000.CrossRef Therneau TM, Grambsch PM. Modeling survival data: extending the Cox model. New York: Springer; 2000.CrossRef
29.
go back to reference Breslow NE. Analysis of survival data under the proportional hazards model. Int Stat Rev. 1975;43(1):45–57.CrossRef Breslow NE. Analysis of survival data under the proportional hazards model. Int Stat Rev. 1975;43(1):45–57.CrossRef
30.
go back to reference Bender R, Augustin T, Blettner M. Generating survival times to simulate cox proportional hazards models. Stat Med. 2005;24(11):1713–23.CrossRef Bender R, Augustin T, Blettner M. Generating survival times to simulate cox proportional hazards models. Stat Med. 2005;24(11):1713–23.CrossRef
31.
go back to reference Abeysekera WWM, Sooriyarachchi R. Use of schoenfeld’s global test to test the proportional hazards assumption in the cox proportional hazards model: an application to a clinical study. J Natl Sci Found Sri Lanka. 2009;37(1):41–51.CrossRef Abeysekera WWM, Sooriyarachchi R. Use of schoenfeld’s global test to test the proportional hazards assumption in the cox proportional hazards model: an application to a clinical study. J Natl Sci Found Sri Lanka. 2009;37(1):41–51.CrossRef
32.
go back to reference Organization WH. Calcium and magnesium in drinking-water: public health significance. Geneva: World Health Organization; 2009. Organization WH. Calcium and magnesium in drinking-water: public health significance. Geneva: World Health Organization; 2009.
33.
go back to reference Nriagu J, Darroudi F, Shomar B. Health effects of desalinated water: Role of electrolyte disturbance in cancer development. Environ Res. 2016;150:191–204.CrossRef Nriagu J, Darroudi F, Shomar B. Health effects of desalinated water: Role of electrolyte disturbance in cancer development. Environ Res. 2016;150:191–204.CrossRef
34.
go back to reference Gommers LMM, Hoenderop JGJ, Bindels RJM, de Baaij JHF. Hypomagnesemia in type 2 diabetes: a vicious circle? Diabetes. 2016;65(1):3–13.CrossRef Gommers LMM, Hoenderop JGJ, Bindels RJM, de Baaij JHF. Hypomagnesemia in type 2 diabetes: a vicious circle? Diabetes. 2016;65(1):3–13.CrossRef
35.
go back to reference Walker HK, Hall WD, Hurst JW. Clinical methods: the history, physical, and laboratory examinations. Boston: Butterworhs; 1990. Walker HK, Hall WD, Hurst JW. Clinical methods: the history, physical, and laboratory examinations. Boston: Butterworhs; 1990.
36.
go back to reference Ma J, Folsom AR, Melnick SL, Eckfeldt JH, Sharrett AR, Nabulsi AA, Hutchinson RG, Metcalf PA. Associations of serum and dietary magnesium with cardiovascular disease, hypertension, diabetes, insulin, and carotid arterial wall thickness: the aric study. J Clin Epidemiol. 1995;48(7):927–40.CrossRef Ma J, Folsom AR, Melnick SL, Eckfeldt JH, Sharrett AR, Nabulsi AA, Hutchinson RG, Metcalf PA. Associations of serum and dietary magnesium with cardiovascular disease, hypertension, diabetes, insulin, and carotid arterial wall thickness: the aric study. J Clin Epidemiol. 1995;48(7):927–40.CrossRef
37.
go back to reference Jones AG, Hattersley AT. The clinical utility of c-peptide measurement in the care of patients with diabetes. Diabet Med. 2013;30(7):803–17.CrossRef Jones AG, Hattersley AT. The clinical utility of c-peptide measurement in the care of patients with diabetes. Diabet Med. 2013;30(7):803–17.CrossRef
38.
go back to reference Levy J, Gavin JR, Sowers JR. Diabetes mellitus: a disease of abnormal cellular calcium metabolism? Am J Med. 1994;96(3):260–73.CrossRef Levy J, Gavin JR, Sowers JR. Diabetes mellitus: a disease of abnormal cellular calcium metabolism? Am J Med. 1994;96(3):260–73.CrossRef
39.
go back to reference Calvert GD, Mannik T, Graham JJ, Wise PH, Yeates RA. Effects of therapy on plasma-high-density-lipoprotein-cholesterol concentration in diabetes mellitus. Lancet. 1978;312(8080):66–8.CrossRef Calvert GD, Mannik T, Graham JJ, Wise PH, Yeates RA. Effects of therapy on plasma-high-density-lipoprotein-cholesterol concentration in diabetes mellitus. Lancet. 1978;312(8080):66–8.CrossRef
40.
go back to reference Barbagallo M, Dominguez LJ, Galioto A, Ferlisi A, Cani C, Malfa L, Pineo A, Paolisso G. Role of magnesium in insulin action, diabetes and cardio-metabolic syndrome x. Mol Aspects Med. 2003;24(1):39–52.CrossRef Barbagallo M, Dominguez LJ, Galioto A, Ferlisi A, Cani C, Malfa L, Pineo A, Paolisso G. Role of magnesium in insulin action, diabetes and cardio-metabolic syndrome x. Mol Aspects Med. 2003;24(1):39–52.CrossRef
41.
go back to reference Matsuura F, Yamashita S, Nakamura T, Nishida M, Nozaki S, Funahashi T, Matsuzawa Y. Effect of visceral fat accumulation on uric acid metabolism in male obese subjects: visceral fat obesity is linked more closely to overproduction of uric acid than subcutaneous fat obesity. Metabolism. 1998;47(8):929–33.CrossRef Matsuura F, Yamashita S, Nakamura T, Nishida M, Nozaki S, Funahashi T, Matsuzawa Y. Effect of visceral fat accumulation on uric acid metabolism in male obese subjects: visceral fat obesity is linked more closely to overproduction of uric acid than subcutaneous fat obesity. Metabolism. 1998;47(8):929–33.CrossRef
42.
go back to reference Koga M, Otsuki M, Matsumoto S, Saito H, Mukai M, Kasayama S. Negative association of obesity and its related chronic inflammation with serum glycated albumin but not glycated hemoglobin levels. Clin Chimica Acta. 2007;378(1):48–52.CrossRef Koga M, Otsuki M, Matsumoto S, Saito H, Mukai M, Kasayama S. Negative association of obesity and its related chronic inflammation with serum glycated albumin but not glycated hemoglobin levels. Clin Chimica Acta. 2007;378(1):48–52.CrossRef
43.
go back to reference Seidell JC. Obesity, insulin resistance and diabetes—a worldwide epidemic. Br J Nutr. 2000;83(S1):5–8.CrossRef Seidell JC. Obesity, insulin resistance and diabetes—a worldwide epidemic. Br J Nutr. 2000;83(S1):5–8.CrossRef
44.
go back to reference Reaven GM, Chen YDI, Hollenbeck CB, Sheu WH, Ostrega D, Polonsky KS. Plasma insulin, c-peptide, and proinsulin concentrations in obese and nonobese individuals with varying degrees of glucose tolerance. J Clin Endocrinol Metab. 1993;76(1):44–8.PubMed Reaven GM, Chen YDI, Hollenbeck CB, Sheu WH, Ostrega D, Polonsky KS. Plasma insulin, c-peptide, and proinsulin concentrations in obese and nonobese individuals with varying degrees of glucose tolerance. J Clin Endocrinol Metab. 1993;76(1):44–8.PubMed
Metadata
Title
Harnessing Qatar Biobank to understand type 2 diabetes and obesity in adult Qataris from the First Qatar Biobank Project
Authors
Ehsan Ullah
Raghvendra Mall
Reda Rawi
Naima Moustaid-Moussa
Adeel A. Butt
Halima Bensmail
Publication date
01-12-2018
Publisher
BioMed Central
Published in
Journal of Translational Medicine / Issue 1/2018
Electronic ISSN: 1479-5876
DOI
https://doi.org/10.1186/s12967-018-1472-0

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