Association analysis of 31 common polymorphisms with type 2 diabetes and its related traits in Indian sib pairs

Aims/hypothesis Evaluation of the association of 31 common single nucleotide polymorphisms (SNPs) with fasting glucose, fasting insulin, HOMA-beta cell function (HOMA-β), HOMA-insulin resistance (HOMA-IR) and type 2 diabetes in the Indian population. Methods We genotyped 3,089 sib pairs recruited in...

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Published inDiabetologia Vol. 55; no. 2; pp. 349 - 357
Main Authors Gupta, V., Vinay, D. G., Rafiq, S., Kranthikumar, M. V., Janipalli, C. S., Giambartolomei, C., Evans, D. M., Mani, K. R., Sandeep, M. N., Taylor, A. E., Kinra, S., Sullivan, R. M., Bowen, L., Timpson, N. J., Smith, G. D., Dudbridge, F., Prabhakaran, D., Ben-Shlomo, Y., Reddy, K. S., Ebrahim, S., Chandak, G. R.
Format Journal Article
LanguageEnglish
Published Berlin/Heidelberg Springer-Verlag 01.02.2012
Springer
Springer Nature B.V
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Abstract Aims/hypothesis Evaluation of the association of 31 common single nucleotide polymorphisms (SNPs) with fasting glucose, fasting insulin, HOMA-beta cell function (HOMA-β), HOMA-insulin resistance (HOMA-IR) and type 2 diabetes in the Indian population. Methods We genotyped 3,089 sib pairs recruited in the Indian Migration Study from four cities in India (Lucknow, Nagpur, Hyderabad and Bangalore) for 31 SNPs in 24 genes previously associated with type 2 diabetes in European populations. We conducted within-sib-pair analysis for type 2 diabetes and its related quantitative traits. Results The risk-allele frequencies of all the SNPs were comparable with those reported in western populations. We demonstrated significant associations of CXCR4 (rs932206), CDKAL1 (rs7756992) and TCF7L2 (rs7903146, rs12255372) with fasting glucose, with β values of 0.007 ( p  = 0.05), 0.01 ( p  = 0.01), 0.007 ( p  = 0.05), 0.01 ( p  = 0.003) and 0.08 ( p  = 0.01), respectively. Variants in NOTCH2 (rs10923931), TCF-2 (also known as HNF1B ) (rs757210), ADAM30 (rs2641348) and CDKN2A/B (rs10811661) significantly predicted fasting insulin, with β values of −0.06 ( p  = 0.04), 0.05 ( p  = 0.05), −0.08 ( p  = 0.01) and −0.08 ( p  = 0.02), respectively. For HOMA-IR, we detected associations with TCF-2 , ADAM30 and CDKN2A/B , with β values of 0.05 ( p  = 0.04), −0.07 ( p  = 0.03) and −0.08 ( p  = 0.02), respectively. We also found significant associations of ADAM30 ( β  = −0.05; p  = 0.01) and CDKN2A/B ( β  = −0.05; p  = 0.03) with HOMA-β. THADA variant (rs7578597) was associated with type 2 diabetes (OR 1.5; 95% CI 1.04, 2.22; p  = 0.03). Conclusions/interpretation We validated the association of seven established loci with intermediate traits related to type 2 diabetes in an Indian population using a design resistant to population stratification.
AbstractList Aims/hypothesis Evaluation of the association of 31 common single nucleotide polymorphisms (SNPs) with fasting glucose, fasting insulin, HOMA-beta cell function (HOMA-β), HOMA-insulin resistance (HOMA-IR) and type 2 diabetes in the Indian population. Methods We genotyped 3,089 sib pairs recruited in the Indian Migration Study from four cities in India (Lucknow, Nagpur, Hyderabad and Bangalore) for 31 SNPs in 24 genes previously associated with type 2 diabetes in European populations. We conducted within-sib-pair analysis for type 2 diabetes and its related quantitative traits. Results The risk-allele frequencies of all the SNPs were comparable with those reported in western populations. We demonstrated significant associations of CXCR4 (rs932206), CDKAL1 (rs7756992) and TCF7L2 (rs7903146, rs12255372) with fasting glucose, with β values of 0.007 ( p  = 0.05), 0.01 ( p  = 0.01), 0.007 ( p  = 0.05), 0.01 ( p  = 0.003) and 0.08 ( p  = 0.01), respectively. Variants in NOTCH2 (rs10923931), TCF-2 (also known as HNF1B ) (rs757210), ADAM30 (rs2641348) and CDKN2A/B (rs10811661) significantly predicted fasting insulin, with β values of −0.06 ( p  = 0.04), 0.05 ( p  = 0.05), −0.08 ( p  = 0.01) and −0.08 ( p  = 0.02), respectively. For HOMA-IR, we detected associations with TCF-2 , ADAM30 and CDKN2A/B , with β values of 0.05 ( p  = 0.04), −0.07 ( p  = 0.03) and −0.08 ( p  = 0.02), respectively. We also found significant associations of ADAM30 ( β  = −0.05; p  = 0.01) and CDKN2A/B ( β  = −0.05; p  = 0.03) with HOMA-β. THADA variant (rs7578597) was associated with type 2 diabetes (OR 1.5; 95% CI 1.04, 2.22; p  = 0.03). Conclusions/interpretation We validated the association of seven established loci with intermediate traits related to type 2 diabetes in an Indian population using a design resistant to population stratification.
Evaluation of the association of 31 common single nucleotide polymorphisms (SNPs) with fasting glucose, fasting insulin, HOMA-beta cell function (HOMA-β), HOMA-insulin resistance (HOMA-IR) and type 2 diabetes in the Indian population. We genotyped 3,089 sib pairs recruited in the Indian Migration Study from four cities in India (Lucknow, Nagpur, Hyderabad and Bangalore) for 31 SNPs in 24 genes previously associated with type 2 diabetes in European populations. We conducted within-sib-pair analysis for type 2 diabetes and its related quantitative traits. The risk-allele frequencies of all the SNPs were comparable with those reported in western populations. We demonstrated significant associations of CXCR4 (rs932206), CDKAL1 (rs7756992) and TCF7L2 (rs7903146, rs12255372) with fasting glucose, with β values of 0.007 (p = 0.05), 0.01 (p = 0.01), 0.007 (p = 0.05), 0.01 (p = 0.003) and 0.08 (p = 0.01), respectively. Variants in NOTCH2 (rs10923931), TCF-2 (also known as HNF1B) (rs757210), ADAM30 (rs2641348) and CDKN2A/B (rs10811661) significantly predicted fasting insulin, with β values of -0.06 (p = 0.04), 0.05 (p = 0.05), -0.08 (p = 0.01) and -0.08 (p = 0.02), respectively. For HOMA-IR, we detected associations with TCF-2, ADAM30 and CDKN2A/B, with β values of 0.05 (p = 0.04), -0.07 (p = 0.03) and -0.08 (p = 0.02), respectively. We also found significant associations of ADAM30 (β = -0.05; p = 0.01) and CDKN2A/B (β = -0.05; p = 0.03) with HOMA-β. THADA variant (rs7578597) was associated with type 2 diabetes (OR 1.5; 95% CI 1.04, 2.22; p = 0.03). We validated the association of seven established loci with intermediate traits related to type 2 diabetes in an Indian population using a design resistant to population stratification.
Evaluation of the association of 31 common single nucleotide polymorphisms (SNPs) with fasting glucose, fasting insulin, HOMA-beta cell function (HOMA-β), HOMA-insulin resistance (HOMA-IR) and type 2 diabetes in the Indian population. We genotyped 3,089 sib pairs recruited in the Indian Migration Study from four cities in India (Lucknow, Nagpur, Hyderabad and Bangalore) for 31 SNPs in 24 genes previously associated with type 2 diabetes in European populations. We conducted within-sib-pair analysis for type 2 diabetes and its related quantitative traits. The risk-allele frequencies of all the SNPs were comparable with those reported in western populations. We demonstrated significant associations of CXCR4 (rs932206), CDKAL1 (rs7756992) and TCF7L2 (rs7903146, rs12255372) with fasting glucose, with β values of 0.007 (p=0.05), 0.01 (p=0.01), 0.007 (p=0.05), 0.01 (p=0.003) and 0.08 (p=0.01), respectively. Variants in NOTCH2 (rs10923931), TCF-2 (also known as HNF1B) (rs757210), ADAM30 (rs2641348) and CDKN2A/B (rs10811661) significantly predicted fasting insulin, with β values of -0.06 (p=0.04), 0.05 (p=0.05), -0.08 (p=0.01) and -0.08 (p=0.02), respectively. For HOMA-IR, we detected associations with TCF-2, ADAM30 and CDKN2A/B, with β values of 0.05 (p=0.04), -0.07 (p=0.03) and -0.08 (p=0.02), respectively. We also found significant associations of ADAM30 (β=-0.05; p=0.01) and CDKN2A/B (β=-0.05; p=0.03) with HOMA-β. THADA variant (rs7578597) was associated with type 2 diabetes (OR 1.5; 95% CI 1.04, 2.22; p=0.03). We validated the association of seven established loci with intermediate traits related to type 2 diabetes in an Indian population using a design resistant to population stratification.[PUBLICATION ABSTRACT]
AIMS/HYPOTHESISEvaluation of the association of 31 common single nucleotide polymorphisms (SNPs) with fasting glucose, fasting insulin, HOMA-beta cell function (HOMA-β), HOMA-insulin resistance (HOMA-IR) and type 2 diabetes in the Indian population. METHODSWe genotyped 3,089 sib pairs recruited in the Indian Migration Study from four cities in India (Lucknow, Nagpur, Hyderabad and Bangalore) for 31 SNPs in 24 genes previously associated with type 2 diabetes in European populations. We conducted within-sib-pair analysis for type 2 diabetes and its related quantitative traits. RESULTSThe risk-allele frequencies of all the SNPs were comparable with those reported in western populations. We demonstrated significant associations of CXCR4 (rs932206), CDKAL1 (rs7756992) and TCF7L2 (rs7903146, rs12255372) with fasting glucose, with β values of 0.007 (p = 0.05), 0.01 (p = 0.01), 0.007 (p = 0.05), 0.01 (p = 0.003) and 0.08 (p = 0.01), respectively. Variants in NOTCH2 (rs10923931), TCF-2 (also known as HNF1B) (rs757210), ADAM30 (rs2641348) and CDKN2A/B (rs10811661) significantly predicted fasting insulin, with β values of -0.06 (p = 0.04), 0.05 (p = 0.05), -0.08 (p = 0.01) and -0.08 (p = 0.02), respectively. For HOMA-IR, we detected associations with TCF-2, ADAM30 and CDKN2A/B, with β values of 0.05 (p = 0.04), -0.07 (p = 0.03) and -0.08 (p = 0.02), respectively. We also found significant associations of ADAM30 (β = -0.05; p = 0.01) and CDKN2A/B (β = -0.05; p = 0.03) with HOMA-β. THADA variant (rs7578597) was associated with type 2 diabetes (OR 1.5; 95% CI 1.04, 2.22; p = 0.03). CONCLUSIONS/INTERPRETATIONWe validated the association of seven established loci with intermediate traits related to type 2 diabetes in an Indian population using a design resistant to population stratification.
Author Gupta, V.
Reddy, K. S.
Evans, D. M.
Bowen, L.
Sullivan, R. M.
Dudbridge, F.
Kinra, S.
Chandak, G. R.
Sandeep, M. N.
Ben-Shlomo, Y.
Taylor, A. E.
Vinay, D. G.
Mani, K. R.
Smith, G. D.
Janipalli, C. S.
Timpson, N. J.
Prabhakaran, D.
Ebrahim, S.
Rafiq, S.
Kranthikumar, M. V.
Giambartolomei, C.
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Smith, G D
Reddy, K S
Ramakrishnan, L
Vaz, M
Saran, R K
Mohan, M
Ebrahim, S
Kinra, S
Ahuja, R C
Bhogadi, S
Lyngdoh, T
Kurpad, A V
Das, S M
Barathi, A V
Jain, R K
Gupta, R
Potnis, S S
Prabhakaran, D
Yajnik, C S
Ben-Shlomo, Y
Patel, T
Joshi, P
Thakre, N M
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Copyright The Author(s) 2011
2015 INIST-CNRS
Springer-Verlag 2012
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Issue 2
Keywords Intermediate traits
Type 2 diabetes
Association
Polymorphisms
India
Endocrinopathy
Metabolic diseases
Indian
Polymorphism
Language English
License CC BY 4.0
This article is distributed under the terms of the Creative Commons Attribution Noncommercial License which permits any noncommercial use, distribution, and reproduction in any medium, provided the original author(s) and source are credited.
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PublicationDate 2012-02-01
PublicationDateYYYYMMDD 2012-02-01
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PublicationSubtitle Clinical and Experimental Diabetes and Metabolism
PublicationTitle Diabetologia
PublicationTitleAbbrev Diabetologia
PublicationTitleAlternate Diabetologia
PublicationYear 2012
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Snippet Aims/hypothesis Evaluation of the association of 31 common single nucleotide polymorphisms (SNPs) with fasting glucose, fasting insulin, HOMA-beta cell...
Evaluation of the association of 31 common single nucleotide polymorphisms (SNPs) with fasting glucose, fasting insulin, HOMA-beta cell function (HOMA-β),...
AIMS/HYPOTHESISEvaluation of the association of 31 common single nucleotide polymorphisms (SNPs) with fasting glucose, fasting insulin, HOMA-beta cell function...
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StartPage 349
SubjectTerms Adult
Alleles
Biological and medical sciences
Blood Glucose - metabolism
Chronic illnesses
Diabetes
Diabetes Mellitus, Type 2 - ethnology
Diabetes Mellitus, Type 2 - genetics
Diabetes. Impaired glucose tolerance
Endocrine pancreas. Apud cells (diseases)
Endocrinopathies
Epidemiology
Etiopathogenesis. Screening. Investigations. Target tissue resistance
Europe
Family Health
Female
Genomes
Genomics
Genotype
Glucose
Human Physiology
Humans
India
Insulin - blood
Insulin - metabolism
Insulin resistance
Internal Medicine
Male
Medical sciences
Medicine
Medicine & Public Health
Metabolic Diseases
Middle Aged
Migration
Phenotype
Polymorphism, Genetic
Quantitative Trait Loci
Risk
Siblings
Transients and Migrants
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Title Association analysis of 31 common polymorphisms with type 2 diabetes and its related traits in Indian sib pairs
URI https://link.springer.com/article/10.1007/s00125-011-2355-6
https://www.ncbi.nlm.nih.gov/pubmed/22052079
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