Computational protocol: Association of Nuclear Factor-Erythroid 2-Related Factor 2, Thioredoxin Interacting Protein, and Heme Oxygenase-1 Gene Polymorphisms with Diabetes and Obesity in Mexican Patients

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Protocol publication

[…] Continuous variables were analyzed using a t-test and were presented as mean ± standard deviation (SD). For categorical variables, a Chi-square test or Fischer exact test was applied and data was presented as percentage.The Hardy Weinberg equilibrium was calculated in controls using StatCalc software (Epi Info 2005 v3.3.2; Centers of Disease Control and Prevention, Atlanta, GA, USA). Multivariable linear regression models were carried out for adjustment of glucose for potential confounders like age, gender, BMI, and tobacco. In order to assess the genetic risk factor for diabetes and obesity, logistic regression analyses were applied to estimate the OR for each polymorphism. Because the associations between the SNPs and the outcomes have been previously reported, it is unlikely to detect effects due to statistical fluctuations only. Therefore, correction by multiple comparisons was not applied. Associations were considered statistically significant at a nominal P value ≤0.05. Haplotype analysis was performed using PLINK and Haploview software. The t-test, Chi-square test, Fischer exact test, and multivariable regressions were performed using the statistical software Stata 12.0 (StataCorp LP, College Station, TX, USA). […]

Pipeline specifications

Software tools PLINK, Haploview
Application GWAS
Organisms Homo sapiens
Diseases Diabetes Mellitus, Diabetes Mellitus, Type 2
Chemicals Cholesterol, Glucose, Heme, NADP