Computational protocol: Impact of the Hypoxia-Inducible Factor-1 α (HIF1A) Pro582Ser Polymorphism on Diabetes Nephropathy

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Protocol publication

[…] To evaluate the genotype distribution, deviation for genotyped SNP from Hardy-Weinberg equilibrium (HWE) was assessed using the Pearson χ2 test. Case and control subject analyses were performed initially in T1D patients with DN (case subjects) and without DN (control subjects). To assess for the association with ESRD, a subset group (T1D with ESRD) composed of case subjects was contrasted with control subjects in succession. Odds ratios (OR) and 95% CI were calculated to test the relative risk for association. Statistical powers were calculated using PS 2.1.31 software (PowerSampleSize, Tests for association between genotypes and quantitative traits were performed by using ANOVA for normally distributed traits. Kruskal-Wallis analysis of ranks was alternatively used for traits with nonnormal distributions. Normal probability plots were created and parameter distributions were transformed to natural logarithm when needed to improve the skewness and for obtaining a normal distribution before performing statistical analysis of the relevant phenotypes. Data are given as the means ± SD. The Student t test was used to analyze the difference between two samples in gene expression and biological experiments. A value of P < 0.05 was considered significant. All data were analyzed using IBM SPSS Statistics 20 software (IBM Corporation, Armonk, NY).Differences between immunohistochemistry results were computed using two-tailed t test analysis between groups, and the differences between reporter gene results were computed using one-way ANOVA with Bonferroni post hoc test. P < 0.05 was considered statistically significant. […]

Pipeline specifications

Software tools (PS)2, SPSS
Applications Miscellaneous, Protein structure analysis
Organisms Homo sapiens, Mus musculus
Diseases Diabetes Mellitus, Diabetic Nephropathies
Chemicals Glucose