Computational protocol: Association Study of Mannose-Binding Lectin Levels and Genetic Variants in Lectin Pathway Proteins with Susceptibility to Age-Related Macular Degeneration: A Case-Control Study

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Protocol publication

[…] This study sample was powered to detect an increase in the frequency of MBL deficiency (defined as MBL serum levels < 0.5 μg/ml) by a factor of 2.3 in AMD cases similar to the study of C3 polymorphisms and AMD susceptibility [] with an expected frequency of MBL deficiency in the control population of 25% at the 5% level of significance.To investigate MBL and ficolin-2 as potential risk factors for AMD, matched univariate analysis was performed by running conditional logistic regression on one variable at a time with AMD as the dependent variable. In addition, Wilcoxon signed-rank test was applied to compare MBL levels in cases and matched controls. Haplotype frequencies were analyzed by expectation-maximum algorithm.We used Pearson's chi-square test for comparisons of categorical variables and allele and genotype frequencies and to check for Hardy–Weinberg equilibrium. For AMD severity analysis MBL levels were analyzed using the Mann-Whitney-U-Test. All testing was two-tailed. Haplotype and linkage disequilibrium analysis was carried out with the Haploview program (version 4.2). All other analyses were performed using SPSS statistics, version 17.0 (SPSS Inc., USA). […]

Pipeline specifications

Software tools Haploview, SPSS
Applications Miscellaneous, GWAS
Organisms Homo sapiens
Diseases Macular Degeneration
Chemicals Mannose