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In association studies, multiple testing needs to be considered when multiple markers are tested independently on a phenotype [31], [32].
Nevertheless, multiple testing needs to be taken into account to prevent inflation of type I error rate.
A further consideration is that there is a large number of examiners, and hence some form of correction for alpha inflation due to multiple testing needs to be applied.
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However, the small sample size for reproductive phenotypes in women, number of SNPs per gene and multiple testing need to be seen as limitations.
The major problem is the strict correction for multiple testing needed to exclude false positives after performing hundreds of thousands, or even millions, of tests.
The test procedure includes a permutation-based false discovery rate (FDR) correction for multiple testing, needed to discriminate real differences from chance effects [ 18].
In the MINIMAX_BSC, items are initially divided into groups and multiple tests need to be constructed using a single item from each group, while minimizing differences among the tests.
Second, since several thousands of correlations are being calculated in parallel, the multiple testing problem needs to be considered when drawing conclusions from these results.
However, we also acknowledge that this association would not be significant if subjected to correction for multiple testing and needs further investigation in a larger cohort of patients and in different populations.
Simplicity: Even though it is a command line program and users need to be aware of corrections for multiple testing, they need to provide only one input file and enter one line of Perl syntax, and do not need to have a strong statistical or computational background.
Conversely, Big Data will require additional multiple testing penalties, need for replication, even if reproducibility of results may be an issue and interpretability too.
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