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We identified compounds as significant based on a multiple hypothesis corrected FDR (false discovery rate)<0.05.
There were 8,887 splice variants (out of a total 75,083) that were differentially expressed having absolute fold change >2 and a multiple hypothesis corrected P-value < 0.05.
Wrensch et al. [ 1] screened the Adult Glioma Study AGSS) population using p = 10-6 and inferred 13 SNPs, 3 of which were confirmed in the Mayo Clinic population at a multiple hypothesis corrected p-value of 0.0038 (0.00383).
aProportion of variance in gene expression due to mtDNA status in cultured cells and xenografts bBayes modified F test (multiple hypothesis corrected) cFold-change dBenjamini and Hochberg corrected two-tailed Student's t-test Animal care was in accordance with NIH and institutional guidelines.
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GO enrichment analysis uses a hypergeometric distribution with Multiple Hypothesis Correct to calculate p-values and correct for multiple sampling.
A Holm Bonferroni approach was applied to Fisher's test P-values to correct for multiple hypothesis testing; corrected P-values are reported.
We correct for that by calculating a multiple hypothesis testing corrected p-value for each pattern and threshold.
Because of the large number of quadruplet classes, we show results only for patterns selected according to the following criteria: the multiple hypothesis testing corrected significance values P m must be less than 0.1 for at least one threshold per pattern, while the number of quadruplets in the actual network must be at least 5.
While neurogenesis did not pass the FDR < 10% significance threshold based on the multiple hypothesis-corrected Fisher's test (indeed, no pathways passed this threshold in the Simons data set), we consider this rank-based evidence noteworthy given the statistical significance of the pathway in the TGen data set.
By dividing this number of matrices by the total size of the random matrix ensemble, we estimate the multiple hypotheses testing corrected significance measure P m for each class and threshold, Figure 3 (see Methods).
Multiple hypothesis testing was corrected through false discovery rate (FDR) analysis [ 25].
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