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The markers that showed LOD score higher than the chromosome wide threshold with P < 0.05 from the 1,000 permutations were identified as QTL.
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The key technical systems and their permutations are identified, raising design and implementation considerations.
Significant QTL, determined by permutation testing, were identified in all environments except darkness (Figure 5; Table S4).
Three recombination events with permutation rates > 70%% were identified by both RDP and Simplot programs (Fig. 1).
Samples were rank-ordered using the signal-to-noise statistic, and significant changes were identified using permutation testing with a p-value of 0.01 [8].
Significant gene sets were identified by permutation-based nominal p value (p < 0.01).
Minimal common regions (MCRs) were identified using the permutations method in waviCGH which computes a P‐value based on a permutation test assuming that the alterations found are randomly located in the genome.
Differentially expressed genes (brain versus bone relapse and brain versus lung relapse) were identified by repeated permutation testing with the SAM algorithm by using a 5% fdr.
By applying absolute Spearman correlation coefficient >0.5 and permutation P < 0.05, significant miRNA mRNA pairs were identified.
Gene expression was assayed by microarray and 4157 differentially expressed genes (DEGs) were identified following ART using multivariate permutation tests.
Differentially expressed genes were identified for tumours using multivariate permutation test in Biometric Research Branch ArrayTools BRB ArrayToolss).
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