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Multilocus analyses on pathways with an excess of significant associations for either allele or genotype tests (identified by Z tests analyses) revealed a statistically significant two locus model in the complement and coagulation pathway in maternal data after excluding the single most significant tPA marker (rs879293) (Figure 1).
We focused on pathways with the best 10 AUC.
We found 32 paired pathways with AUROC > 0.90 between BC and NS, but we focused on pathways with the best 10 AUC.
The need to view information on pathways with low pairwise similarity is addressed in Supplementary Figure S6, and is available as a text file upon request.
To focus on pathways with more specific functions and to increase computational efficiency, only pathways with less than 50 genes were analyzed in this study.
Pathways were considered significantly changed when (1) Z-score > 1.96, (2) permutated p-value < 0.05 and (3) minimum number of changed genes is 3. Additionally, the log2FC and p-value were visualized on pathways with the visualization module in PathVisio.
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This is presumably due to turning on detoxification pathways with cytosolic conjugative enzymes, thus removing a fraction of the DNA-reactive metabolites during the metabolic reactions.
After 50 bootstraps we focused on top 10 pairs of pathways with the best AUC and their miRNAs.
Similarly, mouse mutants with an ON pathway defect [42] show increased susceptibility to FDM.
Although we did not replicate methylation loci using the Infinium HumanMethylation450 BeadChip® with this cohort, methylation differences on pathways associated with basic cellular functions including transcription and DNA repair were similar to those we found in pre-term placentas.
Some might view this approach too focused on career pathways with emphasis on STEM practices and authentic application of STEM knowledge.
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