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The analysis of the reads ratio between the resistant strain (FUMOZ-R) and the susceptible strain (Kela) showed a significant differential expression of some ESTs between these samples (Table 2 and Table S1).
Again, a significant differential expression of PRDX6 was found.
A significant differential expression of genes involved in innate immunity, co-stimulation and cytokine production was observed.
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We found no significant association or any significant differential expression of each miR according to clinical data.
This analysis revealed a significant differential expression only of cluster one, consisting of IFN-type I response genes (IRGs).
Grimplet et al. [ 41], used a large-scale transcriptomic analysis to study the differential expression of genes among main tissues, seed, flesh and skin, and reported that 60% of these genes exhibited a significant differential expression in at least one of the three major tissue types.
These are currently defined as genes with a significant differential expression between the trait of interest and a control condition.
A perturbation interaction is counted if one of their encoding genes exhibits a significant differential expression upon perturbation (knockout or overexpression) of the other.
Data were sorted based on "fold change," and genes with at least 1.5-fold up-regulation or down-regulation were accepted as significant alteration and the genes have a significant differential expression in at least four of five experiments chosen for further consideration.
Genes with 2-fold differences in the log2 ratio values were considered to have a significant differential expression if the p-values of the Student's t-test were ≤0.05 after applying the Benjamini and Hochberg (BH) method to adjust for a false discovery rate (FDR) [ 57].
Further evidence for a relation between LEPR and fat-related traits is available from the literature, i.e. a highly significant differential expression of LEPR in muscle tissue of pig breeds that display divergent obesity traits was reported by [ 66] and an association between a non-coding variation in LEPR and higher BMI was demonstrated in Native Americans [ 67].
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