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Interestingly, we discovered that miRNAs sharing the highest fold changes at a given transition demonstrated similar expression patterns over time.
Unique trends within the accompanying plots show that groups of miRNAs with the highest fold changes at a given transition display a similar expression pattern during differentiation.
Of these, the five ORFs with the highest fold changes in expression were associated with contingency loci (Cj0170, Cj0565, Cj1295, Cj1296, and Cj1297).
Transcripts with the highest fold changes are reported in Table 3. Genes with known colocalization, such as NPTX2 and dynorphin, were downregulated, validating the model.
Of these 116 miRNAs, miR-466d-3p (1520 fold), miR-449a (975 fold), miR-29a (479 fold), miR-146b (278 fold) and miR-409-3p (255 fold) were the top five miRNAs which had the highest fold changes across the dataset.
Host genes with the highest fold changes between PT-treated and control virus-infected mice at 12 h (Table S2) and 36 h (Table S3) post-virus inoculation also support the hypothesis that innate immune responses and AMs are targets for PT suppression, and provide a basis for specific gene targets for future analysis.
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The genes on chromosome 20q had the highest fold change.
Among the three significantly upregulated miRNAs, miR-574-5p had the highest fold change (∼3.7-fold, p<0.001).
A heatmap for 100 genes with the highest fold change values is shown in Fig. 3.
Twenty of these genes with the highest fold change are listed in Supplementary Table 7.
As for milk somatic cells, in WBC the gene with the highest fold change was PTX3.
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