Figure 1.
Systematic workflow to explore functional regulatory patterns in PKD.
Figure 2.
Differential expression of top 30 genes in PKD and control animals.
The heatmap was produced by clustering the data matrix of top 30 genes using Pearson correlation. The gene clustering tree is shown on the left and the sample clustering tree is shown on the top. The other information such as fold change expression, p-value, gene symbol and involvement are given on the right. The samples are broadly divided into two groups, healthy (control) and PKD. The color scale shown at the top illustrates the relative expression level of the indicated genes across all samples.
Table 1.
Differentially regulated pathways on significantly up- and –down-regulated genes.
Table 2.
Differentially regulated GO biological processes associated with up- and down-regulated genes.
Figure 3.
Overview of fold changes of miRNAs versus a measure of statistical significance.
The volcano plot shows the -log10 (p-value) on the y-axis and the fold change (log2) on the x-axis. A cut-off [-log10 (p-value) = 1.86] was considered to determine differentially expressed miRNAs between diseased and health (control) animals. Seven miRNAs i.e. rno-miR-146b, -132, -21, -503, -199a-5p, -214 and -34a were found to be significantly up-regulated in diseased animals with a fold change ≥0.5 with significant p-value ≤0.01.
Figure 4.
The figure shows high abundance of transcripts of rno-miR-146b, -199a-5p, -214 and -31 in PKD/Mhm (cy/+) rat model as observed on microarrays. ‘***’ indicates for p-value <0.0001. The black and white box plots represent cystic and healthy kidneys.
Table 3.
Distribution of binding sites of 8 miRNAs within 3,333 deregulated genes.
Table 4.
Overview of binding site predictions of 8 miRNAs within the representative members of deregulated pathways.