1. ncRNAs are developmentally regulated as well as mRNAs.
ncRNAs are developmentally regulated as well as mRNAs. (A and B) Heatmaps reveal temporal changes in RNA abundance throughout development. The heatmap rows each represent a gene/transcript model, clustered based on their transcript abundance, and columns correspond to sample time points (2 hr intervals), increasing from left to right. RNA abundance values are represented as row-wise Z-scores and are color coded as indicated in the scale above each heatmap. (C and D) Multidimensional scaling shows the distances between transcriptomes at each time point for each class of RNA. Dimension 1 is on the x-axis and dimension 2 on the y-axis, and distances between points (arbitrary units, not shown) on the two-dimensional plane are inversely proportional to the similarity (Spearman’s correlation) of the transcriptomes. Black circles represent sample averages with the time point labeled, while individual biological replicates 1 and 2 are shown as open and gray circles, respectively, connected by whiskers. Only replicate 1 for time points 16 and 22 passed our quality control, and thus these are shown as labeled open circles. (E and F) Plots of dimension 1 values (arbitrary units, y-axis) vs. time (hours, x-axis) for mRNA (E) and lncRNA (F). The dotted diagonal represents a linear best-fit curve, with coefficients of determination (r2) displayed on each plot. lncRNA, intergenic long noncoding RNA; mRNA, messenger RNA; ncRNA, noncoding RNA.
Rafael D. Rosengarten et al. G3 2016;7:
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