RNA classes in cytosol and polysomes from three LCLs, measured by RNA-Seq.

<p>After amplification of total cytosol RNA fraction and polysome fractions with NuGen, equal amounts of RNA were subjected to RNA-Seq, and sequence reads were aligned to annotated RNA to determine expression levels. <b>A.</b> Average expression level (normalized to FKPM) in cytoplasmic and polysome fractions from 3 different LCLs after exclusion of rRNA, tRNA, and mt-RNA. The pseudogenes and lncRNAs are reduced on polysome fractions. In cytosol lncRNA represent antisense-RNA (21.3%), lincRNA (4.7%) and lncRNA (74%). On polysomes the lncRNA distribution was drastically different: antisense-RNA (73%), lincRNA (14%) and lncRNA (13%). Error bars represent expression s.d. from 3 different LCL cells. <b>B-D</b>. Hierarchical clustering of the profiles of protein coding genes (B), pseudogenes (C) and lncRNA (D) performed with similarity indices (see <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0136798#sec019" target="_blank">Materials and Methods</a>) for cytosol and polysome fractions. Observed difference of similarity indices between cytosol and polysome clusters is higher in lncRNA than in other RNA classes (note the difference on vertical scale).