Journal: RNA

Article Title: Ribo-Pop: simple, cost-effective, and widely applicable ribosomal RNA depletion

doi: 10.1261/rna.076562.120

Figure Lengend Snippet: Ribo-Pop drastically increases effective sequencing depth. The effectiveness of Ribo-Pop depletion was assessed by RNA sequencing of input and depleted libraries prepared from Drosophila larval RNA. (A) The percent of reads assigned to each transcript class (biotype), is plotted for each of the three replicates of the input and depleted RNA samples. The data were obtained from three independent RNA samples in which each sample was used to construct one input library and one depleted library. (B) The percent of reads assigned to each type of ribosomal RNA is shown for the input and depleted samples. Error bars represent standard deviation between the three replicates. (C) RNA-seq coverage of a representative pre-rRNA locus (FBgn0267507) and its cleavage products in input and depleted samples. Reads in each library were scaled by the synthetic spike-in counts to allow direct comparisons between libraries. The average of three replicates for each sample type is plotted.

Article Snippet: A synthetic RNA spike-in mix, Lexogen E0 (Lexogen, cat # 025.03) was added to the sample before rRNA removal at a ratio of 0.09 ng per 100 ng total RNA for quality control.

Techniques: Sequencing, RNA Sequencing Assay, Construct, Standard Deviation