Figure 1

An RNA-FISH survey of lncRNAs. (a) Study workflow. (b) Key features of 61 lincRNAs for which probe sets were successfully designed and were imaged in the study. Shown are for each of 61 lincRNA (column) the following features from top to bottom: whether it has a syntenic ortholog (black: has ortholog) or a divergently transcribed mRNA neighbor (black: has such neighbor), the extent of tissue specificity across 23 tissues (blue color intensity: maximal tissue specificity score as in [9] across the tissues presented in the figure; white to blue color bar), its expression level as measured by RNA-Seq (red intensity: the fractional density across the row of log₂(FPKM) as estimated by Cufflinks; white to red color bar) in each of 23 tissues (heatmap rows; Additional file 2), and the extent of analysis performed (black: lncRNAs with valid probe set that were included in the final analysis; white: lncRNAs showing no signal; gray: lncRNAs with an invalid probe based on the two-color co-localization assay).