Figure 1

300 hES lincRNAs. (a) The analysis pipeline. We mapped reads onto hg19 human genome using TopHat (v1.4.1) [39] with a reference helped strategy in case of failure to map some junction reads. We merged gene models from different resources using cuffcompare, and calculated gene expression level using Cufflinks (v2.0.2) [17] based on gene models we compiled. (b) Abundance of 300 hES lincRNAs across hES and human adult tissues. Color intensity represents the fractional density across the row of FPKM as estimated by Cufflinks [17]. Classifying by tissue specificity index [46], one fourth (78 out of 300) hES lincRNAs were biasedly expressed in hES (tau > 0.9).