Figure 3
(a) Venn diagram shows the number of clinically relevant lncRNAs, which is defined as lncRNAs that is differentially expressed in T versus NT and also differentially expressed in poor clinical characteristic versus good clinical characteristic. Their expressions in both T versus NT and poor clinical characteristic versus good clinical characteristic are in the same direction and significant. Blue: Edmondson Grade; orange: tumor properties (Includes tumor size, tumor stage and vascularization); purple: overall survival; green: tumor invasion; yellow: tumor capsule (includes encapsulation and degree of encapsulation). (b) Summary of strong correlation between clinically relevant lncRNAs and differentially expressed mRNAs. Red: upregulation in T versus NT; green: downregulation in T versus NT. Strong positive correlation with |R|≥ 0.9 is shown as dotted black lines with light grey background. Number of differentially expressed lncRNAs/mRNAs that has |R|≥ 0.9 are shown within the thick black boxes with white fonts. Number of clinically relevant lncRNAs that is also strongly correlated with mRNA are shown in grey box with lines. Small black boxes with grey background represents number of correlation that is also in cis-relationship. (c) Pathways of upregulated clinically relevant and strongly correlated genes are mainly related to cell cycle and signaling pathways. (d) Pathways of downregulated clinically relevant and strongly correlated genes are mainly related to plasma lipoprotein remodeling, glucose, amino acids, fatty acids and drug metabolism, as well as metallothioneins.
