Fig. 5. TME-lncRNAs are upregulated in tumors with RB1 loss and are associated with poor outcomes.

a Differential expression analysis of lncRNAs in n = 64 bulk RNA-seq mCRPC biopsies between samples with biallelic inactivation of RB1 vs. monoallelic/wild-type RB1¹³. Genes are highlighted based on their enrichment in cell types from single-cell analysis. b Motif enrichment for all upregulated lncRNAs (red) and tme-lncRNAs (blue) in RB1-deleted tumors. c Hallmark MSigdb pathways correlated with all upregulated lncRNAs (red) and tme-lncRNAs (blue) in RB1-deleted tumors from scRNA-seq data. d Correlation of upregulated tme-lncRNAs with the Hallmark TNFA Signaling pathway and the upregulated genes in the RBS signature from ref. 15. e Forest plots of univariate (top) and multivariate (bottom) analysis of n = 59 mCRPC samples with bulk RNA-seq for RB1 loss upregulated tme-lncRNAs and overall survival. f Forest plots of univariate (top) and multivariate (bottom) analysis of n = 59 mCRPC samples with bulk RNA-seq of RB1 loss downregulated pca-lncRNAs and overall survival.