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. 2020 Mar 24;8:e8797. doi: 10.7717/peerj.8797

Figure 1. Overview of analysis.

Figure 1

TCGA RNA-seq data from 23 cancer types were used as input into the ARACNe algorithm to generate cancer type specific lncRNA-target gene regulons. These regulons were used with the BASE algorithm to infer lncRNA expression in PRECOG and METABRIC microarray datasets. The BASE algorithm infers the expression of lncRNAs in microarray data using the aggregate expression of the lncRNAs’ associated protein coding genes. Lastly, a systematic pan-cancer analysis of 9,463 lncRNAs was carried out to identify prognostic lncRNAs across 20 different cancer types in the microarray data compendia.