Fig. 2

Influence of Wnt inhibition on the co-expression relationship of lncRNAs and their eQTL-linked protein-coding genes. a Wnt-regulated lncRNAs are linked to their nearby protein-coding genes (PCGs) if the eQTL SNP of a PCG overlaps with a lncRNA locus, as annotated by FANTOM5 consortium [8]. b 115 Wnt-regulated lncRNA-PCG pairs are linked by eQTL SNPs that also colocalize with cancer GWAS loci. c Wnt-regulated lncRNA VPS9D1-AS1 and its eQTL-linked PCG FANCA are co-expressed in both FANTOM5 and TCGA pancreatic cancer. They are also co-expressed after Wnt inhibition, suggesting their co-expression is not directly influenced by Wnt signaling inhibition. CPM, counts per million. FPKM, fragments per kilobase of transcript per million. d Co-expression of Wnt-regulated lncRNA AC068282.3 and its eQTL-linked PCG ERCC3 is observed in both FANTOM5 and TCGA pancreatic cancer and is influenced by Wnt signaling, as they are no longer co-expressed after Wnt inhibition in our system. e Wnt-regulated lncRNA LINC00482 and its eQTL-linked PCG C17orf89 are not co-expressed in either FANTOM5 or TCGA pancreatic cancer but become co-expressed in response to Wnt inhibition. f, g Influence of Wnt inhibition on the co-expression relationship of Wnt-regulated lncRNAs and their eQTL-linked PCGs observed in FANTOM5 (f) or TCGA pancreatic cancer (g). Red, co-expression of lncRNA-PCG pairs observed in FANTOM5 (f) or TCGA pancreatic cancer (g) are not directly influenced by Wnt inhibition; blue, co-expression of lncRNA-PCG pairs observed in FANTOM5 (f) or TCGA pancreatic cancer (g) are influenced by Wnt inhibition; yellow, co-expression of lncRNA-PCG pairs are uncovered after Wnt inhibition; gray, lncRNA-PCG pairs are neither co-expressed in response to Wnt inhibition nor in FANTOM5 (f) or TCGA pancreatic cancer (g)