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Fig. 3 | Genome Medicine

Fig. 3

From: Wnt-regulated lncRNA discovery enhanced by in vivo identification and CRISPRi functional validation

Fig. 3

Wnt-regulated lncRNA and protein-coding genes form gene networks that are dysregulated in different cancer types. a Clusters enriched for genes upregulated in different cancer types. The top 5 clusters, clusters 1, 5, 7, 9, and 12, are enriched with the most number of cancers for genes upregulated. Normalized gene expression of these 5 clusters with number of PCGs and lncRNAs from each cluster are shown (left). b Clusters enriched for genes downregulated in different cancer types. The top 5 clusters, clusters 2, 3, 6, 11, and 24, are enriched with the most number of cancers for genes downregulated. Normalized gene expression of these 5 clusters with number of PCGs and lncRNAs from each cluster are shown (left). c, d GO Biological Processes enrichments (FDR < 5%) of the top 5 clusters enriched for genes upregulated (c) or downregulated (d) in different cancer types. The top 3 significantly enriched GO terms for each cluster are shown. e Wnt-regulated lncRNAs are part of gene networks that are upregulated in different cancers. PCGs from cluster 9 are enriched for ncRNA metabolic processes, negative regulation of cell differentiation, and positive regulation of Wnt signaling. Wnt-regulated lncRNAs from cluster 9 are shown in the inner circle. f Wnt-regulated lncRNAs are part of gene networks that are downregulated in different cancers. PCGs from cluster 2 are enriched for immune response, vesicle-mediated transport, and vesicle organization. Wnt-regulated lncRNAs from cluster 2 are shown in the inner circle

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