Fig. 4

A The MARINa plot shows the projection of the negative (repressed, shown in blue color) and positive (activated, shown in red color) targets for each TF (vertical lines resembling a barcode) on the DEGs (x-axis) between HGLO and LGHO subgroups, where the DEGs were rank-sorted from the one most down-regulated to the on most upregulated in the HGLO vs LGHO conditions. Here we took BRCA as an example. The two-columns heatmap displayed on the right side shows the inferred differential activity (first column) and differential expression (second column) of each TF, with the rank of displayed genes in DEGs (shown on the right). The corresponding enrichment P-value are displayed on the left. B The GO functional enrichment analysis of the common TFs (upper 6 pathways for TFs activated in HGLO pathways, lower 6 for LGHO). The bar plot indicates number of genes in each pathway, while the dotted lines displays the adjusted P-value of enrichment. C Circos plot showing the 55 common TF and 56 common targets across cancer types. Outer to inner: (1) The number of chromosomes. (2) Red genes are the common TFs activated in HGLO group, while blue for LGHO and black for common targets. (3) Genomic location of TFs and targets. (4) Heatmaps showing the differential expression of TFs and targets across cancer types. Cancer types are GBM, LAML, THYM, THCA, TGCT, READ, PRAD, PCPG, PAAD, OV, LUSC, LUAD, LIHC, KIRP, KIRC, HNSC, ESCA, COAD, CESC, BRCA, and BLCA (ordered outer to inner). (5) Networks displaying the regulatory network of these common TFs and targets