Figure 3

Integrated view of Wnt pathway. All (present) genes associated with the Wnt pathway are denoted with by circular nodes and their fold-change values are represented by node color where red and green indicate higher and lower expression in ILD patient samples compared to controls, respectively. Bold-faced gene symbols indicate DEGs. Triangular nodes represent DEmiRNAs which have reciprocal expression fold-change values relative to their presumptive mRNA targets or that are predicted to be regulated by differentially expressed transcription factors (FDR<0.1, see Additional file 1). The transcription factors used in construction of this regulatory network are shown as squares and their fold-changes were expressed by node border colors. Gray and black lines indicate protein-protein interactions and signaling information from the KEGG database, respectively. Red, blue and green lines with arrows represent predicted transcriptional activation, transcriptional repression and miRNA-mediated repression, respectively. Open circles represent transcription factors that were not used in prediction of regulatory interactions.