This project aims to generate the visualization of the protein-protein directed interaction network.
- Data sources
a.Signor3.0 https://signor.uniroma2.it/downloads.php?beta=3.0: genes directed interaction
file "all_data.tsv" is directly downloaded from its website with organism filter as homo sapiens
b.Gene expression data from the TCGA (SKCM) vs. normal
file "ras_t&g.tsv" is output from running differential gene expression analysis - Network element
a.Node: nodes are the significant genes based on the gene expression data with the logFC cutoff. The color of node represents the logFC of the genes.
b.Edge: length and width of edges represents the confidence score of the directed interactions. The color of the edge represents the interaction mechanism of this interaction
where red edge for activation effect while navy edge for inhibition effect.
Default cutoff for the confidence score of interaction is 0.5.
c.Legend: logFC color legend for each node.