PPI analysis using STRING R package

[sreichl]

• code in macroStim project
• apply to all provided gene sets (e.g., up regulated)
• or go beyond and implement "network-based" enrichment analysis using e.g., OMNIPATH testing if genes are closer in the network than random chance / background gene set of expressed genes

[sreichl]

• STRING query only returns the graph without much context.
• STRING graph visualization not useful for many genes
• Interactive web analysis is more meaningful and useful.
• Network approach interesting, but currently not required for any project.