Figure 2

Bottom center: Screenshot from the overlap component showing sample analysis. The background knowledge category chosen is KEA kinase-substrate enrichment. Top right: Expand Lists component screenshot. Uploaded lists can be expanded using protein-protein interactions network, co-expression network, or co-annotation network. Users can set two parameters: sensitivity and number of steps. This allows controlling the size of the expanded lists. Top left: Network of lists representation. Uploaded user lists (blue) are connected if they overlap significantly. Green and black nodes represent labeled gene-lists from a specific library (kinases and their known substrates) that overlap with the uploaded lists. Green nodes represent annotated lists that overlap with only one input list whereas black nodes are lists that overlap with two or more input lists.