Revisiting Date and Party Hubs: Novel Approaches to Role Assignment in Protein Interaction Networks
Figure 3
Topological node role assignments and relation with avPCC.
Plots for (a) Yeast network (FHC [4]—2,233 nodes, 63 communities) and (b) Human network (CCSB-HI1 [49]—1,307 nodes, 38 communities) (see Materials and Methods for details). Following Guimerà and Amaral [31], we designate the roles as follows: R1 – Ultra-peripheral; R2 – Peripheral; R3 – Non-hub connector; R4 – Non-hub kinless; R5 – Provincial hub; R6 – Connector hub; and R7 – Kinless hub. We colour proteins according to the avPCC of expression with their interaction partners. We computed expression avPCC using the stress response data set [40] (which was the largest, by a considerable margin, of the expression data sets used in the original study [1]) for FHC and COXPRESdb [67] for CCSB-HI1. No partner expression data was available for a few proteins (25 in FHC, 1 in CCSB-HI1)—these are not shown on the plots.