Fig. 3. Application on the PPI network for fungi.

a The restored network structure and protein functional clusters at the time that the first 1000 edges were added. The size of the nodes indicates the order in which the nodes appear, the nodes added first (i.e., the nodes corresponding to the edges that are added first) are larger. The colors of the nodes represent different functions of the proteins (full protein functions are listed in Supplementary Table S8). It can be seen that in the evolution process of the PPI network, interactions between proteins form protein clusters with specific functions. b The number of proteins by function over time counted according to the order of the edges. Proteins at both ends of each edge are considered. c The number of proteins with different functions added in each interval of 300 edges. The functions represented by each capital letter can be found in a.