Table 5. TF-coding nodes identified by centralities and graphlet based F1.

The table shows confusion matrices of TF-coding genes whose variation in local topology was identified by differences in the centrality metrics and by F1 based on graphlets. This table was built on the comparison between GRNs of E. coli for wild type and ompR knock-out conditions. In this case, nodes identified by both approaches are considered TPs; those whose topological variation was identified only by a change in node centrality are FPs; while those solely identified by F1 are considered FNs. Nodes that do not show any variation in their topology are TNs. Centralities metrics are: Average Shortest Path Length (ASPL), Betweenness Centrality (BC), Closeness Centrality (CLC), Clustering Coefficient (CC), Eccentricity (ECC), Neighborhood Connectivity (NC), Stress (STR), Degree (DEG, sum of outdegree and indegree), Outdegree (ODE), and Indegree (IDE).

	TP	FP	TN	FN
ASPL	40	8	131	18
BC	35	45	94	23
CLC	40	8	131	18
CC	23	1	138	35
ECC	11	1	138	47
NC	51	1	138	6
STR	30	8	131	28
DEG	14	1	138	44
IDE	13	1	138	45
ODE	8	1	138	50