Table 1.

Top ten vertices analyzed using the Double Screening Scheme (DSS) analysis, combining the Density of Maximum Neighborhood Component (DMNC) and Maximum Neighborhood Component (MNC, see the “Methods” section for details; DMNC||MNC⁶⁵), degree⁶³ or bottleneck ⁶⁴ approaches, for networks of constructed protein–protein interactions (PPI) from Experiments 1 and 3 (Fig. 6) and Experiment 4 (Fig. 10).

Proteins	DMNC	MNC	Proteins	Degree	Proteins	Bottle-neck	Proteins	Betweenness
1st PPI experiment 1 (TFBSs) and experiment 3 (DE)
IKZF1	0.57	6	INPP5D	8	INPP5D	26	FEZF2	791.91
CD53	0.57	6	ARNT	8	HGF	16	INPP5D	756
ARHGAP25	0.57	6	IKZF1	8	FEZF2	15	PIK3C2B	746.78
INPP5D	0.65	5	TBC1D10C	6	PIK3C2B	15	SMARCD2	639.68
TBC1D10C	0.65	5	CD53	6	SMARCD2	15	ARNT	626.43
MPEG1	0.65	5	ARHGAP25	6	IKZF1	10	IKZF1	519.36
FLI1	0.46	3	FEZF2	5	MYH6	10	LDLR	479.63
NEUROD6	0.31	3	PIK3C2B	5	ERG	10	HGF	455.06
STMN2	0.31	3	LDLR	5	ARNT	9	USH2A	436.33
FEZF2	0.31	2	NEUROD6	5	USH2A	8	NEUROD6	399
2nd PPI experiment 4
WNT8B	0.67	8	SRC	15	PRKACA	31	PRKACA	907.62
WNT3A	0.67	8	CTNNB1	12	SRC	11	CTNNB1	544.30
WNT2	0.67	8	PRKACA	11	CTNNB1	10	CACNA1C	456
WNT7A	0.77	7	CBL	9	CACNA1C	7	OXTR	390
WNT7B	0.77	7	WNT8B	8	OXTR	6	SRC	353.57
WNT10A	0.77	7	WNT5A	8	GRIA1	6	CBL	323.20
SFRP5	0.77	7	WNT3A	8	WNT8B	5	GRIA1	269.11
WNT5A	0.77	7	WNT2	8	CBL	5	COL7A1	168
MAPK11	0.41	7	MAPK14	8	GAB1	4	DLG1	161.54
TRHR	0.64	5	MAPK1	8	RARA	3	WNT5A	106.75