Dynamic cross-talk analysis among TNF-R, TLR-4 and IL-1R signalings in TNFα-induced inflammatory responses

BMC Medical Genomics

Table 3 Cross-talk ranking values (CTRVs) and link values of significant proteins in PPAN.

No.	Protein	CTRV	Link	No.	Protein	CTRV	Link
1	IRAK1	108	140	31	IL1R1	21	21
2	TRAF6	83	124	32	FADD	19	55
3	NIK	77	89	33	GRB2	18	46
4	A20	61	61	34	TAK1	17	66
5	MYD88	59	107	35	SOCS1	17	17
6	TRAF2	58	198	36	TRIF	16	54
7	IKKα	55	83	37	TMED1	12	12
8	SIGIRR	53	73	38	CASP8	10	87
9	TLR4	53	53	39	TAB2	10	53
10	IKKγ	52	84	40	CAV1	10	44
11	IKKβ	47	97	41	TAB1	9	44
12	BCL10	43	62	42	TTRAP	8	8
13	UBE2N	41	41	43	ECSIT	8	50
14	IRAK4	38	112	44	CYLD	6	6
15	RIP	38	57	45	TNF	0	48
16	TRAF3	37	57	46	TNFR2	0	39
17	IRAK3	36	36	47	IKKε	0	29
18	ST2L	32	32	48	PELI2	0	19
19	TNIP3	32	32	49	IL1B	0	18
20	PTPN11	31	31	50	MEKK3	0	18
21	TIRAP	29	40	51	TRAM	0	18
22	TRAF4	27	27	52	IL1A	0	17
23	TOLLIP	26	47	53	IL1R2	0	17
24	RNF216	25	25	54	TRAF5	0	17
25	TNFR1	24	111	55	SOS1	0	10
26	RIP3	23	93	56	IRF3	0	9
27	TRADD	23	32	57	NOD2	0	0
28	TBK1	22	39	58	CD14	0	0
29	PELI1	21	49	59	SARM1	0	0
30	TANK	21	40	60	FLN29	0	0

To integrate the information from the complex PPANs, the cross-talk ranking values (CTRVs) at different time stages are summed up for each protein. In contrast with CTRVs, the values of link represent the total number of protein-protein associations at six time stages of each protein. It reveals that not all nodes with high connective degree will also have high CTRVs such as CASP8.

ISSN: 1755-8794