Literature-Based Discovery of IFN-𝛾 and Vaccine-Mediated Gene Interaction Networks

Table 1

Predicted 56 genes related to IFN-𝛾 and vaccine networks.

Gene	Generic IFNG Network					IFNG-vaccine Network
	D	E	B	C	IFNG-Ref	D	E	B	C	Vaccine-Ref
TNF	1	1	1	1	3132506	2	3	2	7	16446013
NFKB1	2	2	2	2	9888423	—	23	—	—	16971487
IL6	3	3	3	3	1719090	3	4	7	3	10225849
IL8	4	5	6	4	8473010	10	13	10	9	11378044
IL10	5	4	4	5	8102388	6	8	11	2	10930151
IL4	6	6	5	6	2136895	4	2	4	4	8519092
MAPK1	7	9	9	7	15307176	—	—	—	—	19428911
IL2	8	7	8	8	6429853	1	1	1	1	8459207
VEGFA*	9	10	10	9	12816689	—	—	—	—	17502972
TP53*	10	8	7	10	16391798	—	—	—	—	18846387
BCL2*	11	13	13	11	11064392	—	—	—	—	19389797
AKT1*	12	11	12	12	11135576	—	—	—	—	19107122
MAPK8	13	14	14	13	18950753	—	—	15	—	19428911
INS	14	12	11	14	8383325	—	—	—	16	19203100
MAPK14	15	15	18	15	10700460	—	—	—	—	19428911
CSF2	16	18	17	16	11665752	7	6	6	6	19459853
FAS	17	17	16	17	10895367	—	—	—	—	15979942
CCL2	18	19	19	18	9407497	—	—	—	—	19833737
IFNA1	19	16	15	19	11449378	—	—	—	13	19667099
EGFR*	20	20	23	20	17362940	—	—	—	—	19178753
JUND*	21	21	22	21	10070035	—	—	—	—	19124729
KITLG*	22	24	—	22	7540064	—	—	—	—	-
CCL5	23	23	21	23	8921438	—	24	—	—	15827150
CD4	24	22	20	24	15173593	9	5	3	12	17298856
EGF*	25	25	—	25	18160214	—	—	—	—	16357522
CRP	—	—	24	—	10675363	—	—	—	—	16395099
STAT3*	—	—	25	—	7488223	—	—	—	—	-
IL5	—	—	—	—	9432015	5	7	20	8	11138639
IL13	—	—	—	—	12670721	8	9	5	5	12232042
IL7	—	—	—	—	7594482	11	14	12	17	17496983
EIF2AK2	—	—	—	—	11342638	12	10	8	—	19596385
CD28	—	—	—	—	7634349	13	12	—	—	12594842
HSPD1	—	—	—	—	12407015	14	19	16	14	12218165
SILV	—	—	—	—	11839572	15	20	17	23	11459172
IL21	—	—	—	—	14657853	16	17	—	—	16785513
IL18	—	—	—	—	8666798	17	—	—	10	19467215
HBEGF	—	—	—	—	9062364	18	25	—	21	10729731
CD46	—	—	—	—	15307176	19	11	9	—	11757799
CD40	—	—	—	—	7554483	20	16	—	—	11403919
PSG2	—	—	—	—	2516715	21	—	22	—	11155821
GAD1	—	—	—	—	9703171	22	—	—	18	12421990
IL15	—	—	—	—	9834271	23	—	—	22	16785513
C3	—	—	—	—	1337336	24	15	—	—	19477524
PRF1	—	—	—	—	19651871	25	22	19	—	15214037
ZAP70	—	—	—	—	11034358	—	18	23	—	—
CD40LG	—	—	—	—	10769003	—	21	18	—	11403919
GNLY	—	—	—	—	17382591	—	—	13	19	10644038
PTPN11	—	—	—	—	12270932	—	—	14	—	—
CD86	—	—	—	—	9836505	—	—	21	—	12594842
CCR5	—	—	—	—	9616137	—	—	24	—	16672545
HSPA4	—	—	—	—	18442794	—	—	25	—	11779704
TPBG	—	—	—	—	16630022	—	—	—	11	16630022
KLK3	—	—	—	—	16000955	—	—	—	15	19171173
CD8A	—	—	—	—	1904117	—	—	—	20	18425263
CD80	—	—	—	—	7537534	—	—	—	24	10498243
LTA	—	—	—	—	3102976	—	—	—	25	15908422

Note: The genes ranked among the top 25 by the centrality measures (D: Degree; E: Eigenvector; B: Betweenness; C: Closeness) in the generic IFNG network or the IFNG-vaccine network. The genes are represented with their official HGNC symbols. Literature evidences for the relatedness of the genes to IFNG (IFNG-Ref) and to vaccine development (Vaccine-Ref) are manually curated. “—” indicates that the gene is not ranked among the top 25 by the corresponding centrality measure in the corresponding network or no literature evidence was found.