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Table 2 IPA analysis enlisting top five canonical pathways and upstream regulators in TB-HIV and HIV gene sets

From: “Tuberculosis in advanced HIV infection is associated with increased expression of IFNγ and its downstream targets”

Top pathways (upregulated) p-value Overlap Overlapping Genes
Role of Macrophages, Fibroblasts and Endothelial Cells in Rheumatoid Arthritis 6.01E-06 6.3% (18/287) SOCS3,ICAM1,TLR8,CEBPD,
IRAK3,IL1R1,
CREB5,
PDGFC,
FCGR1A,
IL18R1,
IL18RAP,
IL1R2,FOS,
NFKBIA,MAPK14,TLR5,TLR1,TCF7L2
IL-10 Signaling 3.24E-05 11.8% (8/68) IL1R2,FOS,
SOCS3,
IL4R,NFKBIA,
MAPK14,IL1R,
IL18RAP
p38 MAPK Signaling 5.71E-05 8.5% (10/117) IL1R2, MAPK14,TIFA,DUSP1, MKNK1,
IRAK3,IL1R1,
CREB5,
IL18RAP,
HSPB1
Toll-like Receptor Signaling 3.68E-04 9.6% (7/73) FOS,NFKBIA,MAPK1,TLR5,
TLR1,TLR8,
IRAK3
Hepatic Fibrosis / Hepatic Stellate Cell Activation 5.09E-04 6.1% (11/181) IL1R2,IL4R,
ICAM1,HGF, FGFR1,IGF1R,
COL4A2,IL1R, IFNAR2,
PDGFC,
IL18RAP
Upstream Regulators (upregulated) p-value of overlap   
Immunoglobulin 1.51E-13   
PGR 3.23E-08   
Lipopolysaccharide 4.31E-08   
CSF2 4.81E-07   
IL-1 4.98E-07   
EIF2 Signaling 3.40E-08 7.5% (13/173) RPS7,RPS6,
RPL4,
RPLP1,
RPL23A,
RPL22L1,
RPL37,EIF4A2,
RPL23,RPS17,
RPS4,RPL13A,RPS11
Primary Immunodeficiency Signaling 6.06E-06 13.6% (6/44) RFX5,LCK,
ZAP70,
CD8A,UNG,
IGHD
B Cell Development 1.67E-04 14.8% (4/27) SPN,CD79B,
HLA-DMB,IGHD
Granzyme A Signaling 6.82E-04 17.6% (3/17) PRF1,H1FX,
APEX1
Regulation of eIF4 and p70S6K Signaling 7.64E-04 4.9% (7/143) RPS7,RPS6,
EIF4A2,
RPS17,RPS4X,
RPS11,ITGA4
Upstream Regulators (downregulated) p-value of overlap   
MYCN 2.72E-09   
Alefacept 5.84E-08   
TCR 2.59E-06   
Lipopolysaccharide 2.89E-06   
IL-15 9.25E-06