Table 2.

Top 10 significantly regulated canonical pathways and molecules in each pathway, from the 654 genes reversed during complete remission (corresponding to 587 human gene IDs), as assessed by IPA (Ingenuity Pathway Analysis). p-values are indicated in parentheses. In square brackets are the numbers of genes regulated / number of genes in the pathway.

1. Dendritic Cell Maturation (6.31E-08) [22/185]

B2M, ICAM1, TYROBP, FCG2RA, RELB, NFKBIE, HLADQA1, IKBKE, CD83, FCGR1A, COL1A2, IL33, TLR2, TLR4, IL18, PIK3CG, HLA-DRA, CD86, IL1B, IRF8, STAT1, HLA-C

2. Communication between Innate and Adaptive Immune Cells (1.38E-07) [15/109]

B2M, CD83, CCL5, CCL9, IL33, CXCL10, TLR2, TLR4, IL18, HLA-DRA, IL1B, TLR13, CD86, TNFSF13B, HLA-C

3. Cell Cycle Control of Chromosomal Replication (9.77E-07) [9/31]

MCM5, MCM3, MCM6, MCM2, CDT1, ORC6, MCM4, DBF4, MCM7

4. TREM1 Signaling (6.03E-06) [11/66]

TLR2, TLR4, IL18, ICAM1, CCL2, TYROBP, CASP1, TLR3, CD86, IL1B, CD83

5. Hepatic Fibrosis / Hepatic Stellate Cell Activation (2.29E-05) [18/147]

CCR5, VCAM1, ICAM1, FN1, CTGF, MMP2, CCL5, COL1A2, MYL9, CXCL3, TLR4, LY96, CCL2, IL10RA, CD14, IL1B, STAT1, PDGFRB

6. MSP-RON Signaling Pathway (7.41E-05) [9/51]

TLR2, CSF2RB, ITGB2, TLR4, KLK3, CCL2, PIK3CG, ACTB, CCR2

7. Complement System (7.76E-05) [7/35]

C1R, SERPING1, C3, C1S, C1QA, C1QB, CFH

8. Altered T Cell and B Cell Signaling in Rheumatoid Arthritis (1.17E-04) [12/92]

IL33, TLR2, TLR4, IL18, SPP1, RELB, HLA-DRA, HLA-DQA1, TLR13, CD86, IL1B, TNFSF13B

9. Role of Hypercytokinemia/hyperchemokinemia in the Pathogenesis of Influenza (1.32E-04) [7/44]

IL33, CXCL10, IL18, CCR5, CCL2, IL1B, CCL5

10. Role of Pattern Recognition Receptors in Recognition of Bacteria and Viruses (1.58E-04) [13/106]

C3, C1QA, C1QB, CCL5, TLR2, IFIH1, TLR4, CLEC7A, IRF7, PI3CG, CASP1, IL1B, CLEC6A