Table 1.
Top significantly regulated canonical pathways and molecules in each pathway, 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.
|
Top 10 pathways from the 1342 genes regulated in 23 weeks old mice with new onset of proteinuria vs. 23 wks old mice without proteinuria (corresponding to 1194 human gene IDs). |
| 1. Dendritic Cell Maturation (4.37E-09) [35/207] |
| B2M, ICAM1, NFKBIE, HLA-DQA1, LTB, HLA-DRB1, CD83, HLA-DMB, HLA-DQB1, FCGR1A, EP300, COL1A2, PLCE1, PIK3CG, HLA-B, COL18A1, STAT1, PLCD4, FCGR3A, HLA-DMA, TYROBP, FCGR2A, RELB, IKBKE, DDR1, TLR2, IL33, COL1A1, TLR4, IL18, FCER1G, CD86, IL1B, IRF8, COL3A1 |
| 2. Altered T Cell and B Cell Signaling in Rheumatoid Arthritis (3.89E-07) [21/92] |
| TLR1, HLA-DMA, SPP1, CD79B, RELB, HLA-DQA1, HLA-DRB1, LTB, HLA-DMB, HLA-DQB1, TNFRSF17, IL33, TLR2, TLR4, IL18, CXCL13, TGFB1, FCER1G, CD86, IL1B, TNFSF13B |
| 3. Antigen Presentation Pathway (3.63E-06) [11/40] |
| B2M, PSMB9, HLA-DMA, HLA-DQA1, HLA-B, HLA-DRB1, HLA-DMB, PSMB8, CD74, TAP1, TAP2 |
| 4. Atherosclerosis Signaling (7.08E-06) [24/136] |
| APOE, VCAM1, ICAM1, CXCR4, PLA2G7, F3, TNFRSF12A, SELPG, COL1A2, IL33, PLA2G4A, COL1A1, ITGB2, IL18, CCL2, APOC3, TGFB1, IL1B, SERPINA1, S100A8, COL18A1, CCR2, ITGA4, COL3A1 |
| 5. TREM1 Signaling (1.00E-05) [15/71] |
| ITGB1, TLR1, ICAM1, TYROBP, CD83, STAT3, TLR2, TLR4, CXCL3, IL18, CCL2, CASP1, CD86, IL1B, ITGAX |
| 6. Fcγ Receptor-mediated Phagocytosis in Macrophages and Monocytes (1.10E-05) [21/102] |
| FYN, ARPC1B, FCGR2A, ACTB, ACTA2, ARPC5, FCGR1A, PRKCZ, PLD4, HMOX1, ARF6, NCF1, ACTR3, PIK3CG, ARPC2, HCK, VAMP3, LYN, ARPC3, FCGR3A, PRKCB |
| 7. Communication between Innate and Adaptive Immune Cells (1.10E-05) [17/109] |
| B2M, TLR1, HLA-DRB1, CD83, CCL5, TNFRSF17, IL33, CXCL10, TLR2, TLR4, IL18, FCER1G, HLA-B, CD86, CCL3L1/CCL3L3, IL1B, TNFSF13B |
| 8. Complement System (1.23E-05) [10/35] |
| C1R, SERPING1, C3, C1S, CFI, C1QC, C1QA, C1QB, CFH, C3AR1 |
| 9. CD28 Signaling in T Helper Cells (1.41E-05) [23/132] |
| HLA-DMA, FYN, PTPN6, ARPC1B, NFATC3, NFKBIE, MAP3K1, ARPC5, HLA-DQA1, HLA-DRB1, PTPRC, CD3G, FOS, JUN, ACTR3, PIK3CG, ARPC2, FCER1G, CD86, ARPC3 |
| 10. Cell Cycle Control of Chromosomal Replication (1.86E-05) [10/31] |
| MCM5, MCM3, MCM6, MCM2, CDT1, ORC6, CHECK2, MCM4, DBF4, MCM7 |
|
Top 5 pathways from the 321 genes regulated in 36 weeks old mice with established proteinuria vs. 23 wks old mice at onset of proteinuria (corresponding to 311 human gene IDs). |
| 1. TCA Cycle II (Eukaryotic) (1.48E-10) [9/41] |
| SUCLA2, CS, SUCLG1, SDHD, IDH3A, MDH1, MDH2, ACO1, IDH3B |
| 2. Mitochondrial Dysfunction (4.90E-06) [13/186] |
| COX6B1, NDUFA9, COX6A1, COX11, SOD2, ATP5B, COX5A, NDUFB6, SDHD, CYC1, ATP5G3, NDUFA8, COX15 |
| 3. Inosine-5′-phosphate Biosynthesis II (1.26E-03) [2/16] |
| ADSL, PAICS |
| 4. Arsenate Detoxification I (Glutaredoxin) (2.51E-03) [2/20] |
| AS3MT, GSTO1 |
| 5. Aspartate Degradation II (8.32E-03) [2/14] |
| MDH1, MDH2 |