Table 3. Functional annotation analysis of downregulated differentially expressed genes (DEGs) in Lung squamous cell carcinoma (LUSC) datasets using the DAVID tool.
| Term | Count | P Value | Genes | Pop Hits | Fold Enrichment |
|---|---|---|---|---|---|
| hsa04610:Complement and coagulation cascades | 31 | 1,15E-10 | C3AR1, C7, A2M, MASP1, C3, F13A1, C6, C5, C1QC, FGG, SERPINA1, C2, CFI, CFD, F11, CR1, F10, C5AR1, C4A, F8, SERPING1, C4BPA, C1QA, C1QB, VWF, C8B, CD55, TFPI, SERPIND1, CPB2, PROS1 | 69 | 3,586444611 |
| hsa04514:Cell adhesion molecules (CAMs) | 44 | 8,51E-10 | HLA-DQB1, ITGAL, CADM3, CLDN18, CADM1, HLA-DRB1, CLDN5, ITGB2, HLA-DMB, SDC4, HLA-DMA, CDH5, ITGAM, CD22, HLA-DRB5, ESAM, CD4, HLA-DPB1, HLA-DOA, SELPLG, NEGR1, SPN, ICAM1, SELP, PTPRC, PTPRM, ICAM2, HLA-E, HLA-DQA2, CLDN23, HLA-DQA1, SIGLEC1, NCAM2, ITGA9, CD86, CD34, ITGA8, CLDN2, HLA-DPA1, JAM2, JAM3, SELE, CD226, HLA-DRA | 132 | 2,660910518 |
| hsa04640:Hematopoietic cell lineage | 30 | 2,22E-07 | CSF3, IL1R1, HLA-DRB1, CSF1, MME, ANPEP, IL7R, ITGAM, FCGR1C, FCGR1A, CSF3R, CD22, HLA-DRB5, CD4, CSF2RA, CSF1R, IL6, CR1, CD1C, ITGA1, IL6R, IL11RA, CD1E, CD55, CD37, CD36, CD34, CD33, EPOR, IL3RA, HLA-DRA | 86 | 2,784673798 |
| hsa05416:Viral myocarditis | 25 | 2,37E-06 | HLA-DQB1, PRF1, ITGAL, CAV1, HLA-DRB1, ITGB2, HLA-DMB, HLA-DMA, HLA-DRB5, HLA-DPB1, HLA-DOA, ICAM1, HLA-E, HLA-DQA2, HLA-DQA1, LAMA2, CD86, CD55, SGCG, MYH11, SGCD, HLA-DPA1, SGCA, HLA-DRA, MYH10 | 71 | 2,81082097 |
| hsa04060:Cytokine-cytokine receptor interaction | 58 | 1,18E-05 | ACVRL1, PDGFB, IL6ST, LEPR, TNFSF15, CXCR1, CXCR2, TNFSF13, TNFSF12, CXCL12, TGFB2, CSF3R, CSF2RB, CSF2RA, IL18RAP, LIFR, IL6R, IL11RA, TNFRSF10C, PPBP, TNFRSF10D, CCR2, CX3CR1, TNFSF12-TNFSF13, CSF3, CCL3, IL1R1, CCL2, CXCL5, CSF1, CCR1, CXCL3, CXCL2, BMPR2, IL7R, CCL4, LIF, TNFRSF1B, IL12RB1, CCL21, IL10RA, PLEKHO2, FIGF, CSF1R, IL18R1, IL6, BMP2, FLT1, FLT4, TGFBR2, EDA2R, HGF, CCL18, KDR, CCL17, CCL13, CCL14, CXCL16, EPOR, IL3RA | 262 | 1,767169581 |
| hsa04062:Chemokine signaling pathway | 45 | 1,61E-05 | ADCY4, PRKCZ, CCL3, CCL2, GNAI2, CXCL5, FGR, PREX1, CXCL3, CCR1, CXCL2, NCF1C, NFKBIA, CXCR1, GNG11, CXCR2, CCL4, CXCL12, DOCK2, CCL21, RASGRP2, GNG2, PIK3R5, SHC3, PLCB2, GNG7, PIK3CG, ITK, NCF1, HCK, WAS, CCL18, ELMO1, PRKCB, CCL17, GNGT2, CCL13, CCL14, PPBP, ADCY9, ARRB2, ARRB1, CXCL16, CCR2, CX3CR1, GRK5 | 187 | 1,920978181 |
| hsa05310:Asthma | 14 | 1,62E-05 | FCER1A, HLA-DQB1, HLA-DRB1, HLA-DMB, HLA-DMA, HLA-DQA2, HLA-DQA1, HLA-DRB5, MS4A2, FCER1G, HLA-DPA1, HLA-DPB1, HLA-DOA, HLA-DRA | 29 | 3,853732474 |
| hsa04270:Vascular smooth muscle contraction | 31 | 2,82E-05 | ADCY4, ADORA2A, PPP1R12B, MRVI1, PRKG1, MYL9, EDNRA, AGTR1, ACTG2, PTGIR, GUCY1A2, PLA2G1B, GUCY1A3, CALCRL, PLCB2, PPP1R14A, RAMP3, RAMP2, PLA2G10, NPR1, PRKCE, ITPR1, PRKCB, PRKCQ, ADCY9, GNAQ, MYH11, CACNA1C, CACNA1D, PLA2G5, MYLK | 112 | 2,209506055 |
| hsa05332:Graft-versus-host disease | 16 | 3,38E-05 | HLA-DQB1, PRF1, IL6, HLA-DRB1, HLA-DMB, HLA-E, HLA-DMA, HLA-DQA2, HLA-DQA1, CD86, HLA-DRB5, HLA-DPA1, HLA-DPB1, HLA-DOA, KLRD1, HLA-DRA | 39 | 3,274966791 |
| hsa05322:Systemic lupus erythematosus | 27 | 1,37E-04 | HLA-DQB1, C7, HLA-DRB1, C3, C6, C5, HLA-DMB, C1QC, HLA-DMA, FCGR1C, FCGR1A, HLA-DRB5, HLA-DPB1, C2, FCGR3A, HLA-DOA, FCGR3B, C4A, HLA-DQA2, HLA-DQA1, C1QA, C8B, C1QB, CD86, HLA-DPA1, FCGR2A, CTSG, HLA-DRA | 99 | 2,177108606 |
| hsa04672:Intestinal immune network for IgA production | 17 | 1,84E-04 | HLA-DQB1, IL6, HLA-DRB1, TNFSF13, TNFSF12, PIGR, HLA-DMB, HLA-DMA, CXCL12, HLA-DQA2, HLA-DQA1, TGFB2, CD86, HLA-DRB5, HLA-DPA1, HLA-DPB1, TNFSF12-TNFSF13, HLA-DOA, HLA-DRA | 49 | 2,769519111 |
| hsa05330:Allograft rejection | 14 | 2,39E-04 | HLA-DQB1, PRF1, HLA-DRB1, HLA-DMB, HLA-E, HLA-DMA, HLA-DQA2, HLA-DQA1, CD86, HLA-DRB5, HLA-DPA1, HLA-DPB1, HLA-DOA, HLA-DRA | 36 | 3,104395604 |
| hsa04940:Type I diabetes mellitus | 15 | 3,63E-04 | HLA-DQB1, PRF1, HLA-DRB1, PTPRN2, HLA-DMB, HLA-E, HLA-DMA, HLA-DQA2, HLA-DQA1, CD86, HLA-DRB5, HLA-DPA1, HLA-DPB1, HLA-DOA, HLA-DRA | 42 | 2,850975555 |
| hsa05414:Dilated cardiomyopathy | 24 | 7,06E-04 | ADCY4, SLC8A1, TNNC1, ITGA1, CACNG4, ITGA10, CACNB4, TTN, CACNA2D2, TGFB2, LAMA2, ITGA9, DES, ADRB1, SGCG, ADCY9, PLN, ITGA8, ITGA7, RYR2, SGCD, CACNA1C, CACNA1D, SGCA | 92 | 2,08245171 |
| hsa05410:Hypertrophic cardiomyopathy (HCM) | 22 | 0,00139878 | SLC8A1, IL6, TNNC1, ITGA1, CACNG4, ITGA10, CACNB4, TTN, CACNA2D2, TGFB2, LAMA2, ITGA9, ACE, DES, SGCG, ITGA8, ITGA7, RYR2, SGCD, CACNA1C, CACNA1D, SGCA | 85 | 2,066118755 |
| hsa04614:Renin-angiotensin system | 8 | 0,00290177 | AGTR1, ACE, AGTR2, MME, CPA3, ANPEP, ENPEP, CTSG | 17 | 3,756579555 |
| hsa05320:Autoimmune thyroid disease | 14 | 0,0083188 | HLA-DQB1, PRF1, HLA-DRB1, HLA-DMB, HLA-E, HLA-DMA, HLA-DQA2, HLA-DQA1, CD86, HLA-DRB5, HLA-DPA1, HLA-DPB1, HLA-DOA, HLA-DRA | 51 | 2,191338074 |
| hsa04670:Leukocyte transendothelial migration | 25 | 0,00994356 | ITGAL, CLDN18, GNAI2, CLDN5, NCF1C, ITGB2, CXCL12, CDH5, ITGAM, MYL9, ESAM, PIK3R5, RAPGEF4, RAPGEF3, PIK3CG, ICAM1, ITK, NCF2, NCF1, NCF4, CLDN23, PRKCB, CYBB, CLDN2, JAM2, JAM3 | 118 | 1,691256685 |
| hsa04612:Antigen processing and presentation | 19 | 0,01258302 | HLA-DQB1, CIITA, HLA-DRB1, IFI30, CTSS, HLA-DMB, HLA-E, HLA-DMA, HLA-DQA2, HLA-DQA1, CD74, B2M, HLA-DRB5, CD4, HLA-DPA1, HLA-DPB1, HLA-DOA, KLRD1, HLA-DRA | 83 | 1,827372283 |
| hsa05412:Arrhythmogenic right ventricular cardiomyopathy (ARVC) | 17 | 0,02357362 | SLC8A1, ITGA1, CACNG4, ITGA10, CACNB4, CACNA2D2, LAMA2, ITGA9, DES, SGCG, ITGA8, ITGA7, RYR2, SGCD, CACNA1C, CACNA1D, SGCA | 76 | 1,785611006 |
| hsa04530:Tight junction | 26 | 0,02458398 | PRKCZ, CLDN18, GNAI2, MRAS, CLDN5, MYL9, RRAS, PARD6B, MAGI3, MAGI1, MPDZ, PRKCE, CLDN23, PRKCB, EPB41L2, EPB41L3, PRKCQ, TJP1, CGN, MYH11, CLDN2, TJP3, JAM2, JAM3, MYH10, SPTAN1 | 134 | 1,548888212 |
| hsa05020:Prion diseases | 10 | 0,02477695 | C1QA, EGR1, C1QB, NCAM2, C8B, C7, IL6, C6, C5, C1QC | 35 | 2,280780444 |
| hsa04960:Aldosterone-regulated sodium reabsorption | 11 | 0,0263487 | PIK3CG, ATP1B2, HSD11B1, NR3C2, PIK3R5, NEDD4L, ATP1A2, SCNN1G, SCNN1B, SLC9A3R2, PRKCB | 41 | 2,141708466 |
| hsa03320:PPAR signaling pathway | 15 | 0,04364393 | ACOX2, LPL, OLR1, PPARG, RXRG, ACADL, ACSL1, CD36, SORBS1, CYP27A1, HMGCS2, FABP3, FABP4, ACSL4, ACSL5 | 69 | 1,735376425 |
| hsa04666:Fc gamma R-mediated phagocytosis | 19 | 0,04492025 | PIK3CG, DNM3, PTPRC, WASF3, NCF1, HCK, NCF1C, PIP5K1B, PRKCE, WAS, PRKCB, DOCK2, GAB2, FCGR1C, CFL2, FCGR1A, PLA2G4F, PIK3R5, FCGR2A, FCGR3A, PPAP2B | 95 | 1,596546311 |
| hsa04020:Calcium signaling pathway | 31 | 0,04546262 | GNA14, ADCY4, ERBB4, CYSLTR1, ADORA2A, TNNC1, EDNRA, AGTR1, EDNRB, PDE1B, PLCB2, SLC8A1, BST1, PTGFR, ITPR1, PRKCB, ADRB2, P2RX7, PLCE1, ADRB1, P2RX1, ADCY9, GNAQ, PLN, TBXA2R, CACNA1H, RYR2, CACNA1C, CACNA1D, MYLK, PTAFR | 176 | 1,406049308 |
The results revealed that downregulated consistent DEGs indicated the genes that were associated with the top three pathways: “Complement and coagulation cascades”, “Cell adhesion molecules (CAMs)” and, “Hematopoietic cell lineage”.