Table I.
Pathway enrichment analysis for the upregulated and downregulated differentially expressed genes.
| Category | Term | Description | Count | FDR | Genes |
|---|---|---|---|---|---|
| Upregulated | hsa05144 | Malaria | 7 | 6.27E-02 | HBB, HGF, ICAM1, CCL2, TGFB2, TGFB3, VCAM1 |
| hsa00590 | Arachidonic acid metabolism | 7 | 9.75E-02 | GPX3, PTGDS, PTGIS, CYP4F2, PTGES, PLA2G16, PLA2G2C | |
| hsa04350 | TGF-β signaling pathway | 8 | 9.75E-02 | BMP4, ID2, ID4, SMAD3, SMAD6, TGFB2, TGFB3, BAMBI | |
| Downregulated | hsa03030 | DNA replication | 18 | 7.58E-10 | MCM2, MCM4, POLA1, POLA2, POLD3, POLE, PRIM1, PRIM2, RFC2, RFC3 |
| hsa03460 | Fanconi anemia pathway | 20 | 7.83E-09 | BRCA1, FANCD2, RAD51, TOP3A, USP1, UBE2T, POLK, FANCL, RMI1, BRIP1 | |
| hsa05322 | Systemic lupus erythematosus | 30 | 2.47E-08 | HIST1H2AI, HIST1H2AK, HIST1H2AC, HIST1H2AB, HIST1H2BE, HIST1H3I, HIST1H3G, HIST1H3J, HIST1H2AH, HIST2H4B | |
| hsa05034 | Alcoholism | 32 | 9.07E-06 | CALM2, SLC29A1, HIST1H2BB, PKIA, HIST1H2AI, HIST1H2AK, HIST1H2AC, HIST1H2AB, HIST1H3I, HIST1H3G | |
| hsa03008 | Ribosome biogenesis in eukaryotes | 20 | 9.07E-06 | DKC1, UTP14A, WDR3, GTPBP4, GNL3, POP5, NOP58, GNL3L, UTP6, EFTUD1 | |
| hsa03440 | Homologous recombination | 12 | 1.78E-05 | BLM, BRCA2, MRE11A, NBN, RAD51, TOP3A, XRCC2, POLD3, RAD54B, EME1 | |
| hsa04110 | Cell cycle | 24 | 1.75E-04 | CDK1, CDC6, ANAPC10, MCM2, MCM6, ORC1, TGFB1, SMC3, CCNE2, STAG1 | |
| hsa03430 | Mismatch repair | 9 | 4.06E-04 | MSH6, MLH1, MSH2, RFC2, RFC3, RFC4, RFC5, EXO1, POLD3 | |
| hsa05203 | Viral carcinogenesis | 30 | 2.12E-03 | CASP3, PIK3CA, PIK3R1, PMAIP1, RASA2, RBL1, HIST1H2BL, HIST1H2BF, HIST1H2BE, HIST1H2BI | |
| hsa03013 | RNA transport | 24 | 3.37E-03 | EIF1AX, EIF4EBP1, EIF3E, NUP88, TPR, EIF3J, EIF4E2, NUPL1, PHAX, NDC1 | |
| hsa00240 | Pyrimidine metabolism | 18 | 4.79E-03 | CTPS1, DCK, PNP, POLA1, POLE, POLE2, PRIM1, PNP, RRM2, TYMS | |
| hsa03420 | Nucleotide excision repair | 10 | 1.65E-02 | ERCC4, GTF2H1, MNAT1, POLE, POLE2, RFC2, RFC3, RFC4, RFC5, POLD3 | |
| hsa03040 | Spliceosome | 19 | 2.25E-02 | SRSF7, SNRPD1, SNRPG, PRPF3, SNRNP40, RBM8A, THOC1, PPIE, PPIH, SRSF10 | |
| hsa00900 | Terpenoid backbone biosynthesis | 6 | 3.47E-02 | FNTB, HMGCR, HMGCS1, IDI1, ZMPSTE24, PDSS1 | |
| hsa03018 | RNA degradation | 13 | 3.89E-02 | HSPA9, C1D, EXOSC8, EXOSC2, LSM5, CNOT10, LSM3, CNOT7, EXOSC3, PAPD5, PNPT1 | |
| hsa05323 | Rheumatoid arthritis | 14 | 4.55E-02 | ATP6V1E1, IL1B, IL6, IL8, IL11, MMP1, MMP3, TGFB1, VEGFA, ATP6V1D | |
| hsa05202 | Transcriptional misregulation in cancer | 23 | 6.29E-02 | IGFBP3, IL6, IL8, PAX3, CDK14, PLAT, PLAU, HIST1H3I, HIST1H3G, HIST1H3J |
FDR, false discovery rate; TGF-β, transforming growth factor-β.