Table 1.
Top 15 enriched gene ontology (GO) biological process terms assigned to the text mining genes
| Process | Genes in query set |
Total genes in genome | Corrected hypergeometric P value | Genes |
|---|---|---|---|---|
| Extracellular matrix organization | 31 | 257 | 3.47E-27 | CDH1, CD44, VWF, VTN, VCAM1, TNF, THBS1, TGFBI, SPARC, BGN, SERPINE1, NID1, MMP14, MMP9, MMP3, MMP2, MMP1, MFAP2, LUM, ITGAL, ICAM1, TNC, FN1, FGF2, FBN1, ELN, COL18A1, DCN, VCAN, COL1A2, COL1A1. |
| Platelet degranulation | 20 | 125 | 2.44E-19 | CLU, MMRN1, VWF, VEGFA, TIMP1, THBS1, TGFB3, TGFB2, TGFB1, TF, SPARC, SOD1, SERPINE1, KNG1, IGF2, IGF1, APOA1, FN1, ALB, EGF. |
| Cytokine-mediated signaling pathway | 25 | 290 | 3.99E-18 | CDKN1A, CD4, VIM, VEGFA, VCAM1, TWIST1, TNF, TIMP1, TGFB1, BCL2, NOS2, MMP9, MMP3, MMP2, MMP1, KIT, IL8, IL2, ICAM1, FOS, FN1, FGF2, AKT1, F3, COL1A2. |
| Response to drug | 22 | 305 | 3.82E-14 | CDKN1B, CDKN1A, CDH1, CAT, TIMP2, THBS1, TGFBR2, TGFB2, SST, SOD1, BCL2, REN, PTCH1, APOA1, ICAM1, APEX1, FOS, ENG, EDN1, COL18A1, CTNNB1, COL1A1. |
| Positive regulation of cell population Proliferation | 27 | 557 | 1.45E-13 | CDKN1B, CNOT8, VEGFA, TIMP1, THBS1, TGFBR2, TGFB3, TGFB2, TGFB1, SHH, RPS4X, BCL2, KIT, IL2, IGF2, IGF1, TNC, FN1, FLT1, FGF2, AKT1, AGT, EGFR, EGF, EDN1, COL18A1, CTNNB1. |
| Response to hypoxia | 17 | 174 | 7.16E-13 | CDKN1B, CAT, VEGFA, THBS1, TGFBR2, TGFB3, TGFB2, BMP2, PLAU, PLAT, NOS2, NOS1, MMP14, MMP2, ICAM1, ENG, EDN1. |
| Wound healing | 14 | 103 | 1.99E-12 | TIMP1, TGFBR2, TGFB3, TGFB2, SPARC, IGF1, TNC, GSN, FN1, FGF2, ENG, EGFR, DCN, COL1A1. |
| Regulation of cell population Proliferation | 18 | 222 | 2.05E-12 | CLU, CDKN1B, TNF, TGFBR2, TGFB3, TGFB2, TGFB1, SPARC, SHH, PTCH1, PLAU, NOS2, KIT, TNC, ENG, AGT, EGFR, CTNNB1. |
| Negative regulation of gene expression | 20 | 310 | 4.16E-12 | CDKN1A, CD34, VEGFA, TNF, TGFB2, TGFB1, BMP2, SHH, SERPINF1, NOS2, MAX, IL8, IGF1, FGF2, AKT1, ENG, AGT, EDN1, ACE, CTNNB1. |
| Positive regulation of gene expression | 24 | 498 | 4.56E-12 | CLU, CD34, VIM, VEGFA, TWIST1, TNF, TGFB1, BMP2, SHH, MAPK8, MAPK3, NOS3, KIT, IL8, IGF1, TNC, GSN, GJA1, FN1, AKT1, F3, ENG, EGF, CTNNB1. |
| Positive regulation of cell migration | 18 | 255 | 1.66E-11 | VEGFA, THBS1, TGFB1, BMP2, SOD2, PLAU, MMP14, MMP9, KIT, IGF1, HSPA5, FLT1, F3, EGFR, EGF, EDN1, COL18A1, COL1A1. |
| Aging | 15 | 178 | 1.57E-10 | CAT, CALCA, TIMP2, TIMP1, TGFBR2, TGFB3, SOD1, MAPK3, SERPINF1, APEX1, GSN, FOS, AKT1, AGT, DCN. |
| Cellular protein metabolic process | 16 | 226 | 3.55E-10 | CALCA, TIMP1, TGFBI, TF, MMP2, MMP1, KNG1, IGF2, IGF1, APOA1, TNC, GSN, FN1, ALB, FBN1, VCAN. |
| Regulation of blood pressure | 10 | 63 | 1.50E-09 | CD34, CALCA, SOD2, SOD1, REN, NOS3, AGT, EDN1, ACE, COL1A2. |
| Positive regulation of MAP kinase activity | 10 | 63 | 1.50E-09 | VEGFA, TNF, TGFB1, KIT, GH1, FLT1, FGF2, EGFR, EGF, EDN1. |