Evaluation of genes for major biological process gene ontologies and pathway analysis of genes regulated similarly by TVX (from Fig. 4B ) between HepG2 cells and PHH for this analysis
The Panther Classification System was used (see Materials and Methods).
NCBI: H. sapiens genes—REFLIST (25,431) | Uploaded Similar Genes (929) | No. of Genes Expected | Over/Under | P | |
|---|---|---|---|---|---|
| Biological process | |||||
| Biological process unclassified | 11,321 | 170 | 336.99 | - | 2.55E-35 |
| Nucleoside, nucleotide metabolism | 3343 | 219 | 99.51 | + | 1.08E-28 |
| Pre-mRNA processing | 291 | 39 | 8.66 | + | 3.15E-12 |
| mRNA splicing | 214 | 30 | 6.37 | + | 1.49E-09 |
| Intracellular protein traffic | 1008 | 67 | 30 | + | 5.09E-08 |
| mRNA transcription | 1914 | 102 | 56.97 | + | 1.64E-06 |
| Intracellular signaling cascade | 871 | 55 | 25.93 | + | 3.69E-05 |
| Protein modification | 1157 | 67 | 34.44 | + | 4.02E-05 |
| mRNA transcription regulation | 1459 | 79 | 43.43 | + | 6.46E-05 |
| Protein phosphorylation | 660 | 44 | 19.65 | + | 2.06E-04 |
| Cell cycle | 1009 | 53 | 30.03 | + | 2.06E-03 |
| Stress response | 200 | 19 | 5.95 | + | 2.06E-03 |
| DNA repair | 169 | 17 | 5.03 | + | 3.88E-03 |
| Protein metabolism and modification | 3040 | 125 | 90.49 | + | 4.14E-03 |
| rRNA metabolism | 66 | 10 | 1.96 | + | 5.60E-03 |
| Nuclear transport | 135 | 14 | 4.02 | + | 1.09E-02 |
| Apoptosis | 531 | 31 | 15.81 | + | 1.24E-02 |
| DNA metabolism | 360 | 25 | 10.72 | + | 1.71E-02 |
| Meiosis | 84 | 10 | 2.5 | + | 3.89E-02 |
| Ligand-mediated signaling | 421 | 2 | 12.53 | - | 6.10E-02 |
| Protein targeting | 113 | 11 | 3.36 | + | 1.04E-01 |
| G protein-mediated signaling | 834 | 10 | 24.83 | - | 1.11E-01 |
| Protein targeting and localization | 253 | 16 | 7.53 | + | 1.42E-01 |
| Sensory perception | 506 | 6 | 15.06 | - | 2.15E-01 |
| Carbohydrate metabolism | 592 | 29 | 17.62 | + | 2.24E-01 |
| Cell structure and motility | 1148 | 49 | 34.17 | + | 2.61E-01 |
| Cell proliferation and differentiation | 1028 | 44 | 30.6 | + | 3.60E-01 |
| Mitosis | 382 | 22 | 11.37 | + | 4.46E-01 |
| Cell cycle control | 418 | 23 | 12.44 | + | 6.27E-01 |
| Other intracellular signaling cascade | 225 | 15 | 6.7 | + | 7.34E-01 |
| Glycogen metabolism | 52 | 6 | 1.55 | + | 7.42E-01 |
| Cell motility | 352 | 20 | 10.48 | + | 7.74E-01 |
| Amino acid activation | 38 | 5 | 1.13 | + | 8.77E-01 |
| Pathway | |||||
| Unclassified | 22,565 | 608 | 671.69 | - | 1.73E-09 |
| Circadian clock system | 16 | 7 | 0.48 | + | 9.95E-05 |
| p53 pathway | 136 | 17 | 4.05 | + | 1.67E-04 |
| Wnt signaling pathway | 349 | 23 | 10.39 | + | 6.24E-02 |
| Ras pathway | 91 | 10 | 2.71 | + | 6.97E-02 |
| Angiogenesis | 229 | 17 | 6.82 | + | 9.46E-02 |
| PDGF signaling pathway | 189 | 15 | 5.63 | + | 9.93E-02 |
| EGF receptor signaling pathway | 150 | 13 | 4.47 | + | 1.00E-01 |
| Huntington's disease | 172 | 14 | 5.12 | + | 1.16E-01 |
| Oxidative stress response | 69 | 8 | 2.05 | + | 1.78E-01 |
| Aminobutyrate degradation | 2 | 2 | 0.06 | + | 2.38E-01 |
| FGF signaling pathway | 148 | 12 | 4.41 | + | 2.74E-01 |
| T cell activation | 111 | 10 | 3.3 | + | 3.02E-01 |
| Axon guidance mediated by semaphorins | 46 | 6 | 1.37 | + | 3.98E-01 |
| p53 pathway feedback loops 2 | 66 | 7 | 1.96 | + | 5.69E-01 |
| JAK/STAT signaling pathway | 23 | 4 | 0.68 | + | 7.42E-01 |
| Cytoskeletal regulation by Rho GTPase | 111 | 9 | 3.3 | + | 9.57E-01 |
| Axon guidance mediated by netrin | 40 | 3 | 1.19 | + | 1.00E+00 |
| Axon guidance mediated by Slit/Robo | 35 | 2 | 1.04 | + | 1.00E+00 |
| Apoptosis signaling pathway | 131 | 9 | 3.9 | + | 1.00E+00 |
PDGF, platelet-derived growth factor; EGF, epidermal growth factor; FGF, fibroblast growth factor; JAK, Janus tyrosine kinase; STAT, signal transducer and activator of transcription.