Classification of biological processes significantly enriched in the set of genes regulated by ATRA in control and TG2 knockdown NB4 cells at day 3
| Biological process . | No. of genes in reference list . | Control NB4 . | TG2-KD NB4 . | ||||
|---|---|---|---|---|---|---|---|
| No. of genes observed . | No. of genes expected . | P . | No. of genes observed . | No. of genes expected . | P . | ||
| Immunity and defense | 1318 | 199 | 98.16 | 5.00E−19 | 140 | 78.15 | 1.55E−09 |
| Interferon-mediated immunity | 63 | 20 | 4.69 | 1.77E−05 | 6 | 3.74 | NS |
| MHCI-mediated immunity | 22 | 12 | 1.64 | 3.35E−05 | 9 | 1.3 | .0018 |
| Granulocyte-mediated immunity | 64 | 16 | 4.77 | .0056 | 10 | 3.8 | NS |
| T cell–mediated immunity | 194 | 30 | 14.45 | .0311 | 22 | 11.5 | NS |
| Cytokine/chemokine–mediated immunity | 125 | 22 | 9.31 | .0384 | 12 | 7.41 | NS |
| Nucleoside, nucleotide, and nucleic acid metabolism | 3343 | 360 | 248.97 | 1.59E−11 | 272 | 198.23 | 1.44E−06 |
| DNA metabolism | 360 | 57 | 26.81 | 3.04E−05 | 44 | 21.35 | .0014 |
| DNA repair | 169 | 34 | 12.59 | 7.85E−05 | 27 | 10.02 | .0012 |
| tRNA metabolism | 42 | 13 | 3.13 | .0035 | 12 | 2.49 | .0017 |
| Cell cycle | 1009 | 132 | 75.15 | 2.47E−08 | 102 | 59.83 | 7.42E−06 |
| Cell-cycle control | 418 | 67 | 31.13 | 1.72E−06 | 48 | 24.79 | .0028 |
| Protein metabolism and modification | 3040 | 315 | 226.41 | 4.22E−08 | 249 | 180.27 | 3.61E−06 |
| Protein modification | 1157 | 123 | 86.17 | .0108 | 97 | 68.61 | NS |
| Protein complex assembly | 68 | 16 | 5.06 | .0112 | 12 | 4.03 | NS |
| Intracellular protein traffic | 1008 | 103 | 75.07 | .0318 | 86 | 59.77 | .0202 |
| Biological process . | No. of genes in reference list . | Control NB4 . | TG2-KD NB4 . | ||||
|---|---|---|---|---|---|---|---|
| No. of genes observed . | No. of genes expected . | P . | No. of genes observed . | No. of genes expected . | P . | ||
| Immunity and defense | 1318 | 199 | 98.16 | 5.00E−19 | 140 | 78.15 | 1.55E−09 |
| Interferon-mediated immunity | 63 | 20 | 4.69 | 1.77E−05 | 6 | 3.74 | NS |
| MHCI-mediated immunity | 22 | 12 | 1.64 | 3.35E−05 | 9 | 1.3 | .0018 |
| Granulocyte-mediated immunity | 64 | 16 | 4.77 | .0056 | 10 | 3.8 | NS |
| T cell–mediated immunity | 194 | 30 | 14.45 | .0311 | 22 | 11.5 | NS |
| Cytokine/chemokine–mediated immunity | 125 | 22 | 9.31 | .0384 | 12 | 7.41 | NS |
| Nucleoside, nucleotide, and nucleic acid metabolism | 3343 | 360 | 248.97 | 1.59E−11 | 272 | 198.23 | 1.44E−06 |
| DNA metabolism | 360 | 57 | 26.81 | 3.04E−05 | 44 | 21.35 | .0014 |
| DNA repair | 169 | 34 | 12.59 | 7.85E−05 | 27 | 10.02 | .0012 |
| tRNA metabolism | 42 | 13 | 3.13 | .0035 | 12 | 2.49 | .0017 |
| Cell cycle | 1009 | 132 | 75.15 | 2.47E−08 | 102 | 59.83 | 7.42E−06 |
| Cell-cycle control | 418 | 67 | 31.13 | 1.72E−06 | 48 | 24.79 | .0028 |
| Protein metabolism and modification | 3040 | 315 | 226.41 | 4.22E−08 | 249 | 180.27 | 3.61E−06 |
| Protein modification | 1157 | 123 | 86.17 | .0108 | 97 | 68.61 | NS |
| Protein complex assembly | 68 | 16 | 5.06 | .0112 | 12 | 4.03 | NS |
| Intracellular protein traffic | 1008 | 103 | 75.07 | .0318 | 86 | 59.77 | .0202 |
NS indicates not significant.