TABLE 3.
Selected GO categories significantly enriched in CHX-resistant T3 genes
| GO ID | GO category name | Total genes | Changed genes (p value/enrichment)a |
|
|---|---|---|---|---|
| CHX-resistant regulated genes | T3-regulated genes | |||
| A) Selected GO categories significantly enriched in CHX-resistant up-regulated genes and T3 up-regulated genes | ||||
| 0009310 | Amine catabolic process | 33 | 5 (0.00/8.3) | 5 (0.00/5.9) |
| 0042254 | Ribosome biogenesis and assembly | 58 | 0 (1.00/0.0) | 7 (0.00/3.9) |
| 0007154 | Cell communication | 1237 | 21 (0.03/1.37) | 41 (0.33/1.07) |
| 0007049 | Cell cycle | 385 | 12 (0.04/1.7) | 21 (0.01/1.8) |
| 0006260 | DNA replication | 109 | 3 (0.32/1.5) | 10 (0.00/3.0) |
| 0006261 | DNA-dependent DNA replication | 44 | 0 (1.00/0.0) | 5 (0.01/3.7) |
| 0008632 | Apoptotic program | 48 | 2 (0.22/2.28) | 5 (0.02/3.4) |
| 0042592 | Homeostatic process | 177 | 9 (0.00/2.8) | 6 (0.47/1.09) |
| 0003707 | Steroid hormone receptor activity | 23 | 4 (0.00/9.5) | 2 (0.16/2.8) |
| 0003700 | Transcription factor activity | 373 | 14 (0.00/2.1) | 13 (0.37/1.1) |
| 0008237 | Metallopeptidase activity | 65 | 5 (0.01/4.2) | 7 (0.00/3.5) |
| B) Selected GO categories significantly enriched in CHX-resistant T3 down-regulated genes and T3 down-regulated genes | ||||
| 0030154 | Cell differentiation | 739 | 21 (0.048/1.5) | 8 (0.83/0.76) |
| 0007010 | Cytoskeleton organization and biogenesis | 223 | 10 (0.01/2.3) | 5 (0.2/1.6) |
| 0051301 | Cell division | 138 | 7 (0.02/2.6) | 1 (0.86/0.5) |
| 0005819 | Spindle | 46 | 5 (0.00/5.6) | 2 (0.14/3.06) |
| 0048513 | Organ development | 460 | 12 (0.19/1.4) | 13 (0.01/2.0) |
| 0001501 | Skeletal development | 87 | 2 (0.51/1.2) | 5 (0.01/4.1) |
| 0006811 | Ion transport | 246 | 9 (0.01/2.6) | 9 (0.051/1.9) |
a Numbers of changed genes and enrichment factors are shown in bold in statistically significant GO categories (p < 0.05 as determined by the GoMiner software).