Table 2 Association of differentially expressed genes in co-expression clusters (see Figure 2) with GO functional categories
| Â | Percentage of transcripts classified in co-expression profiles in Figure 2. | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
Functional Categories | High to low | Low to high | PMA, MA, SCP, TPA | PMA, MA, SCP | MA | SCP | TPA | Â | |||
| Â | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | Total |
Amino acid metabolism | 0.6 | 1.6 | 1.1 | 1.4 | 1.8 | 0.8 | 1.1 | 0.3 | 0.2 | 0.6 | 1.2 |
Carbohydrate metabolism | 0.8 | 2.0 | 1.2 | 4.4 | 1.4 | 3.4 | 2.5 | 1.1 | 1.4 | 1.6 | 2.0 |
Catalytic activity | 1.7 | 2.7 | 2.4 | 4.8 | 3.8 | 6.8 | 5.7 | 4.0 | 3.0 | 3.9 | 3.5 |
Cell cycle | 2.3 | 3.3 | 6.1 | 2.1 | 2.3 | 1.2 | 1.2 | 1.6 | 0.7 | 1.3 | 3.0 |
Cell structure | 1.7 | 2.0 | 3.0 | 1.7 | 1.4 | 2.4 | 2.6 | 2.2 | 2.5 | 5.4 | 2.5 |
Chromatin remodeling | 1.7 | 2.7 | 2.5 | 1.3 | 1.0 | 1.0 | 0.7 | 0.5 | 0.4 | 0.6 | 1.7 |
Energy metabolism | 1.5 | 3.6 | 1.6 | 4.7 | 1.8 | 3.4 | 3.0 | 2.7 | 2.5 | 1.3 | 2.7 |
Lipid metabolism | 1.1 | 2.2 | 2.5 | 3.6 | 3.0 | 6.6 | 4.4 | 3.0 | 4.6 | 2.6 | 2.9 |
Nucleotide metabolism | 0.6 | 1.3 | 1.6 | 1.5 | 1.1 | 0.0 | 0.7 | 0.0 | 0.7 | 0.4 | 1.1 |
Protein-protein interaction | 2.3 | 3.3 | 2.7 | 4.4 | 2.3 | 2.8 | 2.6 | 2.7 | 4.0 | 2.1 | 3.0 |
Protein metabolism | 5.7 | 7.9 | 6.3 | 6.8 | 7.3 | 4.4 | 6.3 | 8.9 | 11.6 | 4.0 | 6.9 |
RNA metabolism | 7.7 | 7.5 | 7.4 | 2.2 | 3.8 | 1.2 | 1.9 | 1.1 | 1.4 | 1.0 | 4.8 |
Secondary metabolism | 1.8 | 0.6 | 0.9 | 0.9 | 1.2 | 3.8 | 4.0 | 3.2 | 5.3 | 2.7 | 1.7 |
Signal transduction | 6.6 | 7.5 | 8.8 | 9.0 | 8.2 | 7.8 | 9.3 | 7.8 | 6.8 | 10.5 | 8.3 |
Stress | 4.4 | 3.1 | 3.0 | 3.5 | 3.7 | 6.6 | 6.5 | 4.0 | 5.1 | 4.6 | 3.8 |
Transcription factors | 8.9 | 8.0 | 7.7 | 5.3 | 5.1 | 7.0 | 7.6 | 8.9 | 6.1 | 5.7 | 7.1 |
Translation | 1.1 | 8.8 | 2.8 | 1.5 | 1.3 | 0.2 | 1.0 | 0.0 | 0.7 | 0.2 | 3.4 |
Transporters | 2.3 | 4.1 | 3.5 | 4.8 | 5.5 | 7.8 | 4.4 | 4.0 | 5.4 | 6.2 | 4.5 |
Vesicular trafficking | 0.3 | 2.9 | 1.0 | 5.0 | 2.4 | 2.6 | 0.7 | 0.0 | 0.4 | 2.2 | 2.1 |
Others | 46.9 | 25.1 | 33.9 | 31.1 | 41.3 | 30.5 | 34.0 | 44.1 | 37.5 | 43.1 | 33.8 |
Genes in each cluster | 652 | 3124 | 2439 | 1383 | 1068 | 502 | 733 | 372 | 571 | 1071 | 11915 |