Table I. Significance values of the overrepresentation analysis of functional annotations among genes that are coexpressed with REIL2 under cold control or under temperature control.
The table shows functional categories (bins) that have a robust and common overrepresentation with P < 0.05 in each of the independent coexpression analyses. Spearman’s rank correlations of REIL2 transcript levels with all other available genes of each transcript data set were calculated independently. Functional categories, so-called bins, of MapMan were applied (Usadel et al., 2005).
| Data Set |
Cold-Controlled Coexpression |
Temperature-Controlled Coexpression |
||||||
|---|---|---|---|---|---|---|---|---|
| Bin | Bin Name | Bin Size | Caldana et al. (2011) | Kaplan et al. (2007) | Kilian et al. (2007) | Caldana et al. (2011) | Kaplan et al. (2007) | Kilian et al. (2007) |
| P Valuea | ||||||||
| Negative coexpression | ||||||||
| 1 | PS | 187 | 4.30E-07 | 1.76E-03 | 1.30E-18 | 1.26E-02 | 1.40E-03 | 2.70E-07 |
| 1.1 | PS.lightreaction | 136 | 3.90E-07 | 4.28E-02 | 5.62E-09 | 2.93E-06 | 8.50E-03 | 7.01E-02 |
| 11 | lipid metabolism | 375 | 4.88E-02 | 7.69E-03 | 1.08E-02 | 1.51E-01 | 2.91E-03 | 1.22E-03 |
| 27.3.5 | RNA.regulation of transcription. ARR | 23 | 8.20E-03 | 2.01E-02 | 4.89E-02 | 6.92E-01 | 4.30E-01 | 1.53E-01 |
| 27.3.6 | RNA.regulation of transcription. bHLH, Basic Helix-Loop-Helix family | 93 | 1.11E-02 | 5.43E-03 | 1.98E-03 | 2.87E-01 | 1.69E-01 | 2.82E-02 |
| Positive coexpression | ||||||||
| 27.1 | RNA.processing | 254 | 3.26E-04 | 3.86E-10 | 1.13E-06 | 5.30E-01 | 1.36E-02 | 1.03E-13 |
| 27.1.2 | RNA.processing.RNA helicase | 29 | 4.56E-03 | 3.28E-04 | 4.89E-02 | 5.82E-02 | 8.26E-03 | 5.72E-02 |
| 29.2 | protein.synthesis | 515 | 7.73E-13 | <1.0E-20 | <1.0E-20 | <1.0E-20 | <1.0E-20 | <1.0E-20 |
| 29.2.1 | 371 | 5.94E-05 | <1.0E-20 | 1.68E-07 | 2.37E-08 | <1.0E-20 | <1.0E-20 | |
| 29.2.1.2 | 236 | <1.0E-20 | <1.0E-20 | <1.0E-20 | <1.0E-20 | <1.0E-20 | <1.0E-20 | |
| 29.2.1.2.1 | protein.synthesis.ribosomal protein.eukaryotic.40S subunit | 88 | 1.80E-04 | 5.57E-09 | 9.74E-08 | 5.20E-07 | <1.0E-20 | <1.0E-20 |
| 29.2.1.2.2 | protein.synthesis.ribosomal protein.eukaryotic.60S subunit | 148 | 2.06E-12 | <1.0E-20 | <1.0E-20 | <1.0E-20 | <1.0E-20 | <1.0E-20 |
| 29.2.2.50 | protein.synthesis.misc ribosomal protein.BRIX | 6 | 4.69E-03 | 7.59E-03 | 2.75E-03 | 3.25E-03 | 2.94E-03 | 1.56E-03 |
| 29.2.3 | protein.synthesis.initiation | 84 | 5.59E-08 | 6.44E-11 | 4.15E-11 | 7.73E-07 | 1.82E-07 | 2.94E-10 |
a
Significance of a Wilcoxon rank-sum test after Benjamini-Hochberg correction. Bold text indicates P values < 0.001.