Table 3 GO terms attribute matrix from the significantly regulated gene-list for each ecotype, generated using BiNGO software
From: Genome-scale cold stress response regulatory networks in ten Arabidopsis thalianaecotypes
GO-terms | An.1 | Col −0 | Cvi | Eri | Kas.1 | Kond | Kyo.2 | Ler | C24 | Sha |
|---|---|---|---|---|---|---|---|---|---|---|
Response to abiotic stimulus | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ |
Response to chemical stimulus | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ |
Response to cold | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ |
Response to organic substance | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ |
Response to endogenous stimulus | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ |
Response to hormone stimulus | ✓ | ✓ | ✓ | ✓ | ✓ | . | ✓ | ✓ | ✓ | ✓ |
Circadian rhythm | ✓ | ✓ | ✓ | ✓ | ✓ | . | ✓ | ✓ | ✓ | ✓ |
Response to light stimulus | ✓ | . | ✓ | ✓ | ✓ | . | ✓ | ✓ | ✓ | ✓ |
Response to water | ✓ | ✓ | . | ✓ | ✓ | . | ✓ | ✓ | ✓ | ✓ |
Response to jasmonic acid stimulus | ✓ | . | ✓ | ✓ | . | ✓ | ✓ | ✓ | ✓ | ✓ |
Response to water deprivation | ✓ | ✓ | . | ✓ | ✓ | . | ✓ | ✓ | ✓ | ✓ |
Response to red or far red light | ✓ | . | ✓ | ✓ | ✓ | . | ✓ | ✓ | ✓ | ✓ |
Cold acclimation | ✓ | . | . | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ |
Rresponse to other organism | ✓ | . | ✓ | . | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ |
Response to blue light | ✓ | . | ✓ | ✓ | ✓ | . | ✓ | ✓ | ✓ | ✓ |
Response to abscisic acid stimulus | ✓ | . | ✓ | . | ✓ | ✓ | ✓ | . | ✓ | ✓ |
Response to far red light | ✓ | . | ✓ | ✓ | ✓ | . | ✓ | ✓ | ✓ | . |
Multi-organism process | ✓ | . | ✓ | . | ✓ | ✓ | ✓ | . | ✓ | ✓ |
Response to red light | ✓ | . | ✓ | ✓ | ✓ | . | ✓ | ✓ | ✓ | . |
Response to fungus | ✓ | . | ✓ | . | ✓ | . | ✓ | ✓ | ✓ | ✓ |
Response to carbohydrate stimulus | ✓ | . | . | ✓ | ✓ | ✓ | ✓ | . | ✓ | ✓ |
Regulation of transcription | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | ✓ |
Regulation of macromolecule biosynthetic process | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | ✓ |
Regulation of nucleobase, acid metabolic process | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | ✓ |
Pigment biosynthetic process | ✓ | . | ✓ | . | . | ✓ | ✓ | ✓ | ✓ | . |
Regulation of biosynthetic process | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | ✓ |
Regulation of nitrogen compound metabolic process | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | ✓ |
Regulation of gene expression | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | ✓ |
Regulation of cellular metabolic process | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | ✓ |
Regulation of primary metabolic process | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | ✓ |
Regulation of macromolecule metabolic process | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | ✓ |
Regulation of metabolic process | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | ✓ |
Response to chitin | ✓ | ✓ | . | ✓ | . | . | ✓ | . | ✓ | ✓ |
Regulation of cellular process | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | ✓ |
Response to osmotic stress | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | . |
Response to ethylene stimulus | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | . |
Regulation of transcription, DNA-dependent | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | . |
Regulation of RNA metabolic process | ✓ | . | . | ✓ | ✓ | . | ✓ | . | ✓ | . |
Chlorophyll biosynthetic process | ✓ | . | ✓ | . | . | . | ✓ | ✓ | ✓ | . |
Porphyrin biosynthetic process | ✓ | . | ✓ | . | . | . | ✓ | ✓ | ✓ | . |
Tetrapyrrole biosynthetic process | ✓ | . | ✓ | . | . | . | ✓ | ✓ | ✓ | . |
Regulation of biological process | ✓ | . | . | ✓ | . | . | ✓ | . | ✓ | ✓ |
Red or far-red light signalling pathway | . | . | ✓ | . | ✓ | . | . | ✓ | ✓ | ✓ |
Cellular response to radiation | . | . | ✓ | . | ✓ | . | . | ✓ | ✓ | ✓ |