Table 1 |
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|
Differentially represented Gene Ontology categories |
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|
Category |
Term |
Count* |
Percent† |
P value‡ |
|
|
||||
|
Biological process |
Lipid metabolism |
110 |
6.10 |
3.10E-09 |
|
Steroid metabolism |
41 |
2.30 |
9.90E-09 |
|
|
Cellular lipid metabolism |
78 |
4.30 |
9.30E-08 |
|
|
Response to toxin |
34 |
1.90 |
4.20E-06 |
|
|
Response to biotic stimulus |
94 |
5.20 |
7.90E-06 |
|
|
Transport |
309 |
17.10 |
9.20E-06 |
|
|
Defense response |
92 |
5.10 |
9.60E-06 |
|
|
Response to chemical stimulus |
66 |
3.60 |
9.80E-06 |
|
|
Response to abiotic stimulus |
84 |
4.60 |
1.20E-05 |
|
|
Localization |
352 |
19.40 |
1.40E-05 |
|
|
Metabolism |
799 |
44.10 |
1.70E-05 |
|
|
DNA-dependent DNA replication |
22 |
1.20 |
3.60E-05 |
|
|
Establishment of localization |
340 |
18.80 |
3.70E-05 |
|
|
Physiological process |
1,041 |
57.50 |
4.30E-05 |
|
|
DNA replication |
36 |
2.00 |
1.60E-04 |
|
|
Cellular physiological process |
958 |
52.90 |
2.50E-04 |
|
|
Secretion |
48 |
2.70 |
2.80E-04 |
|
|
Electron transport |
74 |
4.10 |
3.00E-04 |
|
|
Response to stress |
66 |
3.60 |
3.20E-04 |
|
|
Response to stimulus |
191 |
10.50 |
3.50E-04 |
|
|
Secretory pathway |
45 |
2.50 |
4.30E-04 |
|
|
Response to endogenous stimulus |
31 |
1.70 |
7.80E-04 |
|
|
Response to DNA damage stimulus |
28 |
1.50 |
8.10E-04 |
|
|
Sleep |
7 |
0.40 |
1.00E-03 |
|
|
Primary metabolism |
705 |
38.90 |
1.50E-03 |
|
|
Protein complex assembly |
28 |
1.50 |
2.60E-03 |
|
|
Intracellular transport |
99 |
5.50 |
2.90E-03 |
|
|
DNA repair |
25 |
1.40 |
2.90E-03 |
|
|
Intracellular protein transport |
80 |
4.40 |
3.90E-03 |
|
|
Regulation of neurotransmitter levels |
26 |
1.40 |
4.20E-03 |
|
|
Cell organization and biogenesis |
221 |
12.20 |
4.40E-03 |
|
|
Cellular localization |
101 |
5.60 |
4.50E-03 |
|
|
Protein localization |
91 |
5.00 |
4.60E-03 |
|
|
Heterophilic cell adhesion |
6 |
0.30 |
4.70E-03 |
|
|
Proteolysis |
129 |
7.10 |
5.20E-03 |
|
|
Establishment of cellular localization |
100 |
5.50 |
5.70E-03 |
|
|
Oxygen and reactive oxygen species metabolism |
18 |
1.00 |
6.20E-03 |
|
|
Sulfur metabolism |
15 |
0.80 |
7.00E-03 |
|
|
Generation of precursor metabolites and energy |
92 |
5.10 |
7.50E-03 |
|
|
Cellular metabolism |
711 |
39.30 |
7.70E-03 |
|
|
Neurotransmitter secretion |
23 |
1.30 |
8.00E-03 |
|
|
Regulated secretory pathway |
23 |
1.30 |
8.00E-03 |
|
|
mRNA export from nucleus |
7 |
0.40 |
8.40E-03 |
|
|
Establishment of protein localization |
82 |
4.50 |
8.90E-03 |
|
|
Sterol metabolism |
10 |
0.60 |
9.00E-03 |
|
|
Macromolecule metabolism |
498 |
27.50 |
9.70E-03 |
|
|
Chromosome condensation |
9 |
0.50 |
1.00E-02 |
|
|
Nuclear transport |
16 |
0.90 |
1.00E-02 |
|
|
Molecular function |
Catalytic activity |
639 |
35.30 |
3.60E-10 |
|
Monooxygenase activity |
38 |
2.10 |
1.50E-07 |
|
|
Oxidoreductase activity |
131 |
7.20 |
1.40E-06 |
|
|
Protein binding |
693 |
38.30 |
2.60E-06 |
|
|
Transporter activity |
208 |
11.50 |
1.40E-05 |
|
|
Electron transporter activity |
49 |
2.70 |
9.40E-05 |
|
|
Hydrolase activity |
294 |
16.20 |
2.70E-04 |
|
|
Sequence-specific DNA binding |
12 |
0.70 |
4.40E-04 |
|
|
Tetrapyrrole binding |
16 |
0.90 |
1.30E-03 |
|
|
Heme binding |
16 |
0.90 |
1.30E-03 |
|
|
Binding |
990 |
54.70 |
1.80E-03 |
|
|
Carbon-carbon lyase activity |
14 |
0.80 |
2.60E-03 |
|
|
Electrochemical potential-driven transporter activity |
43 |
2.40 |
2.80E-03 |
|
|
Porter activity |
43 |
2.40 |
2.80E-03 |
|
|
Calmodulin binding |
18 |
1.00 |
3.60E-03 |
|
|
Carbohydrate transporter activity |
19 |
1.00 |
5.10E-03 |
|
|
Phosphoric monoester hydrolase activity |
36 |
2.00 |
6.50E-03 |
|
|
DNA-directed DNA polymerase activity |
10 |
0.60 |
6.60E-03 |
|
|
Sugar porter activity |
12 |
0.70 |
7.40E-03 |
|
|
Glutathione transferase activity |
11 |
0.60 |
8.70E-03 |
|
|
Sugar transporter activity |
13 |
0.70 |
1.00E-02 |
|
|
Cellular component |
Microsome |
31 |
1.70 |
5.80E-10 |
|
Vesicular fraction |
31 |
1.70 |
5.80E-10 |
|
|
Cell fraction |
34 |
1.90 |
1.20E-09 |
|
|
Membrane fraction |
33 |
1.80 |
2.10E-09 |
|
|
Clathrin coat |
9 |
0.50 |
3.80E-04 |
|
|
Replication fork |
9 |
0.50 |
3.80E-04 |
|
|
Coated membrane |
11 |
0.60 |
6.70E-04 |
|
|
Membrane coat |
11 |
0.60 |
6.70E-04 |
|
|
Clathrin vesicle coat |
8 |
0.40 |
1.10E-03 |
|
|
Clathrin coated vesicle membrane |
8 |
0.40 |
1.10E-03 |
|
|
Golgi apparatus |
24 |
1.30 |
1.40E-03 |
|
|
Coated pit |
5 |
0.30 |
1.50E-03 |
|
|
Cell |
673 |
37.20 |
1.60E-03 |
|
|
Cytoplasmic vesicle membrane |
10 |
0.60 |
1.70E-03 |
|
|
Vesicle coat |
10 |
0.60 |
1.70E-03 |
|
|
Coated vesicle membrane |
10 |
0.60 |
1.70E-03 |
|
|
Cytoplasm |
239 |
13.20 |
2.90E-03 |
|
|
Membrane |
295 |
16.30 |
3.00E-03 |
|
|
Plasma membrane |
83 |
4.60 |
3.80E-03 |
|
|
Alpha DNA polymerase |
4 |
0.20 |
4.30E-03 |
|
|
Chromosome |
40 |
2.20 |
5.00E-03 |
|
|
|
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|
*Number of genes in the annotation category. †Number of genes in the annotation category/total number of significant genes. ‡P value from a modified Fisher exact test for enrichment of genes in an annotation category. The cross-classified factors in the 2 × 2 contingency tables are genes in the annotation category versus not in the annotation category, and significant genes versus all genes on the array. |
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|
Jordan et al. Genome Biology 2007 8:R172 doi:10.1186/gb-2007-8-8-r172 |
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