| _________________________________________ |
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| Pathways co-expressed in all 4 data sets (with more than 6 annotation points each) |
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Find below a list of pathways that are co-expressed with the bait. First a list of pathways is given that are co-expressed in all data sets. Lists for each individual dataset are shown underneath. Depending on the number of co-expressed pathways only the top scoring pathways are given; all data can be saved as text using the link above. |
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| Pathway |
Source |
Sum of scores |
Sum of genes |
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| Stilbene, coumarine and lignin biosynthesis |
KEGG |
108 |
38 |
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To the right of each table a thumbnail of the actual co-expression heatmap is given. Klick on the link to see the heatmap containing all co-expressed genes. |
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For more information on how these pathway maps were generated please read the methods page |
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| Pathways co-expressed in the Organ and Tissue data set (with more than 15 annotation points) |
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CYP705A25 (At1g50560) |
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| max. difference between log2-ratios: |
4.7 |
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| max. difference between log2-ratios excluding lowest and highest 5%: |
2.6 |
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| Pathway |
Source |
Scores of Genes |
p[Score] |
No. of Genes |
p[genes] |
Link to organ heatmap |
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| Stilbene, coumarine and lignin biosynthesis |
KEGG |
64 |
0.000 |
26 |
0.000 |
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| Phenylalanine metabolism |
KEGG |
63 |
0.000 |
26 |
0.000 |
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| Methane metabolism |
KEGG |
58 |
0.000 |
26 |
0.000 |
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| Prostaglandin and leukotriene metabolism |
KEGG |
54 |
0.000 |
25 |
0.000 |
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| Cell Wall Carbohydrate Metabolism |
BioPath |
43 |
0.000 |
11 |
0.028 |
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| Phenylpropanoid Metabolism |
BioPath |
35 |
0.000 |
10 |
0.000 |
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| mono-/sesqui-/di-terpene biosynthesis |
LitPath |
35 |
0.000 |
6 |
0.001 |
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| terpenoid metabolism |
LitPath |
35 |
0.000 |
6 |
0.001 |
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| triterpene, sterol, and brassinosteroid metabolism |
LitPath |
32 |
0.000 |
8 |
0.006 |
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| Biosynthesis of steroids |
KEGG |
28 |
0.000 |
5 |
0.007 |
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| detoxification |
FunCat |
27 |
0.000 |
10 |
0.000 |
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| lactose degradation IV |
AraCyc |
22 |
0.000 |
4 |
0.000 |
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| pectin metabolism |
BioPath |
21 |
0.000 |
8 |
0.002 |
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| flavonol biosynthesis |
AraCyc |
21 |
0.000 |
6 |
0.000 |
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| Glucosyltransferases for benzoic acids |
BioPath |
20 |
0.000 |
2 |
0.002 |
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| triterpene biosynthesis |
LitPath |
20 |
0.000 |
3 |
0.001 |
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| monoterpenoid biosynthesis |
TAIR-GO |
19 |
0.000 |
2 |
0.000 |
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| monoterpene biosynthesis |
LitPath |
19 |
0.000 |
2 |
0.001 |
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| colanic acid building blocks biosynthesis |
AraCyc |
18 |
0.000 |
3 |
0.014 |
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| dTDP-rhamnose biosynthesis |
AraCyc |
18 |
0.000 |
3 |
0.005 |
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| galactose degradation I |
AraCyc |
18 |
0.000 |
3 |
0.000 |
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| glucose conversion |
AraCyc |
18 |
0.000 |
3 |
0.004 |
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| UDP-glucose conversion |
AraCyc |
18 |
0.000 |
3 |
0.004 |
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| secondary metabolism |
FunCat |
18 |
0.000 |
5 |
0.001 |
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| Fructose and mannose metabolism |
KEGG |
18 |
0.000 |
2 |
0.247 |
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| Miscellaneous acyl lipid metabolism |
AcylLipid |
16 |
0.000 |
7 |
0.002 |
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| Pathways co-expressed in the Stress data set ( with more than 6 annotation points) |
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CYP705A25 (At1g50560) |
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| max. difference between log2-ratios: |
6.4 |
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| max. difference between log2-ratios excluding lowest and highest 5%: |
1.1 |
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| Pathway |
Source |
Scores of Genes |
p[Score] |
No. of Genes |
p[genes] |
Link to stress heatmap |
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| Stilbene, coumarine and lignin biosynthesis |
KEGG |
26 |
0.000 |
7 |
0.000 |
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| detoxification |
FunCat |
16 |
0.000 |
4 |
0.000 |
| Methane metabolism |
KEGG |
16 |
0.000 |
6 |
0.000 |
| Phenylalanine metabolism |
KEGG |
16 |
0.000 |
6 |
0.000 |
| Prostaglandin and leukotriene metabolism |
KEGG |
16 |
0.000 |
6 |
0.000 |
| flavonol biosynthesis |
AraCyc |
12 |
0.000 |
2 |
0.000 |
| Glucosyltransferases for benzoic acids |
BioPath |
10 |
0.000 |
1 |
0.000 |
| Intermediary Carbon Metabolism |
BioPath |
10 |
0.000 |
1 |
0.031 |
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| Phenylpropanoid Metabolism |
BioPath |
10 |
0.000 |
1 |
0.037 |
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| fatty acid metabolism |
TAIR-GO |
10 |
0.000 |
1 |
0.002 |
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| acetyl-CoA assimilation |
AraCyc |
10 |
0.000 |
1 |
0.012 |
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| glyoxylate cycle |
AraCyc |
10 |
0.000 |
1 |
0.006 |
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| leucine biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.003 |
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| serine-isocitrate lyase pathway |
AraCyc |
10 |
0.000 |
1 |
0.023 |
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| TCA cycle -- aerobic respiration |
AraCyc |
10 |
0.000 |
1 |
0.025 |
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| TCA cycle variation VII |
AraCyc |
10 |
0.000 |
1 |
0.051 |
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| TCA cycle variation VIII |
AraCyc |
10 |
0.000 |
1 |
0.027 |
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| C-compound and carbohydrate glyoxylate cycle |
FunCat |
10 |
0.000 |
1 |
0.000 |
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| detoxification involving cytochrome P450 |
FunCat |
10 |
0.000 |
1 |
0.001 |
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| glyoxylate cycle |
FunCat |
10 |
0.000 |
1 |
0.000 |
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| tricarboxylic-acid pathway (citrate cycle, Krebs cycle, TCA cycle) |
FunCat |
10 |
0.000 |
1 |
0.064 |
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| Ascorbate and aldarate metabolism |
KEGG |
10 |
0.000 |
1 |
0.017 |
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| Citrate cycle (TCA cycle) |
KEGG |
10 |
0.000 |
1 |
0.044 |
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| Fluorene degradation |
KEGG |
10 |
0.000 |
1 |
0.006 |
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| gamma-Hexachlorocyclohexane degradation |
KEGG |
10 |
0.000 |
1 |
0.008 |
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| Glyoxylate and dicarboxylate metabolism |
KEGG |
10 |
0.000 |
1 |
0.022 |
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| Reductive carboxylate cycle (CO2 fixation) |
KEGG |
10 |
0.000 |
1 |
0.011 |
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| Fatty acid elongation and wax and cutin metabolism |
AcylLipid |
10 |
0.000 |
1 |
0.104 |
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| fatty acid modulation |
LitPath |
10 |
0.000 |
1 |
0.000 |
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| storage protein |
FunCat |
8 |
0.000 |
2 |
0.000 |
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| Lipid signaling |
AcylLipid |
8 |
0.048 |
2 |
0.102 |
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| Pathways co-expressed in the Hormone etc. data set (with more than 6 annotation points) |
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CYP705A25 (At1g50560) |
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| max. difference between log2-ratios: |
2.2 |
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| max. difference between log2-ratios excluding lowest and highest 5%: |
1.3 |
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| Pathway |
Source |
Scores of Genes |
p[Score] |
No. of Genes |
p[genes] |
Link to hormones etc. heatmap |
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| Biosynthesis of steroids |
KEGG |
15 |
0.000 |
3 |
0.000 |
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| triterpene, sterol, and brassinosteroid metabolism |
LitPath |
11 |
0.000 |
2 |
0.067 |
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| tryptophan catabolism |
TAIR-GO |
10 |
0.000 |
1 |
0.000 |
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| glucosinolate biosynthesis from tryptophan |
AraCyc |
10 |
0.000 |
1 |
0.000 |
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| IAA biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.001 |
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| IAA biosynthesis I |
AraCyc |
10 |
0.000 |
1 |
0.001 |
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| Glucosinolate Metabolism |
LitPath |
10 |
0.000 |
1 |
0.029 |
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| storage protein |
FunCat |
8 |
0.000 |
2 |
0.000 |
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| Methane metabolism |
KEGG |
8 |
0.000 |
4 |
0.000 |
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| Phenylalanine metabolism |
KEGG |
8 |
0.000 |
4 |
0.000 |
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| Prostaglandin and leukotriene metabolism |
KEGG |
8 |
0.000 |
4 |
0.000 |
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| Stilbene, coumarine and lignin biosynthesis |
KEGG |
8 |
0.000 |
4 |
0.000 |
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| Terpenoid biosynthesis |
KEGG |
8 |
0.000 |
2 |
0.000 |
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| Lipid signaling |
AcylLipid |
8 |
0.000 |
2 |
0.050 |
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| pentacyclic triterpenoid biosynthesis |
TAIR-GO |
7 |
0.000 |
1 |
0.000 |
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| secondary metabolism |
FunCat |
7 |
0.000 |
1 |
0.037 |
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| triterpene biosynthesis |
LitPath |
7 |
0.000 |
1 |
0.008 |
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| Pathways co-expressed in the Mutant data set (with more than 6 annotation points) |
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CYP705A25 (At1g50560) |
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| max. difference between log2-ratios: |
3.4 |
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| max. difference between log2-ratios excluding lowest and highest 5%: |
1.5 |
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| Pathway |
Source |
Scores of Genes |
p[Score] |
No. of Genes |
p[genes] |
Link to mutants heatmap |
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| Pyruvate metabolism |
KEGG |
16 |
0.000 |
4 |
0.000 |
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| Biosynthesis of Amino Acids and Derivatives |
BioPath |
14 |
0.000 |
2 |
0.035 |
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| Methionin/SAM/ethylene metabolism from cysteine and aspartate |
BioPath |
14 |
0.000 |
2 |
0.000 |
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| Butanoate metabolism |
KEGG |
12 |
0.000 |
3 |
0.000 |
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| core phenylpropanoid metabolism |
BioPath |
10 |
0.000 |
1 |
0.017 |
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| Phenylpropanoid Metabolism |
BioPath |
10 |
0.006 |
1 |
0.180 |
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| lignin biosynthesis |
TAIR-GO |
10 |
0.000 |
1 |
0.000 |
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| lignin biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.009 |
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| methionine and S-adenosylmethionine synthesis |
AraCyc |
10 |
0.000 |
1 |
0.000 |
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| methionine degradation I |
AraCyc |
10 |
0.000 |
1 |
0.000 |
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| amino acid metabolism |
FunCat |
10 |
0.000 |
1 |
0.033 |
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| C-compound and carbohydrate metabolism |
FunCat |
10 |
0.000 |
3 |
0.004 |
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| Fatty acid metabolism |
KEGG |
10 |
0.000 |
2 |
0.002 |
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| Glycolysis / Gluconeogenesis |
KEGG |
10 |
0.000 |
3 |
0.002 |
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| Methionine metabolism |
KEGG |
10 |
0.000 |
1 |
0.009 |
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| Selenoamino acid metabolism |
KEGG |
10 |
0.000 |
1 |
0.020 |
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| Stilbene, coumarine and lignin biosynthesis |
KEGG |
10 |
0.000 |
1 |
0.167 |
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| Phenylpropanoid pathway |
LitPath |
10 |
0.000 |
1 |
0.037 |
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| Lipid signaling |
AcylLipid |
8 |
0.004 |
2 |
0.102 |
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