| _________________________________________ |
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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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| flavonoid biosynthesis |
TAIR-GO |
180 |
18 |
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| flavonoid biosynthesis |
AraCyc |
172 |
18 |
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| flavonoid, anthocyanin, and proanthocyanidin biosynthesis |
LitPath |
130 |
13 |
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| proanthocyanidin biosynthesis |
LitPath |
130 |
13 |
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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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| Phenylpropanoid Metabolism |
BioPath |
122 |
17 |
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| Flavonoid biosynthesis |
KEGG |
121 |
13 |
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| secondary metabolism |
FunCat |
100 |
10 |
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For more information on how these pathway maps were generated please read the methods page |
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| Flavonoid and anthocyanin metabolism |
BioPath |
86 |
13 |
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| response to UV |
TAIR-GO |
70 |
7 |
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| flavonol biosynthesis |
AraCyc |
41 |
5 |
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| anthocyanin biosynthesis |
AraCyc |
40 |
4 |
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| Pathways co-expressed in the Organ and Tissue data set (with more than 6 annotation points) |
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CYP75B1, F3'H (At5g07990) |
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| max. difference between log2-ratios: |
5.8 |
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| max. difference between log2-ratios excluding lowest and highest 5%: |
4.2 |
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| Pathway |
Source |
Scores of Genes |
p[Score] |
No. of Genes |
p[genes] |
Link to organ heatmap |
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| flavonoid biosynthesis |
TAIR-GO |
40 |
0.000 |
4 |
0.000 |
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| Flavonoid biosynthesis |
KEGG |
40 |
0.000 |
4 |
0.000 |
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| flavonoid, anthocyanin, and proanthocyanidin biosynthesis |
LitPath |
40 |
0.000 |
4 |
0.000 |
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| proanthocyanidin biosynthesis |
LitPath |
40 |
0.000 |
4 |
0.000 |
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| Flavonoid and anthocyanin metabolism |
BioPath |
32 |
0.000 |
4 |
0.000 |
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| Phenylpropanoid Metabolism |
BioPath |
32 |
0.000 |
4 |
0.001 |
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| flavonoid biosynthesis |
AraCyc |
32 |
0.000 |
4 |
0.000 |
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| secondary metabolism |
FunCat |
30 |
0.000 |
3 |
0.000 |
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| response to UV |
TAIR-GO |
20 |
0.000 |
2 |
0.000 |
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| fatty acid beta oxidation complex |
BioPath |
10 |
0.000 |
1 |
0.004 |
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| Gluconeogenesis from lipids in seeds |
BioPath |
10 |
0.000 |
1 |
0.036 |
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| chalcone biosynthesis |
TAIR-GO |
10 |
0.000 |
1 |
0.000 |
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| fatty acid oxidation |
TAIR-GO |
10 |
0.000 |
1 |
0.000 |
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| anthocyanin biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.001 |
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| fatty acid oxidation pathway |
AraCyc |
10 |
0.000 |
1 |
0.002 |
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| flavonol biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.002 |
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| isoleucine degradation I |
AraCyc |
10 |
0.000 |
1 |
0.003 |
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| isoleucine degradation III |
AraCyc |
10 |
0.000 |
1 |
0.001 |
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| leucine degradation I |
AraCyc |
10 |
0.000 |
1 |
0.003 |
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| leucine degradation II |
AraCyc |
10 |
0.000 |
1 |
0.001 |
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| biosynthesis of phenylpropanoids |
FunCat |
10 |
0.000 |
1 |
0.001 |
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| biosynthesis of secondary products derived from L-phenylalanine and L-tyrosine |
FunCat |
10 |
0.000 |
1 |
0.001 |
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| Benzoate degradation via hydroxylation |
KEGG |
10 |
0.000 |
1 |
0.000 |
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| Bile acid biosynthesis |
KEGG |
10 |
0.000 |
1 |
0.001 |
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| Fatty acid biosynthesis (path 2) |
KEGG |
10 |
0.000 |
1 |
0.000 |
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| Fatty acid metabolism |
KEGG |
10 |
0.000 |
1 |
0.003 |
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| Valine, leucine and isoleucine degradation |
KEGG |
10 |
0.000 |
1 |
0.003 |
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| Degradation of storage lipids and straight fatty acids |
AcylLipid |
10 |
0.000 |
1 |
0.016 |
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| Pathways co-expressed in the Stress data set ( with more than 6 annotation points) |
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CYP75B1, F3'H (At5g07990) |
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| max. difference between log2-ratios: |
4.1 |
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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 stress heatmap |
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| flavonoid biosynthesis |
TAIR-GO |
20 |
0.000 |
2 |
0.000 |
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| secondary metabolism |
FunCat |
20 |
0.000 |
2 |
0.000 |
| Flavonoid biosynthesis |
KEGG |
20 |
0.000 |
2 |
0.000 |
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| flavonoid, anthocyanin, and proanthocyanidin biosynthesis |
LitPath |
20 |
0.000 |
2 |
0.000 |
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| proanthocyanidin biosynthesis |
LitPath |
20 |
0.000 |
2 |
0.000 |
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| Flavonoid and anthocyanin metabolism |
BioPath |
12 |
0.000 |
3 |
0.000 |
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| Phenylpropanoid Metabolism |
BioPath |
12 |
0.000 |
3 |
0.000 |
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| flavonol biosynthesis |
AraCyc |
11 |
0.000 |
2 |
0.000 |
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| response to UV |
TAIR-GO |
10 |
0.000 |
1 |
0.000 |
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| anthocyanin biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.000 |
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| flavonoid biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.000 |
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| Pathways co-expressed in the Hormone etc. data set (with more than 6 annotation points) |
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CYP75B1, F3'H (At5g07990) |
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| max. difference between log2-ratios: |
2.8 |
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| max. difference between log2-ratios excluding lowest and highest 5%: |
1.2 |
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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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| flavonoid, anthocyanin, and proanthocyanidin biosynthesis |
LitPath |
30 |
0.000 |
3 |
0.000 |
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| proanthocyanidin biosynthesis |
LitPath |
30 |
0.000 |
3 |
0.000 |
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| Phenylpropanoid Metabolism |
BioPath |
28 |
0.000 |
3 |
0.003 |
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| flavonoid biosynthesis |
TAIR-GO |
20 |
0.000 |
2 |
0.000 |
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| response to UV |
TAIR-GO |
20 |
0.000 |
2 |
0.000 |
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| flavonoid biosynthesis |
AraCyc |
20 |
0.000 |
2 |
0.000 |
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| secondary metabolism |
FunCat |
20 |
0.000 |
2 |
0.000 |
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| Flavonoid biosynthesis |
KEGG |
20 |
0.000 |
2 |
0.000 |
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| core phenylpropanoid metabolism |
BioPath |
10 |
0.000 |
1 |
0.012 |
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| fatty acid beta oxidation complex |
BioPath |
10 |
0.000 |
1 |
0.003 |
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| Flavonoid and anthocyanin metabolism |
BioPath |
10 |
0.000 |
1 |
0.017 |
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| Gluconeogenesis from lipids in seeds |
BioPath |
10 |
0.000 |
1 |
0.026 |
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| fatty acid oxidation |
TAIR-GO |
10 |
0.000 |
1 |
0.000 |
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| phenylpropanoid metabolism |
TAIR-GO |
10 |
0.000 |
1 |
0.000 |
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| anthocyanin biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.000 |
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| fatty acid oxidation pathway |
AraCyc |
10 |
0.000 |
1 |
0.001 |
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| flavonol biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.001 |
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| isoleucine degradation I |
AraCyc |
10 |
0.000 |
1 |
0.002 |
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| isoleucine degradation III |
AraCyc |
10 |
0.000 |
1 |
0.000 |
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| leucine degradation I |
AraCyc |
10 |
0.000 |
1 |
0.002 |
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| leucine degradation II |
AraCyc |
10 |
0.000 |
1 |
0.000 |
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| lignin biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.006 |
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| suberin biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.001 |
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| Benzoate degradation via hydroxylation |
KEGG |
10 |
0.000 |
1 |
0.000 |
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| Bile acid biosynthesis |
KEGG |
10 |
0.000 |
1 |
0.000 |
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| Fatty acid biosynthesis (path 2) |
KEGG |
10 |
0.000 |
1 |
0.000 |
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| Fatty acid metabolism |
KEGG |
10 |
0.000 |
1 |
0.002 |
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| Stilbene, coumarine and lignin biosynthesis |
KEGG |
10 |
0.000 |
1 |
0.016 |
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| Valine, leucine and isoleucine degradation |
KEGG |
10 |
0.000 |
1 |
0.002 |
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| Degradation of storage lipids and straight fatty acids |
AcylLipid |
10 |
0.000 |
1 |
0.000 |
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| general phenylpropanoid pathway |
LitPath |
10 |
0.000 |
1 |
0.000 |
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| Glutathione metabolism |
BioPath |
8 |
0.001 |
1 |
0.026 |
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| Sequestration of phenylpropanoids (cytosol --> vacuole) |
BioPath |
8 |
0.000 |
1 |
0.000 |
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| toxin catabolism |
TAIR-GO |
8 |
0.000 |
1 |
0.010 |
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| Pathways co-expressed in the Mutant data set (with more than 8 annotation points) |
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CYP75B1, F3'H (At5g07990) |
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| max. difference between log2-ratios: |
5.4 |
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| max. difference between log2-ratios excluding lowest and highest 5%: |
3.3 |
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| Pathway |
Source |
Scores of Genes |
p[Score] |
No. of Genes |
p[genes] |
Link to mutants heatmap |
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| Phenylpropanoid Metabolism |
BioPath |
50 |
0.000 |
7 |
0.000 |
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| Flavonoid biosynthesis |
KEGG |
41 |
0.000 |
5 |
0.000 |
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| flavonoid biosynthesis |
TAIR-GO |
40 |
0.000 |
4 |
0.000 |
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| flavonoid, anthocyanin, and proanthocyanidin biosynthesis |
LitPath |
40 |
0.000 |
4 |
0.000 |
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| proanthocyanidin biosynthesis |
LitPath |
40 |
0.000 |
4 |
0.000 |
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| Flavonoid and anthocyanin metabolism |
BioPath |
32 |
0.000 |
5 |
0.000 |
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| flavonoid biosynthesis |
AraCyc |
30 |
0.000 |
3 |
0.000 |
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| secondary metabolism |
FunCat |
30 |
0.000 |
3 |
0.000 |
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| response to UV |
TAIR-GO |
20 |
0.000 |
2 |
0.000 |
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| fatty acid beta oxidation complex |
BioPath |
10 |
0.000 |
1 |
0.013 |
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| Gluconeogenesis from lipids in seeds |
BioPath |
10 |
0.002 |
1 |
0.100 |
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| Glucosyltransferases for benzoic acids |
BioPath |
10 |
0.000 |
1 |
0.004 |
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| chalcone biosynthesis |
TAIR-GO |
10 |
0.000 |
1 |
0.000 |
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| fatty acid oxidation |
TAIR-GO |
10 |
0.000 |
1 |
0.000 |
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| anthocyanin biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.000 |
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| fatty acid oxidation pathway |
AraCyc |
10 |
0.000 |
1 |
0.001 |
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| flavonol biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.001 |
|
|
|
|
|
|
|
|
|
|
|
| isoleucine degradation I |
AraCyc |
10 |
0.000 |
1 |
0.002 |
|
|
|
|
|
|
|
|
|
|
|
| isoleucine degradation III |
AraCyc |
10 |
0.000 |
1 |
0.000 |
|
|
|
|
|
|
|
|
|
|
|
| leucine degradation I |
AraCyc |
10 |
0.000 |
1 |
0.002 |
|
|
|
|
|
|
|
|
|
|
|
| leucine degradation II |
AraCyc |
10 |
0.000 |
1 |
0.000 |
|
|
|
|
|
|
|
|
|
|
|
| biosynthesis of phenylpropanoids |
FunCat |
10 |
0.000 |
1 |
0.002 |
|
|
|
|
|
|
|
|
|
|
|
| biosynthesis of secondary products derived from L-phenylalanine and L-tyrosine |
FunCat |
10 |
0.000 |
1 |
0.002 |
|
|
|
|
|
|
|
|
|
|
|
| Benzoate degradation via hydroxylation |
KEGG |
10 |
0.000 |
1 |
0.000 |
|
|
|
|
|
|
|
|
|
|
|
| Bile acid biosynthesis |
KEGG |
10 |
0.000 |
1 |
0.001 |
|
|
|
|
|
|
|
|
|
|
|
| Fatty acid biosynthesis (path 2) |
KEGG |
10 |
0.000 |
1 |
0.000 |
|
|
|
|
|
|
|
|
|
|
|
| Fatty acid metabolism |
KEGG |
10 |
0.000 |
1 |
0.005 |
|
|
|
|
|
|
|
|
|
|
|
| Valine, leucine and isoleucine degradation |
KEGG |
10 |
0.000 |
1 |
0.005 |
|
|
|
|
|
|
|
|
|
|
|
| Degradation of storage lipids and straight fatty acids |
AcylLipid |
10 |
0.000 |
1 |
0.000 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|