| _________________________________________ |
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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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| tryptophan biosynthesis |
TAIR-GO |
342 |
47 |
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| tryptophan biosynthesis |
AraCyc |
342 |
47 |
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| Phenylpropanoid Metabolism |
BioPath |
217 |
36 |
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| Shikimate pathway |
LitPath |
184 |
25 |
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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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| Trp biosyntesis |
LitPath |
180 |
24 |
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| Aromatic amino acid (Phe, Tyr, Trp) metabolism |
BioPath |
166 |
22 |
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| response to pathogenic bacteria |
TAIR-GO |
150 |
21 |
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For more information on how these pathway maps were generated please read the methods page |
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| Phenylalanine, tyrosine and tryptophan biosynthesis |
KEGG |
96 |
12 |
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| Pathways co-expressed in the Organ and Tissue data set (with more than 6 annotation points) |
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CYP81F2 (At5g57220) |
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| max. difference between log2-ratios: |
7.4 |
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| max. difference between log2-ratios excluding lowest and highest 5%: |
4.6 |
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| Pathway |
Source |
Scores of Genes |
p[Score] |
No. of Genes |
p[genes] |
Link to organ heatmap |
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| Aromatic amino acid (Phe, Tyr, Trp) metabolism |
BioPath |
10 |
0.000 |
1 |
0.002 |
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| Phenylpropanoid Metabolism |
BioPath |
10 |
0.000 |
1 |
0.023 |
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| anthranilate synthase complex |
TAIR-GO |
10 |
0.000 |
1 |
0.000 |
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| response to pathogenic bacteria |
TAIR-GO |
10 |
0.000 |
1 |
0.000 |
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| response to wounding |
TAIR-GO |
10 |
0.000 |
1 |
0.001 |
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| tryptophan biosynthesis |
TAIR-GO |
10 |
0.000 |
1 |
0.001 |
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| tryptophan biosynthesis |
AraCyc |
10 |
0.000 |
1 |
0.000 |
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| Phenylalanine, tyrosine and tryptophan biosynthesis |
KEGG |
10 |
0.000 |
1 |
0.000 |
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| Shikimate pathway |
LitPath |
10 |
0.000 |
1 |
0.003 |
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| Trp biosyntesis |
LitPath |
10 |
0.000 |
1 |
0.001 |
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| Pathways co-expressed in the Stress data set ( with more than 10 annotation points) |
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CYP81F2 (At5g57220) |
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| max. difference between log2-ratios: |
12.0 |
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| max. difference between log2-ratios excluding lowest and highest 5%: |
6.5 |
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| Pathway |
Source |
Scores of Genes |
p[Score] |
No. of Genes |
p[genes] |
Link to stress heatmap |
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| Phenylpropanoid Metabolism |
BioPath |
96 |
0.000 |
16 |
0.000 |
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| Shikimate pathway |
LitPath |
82 |
0.000 |
11 |
0.000 |
| tryptophan biosynthesis |
TAIR-GO |
78 |
0.000 |
10 |
0.000 |
| Trp biosyntesis |
LitPath |
78 |
0.000 |
10 |
0.000 |
| Aromatic amino acid (Phe, Tyr, Trp) metabolism |
BioPath |
76 |
0.000 |
10 |
0.000 |
| tryptophan biosynthesis |
AraCyc |
68 |
0.000 |
9 |
0.000 |
| response to pathogenic bacteria |
TAIR-GO |
58 |
0.000 |
8 |
0.000 |
| Phenylalanine, tyrosine and tryptophan biosynthesis |
KEGG |
42 |
0.000 |
5 |
0.000 |
| Phenylpropanoid pathway |
LitPath |
26 |
0.036 |
7 |
0.024 |
| amino acid metabolism |
FunCat |
20 |
0.000 |
2 |
0.081 |
| de novo biosynthesis of purine nucleotides I |
AraCyc |
19 |
0.000 |
4 |
0.001 |
| Lipid signaling |
AcylLipid |
18 |
0.001 |
3 |
0.222 |
| Miscellaneous acyl lipid metabolism |
AcylLipid |
18 |
0.000 |
4 |
0.100 |
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| defense response |
TAIR-GO |
17 |
0.000 |
2 |
0.007 |
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| nucleotide metabolism |
TAIR-GO |
15 |
0.000 |
2 |
0.000 |
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| Gluconeogenesis from lipids in seeds |
BioPath |
14 |
0.007 |
2 |
0.141 |
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| lipases pathway |
AraCyc |
14 |
0.000 |
2 |
0.002 |
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| lipid, fatty acid and isoprenoid degradation |
FunCat |
14 |
0.000 |
2 |
0.002 |
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| Glycerophospholipid metabolism |
KEGG |
14 |
0.000 |
2 |
0.007 |
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| toxin catabolism |
TAIR-GO |
12 |
0.000 |
2 |
0.058 |
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| Alanine and aspartate metabolism |
KEGG |
12 |
0.000 |
2 |
0.016 |
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| Benzoate degradation via CoA ligation |
KEGG |
12 |
0.006 |
6 |
0.001 |
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| beta-Alanine metabolism |
KEGG |
12 |
0.000 |
2 |
0.005 |
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| Butanoate metabolism |
KEGG |
12 |
0.000 |
2 |
0.009 |
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| Glutamate metabolism |
KEGG |
12 |
0.001 |
2 |
0.037 |
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| Glutathione metabolism |
KEGG |
12 |
0.000 |
2 |
0.035 |
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| Inositol phosphate metabolism |
KEGG |
12 |
0.013 |
6 |
0.001 |
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| Nicotinate and nicotinamide metabolism |
KEGG |
12 |
0.002 |
6 |
0.000 |
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| Taurine and hypotaurine metabolism |
KEGG |
12 |
0.000 |
2 |
0.000 |
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| disease, virulence and defense |
FunCat |
11 |
0.000 |
2 |
0.000 |
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| Stilbene, coumarine and lignin biosynthesis |
KEGG |
11 |
0.013 |
2 |
0.242 |
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| Pathways co-expressed in the Hormone etc. data set (with more than 10 annotation points) |
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CYP81F2 (At5g57220) |
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| max. difference between log2-ratios: |
10.0 |
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| max. difference between log2-ratios excluding lowest and highest 5%: |
5.6 |
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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 Amino Acids and Derivatives |
BioPath |
62 |
0.000 |
8 |
0.001 |
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| Phenylpropanoid Metabolism |
BioPath |
55 |
0.000 |
9 |
0.000 |
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| tryptophan biosynthesis |
AraCyc |
50 |
0.000 |
8 |
0.000 |
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| tryptophan biosynthesis |
TAIR-GO |
48 |
0.000 |
7 |
0.000 |
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| Shikimate pathway |
LitPath |
48 |
0.000 |
7 |
0.000 |
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| Trp biosyntesis |
LitPath |
48 |
0.000 |
7 |
0.000 |
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| Glutathione metabolism |
BioPath |
46 |
0.000 |
5 |
0.000 |
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| Aromatic amino acid (Phe, Tyr, Trp) metabolism |
BioPath |
42 |
0.000 |
6 |
0.000 |
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| response to pathogenic bacteria |
TAIR-GO |
38 |
0.000 |
6 |
0.000 |
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| sulfate assimilation III |
AraCyc |
36 |
0.000 |
4 |
0.000 |
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| nitrogen and sulfur utilization |
FunCat |
29 |
0.000 |
3 |
0.000 |
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| Glutamate metabolism |
KEGG |
28 |
0.000 |
4 |
0.001 |
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| Phenylalanine, tyrosine and tryptophan biosynthesis |
KEGG |
22 |
0.000 |
3 |
0.005 |
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| Chlorophyll biosynthesis and breakdown |
BioPath |
20 |
0.000 |
2 |
0.013 |
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| Plastidial Isoprenoids (Chlorophylls, Carotenoids, Tocopherols, Plastoquinone, Phylloquinone) |
BioPath |
20 |
0.007 |
2 |
0.128 |
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| biosynthesis of proto- and siroheme |
AraCyc |
20 |
0.000 |
2 |
0.024 |
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| cysteine biosynthesis I |
AraCyc |
20 |
0.000 |
2 |
0.021 |
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| biogenesis of chloroplast |
FunCat |
20 |
0.000 |
2 |
0.032 |
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| Porphyrin and chlorophyll metabolism |
KEGG |
20 |
0.000 |
2 |
0.009 |
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| Purine metabolism |
KEGG |
20 |
0.000 |
3 |
0.016 |
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| Sulfur metabolism |
KEGG |
20 |
0.000 |
2 |
0.005 |
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| chlorophyll and phytochromobilin metabolism |
LitPath |
20 |
0.001 |
2 |
0.086 |
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| de novo biosynthesis of purine nucleotides I |
AraCyc |
19 |
0.000 |
4 |
0.010 |
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| Nitrogen metabolism |
KEGG |
19 |
0.000 |
2 |
0.015 |
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| Alanine and aspartate metabolism |
KEGG |
18 |
0.000 |
3 |
0.001 |
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| dissimilatory sulfate reduction |
AraCyc |
16 |
0.000 |
2 |
0.000 |
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| nucleotide metabolism |
TAIR-GO |
15 |
0.000 |
2 |
0.000 |
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| toxin catabolism |
TAIR-GO |
14 |
0.000 |
3 |
0.011 |
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| Carbon fixation |
KEGG |
14 |
0.008 |
3 |
0.021 |
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| Lipid signaling |
AcylLipid |
14 |
0.000 |
4 |
0.026 |
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| ethylene biosynthesis |
TAIR-GO |
13 |
0.000 |
2 |
0.000 |
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| Benzoate degradation via CoA ligation |
KEGG |
13 |
0.017 |
3 |
0.057 |
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| respiration |
FunCat |
12 |
0.000 |
2 |
0.001 |
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| beta-Alanine metabolism |
KEGG |
12 |
0.000 |
2 |
0.004 |
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| Butanoate metabolism |
KEGG |
12 |
0.000 |
2 |
0.008 |
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| Taurine and hypotaurine metabolism |
KEGG |
12 |
0.000 |
2 |
0.000 |
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| Flavonoid and anthocyanin metabolism |
BioPath |
11 |
0.000 |
2 |
0.049 |
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| Pathways co-expressed in the Mutant data set (with more than 10 annotation points) |
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CYP81F2 (At5g57220) |
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| max. difference between log2-ratios: |
12.1 |
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| max. difference between log2-ratios excluding lowest and highest 5%: |
5.0 |
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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 |
56 |
0.000 |
10 |
0.000 |
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| response to pathogenic bacteria |
TAIR-GO |
44 |
0.000 |
6 |
0.000 |
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| tryptophan biosynthesis |
TAIR-GO |
44 |
0.000 |
6 |
0.000 |
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| tryptophan biosynthesis |
AraCyc |
44 |
0.000 |
6 |
0.000 |
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| Shikimate pathway |
LitPath |
44 |
0.000 |
6 |
0.000 |
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| Trp biosyntesis |
LitPath |
44 |
0.000 |
6 |
0.000 |
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| Lipid signaling |
AcylLipid |
42 |
0.000 |
10 |
0.002 |
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| Aromatic amino acid (Phe, Tyr, Trp) metabolism |
BioPath |
38 |
0.000 |
5 |
0.000 |
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| response to wounding |
TAIR-GO |
36 |
0.000 |
6 |
0.000 |
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| Phenylpropanoid pathway |
LitPath |
36 |
0.000 |
8 |
0.001 |
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| Benzoate degradation via CoA ligation |
KEGG |
27 |
0.000 |
9 |
0.000 |
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| Inositol phosphate metabolism |
KEGG |
27 |
0.000 |
9 |
0.000 |
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| Nicotinate and nicotinamide metabolism |
KEGG |
27 |
0.000 |
9 |
0.000 |
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| jasmonic acid biosynthesis |
TAIR-GO |
26 |
0.000 |
4 |
0.000 |
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| jasmonic acid biosynthesis |
AraCyc |
26 |
0.000 |
4 |
0.000 |
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| Phenylalanine, tyrosine and tryptophan biosynthesis |
KEGG |
22 |
0.000 |
3 |
0.006 |
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| lignin biosynthesis |
AraCyc |
20 |
0.000 |
4 |
0.000 |
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| core phenylpropanoid metabolism |
BioPath |
18 |
0.000 |
5 |
0.000 |
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| lipoxygenase pathway |
AraCyc |
16 |
0.000 |
3 |
0.000 |
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| Purine metabolism |
KEGG |
16 |
0.000 |
2 |
0.086 |
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| Stilbene, coumarine and lignin biosynthesis |
KEGG |
15 |
0.000 |
4 |
0.028 |
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| Glutathione metabolism |
BioPath |
12 |
0.011 |
2 |
0.084 |
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| phospholipid biosynthesis II |
AraCyc |
12 |
0.000 |
2 |
0.001 |
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| triacylglycerol degradation |
AraCyc |
12 |
0.000 |
2 |
0.018 |
|
|
|
|
|
|
|
|
|
|
|
| response to absence of light |
TAIR-GO |
11 |
0.000 |
2 |
0.000 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|