| _________________________________________ |
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| Pathways co-expressed in the 2 data sets with co-expressed pathways (with more than 6 annotation points each); only pathways with a total score of more than 20 points are shown |
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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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| Biosynthesis of Amino Acids and Derivatives |
BioPath |
102 |
17 |
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| Methionin/SAM/ethylene metabolism from cysteine and aspartate |
BioPath |
80 |
12 |
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| Phenylpropanoid pathway |
LitPath |
76 |
13 |
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| Inositol phosphate metabolism |
KEGG |
75 |
24 |
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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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| lignin biosynthesis |
AraCyc |
72 |
12 |
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| lignin biosynthesis |
AraCyc |
72 |
12 |
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| Benzoate degradation via CoA ligation |
KEGG |
71 |
23 |
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For more information on how these pathway maps were generated please read the methods page |
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| Nicotinate and nicotinamide metabolism |
KEGG |
71 |
23 |
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| Lipid signaling |
AcylLipid |
68 |
21 |
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| Aromatic amino acid (Phe, Tyr, Trp) metabolism |
BioPath |
56 |
8 |
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| secondary metabolism |
FunCat |
54 |
10 |
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| Propanoate metabolism |
KEGG |
54 |
9 |
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| jasmonic acid biosynthesis |
TAIR-GO |
52 |
10 |
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| jasmonic acid biosynthesis |
TAIR-GO |
52 |
10 |
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| biosynthesis of proto- and siroheme |
AraCyc |
48 |
6 |
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| triacylglycerol degradation |
AraCyc |
47.5 |
13 |
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| ethylene biosynthesis |
TAIR-GO |
44 |
7 |
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| Chlorophyll biosynthesis and breakdown |
BioPath |
40 |
4 |
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| Porphyrin and chlorophyll metabolism |
KEGG |
40 |
4 |
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| chlorophyll and phytochromobilin metabolism |
LitPath |
40 |
4 |
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| biogenesis of chloroplast |
FunCat |
38 |
5 |
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| intracellular signalling |
FunCat |
31 |
10 |
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| Nucleotide sugars metabolism |
KEGG |
30 |
9 |
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| chlorophyll biosynthesis |
AraCyc |
28 |
4 |
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| salicylic acid biosynthesis |
TAIR-GO |
27 |
3 |
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| salicylic acid biosynthesis |
TAIR-GO |
27 |
3 |
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| N-terminal protein myristoylation |
TAIR-GO |
27 |
3 |
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| lipoxygenase pathway |
AraCyc |
26 |
5 |
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| Ion channels |
KEGG |
24 |
12 |
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| Ligand-Receptor Interaction |
KEGG |
24 |
12 |
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| Alanine and aspartate metabolism |
KEGG |
24 |
4 |
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| beta-Alanine metabolism |
KEGG |
24 |
4 |
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| Butanoate metabolism |
KEGG |
24 |
4 |
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| Glutamate metabolism |
KEGG |
24 |
4 |
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| Taurine and hypotaurine metabolism |
KEGG |
24 |
4 |
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| response to wounding |
TAIR-GO |
24 |
6 |
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| defense response |
TAIR-GO |
23.5 |
5 |
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| Leaf Glycerolipid Biosynthesis in cytosol / ER |
BioPath |
22 |
7 |
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| respiration |
FunCat |
22 |
3 |
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| Pathways co-expressed in the Hormone etc. data set (with more than 15 annotation points) |
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CYP82C3 (At4g31950) and /or CYP82C2 (At4g31970) and / or CYP82C4 (At4g31940) |
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| max. difference between log2-ratios: |
8.3 |
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| max. difference between log2-ratios excluding lowest and highest 5%: |
0.0 |
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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 |
52 |
0.000 |
9 |
0.003 |
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| Methionin/SAM/ethylene metabolism from cysteine and aspartate |
BioPath |
44 |
0.000 |
7 |
0.000 |
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| Miscellaneous acyl lipid metabolism |
AcylLipid |
38 |
0.000 |
9 |
0.103 |
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| Inositol phosphate metabolism |
KEGG |
37 |
0.000 |
13 |
0.000 |
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| Lipid signaling |
AcylLipid |
34 |
0.000 |
10 |
0.026 |
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| Benzoate degradation via CoA ligation |
KEGG |
33 |
0.000 |
12 |
0.000 |
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| Nicotinate and nicotinamide metabolism |
KEGG |
33 |
0.000 |
12 |
0.000 |
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| secondary metabolism |
FunCat |
32 |
0.000 |
6 |
0.000 |
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| Plastidial Isoprenoids (Chlorophylls, Carotenoids, Tocopherols, Plastoquinone, Phylloquinone) |
BioPath |
30 |
0.000 |
3 |
0.111 |
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| Phenylpropanoid pathway |
LitPath |
30 |
0.000 |
5 |
0.012 |
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| triacylglycerol degradation |
AraCyc |
29.5 |
0.000 |
8 |
0.000 |
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| Propanoate metabolism |
KEGG |
28 |
0.000 |
5 |
0.000 |
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| Glycan Biosynthesis and Metabolism |
KEGG |
25 |
0.000 |
7 |
0.001 |
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| ethylene biosynthesis |
TAIR-GO |
24 |
0.000 |
4 |
0.000 |
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| biosynthesis of proto- and siroheme |
AraCyc |
24 |
0.000 |
3 |
0.004 |
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| lignin biosynthesis |
AraCyc |
22 |
0.000 |
5 |
0.000 |
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| cellulose biosynthesis |
BioPath |
20 |
0.000 |
3 |
0.017 |
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| Chlorophyll biosynthesis and breakdown |
BioPath |
20 |
0.000 |
2 |
0.036 |
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| Porphyrin and chlorophyll metabolism |
KEGG |
20 |
0.000 |
2 |
0.059 |
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| chlorophyll and phytochromobilin metabolism |
LitPath |
20 |
0.000 |
2 |
0.052 |
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| systemic acquired resistance |
TAIR-GO |
19.5 |
0.000 |
3 |
0.000 |
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| hemicellulose biosynthesis |
BioPath |
16 |
0.000 |
2 |
0.005 |
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| Fructose and mannose metabolism |
KEGG |
16 |
0.001 |
2 |
0.197 |
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| Glycerolipid metabolism |
KEGG |
16 |
0.000 |
2 |
0.096 |
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| Pathways co-expressed in the Mutant data set (with more than 15 annotation points) |
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CYP82C3 (At4g31950) and /or CYP82C2 (At4g31970) and / or CYP82C4 (At4g31940) |
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| max. difference between log2-ratios: |
17.5 |
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| max. difference between log2-ratios excluding lowest and highest 5%: |
0.0 |
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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 |
68 |
0.000 |
10 |
0.003 |
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| Biosynthesis of Amino Acids and Derivatives |
BioPath |
50 |
0.000 |
8 |
0.022 |
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| Shikimate pathway |
LitPath |
48 |
0.000 |
7 |
0.000 |
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| Phenylpropanoid pathway |
LitPath |
46 |
0.000 |
8 |
0.007 |
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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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| Trp biosyntesis |
LitPath |
44 |
0.000 |
6 |
0.000 |
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| Aromatic amino acid (Phe, Tyr, Trp) metabolism |
BioPath |
42 |
0.000 |
6 |
0.000 |
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| Benzoate degradation via CoA ligation |
KEGG |
38 |
0.000 |
11 |
0.000 |
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| Inositol phosphate metabolism |
KEGG |
38 |
0.000 |
11 |
0.000 |
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| Nicotinate and nicotinamide metabolism |
KEGG |
38 |
0.000 |
11 |
0.000 |
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| Methionin/SAM/ethylene metabolism from cysteine and aspartate |
BioPath |
36 |
0.000 |
5 |
0.000 |
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| response to pathogenic bacteria |
TAIR-GO |
34 |
0.000 |
5 |
0.000 |
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| Lipid signaling |
AcylLipid |
34 |
0.015 |
11 |
0.035 |
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| lignin biosynthesis |
AraCyc |
30 |
0.000 |
5 |
0.000 |
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| core phenylpropanoid metabolism |
BioPath |
26 |
0.000 |
4 |
0.005 |
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| Propanoate metabolism |
KEGG |
26 |
0.000 |
4 |
0.002 |
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| biosynthesis of proto- and siroheme |
AraCyc |
24 |
0.000 |
3 |
0.015 |
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| biogenesis of chloroplast |
FunCat |
24 |
0.000 |
3 |
0.043 |
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| secondary metabolism |
FunCat |
22 |
0.000 |
4 |
0.009 |
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| Phenylalanine, tyrosine and tryptophan biosynthesis |
KEGG |
22 |
0.000 |
3 |
0.040 |
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| Synthesis of membrane lipids in endomembrane system |
AcylLipid |
22 |
0.002 |
5 |
0.052 |
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| intracellular signalling |
FunCat |
21 |
0.000 |
6 |
0.000 |
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| Chlorophyll biosynthesis and breakdown |
BioPath |
20 |
0.000 |
2 |
0.049 |
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| ethylene biosynthesis |
TAIR-GO |
20 |
0.000 |
3 |
0.000 |
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| Porphyrin and chlorophyll metabolism |
KEGG |
20 |
0.000 |
2 |
0.047 |
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| chlorophyll and phytochromobilin metabolism |
LitPath |
20 |
0.032 |
2 |
0.199 |
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| N-terminal protein myristoylation |
TAIR-GO |
18 |
0.000 |
2 |
0.003 |
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| triacylglycerol degradation |
AraCyc |
18 |
0.000 |
5 |
0.001 |
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| Nucleotide sugars metabolism |
KEGG |
18 |
0.000 |
5 |
0.000 |
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| defense response |
TAIR-GO |
17 |
0.000 |
3 |
0.002 |
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| C-compound and carbohydrate utilization |
FunCat |
17 |
0.000 |
4 |
0.000 |
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| jasmonic acid biosynthesis |
TAIR-GO |
16 |
0.000 |
3 |
0.002 |
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| jasmonic acid biosynthesis |
AraCyc |
16 |
0.000 |
3 |
0.001 |
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| lipoxygenase pathway |
AraCyc |
16 |
0.000 |
3 |
0.000 |
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| phospholipid biosynthesis II |
AraCyc |
16 |
0.000 |
3 |
0.002 |
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