Co-Expression Analysis of: CYPedia Home Institut de Biologie Moléculaire des Plantes (Home)




CYP71B28 (At1g13090) save all data as Tab Delimited Table










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Pathways co-expressed in all 4 data sets (with more than 6 annotation points each)
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.





Pathway Source Sum of scores Sum of genes






chlorophyll biosynthesis AraCyc 74 8






chlorophyll biosynthesis TAIR-GO 69 7






chlorophyll biosynthesis LitPath 69 7













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.






































For more information on how these pathway maps were generated please read the methods page







































































Pathways co-expressed in the Organ and Tissue data set (with more than 50 annotation points)
CYP71B28 (At1g13090)







max. difference between log2-ratios: 4.9











max. difference between log2-ratios excluding lowest and highest 5%: 4.4











Pathway Source Scores of Genes p[Score] No. of Genes p[genes] Link to organ heatmap






Photosystems BioPath 307 0.000 47 0.000


Plastidial Isoprenoids (Chlorophylls, Carotenoids, Tocopherols, Plastoquinone, Phylloquinone) BioPath 171 0.000 21 0.000

C-compound and carbohydrate metabolism FunCat 146 0.000 26 0.064

additional photosystem II components BioPath 136 0.000 19 0.000

biogenesis of chloroplast FunCat 135 0.000 22 0.000

Photosynthesis KEGG 127 0.000 22 0.000

photosynthesis FunCat 126 0.000 20 0.000

Photosystem I BioPath 119 0.000 20 0.000

Carbon fixation KEGG 100 0.000 14 0.000

Chlorophyll a/b binding proteins BioPath 98 0.000 12 0.000

glycolysis and gluconeogenesis FunCat 95 0.000 15 0.015

transport FunCat 85 0.000 15 0.000

photosystem I TAIR-GO 82 0.000 10 0.000

Folding, Sorting and Degradation KEGG 76 0.000 11 0.013










photosystem II TAIR-GO 66 0.000 8 0.000










Chlorophyll biosynthesis and breakdown BioPath 65 0.000 8 0.015










chlorophyll and phytochromobilin metabolism LitPath 65 0.000 8 0.001










Calvin cycle AraCyc 62 0.000 10 0.000










Carotenoid and abscisic acid metabolism LitPath 62 0.000 8 0.000










Pathway for nuclear-encoded, thylakoid-localized proteins BioPath 58 0.000 7 0.000










Photosystem II BioPath 57 0.001 8 0.043










Biosynthesis of steroids KEGG 56 0.000 7 0.003










Carotenoid biosynthesis BioPath 52 0.000 6 0.000










carotenoid biosynthesis AraCyc 52 0.000 6 0.000










photorespiration AraCyc 52 0.000 13 0.000










carotenid biosynthesis LitPath 52 0.000 6 0.000












































Pathways co-expressed in the Stress data set ( with more than 12 annotation points)
CYP71B28 (At1g13090)







max. difference between log2-ratios: 3.9











max. difference between log2-ratios excluding lowest and highest 5%: 1.6











Pathway Source Scores of Genes p[Score] No. of Genes p[genes] Link to stress heatmap






C-compound and carbohydrate metabolism FunCat 58 0.000 11 0.004
Intermediary Carbon Metabolism BioPath 42 0.000 7 0.036
Pathway for nuclear-encoded, thylakoid-localized proteins BioPath 34 0.000 4 0.000
Photosystems BioPath 32 0.002 4 0.116
glycolysis and gluconeogenesis FunCat 30 0.000 6 0.007
additional photosystem II components BioPath 26 0.000 3 0.014
Miscellaneous acyl lipid metabolism AcylLipid 24 0.000 7 0.015
Delta-pH pathway BioPath 20 0.000 2 0.000
Leaf Glycerolipid Biosynthesis in Plastid BioPath 20 0.003 2 0.162
chloroplast thylakoid membrane protein import TAIR-GO 20 0.000 2 0.000
Carbon fixation KEGG 20 0.000 3 0.020
Pyruvate metabolism KEGG 19 0.000 3 0.028
Transcription (chloroplast) BioPath 18 0.000 2 0.000
transcription initiation TAIR-GO 18 0.000 2 0.000










phenylalanine degradation I AraCyc 18 0.000 5 0.000










threonine degradation AraCyc 17 0.000 4 0.000










formaldehyde assimilation I (serine pathway) AraCyc 16 0.000 3 0.019










serine-isocitrate lyase pathway AraCyc 16 0.000 3 0.052










photosynthesis FunCat 16 0.000 2 0.054










Folding, Sorting and Degradation KEGG 16 0.004 3 0.094










Pentose phosphate pathway KEGG 16 0.000 2 0.028










Photosynthesis KEGG 16 0.000 2 0.016










Protein export KEGG 16 0.000 3 0.001










methylglyoxal degradation AraCyc 15 0.000 3 0.001










Chloroplastic protein turnover BioPath 14 0.000 2 0.003










TCA cycle variation IV AraCyc 14 0.001 3 0.052










TCA cycle variation VII AraCyc 14 0.038 3 0.178










TCA cycle variation VIII AraCyc 14 0.002 3 0.067










transport FunCat 14 0.000 2 0.000










Glutathione metabolism KEGG 14 0.000 2 0.030












































Pathways co-expressed in the Hormone etc. data set (with more than 10 annotation points)
CYP71B28 (At1g13090)







max. difference between log2-ratios: 1.9











max. difference between log2-ratios excluding lowest and highest 5%: 1.0











Pathway Source Scores of Genes p[Score] No. of Genes p[genes] Link to hormones etc. heatmap






Plastidial Isoprenoids (Chlorophylls, Carotenoids, Tocopherols, Plastoquinone, Phylloquinone) BioPath 28 0.000 3 0.006





Intermediary Carbon Metabolism BioPath 16 0.003 3 0.050




biogenesis of chloroplast FunCat 16 0.000 2 0.010




ascorbate glutathione cycle AraCyc 14 0.000 2 0.001




photorespiration AraCyc 14 0.000 2 0.011




Ascorbate and aldarate metabolism KEGG 14 0.000 2 0.001




Biosynthesis of steroids KEGG 14 0.000 2 0.007




Carbon fixation KEGG 14 0.000 3 0.002










Glutamate metabolism KEGG 14 0.000 2 0.006










Gluconeogenesis from lipids in seeds BioPath 12 0.000 2 0.022










detoxification FunCat 12 0.000 2 0.000










Basal transcription factors KEGG 12 0.000 2 0.003










Stilbene, coumarine and lignin biosynthesis KEGG 12 0.000 2 0.054










Transcription KEGG 12 0.000 2 0.029





























































Pathways co-expressed in the Mutant data set (with more than 6 annotation points)
CYP71B28 (At1g13090)







max. difference between log2-ratios: 4.0











max. difference between log2-ratios excluding lowest and highest 5%: 1.3











Pathway Source Scores of Genes p[Score] No. of Genes p[genes] Link to mutants heatmap






Phenylpropanoid Metabolism BioPath 14 0.000 2 0.012



core phenylpropanoid metabolism BioPath 10 0.000 1 0.007


Thylakoid biogenesis and photosystem assembly BioPath 10 0.000 1 0.000


cytochrome b6f complex TAIR-GO 10 0.000 1 0.000


cytochrome b6f complex assembly TAIR-GO 10 0.000 1 0.000


lignin biosynthesis TAIR-GO 10 0.000 1 0.001










lignin biosynthesis AraCyc 10 0.000 1 0.024










electron transport and membrane-associated energy conservation FunCat 10 0.000 1 0.000










energy FunCat 10 0.000 1 0.000










transport FunCat 10 0.000 1 0.000










Phenylpropanoid pathway LitPath 10 0.000 1 0.106










beta-Alanine metabolism KEGG 9 0.000 1 0.003










Nucleotide Metabolism KEGG 9 0.000 1 0.034










Pantothenate and CoA biosynthesis KEGG 9 0.000 1 0.003










Pyrimidine metabolism KEGG 9 0.000 1 0.010










Valine, leucine and isoleucine degradation KEGG 8 0.000 2 0.000



























page created by Vincent Sauveplane 06/26/06