Co-Expression Analysis of:	CYPedia Home					Institut de Biologie Moléculaire des Plantes (Home)
CYP88A4, KAO2 (At2g32440)	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.
there are no co-expressed pathways common in all data sets
					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 6 annotation points)						CYP88A4, KAO2 (At2g32440)
max. difference between log2-ratios:				4.1
max. difference between log2-ratios excluding lowest and highest 5%:				2.6
Pathway	Source	Scores of Genes	p[Score]	No. of Genes	p[genes]	Link to organ heatmap
Diterpenoid biosynthesis	KEGG	10	0.000	1	0.000
biosynthesis of glycosides	FunCat	10	0.000	1	0.000
metabolismn of primary metabolic sugars derivatives	FunCat	10	0.000	1	0.000
secondary metabolism	FunCat	10	0.000	1	0.037
glucosinolate catabolism	TAIR-GO	10	0.000	1	0.000
Tryptophan metabolism	KEGG	10	0.000	1	0.002
Gibberellin metabolism	LitPath	10	0.000	1	0.003
giberelin biosynthesis	LitPath	10	0.000	1	0.002
Glucosinolate Metabolism	LitPath	10	0.000	1	0.004
Pathways co-expressed in the Stress data set ( with more than 70 annotation points)						CYP88A4, KAO2 (At2g32440)
max. difference between log2-ratios:				2.9
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 stress heatmap
Plastidial Isoprenoids (Chlorophylls, Carotenoids, Tocopherols, Plastoquinone, Phylloquinone)	BioPath	301	0.000	36	0.000
Photosystems	BioPath	276	0.000	45	0.000
C-compound and carbohydrate metabolism	FunCat	236	0.000	40	0.001
biogenesis of chloroplast	FunCat	187	0.000	29	0.000
Intermediary Carbon Metabolism	BioPath	180	0.000	28	0.120
photosynthesis	FunCat	168	0.000	27	0.000
Chlorophyll biosynthesis and breakdown	BioPath	151	0.000	18	0.000
chlorophyll and phytochromobilin metabolism	LitPath	145	0.000	17	0.000
glycolysis and gluconeogenesis	FunCat	129	0.000	20	0.003
Photosynthesis	KEGG	123	0.000	23	0.000
Carbon fixation	KEGG	115	0.000	18	0.000
additional photosystem II components	BioPath	113	0.000	18	0.000
Porphyrin and chlorophyll metabolism	KEGG	109	0.000	13	0.000
Glycolysis / Gluconeogenesis	KEGG	108	0.000	16	0.000
chlorophyll biosynthesis	AraCyc	106	0.000	13	0.001
Photosystem I	BioPath	87	0.000	16	0.003
Calvin cycle	AraCyc	87	0.000	17	0.000
chlorophyll biosynthesis	TAIR-GO	85	0.000	9	0.000
Leaf Glycerolipid Biosynthesis in Plastid	BioPath	77	0.048	10	0.219
Pentose phosphate pathway	KEGG	77	0.000	13	0.000
Pathways co-expressed in the Hormone etc. data set (with more than 6 annotation points)						CYP88A4, KAO2 (At2g32440)
max. difference between log2-ratios:				1.3
max. difference between log2-ratios excluding lowest and highest 5%:				0.8
Pathway	Source	Scores of Genes	p[Score]	No. of Genes	p[genes]	Link to hormones etc. heatmap
Chlorophyll biosynthesis and breakdown	BioPath	10	0.000	1	0.000
Plastidial Isoprenoids (Chlorophylls, Carotenoids, Tocopherols, Plastoquinone, Phylloquinone)	BioPath	10	0.000	1	0.003
chlorophyll biosynthesis	TAIR-GO	10	0.000	1	0.000
chlorophyll biosynthesis	AraCyc	10	0.000	1	0.010
Diterpenoid biosynthesis	KEGG	10	0.000	1	0.000
Porphyrin and chlorophyll metabolism	KEGG	10	0.000	1	0.000
chlorophyll and phytochromobilin metabolism	LitPath	10	0.000	1	0.013
chlorophyll biosynthesis	LitPath	10	0.000	1	0.001
Gibberellin metabolism	LitPath	10	0.000	1	0.003
giberelin biosynthesis	LitPath	10	0.000	1	0.002
Pathways co-expressed in the Mutant data set (with more than 10 annotation points)						CYP88A4, KAO2 (At2g32440)
max. difference between log2-ratios:				2.5
max. difference between log2-ratios excluding lowest and highest 5%:				1.1
Pathway	Source	Scores of Genes	p[Score]	No. of Genes	p[genes]	Link to mutants heatmap
Plastidial Isoprenoids (Chlorophylls, Carotenoids, Tocopherols, Plastoquinone, Phylloquinone)	BioPath	28	0.000	3	0.003
Carotenoid biosynthesis	BioPath	18	0.000	2	0.000
carotenoid biosynthesis	AraCyc	18	0.000	2	0.000
carotenid biosynthesis	LitPath	18	0.000	2	0.000
Carotenoid and abscisic acid metabolism	LitPath	18	0.000	2	0.001
Biosynthesis of Amino Acids and Derivatives	BioPath	16	0.008	2	0.126
Methionin/SAM/ethylene metabolism from cysteine and aspartate	BioPath	16	0.000	2	0.001
Nitrogen metabolism	KEGG	12	0.000	2	0.000
Chlorophyll biosynthesis and breakdown	BioPath	10	0.000	1	0.025
carotene biosynthesis	TAIR-GO	10	0.000	1	0.000
chlorophyll biosynthesis	TAIR-GO	10	0.000	1	0.004
methionine biosynthesis	TAIR-GO	10	0.000	1	0.000
methionine biosynthesis from L-homoserine via cystathione	TAIR-GO	10	0.000	1	0.000
chlorophyll biosynthesis	AraCyc	10	0.000	1	0.020
homocysteine and cysteine interconversion	AraCyc	10	0.000	1	0.001
methionine biosynthesis II	AraCyc	10	0.000	1	0.001
sulfate assimilation III	AraCyc	10	0.000	1	0.008
amino acid metabolism	FunCat	10	0.000	1	0.015
Biosynthesis of steroids	KEGG	10	0.000	1	0.017
Cysteine metabolism	KEGG	10	0.000	1	0.006
Diterpenoid biosynthesis	KEGG	10	0.000	1	0.001
Methionine metabolism	KEGG	10	0.000	1	0.003
Selenoamino acid metabolism	KEGG	10	0.000	1	0.007
Sulfur metabolism	KEGG	10	0.000	1	0.004
chlorophyll and phytochromobilin metabolism	LitPath	10	0.005	1	0.053
chlorophyll biosynthesis	LitPath	10	0.000	1	0.004
Gibberellin metabolism	LitPath	10	0.000	1	0.015
giberelin biosynthesis	LitPath	10	0.000	1	0.009
page created by Juergen Ehlting	05/22/06