Co-Expression Analysis of:	CYPedia Home					Institut de Biologie Moléculaire des Plantes (Home)
CYP708A3 (At1g78490)	save all data as Tab Delimited Table
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Pathways co-expressed in the 3 data sets with co-expressed genes (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 to all 3 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 30 annotation points)						CYP708A3 (At1g78490)
max. difference between log2-ratios:				5.8
max. difference between log2-ratios excluding lowest and highest 5%:				4.7
Pathway	Source	Scores of Genes	p[Score]	No. of Genes	p[genes]	Link to organ heatmap
Photosystems	BioPath	335	0.000	48	0.000
Photosynthesis	KEGG	143	0.000	23	0.000
additional photosystem II components	BioPath	132	0.000	17	0.000
Photosystem I	BioPath	127	0.000	21	0.000
Chlorophyll a/b binding proteins	BioPath	122	0.000	15	0.000
biogenesis of chloroplast	FunCat	109	0.000	17	0.000
photosynthesis	FunCat	102	0.000	15	0.000
Plastidial Isoprenoids (Chlorophylls, Carotenoids, Tocopherols, Plastoquinone, Phylloquinone)	BioPath	91	0.001	10	0.122
Photosystem II	BioPath	69	0.000	9	0.002
photosystem I	TAIR-GO	67	0.000	8	0.000
glycolysis and gluconeogenesis	FunCat	65	0.000	10	0.032
transport	FunCat	63	0.000	10	0.000
Carbon fixation	KEGG	55	0.000	7	0.001
Chlorophyll biosynthesis and breakdown	BioPath	53	0.000	6	0.025
Porphyrin and chlorophyll metabolism	KEGG	53	0.000	7	0.000
chlorophyll and phytochromobilin metabolism	LitPath	53	0.000	6	0.000
chlorophyll binding	TAIR-GO	52	0.000	6	0.000
photosystem II	TAIR-GO	51	0.000	6	0.000
chlorophyll biosynthesis	TAIR-GO	49	0.000	5	0.000
respiration	FunCat	44	0.000	6	0.000
light harvesting complex	BioPath	40	0.000	5	0.000
chlorophyll biosynthesis	AraCyc	40	0.000	5	0.040
aerobic respiration	FunCat	40	0.000	5	0.000
chlorophyll biosynthesis	LitPath	39	0.000	4	0.000
photosystem II type I chlorophyll a /b binding protein	BioPath	36	0.000	4	0.000
energy	FunCat	34	0.000	5	0.000
photosystem I reaction center	BioPath	32	0.000	7	0.000
Pathways co-expressed in the Stress data set ( with more than 6 annotation points)						CYP708A3 (At1g78490)
max. difference between log2-ratios:				3.6
max. difference between log2-ratios excluding lowest and highest 5%:				2.0
						Link to stress heatmap
there are no co-expressed genes with more than 6 annotation points
Pathways co-expressed in the Hormone etc. data set (with more than 6 annotation points)						CYP708A3 (At1g78490)
max. difference between log2-ratios:				3.3
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 hormones etc. heatmap
Aromatic amino acid (Phe, Tyr, Trp) metabolism	BioPath	10	0.000	1	0.000
Phenylpropanoid Metabolism	BioPath	10	0.000	1	0.004
aromatic amino acid family biosynthesis	TAIR-GO	10	0.000	1	0.000
aromatic amino acid family biosynthesis, anthranilate pathway	TAIR-GO	10	0.000	1	0.000
aromatic amino acid family biosynthesis, shikimate pathway	TAIR-GO	10	0.000	1	0.000
response to biotic stimulus	TAIR-GO	10	0.000	1	0.000
alanine biosynthesis II	AraCyc	10	0.000	1	0.001
phenylalanine biosynthesis II	AraCyc	10	0.000	1	0.000
tyrosine biosynthesis I	AraCyc	10	0.000	1	0.000
Phenylalanine, tyrosine and tryptophan biosynthesis	KEGG	10	0.000	1	0.001
Phe/Tyr biosynthesis	LitPath	10	0.000	1	0.000
Shikimate pathway	LitPath	10	0.000	1	0.010
Tyr biosynthesis	LitPath	10	0.000	1	0.000
Pathways co-expressed in the Mutant data set (with more than 6 annotation points)						CYP708A3 (At1g78490)
max. difference between log2-ratios:				3.6
max. difference between log2-ratios excluding lowest and highest 5%:				2.3
Pathway	Source	Scores of Genes	p[Score]	No. of Genes	p[genes]	Link to mutants heatmap
Ribosome	KEGG	30	0.000	5	0.020
Photosystems	BioPath	22	0.000	3	0.007
additional photosystem II components	BioPath	16	0.000	2	0.003
ATP synthase components	BioPath	16	0.000	2	0.000
ATP synthesis coupled proton transport	TAIR-GO	16	0.000	2	0.000
proton transport	TAIR-GO	16	0.000	2	0.000
Carbon fixation	KEGG	16	0.000	2	0.018
protein synthesis	FunCat	12	0.001	2	0.049
ribosome biogenesis	FunCat	12	0.035	2	0.096
Branched-chain amino acids from aspartate	BioPath	10	0.000	1	0.015
starch metabolism	BioPath	10	0.000	1	0.021
glucosinolate biosynthesis	TAIR-GO	10	0.000	1	0.004
proton-transporting ATP synthase, catalytic core (sensu Eukaryota)	TAIR-GO	10	0.000	1	0.000
starch catabolism	TAIR-GO	10	0.000	1	0.000
Calvin cycle	AraCyc	10	0.000	1	0.023
homomethionine biosynthesis	AraCyc	10	0.000	1	0.000
leucine biosynthesis	AraCyc	10	0.000	1	0.004
starch degradation	AraCyc	10	0.000	1	0.004
C-compound and carbohydrate utilization	FunCat	10	0.000	1	0.000
energy	FunCat	10	0.000	1	0.000
glycolysis and gluconeogenesis	FunCat	10	0.008	1	0.185
metabolism of energy reserves (e.g. glycogen, trehalose)	FunCat	10	0.000	1	0.000
photosynthesis	FunCat	10	0.000	1	0.035
Glyoxylate and dicarboxylate metabolism	KEGG	10	0.000	1	0.024
Pyruvate metabolism	KEGG	10	0.002	1	0.130
Starch and sucrose metabolism	KEGG	10	0.003	1	0.139
Valine, leucine and isoleucine biosynthesis	KEGG	10	0.000	1	0.029
Glucosinolate Metabolism	LitPath	10	0.000	1	0.007
Phenylalanine metabolism	KEGG	8	0.002	2	0.039
pentacyclic triterpenoid biosynthesis	TAIR-GO	7	0.000	1	0.004
isoprenoid biosynthesis	FunCat	7	0.007	1	0.062
lipid, fatty acid and isoprenoid biosynthesis	FunCat	7	0.003	1	0.049
Biosynthesis of steroids	KEGG	7	0.023	1	0.060
triterpene biosynthesis	LitPath	7	0.000	1	0.002
triterpene, sterol, and brassinosteroid metabolism	LitPath	7	0.002	1	0.079
page created by Juergen Ehlting	06/02/06