PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Gossypium raimondii	Chr06	1	CH_gra_21	28	49	1.67112e-20
Gossypium raimondii	Chr06	2	CH_gra_20	28	49	3.32193e-20
Gossypium raimondii	Chr02	4	CH_gra_16	58	205	3.7643e-25
Gossypium raimondii	Chr06	4	CH_gra_21	28	49	1.67112e-20
Gossypium raimondii	Chr06	5	CH_gra_17	28	49	3.32193e-20
Gossypium raimondii	Chr06	6	CH_gra_20	32	49	9.24248e-25
Solanum tuberosum	chr04	1	CH_stu_92	23	55	0.000000000000208577
Solanum tuberosum	chr05	1	CH_stu_495	8	14	0.000679334
Solanum tuberosum	chr04	2	CH_stu_99	23	55	0.000000000000341608
Solanum tuberosum	chr05	2	CH_stu_568	8	14	0.000809973
Solanum tuberosum	chr04	3	CH_stu_88	28	55	2.20266e-17
Solanum tuberosum	chr04	4	CH_stu_48	36	118	2.99364e-17
Solanum tuberosum	chr04	5	CH_stu_49	36	118	6.30471e-17

GO term	Description	Number of clusters
GO:0000079	regulation of cyclin-dependent protein serine/threonine kinase activity	6
GO:0006120	mitochondrial electron transport, NADH to ubiquinone	1
GO:0006123	mitochondrial electron transport, cytochrome c to oxygen	2
GO:0006468	protein phosphorylation	374
GO:0016572	histone phosphorylation	3
GO:0042325	regulation of phosphorylation	1
GO:0042327	positive regulation of phosphorylation	1
GO:0042773	ATP synthesis coupled electron transport	5
GO:0046854	phosphatidylinositol phosphorylation	3
GO:0046939	nucleotide phosphorylation	2
GO:0052746	inositol phosphorylation	4
GO:0071900	regulation of protein serine/threonine kinase activity	2

Exp id	Data type	Data filter	Min genes cluster	Max genes cluster	Max cluster size	E-value	Tandems removal
1	GO	Primary GO data only.	2	30	80	0.001	X
2	GO	Primary and orthology projected GO data.	2	30	80	0.001	X
3	GO	All GO data.	2	30	80	0.001	X
4	GO	Primary GO data only.	10	150	300	0.001	X
5	GO	Primary and orthology projected GO data.	10	150	300	0.001	X
6	GO	All GO data.	10	150	300	0.001	X
7	GO	Primary GO data only.	2	30	80	0.001	V
8	GO	Primary and orthology projected GO data.	2	30	80	0.001	V
9	GO	All GO data.	2	30	80	0.001	V
10	GO	Primary GO data only.	10	150	300	0.001	V
11	GO	Primary and orthology projected GO data.	10	150	300	0.001	V
12	GO	All GO data.	10	150	300	0.001	V
13	InterPro	No filter applied.	2	30	80	0.001	X
14	InterPro	No filter applied.	10	150	300	0.001	X
15	InterPro	No filter applied.	2	30	80	0.001	V
16	InterPro	No filter applied.	10	150	300	0.001	V
17	MapMan	No filter applied.	2	30	80	0.001	X
18	MapMan	No filter applied.	10	150	300	0.001	X
19	MapMan	No filter applied.	2	30	80	0.001	V
20	MapMan	No filter applied.	10	150	300	0.001	V