PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	2	17	CH_ath_235	3	3	0.00000605813
Brassica rapa	A05	17	CH_bra_194	3	4	0.0000809501
Capsella rubella	scaffold_3	17	CH_cru_200	3	3	0.0000134572
Citrus sinensis	scaffold00104	17	CH_csi_3	12	19	1.96638e-26
Citrus sinensis	scaffold00328	17	CH_csi_87	4	6	0.00000146372
Citrus sinensis	scaffold00104	18	CH_csi_3	12	19	1.96638e-26
Eucalyptus grandis	scaffold_10	17	CH_egr_58	9	9	5.55358e-24
Eucalyptus grandis	scaffold_5	17	CH_egr_764	3	5	0.000255388
Eucalyptus grandis	scaffold_8	17	CH_egr_212	6	8	0.000000000000394986
Glycine max	Gm09	17	CH_gma_136	4	4	0.0000000188872
Glycine max	Gm16	17	CH_gma_135	4	4	0.0000000188872
Malus domestica	1	17	CH_mdo_3	11	58	1.78341e-17
Malus domestica	6	17	CH_mdo_237	3	4	0.000265998
Malus domestica	1	18	CH_mdo_5	11	58	1.78341e-17
Manihot esculenta	scaffold08316	17	CH_mes_54	4	4	0.0000000126696
Oryza sativa ssp. japonica	6	17	CH_osa_259	3	5	0.000013098
Prunus persica	scaffold_2	17	CH_ppe_167	5	10	0.0000000254893
Prunus persica	scaffold_2	17	CH_ppe_321	5	38	0.00004933
Solanum lycopersicum	ch05	17	CH_sly_306	3	4	0.0000306351
Zea mays	4	17	CH_zma_144	3	4	0.0000123797

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