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_396	6	13	0.00095761
Citrus sinensis	scaffold00031	17	CH_csi_135	5	5	0.0000291969
Citrus sinensis	scaffold00001	18	CH_csi_19	10	37	0.0000104303
Citrus sinensis	scaffold00070	18	CH_csi_23	10	53	0.00045382
Eucalyptus grandis	scaffold_5	18	CH_egr_252	17	196	0.0000469978
Eucalyptus grandis	scaffold_8	18	CH_egr_222	12	66	0.00000233909
Glycine max	Gm03	18	CH_gma_71	17	148	0.0000921949
Glycine max	Gm12	18	CH_gma_72	11	52	0.0000980387
Glycine max	Gm19	18	CH_gma_54	23	201	0.000000139976
Glycine max	Gm19	20	CH_gma_1	15	150	0.000454433
Gossypium raimondii	Chr09	18	CH_gra_71	10	53	0.000793296
Malus domestica	9	17	CH_mdo_84	9	25	0.000000166722
Malus domestica	9	18	CH_mdo_28	10	65	0.000107345
Oryza sativa ssp. japonica	6	18	CH_osa_85	12	105	0.00000811067
Populus trichocarpa	Chr02	17	CH_ptr_417	5	6	0.000302442
Populus trichocarpa	Chr15	17	CH_ptr_416	5	6	0.000302442
Ricinus communis	29986	17	CH_rco_240	5	7	0.000547334
Ricinus communis	29739	18	CH_rco_30	10	59	0.000988068
Solanum lycopersicum	ch02	17	CH_sly_352	6	10	0.000119434
Solanum lycopersicum	ch03	18	CH_sly_72	12	53	0.00000142426
Vitis vinifera	chr7	18	CH_vvi_104	19	210	0.000174397
Vitis vinifera	chr7	20	CH_vvi_3	16	209	0.000192595

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