PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis lyrata	scaffold_1	17	CH_aly_53	3	3	0.0000195894
Arabidopsis thaliana	1	17	CH_ath_149	4	4	0.0000000293392
Brassica rapa	A09	17	CH_bra_122	4	6	0.0000035105
Capsella rubella	scaffold_1	17	CH_cru_126	4	4	0.0000000618659
Chlamydomonas reinhardtii	chromosome_6	17	CH_cre_54	3	4	0.000226885
Citrus sinensis	scaffold00217	17	CH_csi_150	3	3	0.000067005
Glycine max	Gm01	17	CH_gma_445	3	4	0.00047124
Glycine max	Gm15	17	CH_gma_370	3	3	0.000117924
Gossypium raimondii	Chr09	17	CH_gra_267	3	3	0.000113106
Malus domestica	11	17	CH_mdo_117	4	8	0.00000254134
Manihot esculenta	scaffold02421	17	CH_mes_179	3	4	0.00024583
Oryza sativa ssp. japonica	3	17	CH_osa_352	3	5	0.000205198
Physcomitrella patens	scaffold_147	17	CH_ppa_31	3	3	0.000174289
Physcomitrella patens	scaffold_59	17	CH_ppa_9	5	13	0.000000651303
Populus trichocarpa	Chr10	17	CH_ptr_189	5	10	0.0000000408191
Prunus persica	scaffold_4	17	CH_ppe_362	3	4	0.00020388
Ricinus communis	29904	17	CH_rco_176	3	3	0.0000528551
Vitis vinifera	chr12	17	CH_vvi_308	3	3	0.0000674335
Vitis vinifera	chr6	17	CH_vvi_290	4	11	0.0000285677
Zea mays	1	17	CH_zma_233	3	4	0.000315744
Zea mays	6	17	CH_zma_116	5	22	0.00000291888

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