PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis lyrata	scaffold_6	13	CH_aly_275	3	3	0.00000272075
Arabidopsis thaliana	5	13	CH_ath_260	3	3	0.00000241794
Beta vulgaris	Bvchr9.sca001	13	CH_bvu_242	3	4	0.0000159947
Brassica rapa	A02	13	CH_bra_216	3	3	0.00000568807
Brassica rapa	A06	13	CH_bra_112	4	6	0.0000000401921
Capsella rubella	scaffold_6	13	CH_cru_275	3	3	0.00000318078
Citrullus lanatus	Chr2	13	CH_cla_207	3	3	0.00000738953
Citrus sinensis	scaffold00019	13	CH_csi_166	3	3	0.00000442654
Eucalyptus grandis	scaffold_10	13	CH_egr_868	3	3	0.0000078858
Glycine max	Gm10	13	CH_gma_279	4	5	0.000000062464
Glycine max	Gm20	13	CH_gma_156	5	6	0.000000000048537
Gossypium raimondii	Chr05	13	CH_gra_81	6	6	0.00000000000000581832
Medicago truncatula	chr1	13	CH_mtr_242	5	10	0.0000000000143328
Populus trichocarpa	Chr03	13	CH_ptr_247	4	4	0.00000000650387
Populus trichocarpa	Chr04	13	CH_ptr_461	3	3	0.0000108823
Populus trichocarpa	Chr05	13	CH_ptr_307	4	6	0.0000000974639
Ricinus communis	30131	13	CH_rco_196	3	3	0.00000121506
Solanum lycopersicum	ch04	13	CH_sly_115	5	5	0.000000000000945151
Solanum tuberosum	chr04	13	CH_stu_64	9	12	1.71143e-23
Solanum tuberosum	chr04	14	CH_stu_70	11	69	1.76364e-20
Vitis vinifera	chr10	13	CH_vvi_187	5	15	0.00000000444205

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