PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	2	2	CH_ath_186	3	3	0.00000193435
Arabidopsis thaliana	2	3	CH_ath_198	3	3	0.00000193435
Brassica rapa	A06	2	CH_bra_120	3	3	0.00000849517
Brassica rapa	A06	2	CH_bra_52	4	5	0.0000000231758
Brassica rapa	A09	2	CH_bra_119	3	3	0.00000849517
Brassica rapa	A06	3	CH_bra_148	3	3	0.00000849517
Brassica rapa	A09	3	CH_bra_147	3	3	0.00000849517
Fragaria vesca	scf0513158	2	CH_fve_56	4	5	0.00000000040574
Fragaria vesca	scf0513158	3	CH_fve_82	4	5	0.00000000040574
Glycine max	Gm20	2	CH_gma_129	4	9	0.0000000455241
Glycine max	Gm20	3	CH_gma_157	4	9	0.0000000455241
Medicago truncatula	chr7	2	CH_mtr_187	4	11	0.0000000022911
Medicago truncatula	chr7	3	CH_mtr_232	4	11	0.0000000022911
Populus trichocarpa	Chr10	2	CH_ptr_320	3	10	0.0000980874
Populus trichocarpa	Chr10	3	CH_ptr_403	3	10	0.0000980874
Prunus persica	scaffold_1	2	CH_ppe_168	3	3	0.000000272813
Prunus persica	scaffold_1	3	CH_ppe_202	3	3	0.000000272813
Solanum lycopersicum	ch02	2	CH_sly_195	3	3	0.000000592536
Solanum lycopersicum	ch02	3	CH_sly_246	3	3	0.000000592536
Solanum tuberosum	chr02	2	CH_stu_271	3	3	0.000000802216
Solanum tuberosum	chr02	3	CH_stu_383	3	3	0.000000802216
Vitis vinifera	chr1	2	CH_vvi_94	4	5	0.000000000804019
Vitis vinifera	chr1	3	CH_vvi_120	4	5	0.000000000804019

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