PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	1	17	CH_ath_129	4	4	0.00000000800286
Brassica rapa	A06	17	CH_bra_204	3	3	0.000108595
Brassica rapa	A07	17	CH_bra_203	3	3	0.000108595
Brassica rapa	A07	17	CH_bra_202	3	3	0.000108595
Capsella rubella	scaffold_2	17	CH_cru_214	3	3	0.0000227199
Eucalyptus grandis	scaffold_1	17	CH_egr_724	3	3	0.000127885
Eucalyptus grandis	scaffold_1	17	CH_egr_524	4	5	0.000000954841
Eucalyptus grandis	scaffold_8	17	CH_egr_91	9	10	1.05165e-20
Eucalyptus grandis	scaffold_8	17	CH_egr_554	4	6	0.00000286108
Glycine max	Gm06	17	CH_gma_312	3	3	0.0000313198
Glycine max	Gm07	17	CH_gma_313	3	3	0.0000313198
Gossypium raimondii	Chr11	17	CH_gra_246	3	3	0.0000425954
Malus domestica	7	17	CH_mdo_121	4	10	0.00000363644
Manihot esculenta	scaffold02431	17	CH_mes_59	4	5	0.0000000178389
Oryza sativa ssp. japonica	11	17	CH_osa_119	6	31	0.0000000103541
Oryza sativa ssp. japonica	12	17	CH_osa_262	5	42	0.0000157709
Oryza sativa ssp. japonica	4	17	CH_osa_155	4	5	0.000000123115
Populus trichocarpa	Chr02	17	CH_ptr_315	3	3	0.0000185865
Prunus persica	scaffold_2	17	CH_ppe_58	7	12	0.0000000000000103307
Prunus persica	scaffold_8	17	CH_ppe_78	6	8	0.00000000000046147
Vitis vinifera	chr12	17	CH_vvi_378	3	5	0.000283887
Vitis vinifera	chr15	17	CH_vvi_151	4	4	0.0000000270343

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