PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Beta vulgaris	Bvchr4.sca006	13	CH_bvu_508	2	2	0.000965624
Beta vulgaris	Bvchr6.sca002	13	CH_bvu_507	2	2	0.000965624
Brassica rapa	A02	13	CH_bra_190	3	4	0.00000177263
Capsella rubella	scaffold_5	13	CH_cru_121	4	5	0.000000000466828
Eucalyptus grandis	scaffold_8	13	CH_egr_352	5	7	0.00000000000236147
Eucalyptus grandis	scaffold_9	13	CH_egr_509	4	5	0.00000000213876
Gossypium raimondii	Chr07	13	CH_gra_154	4	5	0.000000000480401
Manihot esculenta	scaffold03614	13	CH_mes_120	3	3	0.000000270265
Medicago truncatula	chr8	13	CH_mtr_1181	2	2	0.000644251
Oryza sativa ssp. japonica	1	13	CH_osa_344	3	5	0.00000038192
Populus trichocarpa	Chr01	13	CH_ptr_259	4	7	0.00000000926836
Populus trichocarpa	Chr05	13	CH_ptr_389	3	3	0.00000106405
Populus trichocarpa	Chr13	13	CH_ptr_258	4	7	0.00000000926836
Prunus persica	scaffold_7	13	CH_ppe_687	2	2	0.00043251
Thellungiella parvula	ch2-4	13	CH_tpa_332	2	2	0.000794691
Theobroma cacao	scaffold_4	13	CH_tca_231	3	3	0.0000000697116
Vitis vinifera	chr14	13	CH_vvi_682	2	2	0.000752106
Vitis vinifera	chr4	13	CH_vvi_681	2	2	0.000752106

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