PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	2	17	CH_ath_392	5	5	0.000861958
Arabidopsis thaliana	1	18	CH_ath_94	10	32	0.000757075
Arabidopsis thaliana	2	18	CH_ath_93	23	191	0.000739539
Arabidopsis thaliana	3	18	CH_ath_87	10	30	0.000372634
Arabidopsis thaliana	2	19	CH_ath_85	5	5	0.000414026
Arabidopsis thaliana	2	20	CH_ath_41	27	294	0.000728646
Eucalyptus grandis	scaffold_10	18	CH_egr_199	13	24	0.0000000613131
Eucalyptus grandis	scaffold_2	18	CH_egr_235	10	18	0.000017101
Eucalyptus grandis	scaffold_6	18	CH_egr_229	10	17	0.00000789772
Gossypium raimondii	Chr07	18	CH_gra_65	10	19	0.0000172474
Manihot esculenta	scaffold03604	17	CH_mes_170	9	17	0.000172601
Oryza sativa ssp. japonica	1	18	CH_osa_58	10	18	0.000000171356
Prunus persica	scaffold_4	18	CH_ppe_124	10	28	0.000967538
Prunus persica	scaffold_6	18	CH_ppe_111	18	93	0.000235392
Ricinus communis	29912	18	CH_rco_24	10	24	0.000124065
Solanum lycopersicum	ch02	18	CH_sly_96	11	31	0.000689607
Vitis vinifera	chr2	17	CH_vvi_129	13	21	0.00000000276982
Vitis vinifera	chr19	18	CH_vvi_78	13	28	0.000000391438
Vitis vinifera	chr2	18	CH_vvi_61	13	21	0.00000000276982

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