PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Brachypodium distachyon	Bd2	17	CH_bdi_177	4	6	0.0000319534
Oryza sativa ssp. japonica	11	17	CH_osa_391	3	3	0.000404537
Oryza sativa ssp. japonica	12	17	CH_osa_255	4	6	0.0000114922
Populus trichocarpa	Chr01	17	CH_ptr_484	3	3	0.000854081
Populus trichocarpa	Chr03	17	CH_ptr_255	4	4	0.00000232661
Populus trichocarpa	Chr11	17	CH_ptr_67	8	11	0.0000000000000191324
Populus trichocarpa	Chr11	18	CH_ptr_72	10	74	0.000000000483186
Setaria italica	scaffold_5	17	CH_sit_207	4	4	0.00000204555
Setaria italica	scaffold_5	17	CH_sit_254	4	5	0.0000102055
Solanum lycopersicum	ch04	17	CH_sly_241	4	4	0.00000382437
Solanum lycopersicum	ch05	17	CH_sly_94	6	7	0.000000000265496
Solanum lycopersicum	ch10	17	CH_sly_242	4	4	0.00000382437
Solanum lycopersicum	ch05	18	CH_sly_81	10	173	0.0000109033
Vitis vinifera	chr17	17	CH_vvi_207	4	4	0.00000107528

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