PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	4	17	CH_ath_243	4	6	0.00000867308
Oryza sativa ssp. japonica	12	17	CH_osa_196	4	5	0.00000120667
Oryza sativa ssp. japonica	12	17	CH_osa_346	3	3	0.000170653
Oryza sativa ssp. japonica	5	17	CH_osa_34	9	25	0.00000000000000226851
Oryza sativa ssp. japonica	5	18	CH_osa_46	10	146	0.00000000111431
Populus trichocarpa	Chr10	17	CH_ptr_455	3	3	0.00051868
Setaria italica	scaffold_3	17	CH_sit_122	5	6	0.00000000599538
Setaria italica	scaffold_6	17	CH_sit_384	3	3	0.00027445
Setaria italica	scaffold_9	17	CH_sit_383	3	4	0.00027445
Solanum lycopersicum	ch05	17	CH_sly_464	3	3	0.000733575
Solanum lycopersicum	ch06	17	CH_sly_200	7	39	0.000000527741
Solanum lycopersicum	ch07	17	CH_sly_126	6	11	0.0000000064365
Solanum lycopersicum	ch07	17	CH_sly_465	3	3	0.000733575
Solanum lycopersicum	ch07	18	CH_sly_70	10	153	0.000000641133
Vitis vinifera	chr1	17	CH_vvi_439	3	4	0.000909357
Vitis vinifera	chr3	17	CH_vvi_360	3	3	0.000227686

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