PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	4	18	CH_ath_97	23	231	0.000937544
Oryza sativa ssp. japonica	2	17	CH_osa_318	6	9	0.0000865034
Oryza sativa ssp. japonica	3	17	CH_osa_201	13	63	0.00000158292
Oryza sativa ssp. japonica	3	18	CH_osa_70	13	63	0.00000158292
Populus trichocarpa	Chr01	17	CH_ptr_207	8	9	0.000000110147
Setaria italica	scaffold_2	17	CH_sit_241	9	19	0.00000657051
Setaria italica	scaffold_5	17	CH_sit_378	12	56	0.00024839
Setaria italica	scaffold_9	17	CH_sit_390	11	46	0.000307215
Setaria italica	scaffold_5	18	CH_sit_78	12	56	0.00024839
Setaria italica	scaffold_9	18	CH_sit_79	11	46	0.000307215
Vitis vinifera	chr14	17	CH_vvi_98	11	13	0.0000000000110442
Vitis vinifera	chr6	17	CH_vvi_205	9	15	0.000000889996
Vitis vinifera	chr14	18	CH_vvi_52	11	13	0.0000000000110442
Zea mays	5	17	CH_zma_151	6	8	0.000104279

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