PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	5	17	CH_ath_338	3	7	0.000179951
Oryza sativa ssp. japonica	11	17	CH_osa_32	9	35	5.50682e-16
Oryza sativa ssp. japonica	4	17	CH_osa_142	5	15	0.0000000704056
Oryza sativa ssp. japonica	6	17	CH_osa_260	4	12	0.0000144109
Oryza sativa ssp. japonica	6	17	CH_osa_141	6	38	0.0000000502816
Oryza sativa ssp. japonica	6	17	CH_osa_27	9	25	1.60397e-17
Oryza sativa ssp. japonica	6	18	CH_osa_35	11	175	0.00000000000033171
Populus trichocarpa	Chr17	17	CH_ptr_201	6	15	0.0000000869348
Populus trichocarpa	Chr19	17	CH_ptr_208	5	7	0.000000137358
Setaria italica	scaffold_4	17	CH_sit_102	4	4	0.000000000741736
Setaria italica	scaffold_9	17	CH_sit_210	3	3	0.00000218485
Solanum lycopersicum	ch09	17	CH_sly_454	3	3	0.000604438
Vitis vinifera	chr1	17	CH_vvi_73	6	6	0.0000000000000930199
Vitis vinifera	chr18	17	CH_vvi_359	3	4	0.000226992
Vitis vinifera	chr4	17	CH_vvi_303	3	3	0.0000568021
Vitis vinifera	chr4	17	CH_vvi_19	12	15	4.37656e-29
Vitis vinifera	chr4	18	CH_vvi_20	12	15	4.37656e-29
Zea mays	5	17	CH_zma_13	5	6	0.000000000000127427

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