PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Brachypodium distachyon	Bd3	13	CH_bdi_116	4	5	0.00000000865287
Oryza sativa ssp. japonica	8	13	CH_osa_798	3	17	0.000589424
Physcomitrella patens	scaffold_14	13	CH_ppa_25	3	4	0.00000220251
Populus trichocarpa	Chr01	13	CH_ptr_325	4	6	0.000000174713
Populus trichocarpa	Chr06	13	CH_ptr_416	4	10	0.00000244048
Populus trichocarpa	Chr09	13	CH_ptr_295	4	5	0.0000000582704
Populus trichocarpa	Chr18	13	CH_ptr_43	10	16	4.73414e-24
Populus trichocarpa	Chr18	14	CH_ptr_44	10	16	4.73414e-24
Setaria italica	scaffold_5	13	CH_sit_344	3	3	0.00000136344
Vitis vinifera	chr4	13	CH_vvi_251	4	9	0.000000114819

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