PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Brachypodium distachyon	Bd3	17	CH_bdi_45	4	4	0.0000000000900514
Oryza sativa ssp. japonica	2	17	CH_osa_78	4	5	0.000000000227898
Physcomitrella patens	scaffold_100	17	CH_ppa_8	4	10	0.000000440959
Physcomitrella patens	scaffold_43	17	CH_ppa_42	3	9	0.0003786
Populus trichocarpa	Chr10	17	CH_ptr_449	2	2	0.000499813
Setaria italica	scaffold_1	17	CH_sit_53	5	6	0.000000000000116208
Setaria italica	scaffold_7	17	CH_sit_214	3	4	0.00000230448
Solanum lycopersicum	ch03	17	CH_sly_403	3	10	0.000333624
Solanum lycopersicum	ch09	17	CH_sly_106	4	4	0.00000000104308
Vitis vinifera	chr11	17	CH_vvi_237	4	14	0.00000313197
Vitis vinifera	chr16	17	CH_vvi_25	9	13	2.76008e-23
Zea mays	5	17	CH_zma_22	4	4	0.0000000000685497

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