PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Brachypodium distachyon	Bd1	17	CH_bdi_227	3	3	0.000322585
Brachypodium distachyon	Bd1	17	CH_bdi_145	5	16	0.00000671891
Brachypodium distachyon	Bd3	17	CH_bdi_121	5	13	0.00000199058
Oryza sativa ssp. japonica	8	17	CH_osa_97	5	7	0.0000000015438
Populus trichocarpa	Chr06	17	CH_ptr_402	3	3	0.000263434
Populus trichocarpa	Chr15	17	CH_ptr_283	6	39	0.00000476121
Populus trichocarpa	Chr18	17	CH_ptr_173	5	7	0.0000000181071
Populus trichocarpa	Chr15	19	CH_ptr_4	6	39	0.00000135216
Setaria italica	scaffold_2	17	CH_sit_164	4	4	0.000000199584
Setaria italica	scaffold_9	17	CH_sit_341	3	3	0.000133107
Solanum lycopersicum	ch01	17	CH_sly_338	3	3	0.0000806763
Solanum lycopersicum	ch07	17	CH_sly_173	4	4	0.000000102225
Vitis vinifera	chr11	17	CH_vvi_167	4	4	0.0000000612328
Vitis vinifera	chr12	17	CH_vvi_300	3	3	0.0000519333
Zea mays	1	17	CH_zma_153	3	3	0.000107946
Zea mays	7	17	CH_zma_92	4	6	0.00000239135

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