PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	3	17	CH_ath_240	4	5	0.00000736123
Brachypodium distachyon	Bd1	17	CH_bdi_79	5	5	0.0000000442974
Brachypodium distachyon	Bd2	17	CH_bdi_156	4	4	0.0000102154
Brachypodium distachyon	Bd2	17	CH_bdi_155	4	4	0.0000102154
Brachypodium distachyon	Bd4	17	CH_bdi_243	5	19	0.000489602
Oryza sativa ssp. japonica	8	17	CH_osa_93	6	9	0.00000000134662
Populus trichocarpa	Chr01	17	CH_ptr_60	9	11	0.00000000000000578542
Populus trichocarpa	Chr01	17	CH_ptr_108	7	8	0.0000000000326788
Populus trichocarpa	Chr05	17	CH_ptr_236	5	6	0.000000929241
Populus trichocarpa	Chr08	17	CH_ptr_328	4	4	0.000030066
Populus trichocarpa	Chr10	17	CH_ptr_481	6	33	0.000787147
Populus trichocarpa	Chr13	17	CH_ptr_37	12	22	8.31232e-18
Populus trichocarpa	Chr13	18	CH_ptr_33	12	22	8.31232e-18
Setaria italica	scaffold_6	17	CH_sit_143	6	9	0.0000000344129
Setaria italica	scaffold_8	17	CH_sit_385	6	31	0.000276017
Solanum lycopersicum	ch02	17	CH_sly_223	5	7	0.00000228404
Solanum lycopersicum	ch02	19	CH_sly_13	4	4	0.00000630971
Vitis vinifera	chr12	17	CH_vvi_9	18	20	9.06602e-35
Vitis vinifera	chr9	17	CH_vvi_79	10	21	0.000000000000270835
Vitis vinifera	chr12	18	CH_vvi_9	18	20	9.06602e-35
Vitis vinifera	chr16	18	CH_vvi_56	10	39	0.000000000446459
Vitis vinifera	chr9	18	CH_vvi_48	10	21	0.000000000000270835
Vitis vinifera	chr9	19	CH_vvi_20	5	18	0.0000501207
Zea mays	3	17	CH_zma_71	5	7	0.000000293208
Zea mays	6	17	CH_zma_101	4	4	0.00000416153

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