PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	2	17	CH_ath_396	6	13	0.00095761
Brachypodium distachyon	Bd3	18	CH_bdi_36	10	40	0.0000146821
Oryza sativa ssp. japonica	6	18	CH_osa_85	12	105	0.00000811067
Populus trichocarpa	Chr02	17	CH_ptr_417	5	6	0.000302442
Populus trichocarpa	Chr15	17	CH_ptr_416	5	6	0.000302442
Solanum lycopersicum	ch02	17	CH_sly_352	6	10	0.000119434
Solanum lycopersicum	ch03	18	CH_sly_72	12	53	0.00000142426
Vitis vinifera	chr7	18	CH_vvi_104	19	210	0.000174397
Vitis vinifera	chr7	20	CH_vvi_8	16	209	0.00027231

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