PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Gossypium raimondii	Chr13	1	CH_gra_234	3	3	0.0002344
Gossypium raimondii	Chr13	2	CH_gra_288	3	3	0.000255383
Gossypium raimondii	Chr13	3	CH_gra_343	3	3	0.000289147
Populus trichocarpa	Chr11	1	CH_ptr_172	4	4	0.000000648186
Populus trichocarpa	Chr11	2	CH_ptr_193	4	4	0.000000715056
Populus trichocarpa	Chr11	3	CH_ptr_259	4	4	0.000000904845
Populus trichocarpa	Chr11	7	CH_ptr_5	4	4	0.000000288739
Populus trichocarpa	Chr11	8	CH_ptr_2	4	4	0.000000328184
Populus trichocarpa	Chr11	9	CH_ptr_3	4	4	0.00000044445

GO term	Description	Number of clusters
GO:0009654	photosystem II oxygen evolving complex	10
GO:0009783	photosystem II antenna complex	2
GO:0030095	chloroplast photosystem II	1

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