PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Citrullus lanatus	Chr1	2	CH_cla_133	3	3	0.0000539001
Citrullus lanatus	Chr1	3	CH_cla_170	3	3	0.0000539001
Fragaria vesca	LG6	2	CH_fve_220	4	18	0.0000904552
Fragaria vesca	LG6	3	CH_fve_288	4	18	0.0000904552
Glycine max	Gm13	2	CH_gma_376	3	4	0.00035848
Glycine max	Gm13	3	CH_gma_493	3	4	0.000375545
Malus domestica	17	2	CH_mdo_120	4	11	0.00000981188
Malus domestica	17	3	CH_mdo_158	4	11	0.00000981188
Medicago truncatula	chr6	2	CH_mtr_380	4	15	0.00000637306
Populus trichocarpa	Chr04	2	CH_ptr_47	8	13	2.30783e-16
Populus trichocarpa	Chr04	3	CH_ptr_58	8	13	2.30783e-16
Prunus persica	scaffold_3	2	CH_ppe_66	7	17	0.00000000000143251
Prunus persica	scaffold_3	3	CH_ppe_82	7	17	0.00000000000143251
Solanum lycopersicum	ch02	2	CH_sly_209	4	6	0.00000115164
Solanum lycopersicum	ch02	3	CH_sly_269	4	6	0.00000126393
Solanum tuberosum	chr02	2	CH_stu_272	4	6	0.000000839516
Solanum tuberosum	chr02	3	CH_stu_394	4	6	0.00000102296

GO term	Description	Number of clusters
GO:0009585	red, far-red light phototransduction	1
GO:0010018	far-red light signaling pathway	5

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