PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00024	2	CH_atr_200	9	52	0.00028952
Amborella trichopoda	scaffold00024	3	CH_atr_300	9	52	0.00028952
Amborella trichopoda	scaffold00024	6	CH_atr_80	10	70	0.000304543
Eucalyptus grandis	scaffold_1	2	CH_egr_438	6	6	0.000000458511
Solanum tuberosum	chr09	5	CH_stu_131	10	48	0.0000166989
Solanum tuberosum	chr09	6	CH_stu_175	10	48	0.0000170589
Thellungiella parvula	ch7-4	2	CH_tpa_30	8	8	0.00000000088276
Thellungiella parvula	ch7-4	3	CH_tpa_34	8	8	0.000000000924052
Thellungiella parvula	ch7-4	5	CH_tpa_11	12	34	0.0000000569227
Thellungiella parvula	ch7-4	6	CH_tpa_12	12	34	0.0000000608291

GO term	Description	Number of clusters
GO:0009738	abscisic acid-activated signaling pathway	2
GO:0009787	regulation of abscisic acid-activated signaling pathway	2
GO:0009788	negative regulation of abscisic acid-activated signaling pathway	35
GO:0009789	positive regulation of abscisic acid-activated signaling pathway	1
GO:0010231	maintenance of seed dormancy	6

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