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_392	5	5	0.000861958
Arabidopsis thaliana	1	18	CH_ath_94	10	32	0.000757075
Arabidopsis thaliana	2	18	CH_ath_93	23	191	0.000739539
Arabidopsis thaliana	3	18	CH_ath_87	10	30	0.000372634
Arabidopsis thaliana	2	19	CH_ath_97	5	5	0.000421132
Brachypodium distachyon	Bd1	17	CH_bdi_197	13	41	0.000085591
Brachypodium distachyon	Bd1	18	CH_bdi_42	13	41	0.000085591
Brachypodium distachyon	Bd2	18	CH_bdi_49	10	25	0.00043612
Oryza sativa ssp. japonica	1	18	CH_osa_58	10	18	0.000000171356
Setaria italica	scaffold_5	17	CH_sit_306	6	6	0.0000564566
Setaria italica	scaffold_5	18	CH_sit_74	10	24	0.0000959771
Setaria italica	scaffold_7	18	CH_sit_86	15	74	0.000933077
Solanum lycopersicum	ch02	18	CH_sly_96	11	31	0.000689607
Vitis vinifera	chr2	17	CH_vvi_129	13	21	0.00000000276982
Vitis vinifera	chr19	18	CH_vvi_78	13	28	0.000000391438
Vitis vinifera	chr2	18	CH_vvi_61	13	21	0.00000000276982

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