PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00109	13	CH_atr_410	2	2	0.000237107
Arabidopsis lyrata	scaffold_7	13	CH_aly_571	2	2	0.000631373
Arabidopsis thaliana	4	13	CH_ath_535	2	2	0.000595203
Beta vulgaris	Bvchr2.sca003	13	CH_bvu_81	4	4	0.000000000189106
Capsella rubella	scaffold_7	13	CH_cru_538	2	2	0.000763242
Citrullus lanatus	Chr6	13	CH_cla_362	2	2	0.000255341
Eucalyptus grandis	scaffold_3	13	CH_egr_729	3	3	0.000000614478
Eucalyptus grandis	scaffold_7	13	CH_egr_730	3	3	0.000000614478
Fragaria vesca	LG2	13	CH_fve_95	4	4	0.00000000000966191
Malus domestica	15	13	CH_mdo_302	2	2	0.0000461585
Malus domestica	15	15	CH_mdo_7	2	2	0.0000461585
Medicago truncatula	chr3	13	CH_mtr_1122	2	2	0.000460179
Medicago truncatula	chr6	13	CH_mtr_547	3	6	0.000000564631
Oryza sativa ssp. japonica	6	13	CH_osa_685	2	2	0.000214091
Oryza sativa ssp. japonica	6	15	CH_osa_55	2	2	0.000214091
Populus trichocarpa	Chr08	13	CH_ptr_404	3	3	0.00000169281
Populus trichocarpa	Chr13	13	CH_ptr_449	3	4	0.00000676955
Populus trichocarpa	Chr13	13	CH_ptr_156	6	26	0.00000000000791055
Ricinus communis	30073	13	CH_rco_19	7	10	1.01699e-18
Solanum tuberosum	chr08	13	CH_stu_420	3	3	0.0000000486191

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