PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis lyrata	scaffold_1	13	CH_aly_584	2	2	0.000631373
Arabidopsis thaliana	1	13	CH_ath_582	2	2	0.000892804
Beta vulgaris	0090.scaffold00321	13	CH_bvu_188	3	4	0.00000111879
Capsella rubella	scaffold_1	13	CH_cru_552	2	2	0.000763242
Carica papaya	supercontig_27	13	CH_cpa_35	4	5	0.0000000000137265
Cucumis melo	CM3.5_scaffold00019	13	CH_cme_163	3	5	0.000000351526
Eucalyptus grandis	scaffold_6	13	CH_egr_756	3	5	0.00000102393
Eucalyptus grandis	scaffold_6	13	CH_egr_715	3	4	0.000000409613
Fragaria vesca	LG7	13	CH_fve_15	9	12	2.83614e-27
Gossypium raimondii	Chr02	13	CH_gra_118	4	4	0.00000000000686394
Gossypium raimondii	Chr13	13	CH_gra_594	2	2	0.000801432
Malus domestica	10	13	CH_mdo_67	4	7	0.00000000130075
Medicago truncatula	chr3	13	CH_mtr_1190	2	2	0.000644251
Medicago truncatula	chr6	13	CH_mtr_641	3	8	0.00000276625
Oryza sativa ssp. japonica	9	13	CH_osa_556	2	2	0.0000356818
Populus trichocarpa	Chr11	13	CH_ptr_204	4	5	0.000000000389064
Prunus persica	scaffold_3	13	CH_ppe_237	4	5	0.00000000278076
Prunus persica	scaffold_4	13	CH_ppe_84	6	7	2.83295e-16
Vitis vinifera	chr19	13	CH_vvi_29	9	11	1.75743e-26
Zea mays	7	13	CH_zma_402	2	2	0.000150875

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