PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00013	3	CH_atr_344	2	2	0.000790358
Beta vulgaris	0027.scaffold00104	1	CH_bvu_202	2	2	0.000579374
Beta vulgaris	0027.scaffold00104	2	CH_bvu_268	2	2	0.000579374
Beta vulgaris	0027.scaffold00104	3	CH_bvu_359	2	2	0.000965624
Carica papaya	supercontig_64	3	CH_cpa_307	2	2	0.000582496
Citrus sinensis	scaffold00004	3	CH_csi_198	2	2	0.000347443
Eucalyptus grandis	scaffold_10	1	CH_egr_364	3	5	0.00000102393
Eucalyptus grandis	scaffold_10	2	CH_egr_461	3	5	0.00000102393
Eucalyptus grandis	scaffold_10	3	CH_egr_587	3	5	0.00000614253
Eucalyptus grandis	scaffold_6	3	CH_egr_557	3	4	0.00000245746
Gossypium raimondii	Chr13	3	CH_gra_410	2	2	0.000801432
Medicago truncatula	chr1	3	CH_mtr_860	2	2	0.000859001
Medicago truncatula	chr7	3	CH_mtr_355	3	4	0.000000316217
Oryza sativa ssp. japonica	11	3	CH_osa_212	3	8	0.00000213838
Populus trichocarpa	Chr05	3	CH_ptr_550	2	2	0.000747031
Ricinus communis	29648	3	CH_rco_245	2	2	0.000294594
Theobroma cacao	scaffold_8	3	CH_tca_391	2	2	0.000409026
Vitis vinifera	chr18	3	CH_vvi_422	2	2	0.000451264
Zea mays	4	1	CH_zma_220	2	2	0.000754375
Zea mays	4	2	CH_zma_236	2	2	0.000754375

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