PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00010	13	CH_atr_229	3	3	0.00000154611
Arabidopsis lyrata	scaffold_3	13	CH_aly_316	3	3	0.00001059
Arabidopsis thaliana	3	13	CH_ath_302	3	3	0.00000941136
Beta vulgaris	Bvchr2.sca001	13	CH_bvu_76	5	6	0.0000000000454788
Brassica rapa	A09	13	CH_bra_253	3	3	0.0000149958
Carica papaya	supercontig_1	13	CH_cpa_64	4	4	0.00000000653411
Carica papaya	supercontig_2	13	CH_cpa_75	4	5	0.0000000326525
Eucalyptus grandis	scaffold_2	13	CH_egr_1026	3	3	0.000072662
Eucalyptus grandis	scaffold_7	13	CH_egr_128	11	28	3.88146e-21
Eucalyptus grandis	scaffold_7	14	CH_egr_110	11	28	3.88146e-21
Fragaria vesca	scf0513158	13	CH_fve_77	5	5	0.00000000000112131
Glycine max	Gm05	13	CH_gma_481	3	3	0.0000187673
Gossypium raimondii	Chr02	13	CH_gra_80	7	12	0.00000000000000487046
Malus domestica	13	13	CH_mdo_74	4	4	0.00000000215834
Medicago truncatula	chr8	13	CH_mtr_757	3	5	0.0000217314
Oryza sativa ssp. japonica	3	13	CH_osa_304	4	7	0.0000000836332
Populus trichocarpa	Chr10	13	CH_ptr_255	4	4	0.00000000880191
Prunus persica	scaffold_1	13	CH_ppe_76	8	17	8.33924e-17
Ricinus communis	29692	13	CH_rco_228	3	3	0.0000098362
Theobroma cacao	scaffold_2	13	CH_tca_213	4	4	0.0000000341809
Theobroma cacao	scaffold_2	13	CH_tca_104	6	10	0.0000000000062862
Theobroma cacao	scaffold_3	13	CH_tca_112	6	11	0.0000000000138187
Vitis vinifera	chr1	13	CH_vvi_405	3	3	0.0000150274
Vitis vinifera	chr1	13	CH_vvi_103	6	7	0.0000000000000382541
Vitis vinifera	chr3	13	CH_vvi_406	3	3	0.0000150274
Zea mays	5	13	CH_zma_143	4	7	0.000000079854

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