PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Carica papaya	supercontig_74	1	CH_cpa_167	2	2	0.000582496
Carica papaya	supercontig_74	2	CH_cpa_245	2	2	0.000970827
Carica papaya	supercontig_74	3	CH_cpa_363	2	2	0.000970827
Eucalyptus grandis	scaffold_11	2	CH_egr_87	7	8	1.61302e-19
Eucalyptus grandis	scaffold_11	3	CH_egr_105	7	8	1.61302e-19
Fragaria vesca	LG5	1	CH_fve_40	4	5	0.000000000225416
Fragaria vesca	LG5	2	CH_fve_55	4	5	0.00000000040574
Fragaria vesca	LG5	3	CH_fve_81	4	5	0.00000000040574
Glycine max	Gm01	1	CH_gma_160	3	3	0.00000139641
Glycine max	Gm01	2	CH_gma_202	3	3	0.00000234104
Glycine max	Gm01	3	CH_gma_249	3	3	0.00000234104
Malus domestica	10	1	CH_mdo_86	3	4	0.00000281196
Malus domestica	10	2	CH_mdo_102	3	4	0.00000365548
Malus domestica	10	3	CH_mdo_39	4	5	0.00000000147645
Medicago truncatula	chr8	1	CH_mtr_549	2	2	0.000644251
Prunus persica	scaffold_5	1	CH_ppe_139	3	3	0.000000155893
Prunus persica	scaffold_5	2	CH_ppe_179	3	3	0.000000436501
Prunus persica	scaffold_5	3	CH_ppe_219	3	3	0.000000436501
Theobroma cacao	scaffold_3	1	CH_tca_297	2	2	0.00068171
Vitis vinifera	chr2	1	CH_vvi_301	2	2	0.000752106

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