PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis lyrata	scaffold_5	13	CH_aly_259	3	3	0.00000131553
Arabidopsis thaliana	3	13	CH_ath_227	3	3	0.000000876835
Capsella rubella	scaffold_2	13	CH_cru_317	3	4	0.0000127186
Capsella rubella	scaffold_4	13	CH_cru_276	3	3	0.00000318078
Capsella rubella	scaffold_5	13	CH_cru_277	3	3	0.00000318078
Carica papaya	supercontig_3	13	CH_cpa_446	2	2	0.000970827
Cucumis melo	CM3.5_scaffold00034	13	CH_cme_111	4	12	0.00000000332873
Eucalyptus grandis	scaffold_8	13	CH_egr_343	5	9	0.00000000000138708
Glycine max	Gm06	13	CH_gma_464	3	6	0.0000117407
Manihot esculenta	scaffold10217	13	CH_mes_117	3	3	0.000000270265
Medicago truncatula	chr4	13	CH_mtr_51	10	43	2.6125e-24
Medicago truncatula	chr4	14	CH_mtr_53	10	43	2.6125e-24
Oryza sativa ssp. japonica	1	13	CH_osa_692	2	2	0.000214091
Prunus persica	scaffold_8	13	CH_ppe_266	4	6	0.0000000306574
Prunus persica	scaffold_9	13	CH_ppe_315	5	33	0.000000207837
Ricinus communis	29983	13	CH_rco_195	3	4	0.00000115702
Solanum tuberosum	chr01	13	CH_stu_485	3	3	0.000000408401
Thellungiella parvula	ch5-1	13	CH_tpa_140	3	3	0.00000156311
Thellungiella parvula	ch5-6	13	CH_tpa_139	3	3	0.00000156311

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