PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00149	13	CH_atr_65	5	5	0.00000000000127862
Arabidopsis lyrata	scaffold_4	13	CH_aly_81	6	7	0.000000000000962667
Arabidopsis lyrata	scaffold_5	13	CH_aly_393	3	3	0.000073795
Arabidopsis thaliana	2	13	CH_ath_105	5	5	0.000000000102242
Arabidopsis thaliana	3	13	CH_ath_401	3	3	0.0000703806
Beta vulgaris	Bvchr4.sca001	13	CH_bvu_87	4	4	0.000000000340391
Brassica rapa	A09	13	CH_bra_147	4	4	0.000000248188
Capsella rubella	scaffold_2	13	CH_cru_477	3	4	0.000344963
Capsella rubella	scaffold_4	13	CH_cru_410	3	3	0.0000863355
Capsella rubella	scaffold_5	13	CH_cru_411	3	3	0.0000863355
Capsella rubella	scaffold_6	13	CH_cru_202	4	4	0.000000121915
Fragaria vesca	LG3	13	CH_fve_70	5	5	0.000000000000193057
Oryza sativa ssp. japonica	4	13	CH_osa_149	5	7	0.000000000016785
Oryza sativa ssp. japonica	9	13	CH_osa_500	3	4	0.0000198557
Populus trichocarpa	Chr04	13	CH_ptr_145	5	6	0.00000000000321835
Solanum lycopersicum	ch02	13	CH_sly_379	3	3	0.00000478473
Solanum tuberosum	chr01	13	CH_stu_627	3	3	0.00000748735
Thellungiella parvula	ch2-2	13	CH_tpa_191	3	3	0.000046988
Thellungiella parvula	ch4-6	13	CH_tpa_9	7	7	6.6803e-17
Thellungiella parvula	ch5-1	13	CH_tpa_190	3	3	0.000046988
Theobroma cacao	scaffold_1	13	CH_tca_355	3	3	0.00000568847
Theobroma cacao	scaffold_6	13	CH_tca_356	3	3	0.00000568847
Zea mays	1	13	CH_zma_234	3	3	0.00000584272

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