PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis lyrata	scaffold_2	13	CH_aly_204	6	18	0.000000154256
Arabidopsis lyrata	scaffold_8	13	CH_aly_100	7	13	0.0000000000351058
Arabidopsis lyrata	scaffold_8	15	CH_aly_2	6	11	0.000000000111383
Arabidopsis thaliana	4	13	CH_ath_236	4	4	0.00000110652
Arabidopsis thaliana	4	13	CH_ath_54	8	13	0.0000000000000378835
Arabidopsis thaliana	5	13	CH_ath_171	7	30	0.0000000259015
Brassica rapa	A03	13	CH_bra_382	3	3	0.000292082
Capsella rubella	scaffold_2	13	CH_cru_432	3	3	0.000181977
Capsella rubella	scaffold_8	13	CH_cru_237	5	13	0.000000760437
Glycine max	Gm12	13	CH_gma_400	4	10	0.00000290692
Malus domestica	6	13	CH_mdo_127	4	6	0.000000121168
Medicago truncatula	chr3	13	CH_mtr_154	7	15	0.0000000000000190962
Medicago truncatula	chr7	13	CH_mtr_1104	3	6	0.000400066
Populus trichocarpa	Chr19	13	CH_ptr_164	7	31	0.0000000000133122
Populus trichocarpa	scaffold_20	13	CH_ptr_20	15	42	4.67025e-33
Populus trichocarpa	Chr19	14	CH_ptr_84	10	188	0.0000000000133784
Populus trichocarpa	scaffold_20	14	CH_ptr_20	15	42	4.67025e-33
Ricinus communis	29801	13	CH_rco_247	3	5	0.0000317988
Thellungiella parvula	ch2-1	13	CH_tpa_193	4	15	0.0000483721

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