PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Carica papaya	supercontig_119	8	CH_cpa_9	4	4	0.000793763
Carica papaya	supercontig_119	9	CH_cpa_23	4	4	0.00081777
Citrus sinensis	scaffold00031	2	CH_csi_200	10	43	0.00091664
Citrus sinensis	scaffold00033	2	CH_csi_86	10	27	0.00000568877
Citrus sinensis	scaffold00031	3	CH_csi_262	10	43	0.000959013
Citrus sinensis	scaffold00031	5	CH_csi_32	10	43	0.00091664
Citrus sinensis	scaffold00033	5	CH_csi_22	10	27	0.00000568877
Citrus sinensis	scaffold00031	6	CH_csi_40	10	43	0.000959013
Citrus sinensis	scaffold00033	6	CH_csi_25	10	27	0.00000596192
Glycine max	Gm20	2	CH_gma_68	10	12	0.0000000000464661
Glycine max	Gm20	3	CH_gma_89	10	12	0.0000000000550129
Glycine max	Gm17	4	CH_gma_61	11	226	0.0000981665
Glycine max	Gm20	5	CH_gma_29	10	12	0.0000000000464661
Glycine max	Gm20	6	CH_gma_42	10	12	0.0000000000550129
Medicago truncatula	chr3	3	CH_mtr_760	6	13	0.000311304
Solanum lycopersicum	ch02	1	CH_sly_358	4	7	0.000260055
Solanum tuberosum	chr02	1	CH_stu_463	4	8	0.000421768

GO term	Description	Number of clusters
GO:0009274	peptidoglycan-based cell wall	6
GO:0009276	Gram-negative-bacterium-type cell wall	3
GO:0009505	plant-type cell wall	24

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