PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Brassica rapa	A06	17	CH_bra_186	3	3	0.0000526647
Chlamydomonas reinhardtii	chromosome_11	17	CH_cre_38	3	3	0.0000788161
Chlamydomonas reinhardtii	chromosome_14	17	CH_cre_74	3	5	0.000786256
Chlamydomonas reinhardtii	chromosome_17	17	CH_cre_28	4	7	0.0000042212
Chlamydomonas reinhardtii	chromosome_3	17	CH_cre_39	3	3	0.0000788161
Citrus sinensis	scaffold00027	17	CH_csi_191	3	5	0.00031442
Gossypium raimondii	Chr04	17	CH_gra_128	4	4	0.0000000517436
Gossypium raimondii	Chr06	17	CH_gra_127	4	4	0.0000000517436
Oryza sativa ssp. japonica	7	17	CH_osa_109	5	7	0.00000000623484
Oryza sativa ssp. japonica	7	17	CH_osa_110	5	7	0.00000000623484
Oryza sativa ssp. japonica	8	17	CH_osa_98	5	6	0.00000000178341
Oryza sativa ssp. japonica	9	17	CH_osa_14	10	14	1.13565e-21
Oryza sativa ssp. japonica	9	18	CH_osa_16	10	14	1.13565e-21
Populus trichocarpa	Chr01	17	CH_ptr_419	3	3	0.000331859
Populus trichocarpa	Chr04	17	CH_ptr_121	6	9	0.000000000205456
Populus trichocarpa	Chr09	17	CH_ptr_24	11	14	1.92562e-23
Populus trichocarpa	Chr14	17	CH_ptr_231	4	4	0.000000655209
Populus trichocarpa	Chr09	18	CH_ptr_23	11	14	1.92562e-23
Solanum lycopersicum	ch01	17	CH_sly_71	6	7	0.00000000000747304
Solanum lycopersicum	ch04	17	CH_sly_191	4	4	0.000000364148
Solanum lycopersicum	ch09	17	CH_sly_103	5	5	0.000000000629215

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