PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Brachypodium distachyon	Bd1	17	CH_bdi_133	4	4	0.00000314103
Brachypodium distachyon	Bd2	17	CH_bdi_269	3	3	0.000968641
Brachypodium distachyon	Bd4	17	CH_bdi_132	4	4	0.00000314103
Chlamydomonas reinhardtii	chromosome_14	17	CH_cre_22	4	4	0.00000059965
Chlamydomonas reinhardtii	chromosome_14	17	CH_cre_27	4	5	0.00000299262
Oryza sativa ssp. japonica	1	17	CH_osa_194	4	5	0.00000109116
Oryza sativa ssp. japonica	9	17	CH_osa_20	9	12	1.9636e-19
Oryza sativa ssp. japonica	9	18	CH_osa_23	10	24	2.19943e-18
Populus trichocarpa	Chr04	17	CH_ptr_69	7	7	0.0000000000000196599
Populus trichocarpa	Chr07	17	CH_ptr_249	5	11	0.00000160877
Setaria italica	scaffold_6	17	CH_sit_131	5	5	0.0000000159338
Setaria italica	scaffold_7	17	CH_sit_206	5	9	0.00000198538
Setaria italica	scaffold_7	17	CH_sit_328	4	6	0.000071207
Setaria italica	scaffold_8	17	CH_sit_132	5	5	0.0000000159338
Setaria italica	scaffold_7	18	CH_sit_68	11	242	0.0000311481
Solanum lycopersicum	ch02	17	CH_sly_92	8	37	0.000000000204194
Solanum lycopersicum	ch02	17	CH_sly_388	3	3	0.000260682
Solanum lycopersicum	ch03	17	CH_sly_459	4	15	0.000665042
Solanum lycopersicum	ch07	17	CH_sly_386	3	3	0.000260682
Solanum lycopersicum	ch12	17	CH_sly_387	3	3	0.000260682
Solanum lycopersicum	ch02	19	CH_sly_22	3	3	0.000137918
Vitis vinifera	chr12	17	CH_vvi_124	5	6	0.00000000206245
Vitis vinifera	chr18	17	CH_vvi_341	3	3	0.000131743
Zea mays	2	17	CH_zma_189	5	22	0.000303098

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