PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	2	17	CH_ath_81	8	14	0.00000000000135527
Brachypodium distachyon	Bd1	17	CH_bdi_178	4	6	0.0000319534
Brachypodium distachyon	Bd3	17	CH_bdi_158	4	5	0.0000106763
Brachypodium distachyon	Bd4	17	CH_bdi_257	3	3	0.000727735
Brachypodium distachyon	Bd4	17	CH_bdi_258	3	3	0.000727735
Oryza sativa ssp. japonica	4	17	CH_osa_107	5	6	0.00000000558354
Oryza sativa ssp. japonica	4	17	CH_osa_77	9	65	0.000000000216077
Oryza sativa ssp. japonica	5	17	CH_osa_102	6	13	0.00000000269504
Oryza sativa ssp. japonica	4	18	CH_osa_60	10	203	0.000000235176
Populus trichocarpa	Chr01	17	CH_ptr_15	19	48	4.1456e-31
Populus trichocarpa	Chr04	17	CH_ptr_197	5	6	0.0000000741167
Populus trichocarpa	Chr01	18	CH_ptr_13	19	48	4.1456e-31
Setaria italica	scaffold_7	17	CH_sit_91	6	8	0.000000000127459
Setaria italica	scaffold_7	18	CH_sit_59	11	299	0.00000380174
Solanum lycopersicum	ch01	17	CH_sly_203	4	4	0.000000556865
Solanum lycopersicum	ch01	17	CH_sly_397	3	3	0.00028437
Solanum lycopersicum	ch02	17	CH_sly_396	3	3	0.00028437
Vitis vinifera	chr13	17	CH_vvi_6	18	21	1.75043e-36
Vitis vinifera	chr7	17	CH_vvi_184	5	6	0.000000201426
Vitis vinifera	chr13	18	CH_vvi_6	18	21	1.75043e-36
Zea mays	1	17	CH_zma_59	6	16	0.0000000701003
Zea mays	1	17	CH_zma_210	3	3	0.00054098
Zea mays	10	17	CH_zma_211	3	3	0.00054098

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