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_121	6	18	0.00000000217693
Arabidopsis thaliana	4	17	CH_ath_21	9	10	1.58266e-21
Arabidopsis thaliana	5	17	CH_ath_300	3	3	0.0000703806
Arabidopsis thaliana	4	18	CH_ath_48	10	195	0.00000000239779
Brachypodium distachyon	Bd1	17	CH_bdi_26	6	8	0.000000000000206555
Brachypodium distachyon	Bd4	17	CH_bdi_229	3	6	0.000344619
Oryza sativa ssp. japonica	12	17	CH_osa_210	3	5	0.00000231185
Oryza sativa ssp. japonica	3	17	CH_osa_131	4	14	0.0000000290075
Populus trichocarpa	Chr04	17	CH_ptr_157	4	4	0.00000000560037
Populus trichocarpa	Chr09	17	CH_ptr_158	4	4	0.00000000560037
Setaria italica	scaffold_3	17	CH_sit_58	6	7	0.000000000000212183
Setaria italica	scaffold_7	17	CH_sit_17	9	11	1.01775e-21
Setaria italica	scaffold_9	17	CH_sit_14	10	13	4.19012e-24
Setaria italica	scaffold_9	18	CH_sit_16	10	13	4.19012e-24
Solanum lycopersicum	ch01	17	CH_sly_300	3	3	0.0000271459
Solanum lycopersicum	ch08	17	CH_sly_26	8	10	4.13298e-19
Vitis vinifera	chr3	17	CH_vvi_148	6	77	0.0000000228787
Vitis vinifera	chr3	19	CH_vvi_9	3	3	0.00000143198
Zea mays	1	17	CH_zma_19	5	7	0.0000000000106243

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