PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Brachypodium distachyon	Bd2	13	CH_bdi_182	3	3	0.00000101388
Brachypodium distachyon	Bd3	13	CH_bdi_250	3	5	0.0000101341
Populus trichocarpa	Chr14	13	CH_ptr_397	4	14	0.0000014332
Populus trichocarpa	Chr15	13	CH_ptr_216	4	4	0.00000000143641
Setaria italica	scaffold_5	13	CH_sit_190	4	5	0.00000000268968
Solanum lycopersicum	ch01	13	CH_sly_405	3	7	0.00000967282
Sorghum bicolor	chr_2	13	CH_sbi_159	4	4	0.000000000805466
Sorghum bicolor	chr_3	13	CH_sbi_90	5	5	0.000000000000257652
Zea mays	3	13	CH_zma_72	4	4	0.000000000272866
Zea mays	7	13	CH_zma_187	3	3	0.00000108508

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