PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Oryza sativa ssp. indica	Chr01	13	CH_osaindica_428	3	3	0.00000158934
Oryza sativa ssp. indica	Chr10	13	CH_osaindica_140	5	6	0.000000000000649981
Oryza sativa ssp. japonica	10	13	CH_osa_245	4	6	0.0000000079206
Populus trichocarpa	Chr10	13	CH_ptr_499	3	3	0.0000265641
Populus trichocarpa	Chr13	13	CH_ptr_572	3	4	0.000106188
Populus trichocarpa	scaffold_32	13	CH_ptr_573	3	4	0.000106188
Setaria italica	scaffold_9	13	CH_sit_290	4	7	0.000000237636
Setaria italica	scaffold_9	13	CH_sit_554	3	6	0.000109539
Solanum lycopersicum	ch01	13	CH_sly_383	3	3	0.0000056291
Solanum lycopersicum	ch05	13	CH_sly_382	3	3	0.0000056291
Solanum lycopersicum	ch05	13	CH_sly_444	3	4	0.0000225075
Vitis vinifera	chr12	13	CH_vvi_401	3	3	0.0000130673
Vitis vinifera	chr5	13	CH_vvi_202	4	4	0.00000000933731
Zea mays	5	13	CH_zma_271	3	5	0.0000201766

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