PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	5	17	CH_ath_325	3	3	0.000172758
Populus trichocarpa	Chr01	17	CH_ptr_237	4	4	0.000000957191
Populus trichocarpa	Chr03	17	CH_ptr_388	4	10	0.000198916
Populus trichocarpa	Chr05	17	CH_ptr_432	3	3	0.000440231
Populus trichocarpa	Chr06	17	CH_ptr_191	5	7	0.0000000430492
Solanum lycopersicum	ch01	17	CH_sly_441	3	3	0.000527369
Solanum lycopersicum	ch01	17	CH_sly_160	5	7	0.0000000637798
Solanum lycopersicum	ch07	17	CH_sly_440	3	3	0.000527369
Solanum lycopersicum	ch10	17	CH_sly_192	5	9	0.000000381152
Solanum lycopersicum	ch11	17	CH_sly_259	4	5	0.00000636616
Solanum lycopersicum	ch01	19	CH_sly_12	4	6	0.00000617786
Vitis vinifera	chr16	17	CH_vvi_191	4	4	0.000000304078
Vitis vinifera	chr6	17	CH_vvi_214	4	5	0.0000015182

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