PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	3	17	CH_ath_360	2	2	0.000357122
Brachypodium distachyon	Bd5	17	CH_bdi_137	3	4	0.00000409318
Chlamydomonas reinhardtii	chromosome_12	17	CH_cre_10	4	4	0.000000000556577
Chlamydomonas reinhardtii	chromosome_12	19	CH_cre_1	4	4	0.000000000154605
Populus trichocarpa	Chr06	17	CH_ptr_448	2	2	0.000499813
Populus trichocarpa	Chr16	17	CH_ptr_447	2	2	0.000499813
Setaria italica	scaffold_3	17	CH_sit_94	4	4	0.000000000179321
Setaria italica	scaffold_7	17	CH_sit_107	4	5	0.000000000896437
Vitis vinifera	chr4	17	CH_vvi_429	2	2	0.00076063
Zea mays	2	17	CH_zma_86	3	4	0.00000159261

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