PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	4	13	CH_ath_404	12	39	0.0000739581
Arabidopsis thaliana	4	14	CH_ath_45	12	39	0.0000739581
Brachypodium distachyon	Bd3	13	CH_bdi_136	12	18	0.0000000433718
Brachypodium distachyon	Bd3	14	CH_bdi_23	12	18	0.0000000433718
Chlamydomonas reinhardtii	chromosome_11	13	CH_cre_88	6	6	0.000082232
Oryza sativa ssp. indica	Chr12	14	CH_osaindica_103	20	112	0.0000196763
Oryza sativa ssp. indica	Chr03	16	CH_osaindica_3	15	96	0.000283105
Populus trichocarpa	Chr17	14	CH_ptr_58	31	66	3.60954e-19
Setaria italica	scaffold_8	13	CH_sit_406	14	40	0.00000660198
Setaria italica	scaffold_8	14	CH_sit_71	33	249	0.0000465633
Setaria italica	scaffold_8	14	CH_sit_68	14	40	0.00000660198
Solanum lycopersicum	ch03	14	CH_sly_67	20	101	0.0000119779
Vitis vinifera	chrUn	13	CH_vvi_519	10	22	0.00018422
Vitis vinifera	chrUn	14	CH_vvi_90	10	22	0.00018422
Vitis vinifera	chr19	15	CH_vvi_25	7	9	0.0000365584
Vitis vinifera	chr19	16	CH_vvi_1	13	47	0.0000634516

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