PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	5	13	CH_ath_479	3	3	0.000316936
Brachypodium distachyon	Bd2	13	CH_bdi_490	3	3	0.00092716
Oryza sativa ssp. indica	Chr07	13	CH_osaindica_459	6	13	0.00000310624
Oryza sativa ssp. indica	Chr11	13	CH_osaindica_722	5	11	0.000149114
Oryza sativa ssp. indica	Chr10	14	CH_osaindica_111	10	123	0.000155245
Oryza sativa ssp. japonica	4	13	CH_osa_532	11	32	0.0000331726
Oryza sativa ssp. japonica	5	13	CH_osa_536	13	49	0.0000349758
Oryza sativa ssp. japonica	8	13	CH_osa_208	20	77	0.00000000136645
Oryza sativa ssp. japonica	8	14	CH_osa_78	31	171	0.00000000000753391
Oryza sativa ssp. japonica	10	15	CH_osa_33	13	42	0.00000238224
Oryza sativa ssp. japonica	4	15	CH_osa_49	11	32	0.0000209678
Oryza sativa ssp. japonica	5	15	CH_osa_51	9	19	0.0000279432
Oryza sativa ssp. japonica	8	15	CH_osa_25	17	77	0.0000010222
Oryza sativa ssp. japonica	10	16	CH_osa_21	13	42	0.00000238224
Oryza sativa ssp. japonica	11	16	CH_osa_24	31	292	0.00000562246
Solanum lycopersicum	ch01	13	CH_sly_14	13	13	1.0663e-28
Solanum lycopersicum	ch01	13	CH_sly_113	8	13	0.000000000000520095
Solanum lycopersicum	ch01	14	CH_sly_15	13	13	1.0663e-28
Solanum lycopersicum	ch01	15	CH_sly_4	7	13	0.0000000000197899
Sorghum bicolor	chr_10	13	CH_sbi_59	12	37	2.698e-16
Sorghum bicolor	chr_10	14	CH_sbi_36	12	37	2.698e-16

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