PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	1	13	CH_ath_464	3	3	0.00021103
Arabidopsis thaliana	2	13	CH_ath_55	7	9	0.0000000000000695633
Arabidopsis thaliana	5	13	CH_ath_465	3	3	0.00021103
Brachypodium distachyon	Bd3	13	CH_bdi_3	17	19	7.51371e-38
Brachypodium distachyon	Bd3	14	CH_bdi_3	17	19	7.51371e-38
Musa acuminata	chr9	13	CH_mac_7	7	7	6.73604e-16
Oryza sativa ssp. indica	Chr01	13	CH_osaindica_91	7	7	0.00000000000000163367
Oryza sativa ssp. indica	Chr03	13	CH_osaindica_440	4	5	0.0000020466
Oryza sativa ssp. japonica	1	13	CH_osa_117	6	6	0.000000000000657307
Oryza sativa ssp. japonica	10	13	CH_osa_3	26	56	5.18493e-55
Oryza sativa ssp. japonica	3	13	CH_osa_677	3	3	0.000202431
Oryza sativa ssp. japonica	10	14	CH_osa_3	26	56	5.18493e-55
Populus trichocarpa	Chr01	13	CH_ptr_38	17	65	2.80704e-26
Populus trichocarpa	Chr08	13	CH_ptr_740	3	3	0.000498705
Populus trichocarpa	Chr01	14	CH_ptr_38	17	65	2.80704e-26
Setaria italica	scaffold_5	13	CH_sit_47	10	16	1.64113e-18
Setaria italica	scaffold_9	13	CH_sit_341	4	4	0.00000131246
Setaria italica	scaffold_5	14	CH_sit_33	10	16	1.64113e-18
Solanum lycopersicum	ch07	13	CH_sly_30	10	10	6.88565e-23
Solanum lycopersicum	ch07	14	CH_sly_26	10	10	6.88565e-23
Sorghum bicolor	chr_1	13	CH_sbi_677	3	3	0.000616307
Sorghum bicolor	chr_3	13	CH_sbi_43	9	10	1.45144e-18
Sorghum bicolor	chr_3	13	CH_sbi_676	3	3	0.000616307
Vitis vinifera	chr7	13	CH_vvi_178	5	5	0.00000000198267

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