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_33	9	24	2.04063e-17
Arabidopsis thaliana	1	14	CH_ath_23	10	67	0.0000000000000145439
Brachypodium distachyon	Bd1	13	CH_bdi_77	5	5	0.000000000156598
Brachypodium distachyon	Bd3	13	CH_bdi_104	5	7	0.00000000328112
Brachypodium distachyon	Bd3	13	CH_bdi_152	4	4	0.000000115909
Brachypodium distachyon	Bd4	13	CH_bdi_400	3	4	0.000333545
Musa acuminata	chr10	13	CH_mac_20	7	23	0.000000000000862726
Oryza sativa ssp. indica	Chr06	13	CH_osaindica_29	10	19	4.31447e-24
Oryza sativa ssp. indica	Chr11	13	CH_osaindica_340	4	6	0.0000000756537
Oryza sativa ssp. indica	Chr06	14	CH_osaindica_30	10	19	4.31447e-24
Oryza sativa ssp. japonica	11	13	CH_osa_606	3	5	0.000104112
Oryza sativa ssp. japonica	5	13	CH_osa_757	3	7	0.000364088
Oryza sativa ssp. japonica	6	13	CH_osa_61	7	8	5.55378e-18
Populus trichocarpa	Chr01	13	CH_ptr_85	8	12	1.22825e-16
Populus trichocarpa	Chr03	13	CH_ptr_621	4	15	0.00015819
Populus trichocarpa	Chr04	13	CH_ptr_450	4	8	0.00000817053
Populus trichocarpa	Chr11	13	CH_ptr_698	3	4	0.000368768
Populus trichocarpa	Chr16	13	CH_ptr_569	3	3	0.0000922822
Populus trichocarpa	Chr01	14	CH_ptr_77	10	63	0.0000000000000239103
Setaria italica	scaffold_1	13	CH_sit_88	7	9	0.0000000000000184299
Setaria italica	scaffold_3	13	CH_sit_704	4	18	0.000551805
Setaria italica	scaffold_4	13	CH_sit_12	17	65	6.87263e-30
Setaria italica	scaffold_4	14	CH_sit_13	17	65	6.87263e-30
Solanum lycopersicum	ch04	13	CH_sly_61	7	7	5.72088e-18
Sorghum bicolor	chr_4	13	CH_sbi_221	4	4	0.0000000435571
Vitis vinifera	chr7	13	CH_vvi_242	4	5	0.0000000806821
Zea mays	5	13	CH_zma_302	3	4	0.0000496916

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