PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Brachypodium distachyon	Bd1	13	CH_bdi_178	4	6	0.000000597585
Carica papaya	supercontig_80	13	CH_cpa_163	3	3	0.0000115368
Oryza sativa ssp. indica	Chr01	13	CH_osaindica_613	3	3	0.0000381753
Oryza sativa ssp. indica	Chr04	13	CH_osaindica_201	5	6	0.000000000160655
Oryza sativa ssp. indica	Chr04	13	CH_osaindica_62	8	10	5.99733e-19
Oryza sativa ssp. indica	Chr05	13	CH_osaindica_116	7	14	0.0000000000000588271
Oryza sativa ssp. indica	Chr09	13	CH_osaindica_418	4	7	0.00000112917
Oryza sativa ssp. indica	Chr05	15	CH_osaindica_43	3	6	0.000101181
Oryza sativa ssp. japonica	4	13	CH_osa_162	5	6	0.0000000000479781
Oryza sativa ssp. japonica	5	13	CH_osa_140	6	13	0.00000000000854128
Populus trichocarpa	Chr01	13	CH_ptr_12	20	49	2.2321e-43
Populus trichocarpa	Chr01	14	CH_ptr_12	20	49	2.2321e-43
Setaria italica	scaffold_3	13	CH_sit_624	3	5	0.000236153
Setaria italica	scaffold_7	13	CH_sit_103	6	8	0.000000000000324734
Solanum lycopersicum	ch01	13	CH_sly_208	4	4	0.00000000716794
Solanum lycopersicum	ch01	13	CH_sly_418	3	3	0.0000113569
Sorghum bicolor	chr_6	13	CH_sbi_178	5	8	0.00000000275926
Sorghum bicolor	chr_6	13	CH_sbi_8	13	15	1.94096e-33
Sorghum bicolor	chr_6	14	CH_sbi_9	13	15	1.94096e-33
Vitis vinifera	chr13	13	CH_vvi_4	20	21	1.17621e-53
Vitis vinifera	chr7	13	CH_vvi_173	5	6	0.00000000107803
Vitis vinifera	chr13	14	CH_vvi_4	20	21	1.17621e-53
Zea mays	10	13	CH_zma_268	3	3	0.0000188181
Zea mays	2	13	CH_zma_341	3	4	0.0000752294

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