PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	1	17	CH_ath_231	4	5	0.00000474406
Arabidopsis thaliana	3	17	CH_ath_230	4	5	0.00000474406
Brachypodium distachyon	Bd1	17	CH_bdi_67	5	5	0.0000000140531
Brachypodium distachyon	Bd3	17	CH_bdi_223	4	8	0.000283505
Brachypodium distachyon	Bd5	17	CH_bdi_42	6	6	0.0000000000476932
Brachypodium distachyon	Bd1	18	CH_bdi_31	10	148	0.00000382698
Brachypodium distachyon	Bd1	19	CH_bdi_17	3	3	0.000674502
Oryza sativa ssp. japonica	2	17	CH_osa_168	5	10	0.000000271053
Oryza sativa ssp. japonica	4	17	CH_osa_112	5	6	0.00000000649202
Oryza sativa ssp. japonica	7	17	CH_osa_394	4	13	0.000431063
Populus trichocarpa	Chr07	17	CH_ptr_492	3	3	0.000949786
Populus trichocarpa	Chr08	17	CH_ptr_310	4	5	0.000013381
Setaria italica	scaffold_1	17	CH_sit_170	5	7	0.000000332748
Setaria italica	scaffold_2	17	CH_sit_231	4	5	0.00000477286
Setaria italica	scaffold_3	17	CH_sit_350	4	7	0.000165701
Setaria italica	scaffold_7	17	CH_sit_77	7	10	0.0000000000205945
Setaria italica	scaffold_8	17	CH_sit_37	10	19	5.22768e-16
Setaria italica	scaffold_2	18	CH_sit_53	11	166	0.00000051699
Setaria italica	scaffold_8	18	CH_sit_30	10	19	5.22768e-16
Solanum lycopersicum	ch02	17	CH_sly_250	4	5	0.00000452412
Vitis vinifera	chr14	17	CH_vvi_208	4	4	0.00000107528
Vitis vinifera	chr14	17	CH_vvi_18	13	14	2.50527e-29
Vitis vinifera	chr14	18	CH_vvi_19	13	14	2.50527e-29
Zea mays	2	17	CH_zma_129	4	6	0.000034093
Zea mays	6	17	CH_zma_227	3	3	0.000780338
Zea mays	7	17	CH_zma_21	6	6	0.0000000000188732
Zea mays	7	18	CH_zma_20	10	129	0.000000203863

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