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_201	6	15	0.000000218852
Arabidopsis thaliana	1	13	CH_ath_326	4	5	0.0000210516
Arabidopsis thaliana	1	15	CH_ath_5	4	5	0.000010048
Arabidopsis thaliana	3	15	CH_ath_27	3	3	0.000735558
Carica papaya	supercontig_80	13	CH_cpa_42	7	12	0.0000000000499947
Oryza sativa ssp. indica	Chr10	13	CH_osaindica_433	5	9	0.00000181194
Oryza sativa ssp. indica	Chr11	13	CH_osaindica_209	6	7	0.00000000030335
Oryza sativa ssp. indica	Chr11	15	CH_osaindica_4	6	7	0.0000000000717462
Oryza sativa ssp. japonica	11	13	CH_osa_235	5	5	0.00000000627221
Oryza sativa ssp. japonica	11	15	CH_osa_9	5	5	0.00000000212736
Populus trichocarpa	Chr02	13	CH_ptr_628	4	6	0.000181098
Populus trichocarpa	Chr06	13	CH_ptr_244	8	26	0.00000000489162
Populus trichocarpa	Chr14	13	CH_ptr_342	5	6	0.000000298605
Populus trichocarpa	Chr02	15	CH_ptr_22	4	6	0.000100395
Populus trichocarpa	Chr14	15	CH_ptr_21	4	6	0.000100395
Setaria italica	scaffold_1	13	CH_sit_146	7	10	0.0000000000597158
Setaria italica	scaffold_1	14	CH_sit_69	10	136	0.0000074901
Solanum lycopersicum	ch02	13	CH_sly_230	8	44	0.0000000229707
Vitis vinifera	chr15	13	CH_vvi_140	6	7	0.0000000000496114
Vitis vinifera	chr19	13	CH_vvi_210	5	6	0.0000000173947
Vitis vinifera	chr15	15	CH_vvi_7	5	7	0.0000000298807
Vitis vinifera	chr19	15	CH_vvi_20	4	6	0.00000995691
Zea mays	1	13	CH_zma_17	11	17	1.51829e-18
Zea mays	10	13	CH_zma_76	6	7	0.00000000107057
Zea mays	10	13	CH_zma_462	5	18	0.000323225
Zea mays	6	13	CH_zma_256	4	4	0.0000100347
Zea mays	1	14	CH_zma_11	11	17	1.51829e-18

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