PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Carica papaya	supercontig_119	13	CH_cpa_169	3	3	0.0000137
Carica papaya	supercontig_146	13	CH_cpa_50	5	8	0.000000000433158
Carica papaya	supercontig_98	13	CH_cpa_4	11	16	9.5729e-28
Carica papaya	supercontig_98	14	CH_cpa_4	11	16	9.5729e-28
Musa acuminata	chr8	13	CH_mac_34	4	4	0.000000000056248
Musa acuminata	chr9	13	CH_mac_113	3	3	0.000000353809
Oryza sativa ssp. indica	Chr02	13	CH_osaindica_932	2	3	0.000648586
Oryza sativa ssp. japonica	8	13	CH_osa_708	2	2	0.000214091
Populus trichocarpa	Chr01	13	CH_ptr_778	2	2	0.000747031
Setaria italica	scaffold_1	13	CH_sit_737	2	3	0.000563746
Solanum lycopersicum	ch11	13	CH_sly_277	3	4	0.000000197498
Sorghum bicolor	chr_1	13	CH_sbi_274	3	3	0.000000284094
Sorghum bicolor	chr_4	13	CH_sbi_345	3	5	0.00000284016
Vitis vinifera	chr15	13	CH_vvi_330	3	4	0.00000118776
Zea mays	6	13	CH_zma_32	5	5	0.0000000000000380047

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