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_438	3	4	0.000512384
Brachypodium distachyon	Bd1	13	CH_bdi_337	3	3	0.000128256
Brachypodium distachyon	Bd1	13	CH_bdi_437	3	4	0.000512384
Carica papaya	supercontig_179	13	CH_cpa_202	3	3	0.0000701257
Carica papaya	supercontig_51	13	CH_cpa_203	3	3	0.0000701257
Musa acuminata	chr7	13	CH_mac_326	3	3	0.000159298
Oryza sativa ssp. indica	Chr03	13	CH_osaindica_648	3	3	0.0000773458
Oryza sativa ssp. indica	Chr06	13	CH_osaindica_150	6	8	0.00000000000259637
Oryza sativa ssp. indica	Chr06	13	CH_osaindica_55	8	8	9.62732e-20
Oryza sativa ssp. indica	Chr06	14	CH_osaindica_61	15	289	2.09511e-16
Oryza sativa ssp. japonica	3	13	CH_osa_721	3	4	0.000274719
Oryza sativa ssp. japonica	3	13	CH_osa_722	3	4	0.000274719
Oryza sativa ssp. japonica	6	13	CH_osa_158	6	11	0.0000000000332476
Populus trichocarpa	Chr04	13	CH_ptr_578	3	3	0.000133899
Populus trichocarpa	Chr08	13	CH_ptr_329	4	4	0.000000193395
Setaria italica	scaffold_4	13	CH_sit_745	3	4	0.000685435
Setaria italica	scaffold_4	13	CH_sit_33	9	10	2.50633e-20
Setaria italica	scaffold_9	13	CH_sit_615	3	3	0.000171574
Setaria italica	scaffold_4	14	CH_sit_46	12	187	0.0000000000157833
Solanum lycopersicum	ch01	13	CH_sly_641	3	3	0.000258711
Solanum lycopersicum	ch02	13	CH_sly_176	5	5	0.000000000913493
Solanum lycopersicum	ch05	13	CH_sly_638	4	12	0.000239546
Sorghum bicolor	chr_1	13	CH_sbi_514	3	3	0.000140627
Sorghum bicolor	chr_1	13	CH_sbi_640	3	4	0.00056184
Sorghum bicolor	chr_10	13	CH_sbi_121	6	8	0.0000000000135752
Zea mays	6	13	CH_zma_361	3	3	0.000111012
Zea mays	9	13	CH_zma_362	3	3	0.000111012

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