PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	2	13	CH_ath_351	3	3	0.0000448302
Arabidopsis thaliana	3	13	CH_ath_39	8	16	5.21545e-16
Brachypodium distachyon	Bd1	13	CH_bdi_356	3	6	0.000224377
Brachypodium distachyon	Bd4	13	CH_bdi_252	3	3	0.0000112372
Carica papaya	supercontig_139	13	CH_cpa_154	3	3	0.0000064329
Oryza sativa ssp. indica	Chr02	13	CH_osaindica_496	3	3	0.00000711696
Oryza sativa ssp. indica	Chr04	13	CH_osaindica_297	4	5	0.0000000166638
Oryza sativa ssp. indica	Chr09	13	CH_osaindica_645	3	5	0.0000711171
Oryza sativa ssp. japonica	3	13	CH_osa_504	3	4	0.0000223373
Oryza sativa ssp. japonica	4	13	CH_osa_574	3	5	0.0000558243
Oryza sativa ssp. japonica	9	13	CH_osa_320	4	8	0.000000167208
Ostreococcus lucimarinus	Chr_2	13	CH_olu_89	2	2	0.000768738
Setaria italica	scaffold_2	13	CH_sit_430	3	3	0.0000139443
Setaria italica	scaffold_2	13	CH_sit_431	3	3	0.0000139443
Solanum lycopersicum	ch01	13	CH_sly_394	3	3	0.00000656728
Sorghum bicolor	chr_2	13	CH_sbi_399	3	3	0.0000166195
Sorghum bicolor	chr_5	13	CH_sbi_206	4	4	0.000000012082
Sorghum bicolor	chr_6	13	CH_sbi_252	4	6	0.000000181017

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