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_220	5	31	0.00000389665
Carica papaya	supercontig_13	13	CH_cpa_306	3	5	0.000136827
Oryza sativa ssp. indica	Chr03	13	CH_osaindica_732	4	35	0.000172533
Oryza sativa ssp. japonica	3	13	CH_osa_603	4	32	0.0000993447
Populus trichocarpa	Chr12	13	CH_ptr_549	3	3	0.000064349
Populus trichocarpa	Chr19	13	CH_ptr_300	4	4	0.0000000721096
Setaria italica	scaffold_9	13	CH_sit_471	3	3	0.0000285273
Setaria italica	scaffold_9	13	CH_sit_434	5	41	0.0000154002
Solanum lycopersicum	ch02	13	CH_sly_701	3	5	0.000415902
Solanum lycopersicum	ch02	13	CH_sly_470	3	3	0.0000416553
Sorghum bicolor	chr_1	13	CH_sbi_392	5	37	0.0000118506
Zea mays	1	13	CH_zma_470	4	32	0.000424988

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