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_231	4	5	0.000000925152
Arabidopsis thaliana	3	13	CH_ath_230	4	5	0.000000925152
Brachypodium distachyon	Bd5	13	CH_bdi_50	6	6	0.00000000000194472
Carica papaya	supercontig_62	13	CH_cpa_373	3	5	0.000412781
Oryza sativa ssp. indica	Chr02	13	CH_osaindica_844	3	4	0.000372892
Oryza sativa ssp. indica	Chr11	13	CH_osaindica_393	4	5	0.000000537469
Oryza sativa ssp. japonica	11	13	CH_osa_730	3	4	0.000318017
Populus trichocarpa	Chr07	13	CH_ptr_625	4	12	0.00017631
Populus trichocarpa	Chr08	13	CH_ptr_407	4	5	0.00000179795
Populus trichocarpa	Chr13	13	CH_ptr_791	3	4	0.000849469
Setaria italica	scaffold_2	13	CH_sit_320	4	5	0.000000689645
Setaria italica	scaffold_7	13	CH_sit_165	6	10	0.000000000584302
Sorghum bicolor	chr_5	13	CH_sbi_164	6	13	0.00000000127378
Sorghum bicolor	chr_6	13	CH_sbi_265	5	11	0.000000214724
Vitis vinifera	chr14	13	CH_vvi_274	4	4	0.000000248374
Zea mays	4	13	CH_zma_122	5	8	0.000000025849
Zea mays	6	13	CH_zma_412	3	3	0.00018175
Zea mays	8	13	CH_zma_510	3	4	0.000726106

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