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_250	4	4	0.00000161651
Carica papaya	supercontig_104	13	CH_cpa_46	6	9	0.000000000257675
Carica papaya	supercontig_75	13	CH_cpa_317	3	3	0.00027711
Carica papaya	supercontig_75	15	CH_cpa_25	3	3	0.00011927
Oryza sativa ssp. indica	Chr07	13	CH_osaindica_19	13	19	4.03652e-27
Oryza sativa ssp. indica	Chr07	14	CH_osaindica_17	13	19	4.03652e-27
Oryza sativa ssp. japonica	11	13	CH_osa_390	5	12	0.0000012205
Oryza sativa ssp. japonica	7	13	CH_osa_17	13	16	1.085e-28
Oryza sativa ssp. japonica	7	14	CH_osa_19	13	16	1.085e-28
Setaria italica	scaffold_6	13	CH_sit_215	5	5	0.00000000844543
Setaria italica	scaffold_7	13	CH_sit_31	10	11	1.73355e-20
Setaria italica	scaffold_9	13	CH_sit_682	4	9	0.000358682
Setaria italica	scaffold_7	14	CH_sit_30	10	11	1.73355e-20
Sorghum bicolor	chr_4	13	CH_sbi_110	7	9	0.00000000000231902
Vitis vinifera	chr6	13	CH_vvi_22	15	20	5.74135e-29
Vitis vinifera	chr8	13	CH_vvi_119	7	8	0.00000000000182069
Vitis vinifera	chr6	14	CH_vvi_23	15	20	5.74135e-29
Vitis vinifera	chr8	14	CH_vvi_83	10	159	0.0000126656
Zea mays	10	13	CH_zma_183	4	4	0.000000849469
Zea mays	4	13	CH_zma_357	4	9	0.000106129

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