PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	4	13	CH_ath_32	9	10	9.50133e-18
Arabidopsis thaliana	4	14	CH_ath_28	10	48	0.0000000000167277
Oryza sativa ssp. indica	Chr01	13	CH_osaindica_985	3	4	0.000796409
Oryza sativa ssp. indica	Chr03	13	CH_osaindica_104	9	29	0.0000000000000181015
Oryza sativa ssp. indica	Chr07	13	CH_osaindica_475	4	6	0.00000446064
Oryza sativa ssp. indica	Chr12	13	CH_osaindica_509	4	7	0.0000103957
Oryza sativa ssp. japonica	12	13	CH_osa_440	4	6	0.00000521094
Oryza sativa ssp. japonica	3	13	CH_osa_107	8	19	0.000000000000134
Oryza sativa ssp. japonica	4	13	CH_osa_841	3	4	0.000896401
Oryza sativa ssp. japonica	7	13	CH_osa_471	4	7	0.0000121437
Populus trichocarpa	Chr09	13	CH_ptr_448	4	4	0.00000673137
Populus trichocarpa	Chr12	13	CH_ptr_228	6	8	0.00000000232625
Populus trichocarpa	Chr15	13	CH_ptr_96	10	19	0.00000000000000106274
Populus trichocarpa	Chr15	14	CH_ptr_72	10	19	0.00000000000000106274
Setaria italica	scaffold_3	13	CH_sit_141	6	7	0.000000000039157
Setaria italica	scaffold_9	13	CH_sit_35	10	13	3.63021e-20
Setaria italica	scaffold_9	14	CH_sit_31	10	13	3.63021e-20
Solanum lycopersicum	ch01	13	CH_sly_803	3	3	0.000873256
Solanum lycopersicum	ch01	13	CH_sly_804	3	3	0.000873256
Solanum lycopersicum	ch08	13	CH_sly_57	9	10	4.17012e-18
Sorghum bicolor	chr_1	13	CH_sbi_14	16	28	4.40886e-31
Sorghum bicolor	chr_8	13	CH_sbi_94	7	9	0.000000000000539342
Sorghum bicolor	chr_1	14	CH_sbi_14	16	28	4.40886e-31
Vitis vinifera	chr3	13	CH_vvi_332	4	5	0.00000124018
Vitis vinifera	chr3	15	CH_vvi_13	4	5	0.00000104014
Zea mays	1	13	CH_zma_283	4	7	0.0000282222

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