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_209	5	6	0.00000034436
Oryza sativa ssp. indica	Chr03	13	CH_osaindica_363	8	51	0.00000017091
Oryza sativa ssp. indica	Chr09	13	CH_osaindica_533	5	13	0.0000157771
Oryza sativa ssp. indica	Chr03	14	CH_osaindica_113	10	245	0.000234812
Oryza sativa ssp. indica	Chr03	15	CH_osaindica_24	7	51	0.00000343498
Oryza sativa ssp. japonica	3	13	CH_osa_728	6	48	0.000306395
Oryza sativa ssp. japonica	9	13	CH_osa_497	5	14	0.0000195564
Populus trichocarpa	Chr02	13	CH_ptr_457	5	8	0.0000097609
Populus trichocarpa	Chr14	13	CH_ptr_302	6	9	0.0000000772753
Populus trichocarpa	Chr19	13	CH_ptr_135	10	23	0.000000000000743574
Populus trichocarpa	Chr19	14	CH_ptr_80	10	23	0.000000000000743574
Vitis vinifera	chr1	13	CH_vvi_99	8	9	0.0000000000000211798
Vitis vinifera	chr1	14	CH_vvi_54	12	52	0.0000000000000978378
Zea mays	1	13	CH_zma_60	11	53	0.0000000000668552
Zea mays	1	14	CH_zma_19	11	53	0.0000000000668552

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