PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	1	17	CH_ath_183	4	4	0.000000401962
Arabidopsis thaliana	1	17	CH_ath_132	6	16	0.00000000994289
Arabidopsis thaliana	1	17	CH_ath_393	3	4	0.000884403
Arabidopsis thaliana	1	17	CH_ath_207	4	5	0.00000200688
Arabidopsis thaliana	3	17	CH_ath_182	4	4	0.000000401962
Arabidopsis thaliana	5	17	CH_ath_344	3	3	0.000221409
Arabidopsis thaliana	1	18	CH_ath_66	10	253	0.00000173269
Brachypodium distachyon	Bd1	17	CH_bdi_34	6	6	0.00000000000372858
Brachypodium distachyon	Bd1	17	CH_bdi_3	13	18	4.57891e-27
Brachypodium distachyon	Bd1	18	CH_bdi_3	13	18	4.57891e-27
Chlamydomonas reinhardtii	chromosome_1	17	CH_cre_30	3	3	0.00000706627
Chlamydomonas reinhardtii	chromosome_1	19	CH_cre_8	3	3	0.00000706627
Populus trichocarpa	Chr09	17	CH_ptr_47	8	12	2.31951e-16
Setaria italica	scaffold_2	17	CH_sit_34	8	10	1.93989e-16
Setaria italica	scaffold_2	17	CH_sit_179	4	4	0.000000442534
Setaria italica	scaffold_9	17	CH_sit_375	3	3	0.00024065
Solanum lycopersicum	ch02	17	CH_sly_308	3	3	0.0000325641
Solanum lycopersicum	ch10	17	CH_sly_142	5	12	0.000000021107
Solanum lycopersicum	ch10	19	CH_sly_43	3	9	0.000958347
Vitis vinifera	chr3	17	CH_vvi_415	3	5	0.000672976
Vitis vinifera	chrUn	17	CH_vvi_414	3	5	0.000672976
Zea mays	1	17	CH_zma_150	3	3	0.000100906

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