PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Information

Type: Mapman term
Identifier: 1.1
Description: PS.lightreaction

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	chloroplast	17	CH_ath_5	30	62	2.36279e-50
Arabidopsis thaliana	chloroplast	18	CH_ath_7	43	112	8.00197e-69
Arabidopsis thaliana	chloroplast	19	CH_ath_4	30	63	1.16697e-50
Arabidopsis thaliana	chloroplast	20	CH_ath_7	42	112	2.07331e-67
Brachypodium distachyon	Bd1	17	CH_bdi_49	8	15	0.000000000150914
Brachypodium distachyon	Bd5	17	CH_bdi_63	7	13	0.00000000744857
Brachypodium distachyon	Bd1	19	CH_bdi_1	8	15	0.000000000102442
Brachypodium distachyon	Bd5	19	CH_bdi_11	6	13	0.00000101675
Oryza sativa ssp. japonica	10	17	CH_osa_7	21	51	1.07531e-34
Oryza sativa ssp. japonica	10	17	CH_osa_124	6	10	0.0000000128417
Oryza sativa ssp. japonica	4	17	CH_osa_40	11	38	0.0000000000000203261
Oryza sativa ssp. japonica	6	17	CH_osa_261	5	12	0.0000151495
Oryza sativa ssp. japonica	8	17	CH_osa_344	5	18	0.000161292
Oryza sativa ssp. japonica	10	18	CH_osa_7	21	51	1.07531e-34
Oryza sativa ssp. japonica	4	18	CH_osa_30	11	38	0.0000000000000203261
Oryza sativa ssp. japonica	10	19	CH_osa_11	5	10	0.00000409225
Oryza sativa ssp. japonica	10	19	CH_osa_1	20	51	1.23466e-32
Oryza sativa ssp. japonica	4	19	CH_osa_2	10	38	0.00000000000183653
Oryza sativa ssp. japonica	6	19	CH_osa_17	5	12	0.0000127953
Oryza sativa ssp. japonica	8	19	CH_osa_27	5	18	0.000136301
Oryza sativa ssp. japonica	10	20	CH_osa_1	20	51	1.23466e-32
Oryza sativa ssp. japonica	4	20	CH_osa_2	10	38	0.00000000000183653
Physcomitrella patens	scaffold_27	17	CH_ppa_17	4	4	0.0000226704
Physcomitrella patens	scaffold_27	19	CH_ppa_1	4	4	0.0000165113
Populus trichocarpa	Chr08	17	CH_ptr_313	6	17	0.0000154498
Populus trichocarpa	Chr11	17	CH_ptr_464	4	6	0.000621473
Populus trichocarpa	Chr13	17	CH_ptr_39	16	66	2.06437e-17
Populus trichocarpa	Chr19	17	CH_ptr_463	4	6	0.000621473
Populus trichocarpa	Chr13	18	CH_ptr_35	16	66	2.06437e-17
Populus trichocarpa	Chr11	19	CH_ptr_15	4	6	0.00046453
Populus trichocarpa	Chr13	19	CH_ptr_1	13	66	0.0000000000011933
Populus trichocarpa	Chr19	19	CH_ptr_14	4	6	0.00046453
Populus trichocarpa	Chr13	20	CH_ptr_1	13	66	0.0000000000011933
Setaria italica	scaffold_14	17	CH_sit_7	21	68	2.1945e-30
Setaria italica	scaffold_14	18	CH_sit_8	21	68	2.1945e-30
Setaria italica	scaffold_14	19	CH_sit_1	20	68	1.53739e-28
Setaria italica	scaffold_14	20	CH_sit_1	20	68	1.53739e-28
Solanum lycopersicum	ch01	17	CH_sly_38	13	25	4.2417e-16
Solanum lycopersicum	ch02	17	CH_sly_46	14	40	0.00000000000001486
Solanum lycopersicum	ch12	17	CH_sly_24	12	13	1.31297e-19
Solanum lycopersicum	ch01	18	CH_sly_31	13	25	4.2417e-16
Solanum lycopersicum	ch02	18	CH_sly_38	14	40	0.00000000000001486
Solanum lycopersicum	ch12	18	CH_sly_21	12	13	1.31297e-19
Solanum lycopersicum	ch02	19	CH_sly_4	9	40	0.000000351042
Solanum lycopersicum	ch02	20	CH_sly_21	12	168	0.000134668
Zea mays	2	17	CH_zma_157	4	5	0.000156064
Zea mays	chloroplast	17	CH_zma_32	12	81	0.00000000116865
Zea mays	chloroplast	18	CH_zma_8	17	135	0.0000000000000956166
Zea mays	2	19	CH_zma_9	4	5	0.0000791858

Functional clusters experiments

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