PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Information

Type: Mapman term
Identifier: 10.7
Description: cell wall.modification

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	5	17	CH_ath_87	6	6	0.00000000000262679
Arabidopsis thaliana	5	17	CH_ath_218	4	5	0.00000324889
Brachypodium distachyon	Bd1	17	CH_bdi_142	4	4	0.00000464701
Brachypodium distachyon	Bd1	17	CH_bdi_170	4	5	0.0000231683
Brachypodium distachyon	Bd3	17	CH_bdi_52	6	7	0.000000000403127
Brachypodium distachyon	Bd3	17	CH_bdi_140	4	4	0.00000464701
Brachypodium distachyon	Bd3	17	CH_bdi_43	6	6	0.0000000000577636
Brachypodium distachyon	Bd5	17	CH_bdi_141	4	4	0.00000464701
Brachypodium distachyon	Bd3	18	CH_bdi_32	10	149	0.00000558842
Oryza sativa ssp. japonica	10	17	CH_osa_185	4	4	0.000000768488
Oryza sativa ssp. japonica	2	17	CH_osa_105	6	13	0.00000000457382
Oryza sativa ssp. japonica	3	17	CH_osa_181	7	53	0.000000711959
Oryza sativa ssp. japonica	3	17	CH_osa_60	6	7	0.0000000000188379
Oryza sativa ssp. japonica	4	17	CH_osa_322	4	9	0.0000960943
Oryza sativa ssp. japonica	6	17	CH_osa_46	8	16	0.000000000000115556
Oryza sativa ssp. japonica	6	17	CH_osa_224	4	5	0.00000383659
Physcomitrella patens	scaffold_309	17	CH_ppa_39	4	10	0.000199864
Physcomitrella patens	scaffold_48	17	CH_ppa_41	4	11	0.000313484
Populus trichocarpa	Chr06	17	CH_ptr_430	3	3	0.000425556
Populus trichocarpa	Chr18	17	CH_ptr_280	4	5	0.00000456536
Setaria italica	scaffold_1	17	CH_sit_280	4	5	0.0000207953
Setaria italica	scaffold_1	17	CH_sit_397	5	22	0.000338309
Setaria italica	scaffold_4	17	CH_sit_281	4	5	0.0000207953
Setaria italica	scaffold_6	17	CH_sit_74	9	30	0.0000000000179643
Setaria italica	scaffold_6	17	CH_sit_44	8	9	0.00000000000000384055
Setaria italica	scaffold_7	17	CH_sit_226	4	4	0.00000416993
Setaria italica	scaffold_9	17	CH_sit_303	6	34	0.0000535464
Setaria italica	scaffold_9	17	CH_sit_57	8	12	0.000000000000209464
Setaria italica	scaffold_9	17	CH_sit_28	9	9	1.33189e-18
Setaria italica	scaffold_9	17	CH_sit_279	4	5	0.0000207953
Setaria italica	scaffold_6	18	CH_sit_84	10	255	0.000552753
Setaria italica	scaffold_9	18	CH_sit_44	13	180	0.00000000153413
Solanum lycopersicum	ch03	17	CH_sly_99	6	9	0.00000000038656
Solanum lycopersicum	ch03	17	CH_sly_280	4	6	0.0000142514
Solanum lycopersicum	ch07	17	CH_sly_428	3	3	0.000424502
Solanum lycopersicum	ch12	17	CH_sly_429	3	3	0.000424502
Vitis vinifera	chr11	17	CH_vvi_21	14	18	5.17782e-29
Vitis vinifera	chr11	18	CH_vvi_22	14	18	5.17782e-29
Zea mays	1	17	CH_zma_115	4	5	0.0000142607
Zea mays	1	17	CH_zma_99	5	11	0.00000398597
Zea mays	1	17	CH_zma_212	5	26	0.000546137
Zea mays	10	17	CH_zma_100	5	11	0.00000398597
Zea mays	10	17	CH_zma_232	3	3	0.000922773
Zea mays	2	17	CH_zma_231	3	3	0.000922773
Zea mays	5	17	CH_zma_233	3	3	0.000922773
Zea mays	5	17	CH_zma_55	7	25	0.0000000364584
Zea mays	6	17	CH_zma_74	7	34	0.000000398476

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