PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00024	13	CH_atr_308	4	5	0.0000566292
Arabidopsis lyrata	scaffold_2	13	CH_aly_265	6	10	0.00000154647
Capsella rubella	scaffold_7	13	CH_cru_353	5	7	0.0000428184
Capsella rubella	scaffold_7	14	CH_cru_56	11	107	0.000187593
Eucalyptus grandis	scaffold_10	13	CH_egr_385	10	22	0.00000000000768425
Eucalyptus grandis	scaffold_3	13	CH_egr_736	5	5	0.000000697203
Eucalyptus grandis	scaffold_4	13	CH_egr_905	5	7	0.0000144656
Eucalyptus grandis	scaffold_10	14	CH_egr_191	10	22	0.00000000000768425
Glycine max	Gm06	13	CH_gma_316	7	11	0.000000231607
Gossypium raimondii	Chr13	13	CH_gra_526	4	4	0.000329226
Medicago truncatula	chr5	13	CH_mtr_407	9	43	0.0000000240145
Medicago truncatula	chr5	13	CH_mtr_387	7	15	0.0000000154256
Medicago truncatula	chr8	13	CH_mtr_412	7	16	0.0000000273161
Medicago truncatula	chr5	14	CH_mtr_150	10	80	0.000000267785
Populus trichocarpa	Chr17	13	CH_ptr_403	5	5	0.00000164668
Prunus persica	scaffold_7	13	CH_ppe_502	4	4	0.0000712415
Solanum lycopersicum	ch04	13	CH_sly_563	4	4	0.000128279
Solanum lycopersicum	ch10	13	CH_sly_761	4	5	0.000637419
Solanum tuberosum	chr03	13	CH_stu_1016	4	5	0.00047355
Solanum tuberosum	chr07	13	CH_stu_504	5	5	0.00000068066
Theobroma cacao	scaffold_2	13	CH_tca_563	4	5	0.000358047
Vitis vinifera	chr2	13	CH_vvi_112	8	8	0.000000000000616439
Vitis vinifera	chr4	13	CH_vvi_275	6	8	0.000000251932
Vitis vinifera	chr2	14	CH_vvi_93	10	101	0.000400281

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