PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00006	13	CH_atr_174	4	4	0.0000000872561
Amborella trichopoda	scaffold00021	13	CH_atr_40	8	14	5.48526e-16
Beta vulgaris	0027.scaffold00104	13	CH_bvu_204	4	5	0.00000240516
Beta vulgaris	Bvchr2.sca001	13	CH_bvu_360	3	3	0.000226801
Beta vulgaris	Bvchr2.sca004	13	CH_bvu_359	3	3	0.000226801
Carica papaya	supercontig_19	13	CH_cpa_95	4	4	0.000000202654
Glycine max	Gm02	13	CH_gma_35	9	9	1.02084e-19
Glycine max	Gm13	13	CH_gma_812	4	12	0.000815874
Glycine max	Gm02	14	CH_gma_47	10	59	0.0000000000129086
Lotus japonicus	chr2	13	CH_lja_37	6	27	0.00000000267195
Malus domestica	3	13	CH_mdo_626	3	5	0.000933353
Malus domestica	9	13	CH_mdo_627	3	5	0.000933353
Manihot esculenta	scaffold04043	13	CH_mes_298	3	3	0.000166767
Manihot esculenta	scaffold08617	13	CH_mes_297	3	3	0.000166767
Medicago truncatula	chr3	13	CH_mtr_721	4	9	0.0000105609
Medicago truncatula	chr5	13	CH_mtr_201	6	7	0.000000000000612559
Medicago truncatula	chr7	13	CH_mtr_861	3	3	0.0000806907
Oryza sativa ssp. japonica	6	13	CH_osa_54	8	8	1.33285e-19
Populus trichocarpa	Chr10	13	CH_ptr_339	4	4	0.000000267092
Prunus persica	scaffold_3	13	CH_ppe_583	3	3	0.000182598
Prunus persica	scaffold_3	13	CH_ppe_210	5	5	0.00000000058126
Prunus persica	scaffold_4	13	CH_ppe_241	5	6	0.00000000348241
Ricinus communis	29814	13	CH_rco_51	6	6	0.000000000000333635
Solanum lycopersicum	ch07	13	CH_sly_476	4	8	0.0000478912
Solanum tuberosum	chr01	13	CH_stu_1001	3	3	0.000341793
Solanum tuberosum	chr07	13	CH_stu_820	4	9	0.0000887518
Vitis vinifera	chr19	13	CH_vvi_160	5	5	0.000000000293265

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