PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00104	3	CH_atr_203	3	3	0.0000144303
Carica papaya	supercontig_75	1	CH_cpa_118	3	4	0.00011437
Carica papaya	supercontig_75	2	CH_cpa_160	3	4	0.00018509
Carica papaya	supercontig_75	3	CH_cpa_291	3	4	0.00036969
Citrullus lanatus	Chr11	1	CH_cla_51	4	4	0.00000000252526
Citrullus lanatus	Chr11	2	CH_cla_64	4	4	0.0000000135328
Citrullus lanatus	Chr11	3	CH_cla_53	5	5	0.0000000000386931
Cucumis melo	CM3.5_scaffold00045	3	CH_cme_205	3	4	0.0000622254
Eucalyptus grandis	scaffold_11	1	CH_egr_469	4	35	0.0000375565
Eucalyptus grandis	scaffold_11	2	CH_egr_646	4	35	0.000132838
Eucalyptus grandis	scaffold_11	3	CH_egr_796	4	35	0.000290523
Malus domestica	7	3	CH_mdo_95	4	9	0.000000271468
Manihot esculenta	scaffold03252	3	CH_mes_59	4	4	0.0000000153539
Physcomitrella patens	scaffold_82	1	CH_ppa_26	3	3	0.0000116112
Physcomitrella patens	scaffold_82	2	CH_ppa_28	3	3	0.0000266185
Physcomitrella patens	scaffold_82	3	CH_ppa_17	4	4	0.0000000510675
Prunus persica	scaffold_5	3	CH_ppe_369	3	4	0.0000810112
Solanum lycopersicum	ch11	3	CH_sly_362	3	3	0.0000200475
Solanum tuberosum	chr03	3	CH_stu_516	3	3	0.0000265266
Solanum tuberosum	chr11	3	CH_stu_515	3	3	0.0000265266
Solanum tuberosum	chr12	3	CH_stu_667	3	5	0.000264911

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