PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: GO term
Identifier: GO:0006979
Description: response to oxidative stress

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00029	1	CH_atr_5	18	18	4.07726e-40
Amborella trichopoda	scaffold00077	1	CH_atr_50	6	7	0.00000000065217
Amborella trichopoda	scaffold00083	1	CH_atr_214	5	22	0.000607673
Amborella trichopoda	scaffold00029	4	CH_atr_4	18	18	4.07726e-40
Arabidopsis lyrata	scaffold_1	1	CH_aly_125	4	4	0.00000375124
Brassica rapa	A09	1	CH_bra_83	4	4	0.00000847897
Capsella rubella	scaffold_5	1	CH_cru_87	5	6	0.000000154288
Capsella rubella	scaffold_7	1	CH_cru_168	4	6	0.0000987783
Carica papaya	supercontig_119	1	CH_cpa_59	4	4	0.00000185876
Carica papaya	supercontig_2	1	CH_cpa_170	3	3	0.000617559
Carica papaya	supercontig_8	1	CH_cpa_171	3	3	0.000617559
Carica papaya	supercontig_81	2	CH_cpa_145	6	12	0.000103914
Citrullus lanatus	Chr2	1	CH_cla_48	6	7	0.000000000944366
Citrullus lanatus	Chr2	1	CH_cla_9	10	10	3.54444e-20
Citrullus lanatus	Chr9	1	CH_cla_30	7	7	0.000000000000553245
Citrullus lanatus	Chr2	2	CH_cla_12	18	31	1.60458e-20
Citrullus lanatus	Chr2	3	CH_cla_15	18	31	1.85092e-20
Citrullus lanatus	Chr2	4	CH_cla_7	10	10	3.54444e-20
Citrullus lanatus	Chr2	5	CH_cla_7	18	31	1.60458e-20
Citrullus lanatus	Chr2	6	CH_cla_10	18	31	1.85092e-20
Citrus sinensis	scaffold00043	1	CH_csi_49	5	6	0.000000121239
Cucumis melo	CM3.5_scaffold00008	1	CH_cme_90	4	4	0.00000359657
Cucumis melo	CM3.5_scaffold00011	1	CH_cme_191	4	10	0.000743117
Eucalyptus grandis	scaffold_1	1	CH_egr_399	4	4	0.00000475173
Eucalyptus grandis	scaffold_10	1	CH_egr_193	6	6	0.0000000000531746
Eucalyptus grandis	scaffold_8	1	CH_egr_269	5	5	0.000000015965
Eucalyptus grandis	scaffold_5	2	CH_egr_339	7	7	0.00000000720843
Eucalyptus grandis	scaffold_5	3	CH_egr_395	7	7	0.00000000749951
Eucalyptus grandis	scaffold_10	5	CH_egr_170	12	42	0.0000000434667
Eucalyptus grandis	scaffold_5	5	CH_egr_265	13	101	0.000213891
Eucalyptus grandis	scaffold_10	6	CH_egr_203	12	42	0.0000000464197
Eucalyptus grandis	scaffold_5	6	CH_egr_295	13	101	0.000228647
Fragaria vesca	LG3	1	CH_fve_63	6	11	0.00000000492918
Glycine max	Gm02	1	CH_gma_259	4	5	0.000102075
Glycine max	Gm09	1	CH_gma_50	7	8	0.0000000000134191
Glycine max	Gm15	1	CH_gma_68	6	6	0.000000000388916
Glycine max	Gm18	1	CH_gma_212	4	4	0.0000204868
Gossypium raimondii	Chr06	1	CH_gra_166	4	5	0.0000251213
Gossypium raimondii	Chr04	3	CH_gra_425	11	73	0.000842672
Gossypium raimondii	Chr04	6	CH_gra_102	11	73	0.000842672
Lotus japonicus	chr6	1	CH_lja_86	3	3	0.000198366
Malus domestica	17	1	CH_mdo_253	3	3	0.000920378
Malus domestica	3	1	CH_mdo_15	6	8	0.000000000505133
Manihot esculenta	scaffold06814	1	CH_mes_42	5	5	0.0000000352748
Manihot esculenta	scaffold07035	1	CH_mes_79	4	4	0.00000816708
Manihot esculenta	scaffold08799	1	CH_mes_24	6	6	0.00000000015069
Manihot esculenta	scaffold10173	1	CH_mes_78	4	4	0.00000816708
Medicago truncatula	chr2	1	CH_mtr_13	13	18	1.79715e-26
Medicago truncatula	chr2	1	CH_mtr_163	6	11	0.00000000416626
Medicago truncatula	chr4	1	CH_mtr_566	3	3	0.000794095
Medicago truncatula	chr4	1	CH_mtr_294	4	4	0.00000180282
Medicago truncatula	chr5	1	CH_mtr_181	7	26	0.0000000128379
Medicago truncatula	chr7	1	CH_mtr_278	5	10	0.00000101486
Medicago truncatula	chr8	2	CH_mtr_452	7	20	0.0000326423
Medicago truncatula	chr2	4	CH_mtr_15	13	18	1.79715e-26
Oryza sativa ssp. japonica	3	5	CH_osa_156	15	276	0.000321736
Oryza sativa ssp. japonica	3	6	CH_osa_168	15	276	0.000374846
Populus trichocarpa	Chr01	1	CH_ptr_98	8	22	0.000000000206916
Populus trichocarpa	Chr03	1	CH_ptr_87	6	6	0.0000000000619135
Populus trichocarpa	Chr07	1	CH_ptr_208	4	4	0.0000055187
Populus trichocarpa	Chr01	5	CH_ptr_73	12	47	0.000000199838
Populus trichocarpa	Chr01	6	CH_ptr_97	12	47	0.000000223586
Prunus persica	scaffold_6	1	CH_ppe_81	6	7	0.000000000177741
Prunus persica	scaffold_6	1	CH_ppe_28	9	11	3.59749e-17
Prunus persica	scaffold_6	1	CH_ppe_328	3	3	0.000885193
Ricinus communis	29780	1	CH_rco_72	7	25	0.000000144812
Ricinus communis	30190	1	CH_rco_9	9	9	4.51807e-18
Ricinus communis	30190	4	CH_rco_15	11	62	0.0000000000259346
Solanum lycopersicum	ch01	1	CH_sly_238	4	4	0.0000108741
Solanum lycopersicum	ch02	1	CH_sly_146	5	5	0.0000000449239
Solanum lycopersicum	ch07	1	CH_sly_271	4	5	0.0000541891
Solanum lycopersicum	ch01	5	CH_sly_110	17	206	0.000277886
Solanum lycopersicum	ch02	5	CH_sly_132	11	83	0.000967709
Solanum lycopersicum	ch01	6	CH_sly_123	19	225	0.0000294346
Solanum tuberosum	chr01	1	CH_stu_266	5	7	0.00000130553
Solanum tuberosum	chr01	1	CH_stu_210	5	5	0.0000000626285
Solanum tuberosum	chr01	1	CH_stu_183	7	15	0.00000000746464
Solanum tuberosum	chr02	1	CH_stu_317	4	4	0.0000141932
Solanum tuberosum	chr02	1	CH_stu_265	5	7	0.00000130553
Solanum tuberosum	chr05	1	CH_stu_374	4	5	0.0000707136
Solanum tuberosum	chr11	1	CH_stu_208	5	5	0.0000000626285
Solanum tuberosum	chr12	1	CH_stu_209	5	5	0.0000000626285
Solanum tuberosum	chr02	4	CH_stu_136	12	249	0.0000610672
Solanum tuberosum	chr01	5	CH_stu_128	17	168	0.0000161695
Solanum tuberosum	chr01	6	CH_stu_176	17	168	0.0000198928
Thellungiella parvula	ch1-1	1	CH_tpa_62	4	4	0.00000521737
Theobroma cacao	scaffold_2	1	CH_tca_156	5	9	0.00000137152
Theobroma cacao	scaffold_2	1	CH_tca_46	7	9	0.0000000000039169
Theobroma cacao	scaffold_4	1	CH_tca_115	5	7	0.000000229815
Theobroma cacao	scaffold_9	1	CH_tca_135	5	8	0.000000611201
Theobroma cacao	scaffold_4	2	CH_tca_163	11	47	0.00000157464
Theobroma cacao	scaffold_4	3	CH_tca_217	11	47	0.00000201926
Theobroma cacao	scaffold_4	5	CH_tca_51	11	47	0.00000157464
Theobroma cacao	scaffold_4	6	CH_tca_77	11	47	0.00000201926
Vitis vinifera	chr1	1	CH_vvi_49	8	10	0.0000000000000357132
Vitis vinifera	chr12	1	CH_vvi_69	7	9	0.00000000000816774
Vitis vinifera	chr18	1	CH_vvi_181	4	4	0.00000500529
Vitis vinifera	chr1	4	CH_vvi_53	10	77	0.00000000841938
Zea mays	10	1	CH_zma_10	13	18	1.19926e-22
Zea mays	2	1	CH_zma_60	5	5	0.0000000866415
Zea mays	5	1	CH_zma_156	4	5	0.0000937849
Zea mays	5	1	CH_zma_216	4	7	0.000651637
Zea mays	7	1	CH_zma_155	4	5	0.0000937849
Zea mays	10	4	CH_zma_6	13	18	1.19926e-22

Available child term results

GO term	Description	Number of clusters
GO:0000302	response to reactive oxygen species	4
GO:0010193	response to ozone	7
GO:0010343	singlet oxygen-mediated programmed cell death	2
GO:0034614	cellular response to reactive oxygen species	2
GO:0042542	response to hydrogen peroxide	4
GO:0071732	cellular response to nitric oxide	1
GO:1900409	positive regulation of cellular response to oxidative stress	3

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