Co-expression analysis

Gene ID At3g60420
Gene name -
Module size 5 genes
NF 0.37
%ile 50.4



Co-expression network

pink confeito: Transcription factor, green bicone: Binding protein, red cone: Enzyme protein, blue sphere: Other protein
large node: VF over 0.50, middle node: over 0.25, small node: below 0.25



Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. O.I. H.G. S.X. Other DB
0.7385.51.00At3g60420825213-F:unknown;P:unknown;C:cellular_component unknown;OBFPMO.I.H.G.S.X.
0.5773.80.80At2g04450814985ATNUDT6 (Arabidopsis thaliana Nudix hydrolase homolog 6)F:ADP-ribose diphosphatase activity, hydrolase activity, NAD or NADH binding;P:response to other organism;C:cytosol;OBMPAFVO.I.H.G.S.X.
0.4050.80.79At3g52430824408PAD4 (PHYTOALEXIN DEFICIENT 4)Encodes a lipase-like gene that is important for salicylic acid signaling and function in resistance (R) gene-mediated and basal plant disease resistance. PAD4 can interact directly with EDS1, another disease resistance signaling protein. Expressed at elevated level in response to green peach aphid (GPA) feeding, and modulates the GPA feeding-induced leaf senescence through a mechanism that doesn't require camalexin synthesis and salicylic acid (SA) signaling.O.I.H.G.S.X.
0.2522.60.80At1g73805843716calmodulin bindingF:calmodulin binding;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.1912.70.81At5g24210832488lipase class 3 family proteinF:triacylglycerol lipase activity;P:lipid metabolic process;C:cellular_component unknown;POO.I.H.G.S.X.

Click More genes

Link to AtGenExpress Visualization Tool



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
211.8100.0GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
69.999.9GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
58.999.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
54.299.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
52.699.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
51.999.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
50.699.8GSM142750MJ001_ATH1_A1-jones-WT1GSE6165The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.Link to GEO
49.999.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.199.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.899.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.599.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
35.099.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.699.7GSM142751MJ001_ATH1_A2-jones-WT2GSE6165The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.Link to GEO
32.499.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.299.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.199.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.699.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.399.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.299.7GSM142754MJ001_ATH1_A5-jones-WT-Rep3GSE6165The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.Link to GEO
26.699.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
23.199.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.499.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
21.799.6GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
21.499.6GSM133759Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
20.599.6GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.499.6GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
19.199.6GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.899.5GSM133966Fukuda_1-11_10A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
18.599.5GSM131164AtGen_C-14_2-Pi-12_REP2_ATH1GSE5616AtGenExpress: Response to Phytophthora infestansLink to GEO
18.099.5GSM133030BC482-2GSE5684AtGenExpress: Pathogen Series: Response to Botrytis cinerea infectionLink to GEO
17.899.5GSM133029BC482-1GSE5684AtGenExpress: Pathogen Series: Response to Botrytis cinerea infectionLink to GEO
17.699.5GSM133775Lindsey_1-27_torpedo-meristem_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
17.299.5GSM131160AtGen_C-10_1-Pi-6_REP1_ATH1GSE5616AtGenExpress: Response to Phytophthora infestansLink to GEO
16.099.5GSM131161AtGen_C-11_2-Pi-6_REP2_ATH1GSE5616AtGenExpress: Response to Phytophthora infestansLink to GEO
15.199.4GSM133964Fukuda_1-9_8A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
15.099.4GSM133967Fukuda_1-12_10B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
14.799.4GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.599.4E-MEXP-711-raw-cel-1563002839
14.399.4E-MEXP-807-raw-cel-1173272921
14.299.4GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
14.199.4GSM133965Fukuda_1-10_8B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
14.199.4E-MEXP-711-raw-cel-1563002803
13.899.4GSM133963Fukuda_1-8_6B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
12.999.3GSM142879GW001_ATH1_A24-Warre-03fGSE6177The effects of the sfr2, sfr3 and sfr6 mutations on lyotropic stress responsesLink to GEO
12.999.3GSM133962Fukuda_1-7_6A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
12.899.3GSM27366lec1-1 StemGSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
12.599.3GSM142878GW001_ATH1_A23-Warre-03fGSE6177The effects of the sfr2, sfr3 and sfr6 mutations on lyotropic stress responsesLink to GEO
12.599.3E-MEXP-711-raw-cel-1563002768
11.699.3GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
11.599.3GSM133025BC181-1GSE5684AtGenExpress: Pathogen Series: Response to Botrytis cinerea infectionLink to GEO
11.499.3GSM157307Gan_1-2_mutant-nitrate-minus(ANM)_Rep1_ATH1GSE6824Identification of genes involved in nutritional regulation of root architectureLink to GEO
11.299.2E-MEXP-711-raw-cel-1563002902
11.299.2GSM133961Fukuda_1-6_4B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
10.699.2GSM184846Arabidopsis, root, longitudinal zone 4, standard conditions, NaCl, replicate 2GSE7639Expression analysis of root developmental zones after treatment with saltLink to GEO
10.499.2GSM142837MG001_ATH1_A16-Torres-6N1GSE6176Impact of Type III effectors on plant defense responsesLink to GEO
10.399.2GSM322548genotype: Wild-type Arabidopsis, ecotype Col-0 - treated or untreated: Bgh inoculated - rep1GSE12856Penetration resistance: Wildtype and ataf1-1 mutant response to Bgh 12 h after inoculation, 2*2 factorial designLink to GEO
10.199.2GSM128720Pieterse_1-6_avrPstDC3000-24h_Rep1_ATH1GSE5525Transcriptome changes of Arabidopsis during pathogen and insect attackLink to GEO
9.899.1GSM184924Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.799.1GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.599.1GSM322550genotype: Wild-type Arabidopsis, ecotype Col-0 - treated or untreated: Bgh inoculated - rep3GSE12856Penetration resistance: Wildtype and ataf1-1 mutant response to Bgh 12 h after inoculation, 2*2 factorial designLink to GEO
9.499.1GSM133960Fukuda_1-5_4A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
9.399.1GSM226549Slice7JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
8.999.0GSM184845Arabidopsis, root, longitudinal zone 4, standard conditions, NaCl, replicate 1GSE7639Expression analysis of root developmental zones after treatment with saltLink to GEO
8.899.0GSM131162AtGen_C-12_3-Pi-6_REP3_ATH1GSE5616AtGenExpress: Response to Phytophthora infestansLink to GEO
8.799.0E-MEXP-807-raw-cel-1173273032
8.799.0GSM133957Fukuda_1-2_0B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
8.799.0GSM157306Gan_1-3_wildtype-nitrate-minus(WNM)_Rep2_ATH1GSE6824Identification of genes involved in nutritional regulation of root architectureLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2501GO:0010618The process that gives rise to aerenchyma, parenchyma tissue containing particularly large intercellular spaces of schizogenous or lysigenous origin. This process pertains to the initial formation of a structure from unspecified parts.Link to AmiGO
0.2221GO:0010310Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving hydrogen peroxide.Link to AmiGO
0.1541GO:0002213A response to protect an organism from a directly detected or perceived external threat from an insect or insects to that organism.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG

Inter-species module comparison

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays



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