Co-expression analysis

Gene ID At1g31470
Gene name NFD4 (NUCLEAR FUSION DEFECTIVE 4)
Module size 7 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
0.2624.41.00At1g31470840037NFD4 (NUCLEAR FUSION DEFECTIVE 4)F:unknown;P:response to salt stress;C:mitochondrion;PBFOAMO.I.H.G.S.X.
0.6176.70.79At1g13830837944beta-1,3-glucanase-relatedF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PBMOFVAO.I.H.G.S.X.
0.5773.80.79At5g06839830575bZIP family transcription factorF:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PMOFO.I.H.G.S.X.
0.5368.60.78At2g16970816200MEE15 (maternal effect embryo arrest 15)F:tetracycline transporter activity;P:embryonic development ending in seed dormancy;C:integral to membrane;BOMPO.I.H.G.S.X.
0.4659.80.78At5g10280830892ATMYB92 (MYB DOMAIN PROTEIN 92)Encodes a putative transcription factor (MYB92).O.I.H.G.S.X.
0.3643.60.80At3g15300820761VQ motif-containing proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PMO.I.H.G.S.X.
0.2115.80.78At4g21230827872protein kinase family proteinF:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVAO.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
47.699.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
38.999.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
37.499.7GSM133860Beynon_1-3-cat-SpikeMix3_Rep1_ATH1GSE5739Comparison of CATMA, Affymetrix and Agilent arraysLink to GEO
28.899.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
22.599.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
21.799.6GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.199.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
17.599.5GSM133969Birnbaum_1-20_LRC-2_Rep2_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
16.299.5GSM226552Slice10JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
15.699.5GSM205159protoplast_KIN10_rep1GSE8257Identification of KIN10-target genes in Arabidopsis mesophyll cellsLink to GEO
12.899.3GSM133859Beynon_1-2-cat-SpikeMix2_Rep1_ATH1GSE5739Comparison of CATMA, Affymetrix and Agilent arraysLink to GEO
12.399.3GSM147964WT Globular Stage Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
12.399.3GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
12.099.3GSM147963WT Globular Stage Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
11.899.3E-NASC-76-raw-cel-1359878976
11.299.2GSM133968Birnbaum_1-19_LRC-1_Rep1_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
11.199.2GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.999.2E-MEXP-285-raw-cel-440783213
10.699.2GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.699.2GSM184837Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 7GSE7639Expression analysis of root developmental zones after treatment with saltLink to GEO
10.699.2GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.599.2GSM265432Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 1GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
10.499.2GSM184838Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 8GSE7639Expression analysis of root developmental zones after treatment with saltLink to GEO
10.499.2GSM265433Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 2GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
10.399.2GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.099.2E-NASC-76-raw-cel-1359879158
9.999.1GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
9.899.1GSM205185protoplast_KIN10_rep2GSE8257Identification of KIN10-target genes in Arabidopsis mesophyll cellsLink to GEO
9.799.1GSM265425Arabidopsis, root, longitudinal zone 4, standard conditions, rep 2GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
9.499.1GSM205156protoplast_controlDNA_rep1GSE8257Identification of KIN10-target genes in Arabidopsis mesophyll cellsLink to GEO
9.499.1GSM265424Arabidopsis, root, longitudinal zone 4, standard conditions, rep 1GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
8.999.0GSM131297AtGen_6-2421_Osmoticstress-Roots-6.0h_Rep1GSE5622AtGenExpress: Stress Treatments (Osmotic stress)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0171GO:0009751A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a salicylic acid stimulus.Link to AmiGO
0.0161GO:0009753A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a jasmonic acid stimulus.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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