Co-expression analysis

Gene ID At4g38130
Gene name HD1 (HISTONE DEACETYLASE 1)
Module size 85 genes
NF 0.35
%ile 46.8



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
1.00100.01.00At4g38130829969HD1 (HISTONE DEACETYLASE 1)Encodes a histone deacetylase that enhances AtERF7-mediated transcriptional repression. Binds SIM3 and ERF7. Expressed in the nucleus in most tissues examined and throughout the life of the plant. Involved in jasmonic acid and ethylene dependent pathogen resistance. The sequence in GenBank has 17 AG dinucleotide repeats missing, which is also missing in Ler shotgun sequence from Cereon. Although it is annotated to be in Columbia, the GB sequence is probably not of Columbia origin. Plays a role in embryogenesis as mutants grown at higher temperatures display abnormalities in the organization of the root and shoot. Plant lines expressing an RNAi construct targeted against HDA19 shows some resistance to agrobacterium-mediated root transformation.O.I.H.G.S.X.
0.6176.70.93At5g04280830307glycine-rich RNA-binding proteinF:RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:nucleolus;MPFOBVAO.I.H.G.S.X.
0.5773.80.93At5g64200836541ATSC35encodes an SC35-like splicing factor of 35 kD localized to the nuclear specks.O.I.H.G.S.X.
0.5267.40.90At3g15010820730RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:nucleolus;MBPOFVAO.I.H.G.S.X.
0.5166.30.91At4g39520830106GTP-binding protein, putativeF:GTP binding;P:unknown;C:intracellular;BOMAFPO.I.H.G.S.X.
0.5166.30.92At5g11170830986ATP binding / ATP-dependent helicase/ helicase/ nucleic acid bindingF:helicase activity, ATP-dependent helicase activity, nucleic acid binding, ATP binding;P:response to cadmium ion;C:nucleolus;BOMFPAVO.I.H.G.S.X.
0.5065.30.92At2g25970817137KH domain-containing proteinF:RNA binding, nucleic acid binding;P:unknown;C:unknown;MBFOPVAO.I.H.G.S.X.
0.4963.50.91At1g54270841868EIF4A-2member of eIF4A - eukaryotic initiation factor 4AO.I.H.G.S.X.
0.4862.50.92At5g09900830850EMB2107 (EMBRYO DEFECTIVE 2107)Encodes one of two isoforms for the 26S proteasome regulatory protein (RN) subunit RPN5. For many functions it acts redundantly with the paralogous gene RPN5b but also appears to exert independent effects.O.I.H.G.S.X.
0.4761.20.92At1g20200838609EMB2719 (EMBRYO DEFECTIVE 2719)F:enzyme regulator activity;P:embryonic development ending in seed dormancy, ubiquitin-dependent protein catabolic process;C:plasma membrane, proteasome regulatory particle, lid subcomplex;MFPOO.I.H.G.S.X.
0.4761.20.92At4g04950825835thioredoxin family proteinF:electron carrier activity, protein disulfide oxidoreductase activity;P:cell redox homeostasis;C:unknown;BOMPFAVO.I.H.G.S.X.
0.4659.80.91At4g39280830084phenylalanyl-tRNA synthetase, putative / phenylalanine--tRNA ligase, putativeF:phenylalanine-tRNA ligase activity, aminoacyl-tRNA ligase activity, nucleotide binding, ATP binding;P:phenylalanyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:cytoplasm;BOMAFPO.I.H.G.S.X.
0.4558.30.92At1g65650842876UCH2F:ubiquitin-specific protease activity, ubiquitin thiolesterase activity;P:protein deubiquitination, shoot development, shoot morphogenesis, leaf development, ubiquitin-dependent protein catabolic process;C:nucleus, intracellular, cytoplasm;MFOPO.I.H.G.S.X.
0.4558.30.91At3g07300819918eukaryotic translation initiation factor 2B family protein / eIF-2B family proteinF:GTP binding, translation initiation factor activity;P:translational initiation, cellular metabolic process;C:eukaryotic translation initiation factor 2B complex;OBMFAPO.I.H.G.S.X.
0.4558.30.91At5g27540832814MIRO1 (Miro-related GTP-ase 1)Encodes a protein with similarity to GTPases that is localized to the mitochondrion. Involved in embryogenesis, pollen tube growth and required for mitochondrial development.O.I.H.G.S.X.
0.4457.20.92At5g50320835098ELO3 (ELONGATA 3)A subunit of Elongator, a histone acetyl transferase complex, consisting of six subunits (ELP1–ELP6), that copurifies with the elongating RNAPII in yeast and humans. Three Arabidopsis thaliana genes, encoding homologs of the yeast Elongator subunits ELP1, ELP3 (histone acetyl transferase), and ELP4 are responsible for the narrow leaf phenotype in elongata mutants and for reduced root growth that results from a decreased cell division rate. Two lines with RNAi constructs directed against HAG3 grow normally and can produce root calli, but have defects in agrobacterium-mediated transformation.O.I.H.G.S.X.
0.4457.20.90At2g24590816995splicing factor, putativeF:zinc ion binding, nucleotide binding, nucleic acid binding;P:RNA splicing;C:nucleolus;MPFOBVAO.I.H.G.S.X.
0.4457.20.91At2g34970818061eIF4-gamma/eIF5/eIF2-epsilon domain-containing proteinF:binding, transferase activity, translation initiation factor activity, nucleotidyltransferase activity;P:biosynthetic process, regulation of translational initiation;C:unknown;BOMAFPO.I.H.G.S.X.
0.4253.90.91At2g26060817147emb1345 (embryo defective 1345)F:nucleotide binding;P:embryonic development ending in seed dormancy;C:heterotrimeric G-protein complex;MFOBPAO.I.H.G.S.X.
0.4253.90.90At2g43770818980transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex, heterotrimeric G-protein complex;MFOBPAVO.I.H.G.S.X.
0.4253.90.92At1g04510839503transducin family protein / WD-40 repeat family proteinF:ubiquitin-protein ligase activity, nucleotide binding;P:response to cadmium ion;C:nucleolus, CUL4 RING ubiquitin ligase complex;MFOBPAO.I.H.G.S.X.
0.4152.40.90At5g02530831923RNA and export factor-binding protein, putativeF:nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MFOPBVAO.I.H.G.S.X.
0.4050.80.90At1g18070838387EF-1-alpha-related GTP-binding protein, putativeF:translation factor activity, nucleic acid binding, GTP binding, translation release factor activity, GTPase activity;P:translational termination;C:vacuole;BMOFPAO.I.H.G.S.X.
0.4050.80.92At4g2482082858526S proteasome regulatory subunit, putative (RPN7)F:molecular_function unknown;P:protein catabolic process, ubiquitin-dependent protein catabolic process;C:nucleus, plasma membrane, proteasome regulatory particle, lid subcomplex, membrane;MFPOO.I.H.G.S.X.
0.4050.80.90At3g19760821513eukaryotic translation initiation factor 4A, putative / eIF-4A, putative / DEAD box RNA helicase, putativeF:helicase activity, ATP binding, ATP-dependent helicase activity, nucleic acid binding;P:unknown;C:nucleolus, nucleus, membrane;BOMFPAVO.I.H.G.S.X.
0.4050.80.91At4g15900827272PRL1 (PLEIOTROPIC REGULATORY LOCUS 1)Mutations confer hypersensitivity to glucose and sucrose and augments sensitivity to cytokinin, ethylene, ABA and auxin. Encodes a nuclear WD40 protein that is imported into the nucleus. Essential for plant innate immunity. Interacts with MOS4 and AtCDC5. It is also predicted to have two DWD motifs. It can bind to DDB1a in Y2H assays, and DDB1b in co-IP assays, and may be involved in the formation of a CUL4-based E3 ubiquitin ligase, and may affect the stability of AKIN10.O.I.H.G.S.X.
0.3948.40.91At1g01910839305anion-transporting ATPase, putativeF:ATP binding;P:cellular metal ion homeostasis, anion transport;C:membrane;BOMAFPO.I.H.G.S.X.
0.3948.40.90At3g07170819904sterile alpha motif (SAM) domain-containing proteinF:transferase activity, transferring glycosyl groups;P:biological_process unknown;C:cellular_component unknown;MPOBFO.I.H.G.S.X.
0.3948.40.92At3g13570820559SCL30aencodes an SC35-like splicing factor of 30 kD that is localized to the nuclear specks.O.I.H.G.S.X.
0.3948.40.91At3g58560825025endonuclease/exonuclease/phosphatase family proteinF:hydrolase activity;P:biological_process unknown;C:cellular_component unknown;MPOFBO.I.H.G.S.X.
0.3948.40.92At2g19540816473transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFOPBAO.I.H.G.S.X.
0.3948.40.91At4g01320828209ATSTE24CAAX protease with broad substrate specificity. Localized exclusively to the endoplasmic reticulum.O.I.H.G.S.X.
0.3948.40.91At3g59990825169MAP2B (METHIONINE AMINOPEPTIDASE 2B)Encodes a MAP2 like methionine aminopeptidaseO.I.H.G.S.X.
0.3846.70.92At3g56860824853UBP1 interacting protein 2a (UBA2a)encodes a nuclear protein that binds to RNA with a specificity for oligouridylates in vitro. Along with UBP1 and UBA1a, it may act as a component of a complex recognizing U-rich sequences in plant 3'-UTRs and contributing to the stabilization of mRNAs in the nucleus.O.I.H.G.S.X.
0.3846.70.91At5g20920832216EIF2 BETAprotein synthesis initiation factor eIF2 betaO.I.H.G.S.X.
0.3745.00.91At5g43960834419nuclear transport factor 2 (NTF2) family protein / RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:transport, nucleocytoplasmic transport;C:intracellular;MPFOBVAO.I.H.G.S.X.
0.3745.00.92At4g38630830019RPN10 (REGULATORY PARTICLE NON-ATPASE 10)Regulatory particle non-ATPase subunit of the 26S proteasome with multiubiquitin-chain-binding capabilitiesO.I.H.G.S.X.
0.3643.60.90At2g29080817456ftsh3 (FtsH protease 3)encodes an FtsH protease that is localized to the mitochondrionO.I.H.G.S.X.
0.3643.60.91At5g05780830463RPN8A (RP NON-ATPASE SUBUNIT 8A)Encodes a putative 26S proteasome subunit RPN8a. The function of RPN8a and other 26S subunits may be required for specifying leaf adaxial identity.O.I.H.G.S.X.
0.3643.60.91At5g09860830846nuclear matrix protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPAO.I.H.G.S.X.
0.3643.60.91At1g04170839238EIF2 GAMMAprotein synthesis initiation factor eIF2 gammaO.I.H.G.S.X.
0.3541.60.90At4g30890829213UBP24 (UBIQUITIN-SPECIFIC PROTEASE 24)Encodes a ubiquitin-specific protease.O.I.H.G.S.X.
0.3541.60.90At1g09620837489ATP binding / aminoacyl-tRNA ligase/ leucine-tRNA ligase/ nucleotide bindingF:nucleotide binding, aminoacyl-tRNA ligase activity, leucine-tRNA ligase activity, ATP binding;P:leucyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:chloroplast;BOMAFPO.I.H.G.S.X.
0.3541.60.91At1g09150837434pseudouridine synthase and archaeosine transglycosylase (PUA) domain-containing proteinF:RNA binding;P:biological_process unknown;C:cellular_component unknown;MOFAPO.I.H.G.S.X.
0.3541.60.91At4g08960826474phosphotyrosyl phosphatase activator (PTPA) family proteinF:phosphatase activator activity;P:biological_process unknown;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.3541.60.91At4g25550828660protein bindingF:protein binding;P:biological_process unknown;C:cellular_component unknown;MOFPO.I.H.G.S.X.
0.3541.60.91At5g38470833835DNA repair protein RAD23, putativeF:damaged DNA binding;P:response to cold, nucleotide-excision repair;C:nucleus;MPOFBVAO.I.H.G.S.X.
0.3541.60.90At5g62050836325OXA1essential factor for protein sorting and assembly into membranesO.I.H.G.S.X.
0.3439.80.91At3g12130820388KH domain-containing protein / zinc finger (CCCH type) family proteinF:transcription factor activity, nucleic acid binding;P:regulation of transcription;C:unknown;MPOFBO.I.H.G.S.X.
0.3439.80.91At3g02220821238unknown proteinF:unknown;P:biological_process unknown;C:cellular_component unknown;MOPFBAO.I.H.G.S.X.
0.3439.80.91At1g64550842763ATGCN3member of GCN subfamilyO.I.H.G.S.X.
0.3338.10.90At1g16900838261sugar binding / transferase, transferring glycosyl groupscurculin-like (mannose-binding) lectin family protein, very low similarity to Ser Thr protein kinase GI:2598067 from (Zea mays); contains Pfam lectin (probable mannose binding) domain PF01453 but not the protein kinase domain of the Z. mays proteinO.I.H.G.S.X.
0.3338.10.90At5g5795083590626S proteasome regulatory subunit, putativeF:protein binding;P:intracellular signaling cascade;C:proteasome regulatory particle;MOFBPO.I.H.G.S.X.
0.3235.70.90At3g49990824161-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFPBVAO.I.H.G.S.X.
0.3235.70.91At3g61240825296DEAD/DEAH box helicase, putative (RH12)F:helicase activity, ATP-dependent helicase activity, ATP binding, nucleic acid binding;P:unknown;C:unknown;OBMFPAVO.I.H.G.S.X.
0.3235.70.90At3g02530821160chaperonin, putativeF:unfolded protein binding, protein binding, ATP binding;P:response to cadmium ion;C:membrane, cytoplasm;BOMFPAO.I.H.G.S.X.
0.3235.70.92At3g13920820605EIF4A1 (EUKARYOTIC TRANSLATION INITIATION FACTOR 4A1)eukaryotic translation initiation factor 4A-1O.I.H.G.S.X.
0.3133.80.91At1g13060837863PBE1Encodes 20S proteasome beta subunit PBE1 (PBE1).O.I.H.G.S.X.
0.3133.80.90At1g43190840918polypyrimidine tract-binding protein, putative / heterogeneous nuclear ribonucleoprotein, putativeF:RNA binding, nucleotide binding, nucleic acid binding;P:mRNA processing;C:nucleus;MPOFO.I.H.G.S.X.
0.3133.80.91At1g10840837627TIF3H1Encodes eukaryotic initiation factor 3H1 subunit (TIF3H1).O.I.H.G.S.X.
0.3133.80.91At5g20890832213chaperonin, putativeF:unfolded protein binding, protein binding, ATP binding;P:protein folding, cellular protein metabolic process;C:anchored to plasma membrane, cell wall;BOMFPAO.I.H.G.S.X.
0.3032.10.91At1g64520842760RPN12a (Regulatory Particle non-ATPase 12a)F:peptidase activity;P:in 14 processes;C:proteasome complex, nucleus, proteasome regulatory particle, lid subcomplex, chloroplast envelope;MFOPO.I.H.G.S.X.
0.2930.30.91At3g57290824896EIF3E (EUKARYOTIC TRANSLATION INITIATION FACTOR 3E)Encodes a protein that is found in not only the eif3 complex but also in association with subunits of the COP9 signalosome. eIF3e appears to be subjected to proteasome-dependent degradation that requires the PCI domain of eIF3e. The level of eIF3e present in cells appears to affect the rate of translation.O.I.H.G.S.X.
0.2930.30.91At1g65270842834unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum, plasma membrane;MPOO.I.H.G.S.X.
0.2930.30.91At5g49510835011PDF3 (PREFOLDIN 3)F:unfolded protein binding;P:protein folding;C:prefoldin complex;MFOPO.I.H.G.S.X.
0.2930.30.91At5g28740832986transcription-coupled DNA repair protein-relatedF:binding;P:RNA processing;C:intracellular;MFOPBAO.I.H.G.S.X.
0.2930.30.91At1g30580839938GTP bindingF:GTP binding;P:response to cadmium ion;C:intracellular;OBMFAPO.I.H.G.S.X.
0.2930.30.90At4g34270829577TIP41-like family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.2830.30.90At1g73840843720ESP1 (ENHANCED SILENCING PHENOTYPE 1)Resembles the CstF64 family of RNA processing factors that are conserved between yeast and mammals. In mammals, CstF64 is a component of the CstF complex which is required for mRNA 3'end formation along with other factors.O.I.H.G.S.X.
0.2830.30.90At5g23250832389succinyl-CoA ligase (GDP-forming) alpha-chain, mitochondrial, putative / succinyl-CoA synthetase, alpha chain, putative / SCS-alpha, putativeF:succinate-CoA ligase (ADP-forming) activity, succinate-CoA ligase (GDP-forming) activity, binding, ATP citrate synthase activity, catalytic activity;P:metabolic process;C:mitochondrion;OBMAFPO.I.H.G.S.X.
0.2830.30.92At5g63110836431HDA6 (HISTONE DEACETYLASE 6)RPD3-like histone deacetylase. HDA6 mutations specifically increase the expression of auxin-responsive transgenes, suggesting a role in transgene silencing.O.I.H.G.S.X.
0.2830.30.91At3g60820825253PBF1Encodes 20S proteasome beta subunit PBF1 (PBF1).O.I.H.G.S.X.
0.2726.20.91At3g04610819619FLK (flowering locus KH domain)F:RNA binding, nucleic acid binding;P:positive regulation of flower development;C:nucleus;MOPFVBO.I.H.G.S.X.
0.2624.40.90At2g39990818587EIF2translation initiation factor eIF2 p47 subunit homologO.I.H.G.S.X.
0.2624.40.91At3g0963082012060S ribosomal protein L4/L1 (RPL4A)F:structural constituent of ribosome;P:translation;C:in 9 components;MOAFPBO.I.H.G.S.X.
0.2420.70.91At3g22110821774PAC1Encodes the alpha-3 subunit of 20s proteasome.O.I.H.G.S.X.
0.2319.30.90At3g54540824619ATGCN4member of GCN subfamilyO.I.H.G.S.X.
0.2319.30.90At1g18080838388ATARCAEncodes the Arabidopsis thaliana homolog of the tobacco WD-40 repeat ArcA gene.O.I.H.G.S.X.
0.2217.50.90At2g3161081771940S ribosomal protein S3 (RPS3A)F:structural constituent of ribosome;P:response to salt stress, translation, response to abiotic stimulus;C:in 6 components;BOMAPFO.I.H.G.S.X.
0.2115.80.90At1g26370839179RNA helicase, putativeF:in 6 functions;P:biological_process unknown;C:chloroplast;MBOFVPAO.I.H.G.S.X.
0.2115.80.90At1g61010842393CPSF73-I (CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR 73-I)F:protein binding;P:mRNA polyadenylation;C:mRNA cleavage and polyadenylation specificity factor complex, nucleus;BOMAFPVO.I.H.G.S.X.
0.2115.80.91At2g47970819409NPL4 family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.1912.70.91At2g28390817387SAND family proteinF:unknown;P:unknown;C:chloroplast;MFOBPAVO.I.H.G.S.X.
0.1811.40.90At4g12590826872unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion, endoplasmic reticulum;MFOPO.I.H.G.S.X.
0.1811.40.91At1g54610841903protein kinase family proteinF:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation, N-terminal protein myristoylation;C:plasma membrane;MPOFBVAO.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
50.799.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.999.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.599.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.099.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.799.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
44.199.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.599.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.299.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.199.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.999.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.799.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.599.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.199.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.899.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.799.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.599.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.999.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
35.899.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.599.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
33.899.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.599.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.199.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.799.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.899.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
29.699.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.899.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.499.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.399.3GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.999.1GSM311275Laser capture microdissected (LCM) micropylar endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
9.599.1GSM311276Laser capture microdissected (LCM) micropylar endospermr at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
9.399.1GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
8.999.0GSM142625MC002_ATH1_A1.3-dubos-wtxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0714GO:0030163The chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds.Link to AmiGO
0.0645GO:0006413The process preceding formation of the peptide bond between the first two amino acids of a protein. This includes the formation of a complex of the ribosome, mRNA, and an initiation complex that contains the first aminoacyl-tRNA.Link to AmiGO
0.0483GO:0008380The process of removing sections of the primary RNA transcript to remove sequences not present in the mature form of the RNA and joining the remaining sections to form the mature form of the RNA.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.126903050ProteasomeLink to KEGG PATHWAY
0.030200970Aminoacyl-tRNA biosynthesisLink to KEGG PATHWAY
0.030203018RNA degradationLink to KEGG PATHWAY

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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