|
1.Module annotation (GSEA enrichment result) | Function Annotation | FDR | Gene Ontolog | | Oxidative_phosphorylation | 0.00186722 | KEGG | | mitochondrial envelope, | 0.002296014 | GO:0005740 | | mitochondrial_respiratory_chain_complex_III | 0.002296014 | GO:0005750 | | vesicle docking involved in exocytosis, | 0.014565567 | GO:0006904 | | mitochondrial electron transport, ubiquinol to cytochrome c, | 0.014565567 | GO:0006122 | | ATPase activity, coupled to transmembrane movement of substances, | 0.022176958 | GO:0042626 | | ubiquitin thiolesterase activity, | 0.022176958 | GO:0004221 | | Endocytosis | 0.044852921 | KEGG | | Phagosome | 0.044852921 | KEGG |
2.Module member annotation | Gene ID | Annotation | Arabidopsis ortholog (Blast e-value) | | PH01000011G1730 | ubiquinol-cytochrome C reductase UQCRX/QCR9-like family protein | AT3G52730 (4.20E-16) | | PH01000260G0620 | RING-box 1 | AT5G20570 (2.30E-17) | | PH01000298G0530 | S-adenosyl-L-methionine-dependent methyltransferases superfamily protein | AT5G44170 (9.30E-57) | | PH01000470G0700 | vacuolar protein sorting 45 | AT1G77140 (0.00E+00) | | PH01002351G0200 | ubiquitin-specific protease 5 | AT2G40930 (0.00E+00) | | PH01003113G0110 | vacuolar ATP synthase subunit D (VATD) / V-ATPase D subunit / vacuolar proton pump D subunit (VATPD) | AT3G58730 (7.00E-109) | | PH01003184G0130 | AtGCP3 interacting protein 1 | AT4G09550 (3.20E-16) |
3.Direct connection functional modules | Module ID | Function Annotation | Overlap condition | | CFinderM000005 | lipid transport,
AP2/ERF-ERF Transcription_Regulator(from iTAK)
ERF Transcription_Regulator(from PlantTFDB)
lipid binding,
ubiquitin thiolesterase activity,
| details | | CFinderM000007 | methylation,
nucleobase-containing compound metabolic process,
| details | | CFinderM000009 | ubiquitin thiolesterase activity,
Oxidative_phosphorylation
ubiquitin-dependent protein catabolic process,
| details | | CFinderM000015 | hexose_metabolic_process
extracellular region,
Glycolysis_/_Gluconeogenesis
| details | | CFinderM000021 | AGC_RSK-2 (from iTAK)
Pentose_and_glucuronate_interconversions
Retinol_metabolism
Drug_metabolism_-_other_enzymes
Metabolism_of_xenobiotics_by_cytochrome_P450
Ascorbate_and_aldarate_metabolism
Steroid_hormone_biosynthesis
Drug_metabolism_-_cytochrome_P450
Porphyrin_and_chlorophyll_metabolism
| details | | CFinderM000022 | basal lamina,
G-protein coupled acetylcholine receptor signaling pathway
receptor clustering,
Ribosome
laminin binding
translation,
intracellular,
structural constituent of ribosome,
| details | | CFinderM000023 | Endocytosis
vesicle docking involved in exocytosis,
RLK-Pelle_LRR-XI-1 (from iTAK)
WRKY Transcription_Regulator(from PlantTFDB)
| details | | CFinderM000027 | Butanoate_metabolism
Citrate_cycle_(TCA_cycle)
Pyruvate_metabolism
Glycolysis_/_Gluconeogenesis
intracellular membrane-bounded organelle,
pyruvate dehydrogenase (acetyl-transferring) activity,
oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor,
vesicle docking involved in exocytosis,
Endocytosis
| details | | CFinderM000041 | Oxidative_phosphorylation
respiratory electron transport chain,
mitochondrial inner membrane,
| details | | CFinderM000045 | RLK-Pelle_LRR-VII-1 (from iTAK)
| details | | CFinderM000049 | vesicle docking involved in exocytosis,
Endocytosis
ubiquitin thiolesterase activity,
| details | | CFinderM000067 | GT57 GlycosylTransferases
mitochondrial_respiratory_chain_complex_III
endoplasmic reticulum membrane,
methylation,
mitochondrial electron transport, ubiquinol to cytochrome c,
N-Glycan_biosynthesis
Oxidative_phosphorylation
nucleobase-containing compound metabolic process,
| details | | CFinderM000071 | Endocytosis
vesicle docking involved in exocytosis,
| details | | CFinderM000073 | BES1 Transcription_Regulator(from PlantTFDB)
large ribosomal subunit,
C2C2-GATA Transcription_Regulator(from iTAK)
GATA Transcription_Regulator(from PlantTFDB)
| details | | CFinderM000074 | Ribosome
translation,
structural constituent of ribosome,
intracellular,
| details | | CFinderM000089 | RLK-Pelle_LRR-VII-1 (from iTAK)
RLK-Pelle_LRR-XI-1 (from iTAK)
protein phosphorylation,
protein kinase activity,
transferase activity, transferring phosphorus-containing groups,
ATP binding,
vesicle docking involved in exocytosis,
Endocytosis
vesicle-mediated transport,
protein serine/threonine kinase activity,
protein binding,
| details | | CFinderM000096 | NF-X1 Transcription_Regulator(from PlantTFDB)
RLK-Pelle_LRR-Xa (from iTAK)
Endocytosis
GATA Transcription_Regulator(from PlantTFDB)
C2C2-GATA Transcription_Regulator(from iTAK)
GRAS Transcription_Regulator(from PlantTFDB)
vesicle docking involved in exocytosis,
| details | | CFinderM000106 | PL1 Polysaccharide_Lyases
NF-YC Transcription_Regulator(from PlantTFDB)
ribonucleoprotein complex,
nucleolus,
cellulose biosynthetic process,
ribosome biogenesis,
| details | | CFinderM000132 | ubiquitin-dependent protein catabolic process,
phospholipid binding,
ubiquitin thiolesterase activity,
| details | | CFinderM000134 | mediator complex,
methylation,
regulation of transcription from RNA polymerase II promoter,
| details | | CFinderM000135 | RLK-Pelle_CrRLK1L-1 (from iTAK)
SWI/SNF-BAF60b Transcription_Regulator(from iTAK)
| details | | CFinderM000138 | RLK-Pelle_LRR-Xa (from iTAK)
GRAS Transcription_Regulator(from PlantTFDB)
vesicle docking involved in exocytosis,
| details | | CFinderM000141 | Other_glycan_degradation
alpha-L-fucosidase activity,
vesicle docking involved in exocytosis,
carbohydrate metabolic process,
Endocytosis
| details | | CFinderM000142 | ZF-HD Transcription_Regulator(from PlantTFDB)
methylation,
nucleobase-containing compound metabolic process,
ubiquitin-dependent protein catabolic process,
| details | | CFinderM000147 | mitochondrial inner membrane presequence translocase complex,
P-P-bond-hydrolysis-driven protein transmembrane transporter activity,
GRAS Transcription_Regulator(from PlantTFDB)
Endocytosis
vesicle docking involved in exocytosis,
| details | | CFinderM000156 | cellular component organization,
actin cytoskeleton organization,
actin binding,
extracellular region,
RNA-dependent DNA replication,
| details | | CFinderM000165 | oxidoreductase activity, acting on CH-OH group of donors,
flavin adenine dinucleotide binding,
oxidation-reduction process,
vesicle docking involved in exocytosis,
Valine,_leucine_and_isoleucine_degradation
oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor,
Histidine_metabolism
Limonene_and_pinene_degradation
Propanoate_metabolism
Tryptophan_metabolism
Lysine_degradation
Chloroalkane_and_chloroalkene_degradation
beta-Alanine_metabolism
Fatty_acid_metabolism
Glycerolipid_metabolism
Ascorbate_and_aldarate_metabolism
Pentose_and_glucuronate_interconversions
| details | | CFinderM000166 | Ribosome
translation,
Ribosome
structural constituent of ribosome,
intracellular,
mitochondrial envelope,
cytochrome-c oxidase activity,
polysaccharide_binding
ubiquitin thiolesterase activity,
Oxidative_phosphorylation
ubiquitin-dependent protein catabolic process,
| details | | CFinderM000167 | riboflavin synthase activity,
Riboflavin_metabolism
vesicle docking involved in exocytosis,
riboflavin biosynthetic process,
| details | | CFinderM000198 | arginine decarboxylase activity,
vesicle docking involved in exocytosis,
spermidine biosynthetic process,
arginine catabolic process,
Endocytosis
RNA_degradation
| details | | CFinderM000208 | Endocytosis
vesicle docking involved in exocytosis,
GATA Transcription_Regulator(from PlantTFDB)
TALE Transcription_Regulator(from PlantTFDB)
HB-BELL Transcription_Regulator(from iTAK)
C2C2-GATA Transcription_Regulator(from iTAK)
RLK-Pelle_L-LEC (from iTAK)
GRAS Transcription_Regulator(from PlantTFDB)
| details | | CFinderM000211 | PL1 Polysaccharide_Lyases
RLK-Pelle_LRR-XI-1 (from iTAK)
RLK-Pelle_LRR-III (from iTAK)
ubiquitin-dependent protein catabolic process,
protein phosphorylation,
| details | | CFinderM000223 | | details | | CFinderM000241 | signal peptidase complex,
Protein_export
signal peptide processing,
| details | | CFinderM000276 | C2C2-Dof Transcription_Regulator(from iTAK)
Dof Transcription_Regulator(from PlantTFDB)
Endocytosis
RLK-Pelle_LRR-III (from iTAK)
vesicle docking involved in exocytosis,
| details | | CFinderM000280 | BES1 Transcription_Regulator(from PlantTFDB)
ubiquitin-dependent protein catabolic process,
ubiquitin thiolesterase activity,
| details | | CFinderM000292 | Basal_transcription_factors
nucleus,
HSF Transcription_Regulator(from PlantTFDB)
vesicle docking involved in exocytosis,
Endocytosis
| details | | CFinderM000301 | HSF Transcription_Regulator(from PlantTFDB)
large ribosomal subunit,
RLK-Pelle_LRR-III (from iTAK)
Spliceosome
| details | | CFinderM000303 | HB-BELL Transcription_Regulator(from iTAK)
TALE Transcription_Regulator(from PlantTFDB)
| details | | CFinderM000322 | Endocytosis
protein refolding,
vesicle docking involved in exocytosis,
nucleus,
| details | | CFinderM000344 | signal peptidase complex,
Protein_export
methylation,
signal peptide processing,
nucleobase-containing compound metabolic process,
| details | | CFinderM000369 | translational elongation,
Ribosome
Ribosome
structural constituent of ribosome,
intracellular,
ubiquitin thiolesterase activity,
| details | | CFinderM000416 | basal lamina,
G-protein coupled acetylcholine receptor signaling pathway
receptor clustering,
laminin binding
nucleosome,
| details | | CFinderM000417 | Spliceosome
nucleotide binding,
nucleic acid binding,
vesicle docking involved in exocytosis,
Endocytosis
vesicle-mediated transport,
| details | | CFinderM000423 | Endocytosis
proteolysis,
vesicle docking involved in exocytosis,
| details | | CFinderM000440 | Endocytosis
cell wall,
apoplast,
xyloglucan:xyloglucosyl transferase activity,
cellular glucan metabolic process,
vesicle docking involved in exocytosis,
serine-type carboxypeptidase activity,
| details | | CFinderM000488 | microtubule,
protein complex,
structural constituent of cytoskeleton,
protein polymerization,
microtubule-based process,
Phagosome
GTP_catabolic_process
GTPase activity,
GTP binding,
adenosylhomocysteinase activity,
one-carbon metabolic process,
vesicle docking involved in exocytosis,
exocyst,
Cysteine_and_methionine_metabolism
ubiquitin thiolesterase activity,
| details | | CFinderM000491 | intracellular,
GDP-mannose metabolic process,
ubiquitin-dependent protein catabolic process,
intracellular transport,
GDP-mannose 4,6-dehydratase activity,
Ribosome
translation,
vesicle docking involved in exocytosis,
proteasome core complex, alpha-subunit complex,
proteasome core complex,
large ribosomal subunit,
Ribosome
proteolysis involved in cellular protein catabolic process,
structural constituent of ribosome,
endopeptidase activity,
threonine-type endopeptidase activity,
| details | | CFinderM000657 | vesicle docking involved in exocytosis,
Oxidative_phosphorylation
Endocytosis
nucleosome,
vesicle-mediated transport,
nucleosome assembly,
| details | | CFinderM000838 | Ribosome
translation,
structural constituent of ribosome,
methylation,
large ribosomal subunit,
intracellular,
nucleobase-containing compound metabolic process,
| details | | CFinderM000867 | protein complex,
mediator complex,
RNA_polymerase_II_transcription_cofactor_activity
protein polymerization,
regulation of transcription from RNA polymerase II promoter,
vesicle docking involved in exocytosis,
vesicle-mediated transport,
GTP_catabolic_process
| details | | CFinderM001023 | vesicle docking involved in exocytosis,
vesicle-mediated transport,
| details | | CFinderM001185 | NF-YC Transcription_Regulator(from PlantTFDB)
mediator complex,
CCAAT-binding factor complex,
GATA Transcription_Regulator(from PlantTFDB)
C2C2-GATA Transcription_Regulator(from iTAK)
Endocytosis
RNA_polymerase_II_transcription_cofactor_activity
sequence-specific DNA binding,
sequence-specific DNA binding transcription factor activity,
vesicle docking involved in exocytosis,
regulation of transcription from RNA polymerase II promoter,
regulation of transcription, DNA-dependent,
vesicle-mediated transport,
protein_heterodimerization_activity
| details | | CFinderM001334 | proton-transporting V-type ATPase, V0 domain,
mediator complex,
proton-transporting two-sector ATPase complex, proton-transporting domain,
RNA metabolic process,
regulation of transcription from RNA polymerase II promoter,
ATP hydrolysis coupled proton transport,
| details | | CFinderM001337 | GT41 GlycosylTransferases
DDT Transcription_Regulator(from iTAK)
proton-transporting V-type ATPase, V0 domain,
ATP hydrolysis coupled proton transport,
RNA metabolic process,
| details |
4.Expression profilings |
