|
1.Module annotation (GSEA enrichment result) | Function Annotation | FDR | Gene Ontolog | | proton-transporting V-type ATPase, V0 domain, | 0.010802438 | GO:0033179 | | mediator complex, | 0.010802438 | GO:0016592 | | proton-transporting two-sector ATPase complex, proton-transporting domain, | 0.010802438 | GO:0033177 | | RNA metabolic process, | 0.043669446 | GO:0016070 | | regulation of transcription from RNA polymerase II promoter, | 0.043669446 | GO:0006357 | | ATP hydrolysis coupled proton transport, | 0.043669446 | GO:0015991 |
2.Module member annotation | Gene ID | Annotation | Arabidopsis ortholog (Blast e-value) | | PH01000287G0620 | RNA polymerase II transcription mediators | AT4G00450 (2.00E-149) | | PH01000359G0830 | vacuolar H+-pumping ATPase 16 kDa proteolipid subunit 4 | AT1G75630 (1.60E-59) | | PH01000391G0300 | Helicase/SANT-associated, DNA binding protein | AT3G24880 (0.00E+00) | | PH01000652G0230 | Cox19-like CHCH family protein | AT5G09570 (4.70E-22) | | PH01000778G0060 | Homeodomain-like transcriptional regulator | AT5G44180 (6.00E-158) | | PH01000793G0180 | binding;RNA binding | AT2G39260 (0.00E+00) | | PH01000862G0160 | ATP-dependent helicase family protein | AT1G08060 (7.90E-93) | | PH01002351G0200 | ubiquitin-specific protease 5 | AT2G40930 (0.00E+00) | | PH01006106G0050 | basic region/leucine zipper motif 53 | AT3G62420 (2.20E-28) |
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 | | 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 | | 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 | | 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 | | 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 | | 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 | | 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 | | 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 | | CFinderM000423 | Endocytosis
proteolysis,
vesicle docking involved in exocytosis,
| details | | CFinderM000476 | Oxidative_phosphorylation
mitochondrial envelope,
mitochondrial_respiratory_chain_complex_III
vesicle docking involved in exocytosis,
mitochondrial electron transport, ubiquinol to cytochrome c,
ATPase activity, coupled to transmembrane movement of substances,
ubiquitin thiolesterase activity,
Endocytosis
Phagosome
| details | | CFinderM000481 | proton-transporting two-sector ATPase complex, proton-transporting domain,
proton-transporting V-type ATPase, V0 domain,
SNF2 Transcription_Regulator(from iTAK)
Phagosome
Oxidative_phosphorylation
ATP hydrolysis coupled proton transport,
hydrogen ion transmembrane transporter activity,
RB Transcription_Regulator(from iTAK)
DDT Transcription_Regulator(from iTAK)
clathrin coat of trans-Golgi network vesicle,
clathrin coat of coated pit,
mediator complex,
PHD Transcription_Regulator(from iTAK)
| 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 | | CFinderM000617 | SNF2 Transcription_Regulator(from iTAK)
helicase activity,
DNA binding,
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides,
| details | | CFinderM000838 | Ribosome
translation,
structural constituent of ribosome,
methylation,
large ribosomal subunit,
intracellular,
nucleobase-containing compound metabolic process,
| details | | CFinderM001140 | RB Transcription_Regulator(from iTAK)
nucleus,
regulation_of_cell_cycle
SNF2 Transcription_Regulator(from iTAK)
Drug_metabolism_-_cytochrome_P450
Metabolism_of_xenobiotics_by_cytochrome_P450
Glutathione_metabolism
| 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 | | CFinderM001410 | PHD Transcription_Regulator(from iTAK)
mediator complex,
proton-transporting two-sector ATPase complex, proton-transporting domain,
proton-transporting V-type ATPase, V0 domain,
SNF2 Transcription_Regulator(from iTAK)
regulation of transcription from RNA polymerase II promoter,
ATP hydrolysis coupled proton transport,
RNA metabolic process,
zinc ion binding,
protein binding,
RNA_polymerase_II_transcription_cofactor_activity
N-acetyltransferase_activity
hydrogen ion transmembrane transporter activity,
DNA binding,
| details | | CFinderM001411 | proton-transporting V-type ATPase, V0 domain,
proton-transporting two-sector ATPase complex, proton-transporting domain,
RNA metabolic process,
ATP hydrolysis coupled proton transport,
| details | | CFinderM001797 | proton-transporting two-sector ATPase complex, proton-transporting domain,
proton-transporting V-type ATPase, V0 domain,
mediator complex,
regulation of transcription from RNA polymerase II promoter,
ATP hydrolysis coupled proton transport,
MYB-related Transcription_Regulator(from iTAK)
RNA_polymerase_II_transcription_cofactor_activity
hydrogen ion transmembrane transporter activity,
Phagosome
Oxidative_phosphorylation
| details |
4.Expression profilings |
