ProteomicsProteomeIsotope LabelingTandem Mass SpectrometryMass SpectrometryChromatography, LiquidElectrophoresis, Gel, Two-DimensionalOxygen IsotopesSpectrometry, Mass, Matrix-Assisted Laser Desorption-IonizationPeptidesProteinsChemical FractionationDatabases, ProteinReproducibility of ResultsNitrogen IsotopesAmino Acid SequenceSoftwareMolecular Sequence DataComputational BiologyMetabolic Networks and PathwaysIsotopesGene Expression ProfilingCluster AnalysisPeptide MappingSpectrometry, Mass, Electrospray IonizationBlood ProteinsComplex MixturesProtein Array AnalysisStaining and LabelingProtein Interaction MapsProtein Interaction MappingBlotting, WesternProtein Processing, Post-TranslationalBiological MarkersSequence Analysis, ProteinProteolysisSignal TransductionPeptide FragmentsCell Line, TumorAlgorithmsSmall Ubiquitin-Related Modifier ProteinsChromatography, High Pressure LiquidSystems BiologyHeLa CellsNeoplasm ProteinsTumor Markers, BiologicalArabidopsis ProteinsArabidopsisReference StandardsProtein BindingAmino AcidsProteasome Endopeptidase ComplexMultiprotein ComplexesStress, PhysiologicalBacterial ProteinsSaccharomyces cerevisiae ProteinsModels, BiologicalProtein TransportSaccharomyces cerevisiaeUbiquitinationPlant ProteinsCell LineLysineGene Expression RegulationMembrane ProteinsPhosphorylationCells, CulturedSubcellular FractionsRNA InterferencePlant LeavesRNA, Small InterferingUp-RegulationGene Expression Regulation, PlantNuclear ProteinsElectrophoresis, Polyacrylamide GelIndicators and ReagentsSubstrate SpecificityIonsSuccinimidesHydroxylamineRNA, Messenger