2020
Isoform‐resolved correlation analysis between mRNA abundance regulation and protein level degradation
Salovska B, Zhu H, Gandhi T, Frank M, Li W, Rosenberger G, Wu C, Germain P, Zhou H, Hodny Z, Reiter L, Liu Y. Isoform‐resolved correlation analysis between mRNA abundance regulation and protein level degradation. Molecular Systems Biology 2020, 16: e9170. PMID: 32175694, PMCID: PMC7073818, DOI: 10.15252/msb.20199170.Peer-Reviewed Original ResearchConceptsProtein degradationGenome-wide correlation analysisGene dosage variationProtein abundance levelsStable isotope-labeled amino acidsIndividual protein isoformsSpecific biological processesAlternative splicing isoformsData-independent acquisition mass spectrometryIsotope-labeled amino acidsAcquisition mass spectrometryProtein degradation ratesIntron retentionCellular functionsProtein isoformsSplicing isoformsCellular organellesTranscriptome variabilitySame geneTurnover controlRegulatory mechanismsBiological processesSpecific mRNAsTight associationAbundance levels
2013
Comparison of Resins for Metal Oxide Affinity Chromatography with Mass Spectrometry Detection for the Determination of Phosphopeptides
Salovska B, Tichy A, Fabrik I, Rezacova M, Vavrova J. Comparison of Resins for Metal Oxide Affinity Chromatography with Mass Spectrometry Detection for the Determination of Phosphopeptides. Analytical Letters 2013, 46: 1505-1524. DOI: 10.1080/00032719.2013.773437.Peer-Reviewed Original ResearchCrucial regulatory mechanismAffinity chromatography approachPhosphoproteomic studiesDetermination of phosphopeptidesProtein phosphorylationNon-phosphorylated peptidesRegulatory mechanismsBiological processesBovine proteinInsufficient ionizationMetal oxide affinity chromatographyLow abundancePhosphopeptides
2012
Enrichment strategies for phosphoproteomics: state-of-the-art
Salovska B, Tichy A, Rezacova M, Vavrova J, Novotna E. Enrichment strategies for phosphoproteomics: state-of-the-art. Reviews In Analytical Chemistry 2012, 31: 29-41. DOI: 10.1515/revac-2011-0025.Peer-Reviewed Original ResearchProtein phosphorylationReversible post-translational modificationPost-translational modificationsAffinity enrichment techniquesPhosphorylated peptides/proteinsSubsequent mass spectrometry analysisAnalysis of phosphorylationEnrichment strategyDifferent enrichment strategiesTranslational regulationPhosphorylation sitesCellular signalingPhosphorylated proteinsMass spectrometry analysisPeptides/proteinsKey regulatorBiological processesChemical derivatizationLow abundancePhosphorylationMass spectrometryProteinSpectrometry analysisNonphosphorylated proteinsEnrichment technique