2020
Comparative Proteomic Profiling of Unannotated Microproteins and Alternative Proteins in Human Cell Lines
Cao X, Khitun A, Na Z, Dumitrescu DG, Kubica M, Olatunji E, Slavoff SA. Comparative Proteomic Profiling of Unannotated Microproteins and Alternative Proteins in Human Cell Lines. Journal Of Proteome Research 2020, 19: 3418-3426. PMID: 32449352, PMCID: PMC7429271, DOI: 10.1021/acs.jproteome.0c00254.Peer-Reviewed Original ResearchConceptsRibosome profilingHuman cell linesQuantitative mass spectrometry-based proteomicsCell linesMass spectrometry-based proteomicsLabel-free quantitative proteomicsComplex human proteomeLabel-free comparative proteomicsAlternative open reading framesStress-dependent expressionSpectrometry-based proteomicsTissue-specific expressionOpen reading frameComparative proteomic profilingUnannotated ORFsComparative proteomicsUnannotated proteinsMammalian cellsHuman proteomeQuantitative proteomicsDifferential translationReading frameProteomic profilingHuman leukemia cell linesRegulated expressionGlobal Profiling of Cellular Substrates of Human Dcp2
Luo Y, Schofield J, Simon MD, Slavoff SA. Global Profiling of Cellular Substrates of Human Dcp2. Biochemistry 2020, 59: 4176-4188. PMID: 32365300, PMCID: PMC7641959, DOI: 10.1021/acs.biochem.0c00069.Peer-Reviewed Original ResearchConceptsDecapping enzymeFirst committed stepCellular transcriptsP-bodiesRNA decayCommitted stepHuman transcriptomeMammalian cellsMolecular marksKnockout cellsGlobal profilingConsensus sequenceCellular substratesDCP2Human cellsTranscriptsEnzymeEnzyme substrateCellsDistinct subsetsTranscriptomeAdditive effectEnrichmentRNACytoplasm
2015
The Discovery of Human sORF‐Encoded Polypeptides (SEPs) in Cell Lines and Tissue
Ma J, Ward C, Jungreis I, Slavoff S, Schwaid A, Neveu J, Budnik B, Kellis M, Saghatelian A. The Discovery of Human sORF‐Encoded Polypeptides (SEPs) in Cell Lines and Tissue. The FASEB Journal 2015, 29 DOI: 10.1096/fasebj.29.1_supplement.567.21.Peer-Reviewed Original ResearchShort open reading framesNon-AUG start codonsOpen reading frameCell linesHuman genomeMammalian cellsReading frameStart codonAdditional cell linesPolypeptide productsMolecular biologyUbiquitous classK562 cellsGenomeProteomeHuman SEPsPolypeptideHuman tissuesNew SEPCellsCodonDiscoveryBiologyTissueLines
2014
A Human Short Open Reading Frame (sORF)-encoded Polypeptide That Stimulates DNA End Joining*
Slavoff SA, Heo J, Budnik BA, Hanakahi LA, Saghatelian A. A Human Short Open Reading Frame (sORF)-encoded Polypeptide That Stimulates DNA End Joining*. Journal Of Biological Chemistry 2014, 289: 10950-10957. PMID: 24610814, PMCID: PMC4036235, DOI: 10.1074/jbc.c113.533968.Peer-Reviewed Original ResearchDiscovery of Human sORF-Encoded Polypeptides (SEPs) in Cell Lines and Tissue
Ma J, Ward CC, Jungreis I, Slavoff SA, Schwaid AG, Neveu J, Budnik BA, Kellis M, Saghatelian A. Discovery of Human sORF-Encoded Polypeptides (SEPs) in Cell Lines and Tissue. Journal Of Proteome Research 2014, 13: 1757-1765. PMID: 24490786, PMCID: PMC3993966, DOI: 10.1021/pr401280w.Peer-Reviewed Original ResearchConceptsShort open reading framesNon-AUG start codonsOpen reading frameCell linesHuman genomeMammalian cellsReading frameStart codonAdditional cell linesPolypeptide productsMolecular biologyUbiquitous classK562 cellsGenomeProteomeHuman SEPsPolypeptideHuman tissuesNew SEPCellsCodonDiscoveryBiologyTissueLines