Molecular & Cellular Proteomics
Papers 4,171
1 page of 418 pages (4,171 results)
#1Kevin A. KovalchikH-Index: 7
#2Qing Ma (U of O: University of Ottawa)H-Index: 1
Last. Isabelle SiroisH-Index: 11
view all 21 authors...
Mass spectrometry (MS)-based immunopeptidomics is maturing into an automatized, high-throughput technology, producing small- to large-scale datasets of clinically relevant MHC class I- and II-associated peptides. Consequently, the development of quality control (QC) and quality assurance (QA) systems capable of detecting sample and/or measurement issues is important for instrument operators and scientists in charge of downstream data interpretation. Here, we created MhcVizPipe (MVP), a semi-auto...
#1John W. Froehlich (Boston Children's Hospital)H-Index: 19
#2Hsin-Hsaio Scott Wang (Boston Children's Hospital)
Last. Richard S. Lee (Boston Children's Hospital)H-Index: 40
view all 8 authors...
Urologic chronic pelvic pain syndrome (UCPPS) is a condition of unknown etiology characterized by pelvic pain, and urinary frequency and/or urgency. As the proximal fluid of this syndrome, urine is an ideal candidate sample matrix for an unbiased study of UCPPS. In this study, a large, discovery-phase, TMT-based quantitative urinary proteomics analysis of 244 subjects was performed. The subjects included patients with UCPPS (n=82), healthy controls (HC) (n=94) and disparate chronic pain diseases...
#1Nadine Zimmann (Charles University in Prague)H-Index: 1
#2Petr Rada (Charles University in Prague)H-Index: 9
Last. Jan Tachezy (Charles University in Prague)H-Index: 43
view all 9 authors...
The lysosome represents a central degradative compartment of eukaryote cells, yet little is known about the biogenesis and function of this organelle in parasitic protists. Whereas the mannose 6-phosphate (M6P)-dependent system is dominant for lysosomal targeting in metazoans, oligosaccharide-independent sorting has been reported in other eukaryotes. In this study, we investigated the phagolysosomal proteome of the human parasite Trichomonas vaginalis, its protein targeting and the involvement o...
#1Mark A. Villamil (UCI: University of California, Irvine)H-Index: 1
#2Weidi Xiao (Protein Sciences)H-Index: 4
Last. Peter K. Kaiser (UCI: University of California, Irvine)H-Index: 105
view all 6 authors...
Protein ubiquitylation is an important post-translational modification that governs most cellular processes. Signaling functions of ubiquitylation are very diverse and involve proteolytic as well as non-proteolytic events, such as localization, regulation of protein interactions, and control of protein activity. The intricacy of ubiquitin signaling is further complicated by several different polyubiquitin chain types that are likely recognized and interpreted by different protein readers. For ex...
#1Kosuke Ogata (Kyoto University)H-Index: 3
#2Yasushi Ishihama (Kyoto University)H-Index: 65
Reversed-phase solid-phase extraction (SPE) techniques are commonly used for desalting samples prior to liquid chromatography/tandem mass spectrometry (LC/MS/MS) in shotgun proteomics. However, hydrophilic peptides are often lost during the desalting step under the standard SPE conditions. Here we describe a simple protocol in which a StageTip packed with a poly(styrene-divinylbenzene) copolymer disc is used at 4 °C during sample loading without any organic solvent. Using this method, which we d...
#1Johanna Krahmer (Edin.: University of Edinburgh)H-Index: 7
#2Matthew Hindle (Edin.: University of Edinburgh)H-Index: 11
Last. Andrew J. Millar (Edin.: University of Edinburgh)H-Index: 71
view all 9 authors...
24-hour, circadian rhythms control many eukaryotic mRNA levels, whereas the levels of their more stable proteins are not expected to reflect the RNA rhythms, emphasizing the need to test the circadian regulation of protein abundance and modification. Here we present circadian proteomic and phosphoproteomic time-series from Arabidopsis thaliana plants under constant light conditions, estimating that just 0.4% of quantified proteins but a much larger proportion of quantified phospho-sites were rhy...
#1Victor Laigle (PSL Research University)
#2Florent Dingli (PSL Research University)H-Index: 27
Last. Laurence Levy (University of Paris)H-Index: 1
view all 11 authors...
RNF111/Arkadia is an E3 ubiquitin ligase that activates the TGF-β pathway by degrading transcriptional repressors SKIL/SnoN and SKI, and truncations of the RING C-terminal domain of RNF111 that abolish its E3 function and subsequently TGF-β signaling are observed in some cancers. In the present study, we sought to perform a comprehensive analysis of RNF111 endogenous substrates upon TGF-β signaling activation using an integrative proteomic approach. In that aim we carried out label free quantita...
#1Wen Jiang (BCM: Baylor College of Medicine)H-Index: 2
#2Bo Wen (BCM: Baylor College of Medicine)H-Index: 33
Last. Bing Zhang (BCM: Baylor College of Medicine)H-Index: 57
view all 11 authors...
Abstract null null Tandem mass spectrometry (MS/MS)-based phosphoproteomics is a powerful technology for global phosphorylation analysis. However, applying four computational pipelines to a typical mass spectrometry (MS)-based phosphoproteomic dataset from a human cancer study, we observed a large discrepancy among the reported phosphopeptide identification and phosphosite localization results, underscoring a critical need for benchmarking. While efforts have been made to compare performance of ...
#1Lotta WikH-Index: 11
#2Niklas NordbergH-Index: 2
Last. Martin LundbergH-Index: 10
view all 12 authors...
Abstract null null Understanding the dynamics of the human proteome is crucial for developing biomarkers to be used as measurable indicators for disease severity and progression, patient stratification and drug development. The Proximity Extension Assay (PEA) is a technology that translates protein information into actionable knowledge by linking protein specific antibodies to DNA-encoded tags. In this report we demonstrate how we have combined the unique PEA technology with an innovative and au...
#1Burt Ra (Broad Institute)H-Index: 2
#2Borislav Dejanovic (Broad Institute)H-Index: 1
Last. Samuel A. Myers (Broad Institute)H-Index: 15
view all 10 authors...
Abstract null null Antibodies against post-translational modifications (PTMs) such as lysine acetylation, ubiquitin remnants, or phosphotyrosine have resulted in significant advances in our understanding of the fundamental roles of PTMs in biology. However, the roles of a number of PTMs remain largely unexplored due to the lack of robust enrichment reagents. The addition of N-acetylglucosamine to serine and threonine residues (O-GlcNAc) by the O-GlcNAc transferase (OGT) is a PTM implicated in nu...
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