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3.415 Aktuelle Fachpublikationen in Journal of Proteome Research

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Quality Assessments of Long-Term Quantitative Proteomic Analysis of Breast Cancer Xenograft Tissues

16.11.2017 | Jian-Ying Zhou; Lijun Chen; Bai Zhang; Yuan Tian; Tao Liu; Stefani N. Thomas; Li Chen; Michael Schnaubelt; Emily Boj ..., Journal of Proteome Research, 2017

Clinical proteomics requires large-scale analysis of human specimens to achieve statistical significance. We evaluated the long-term reproducibility of an iTRAQ (isobaric tags for relative and absolute quantification)-based quantitative proteomics strategy using one channel for reference across ...

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Why Are the Correlations between mRNA and Protein Levels so Low among the 275 Predicted Protein-Coding Genes on Human Chromosome 18?

27.10.2017 | Ekaterina V. Poverennaya; Ekaterina V. Ilgisonis; Elena A. Ponomarenko; Arthur T. Kopylov; Victor G. Zgoda; Sergey P ..., Journal of Proteome Research, 2017

In this work targeted (selected reaction monitoring, SRM, PASSEL: PASS00697) and panoramic (shotgun LC–MS/MS, PRIDE: PXD00244) mass-spectrometric methods as well as transcriptomic analysis of the same samples using RNA-Seq and PCR methods (SRA experiment IDs: SRX341198, SRX267708, SRX395473, ...

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Salivary Cystatins: Exploring New Post-Translational Modifications and Polymorphisms by Top-Down High-Resolution Mass Spectrometry

26.10.2017 | Barbara Manconi; Barbara Liori; Tiziana Cabras; Federica Vincenzoni; Federica Iavarone; Massimo Castagnola; Irene Me ..., Journal of Proteome Research, 2017

Cystatins are a complex family of cysteine peptidase inhibitors. In the present study, various proteoforms of cystatin A, cystatin B, cystatin S, cystatin SN, and cystatin SA were detected in the acid-soluble fraction of human saliva and characterized by a top-down HPLC–ESI–MS approach. ...

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Improved Method for Determining Absolute Phosphorylation Stoichiometry Using Bayesian Statistics and Isobaric Labeling

25.10.2017 | Matthew Y. Lim; Jonathon O’Brien; Joao A. Paulo; Steven P. Gygi, Journal of Proteome Research, 2017

Phosphorylation stoichiometry, or occupancy, is one element of phosphoproteomics that can add useful biological context (Gerber et al. Proc. Natl. Acad. Sci. U. S. A. 2003, 100, 6940–5). We previously developed a method to assess phosphorylation stoichiometry on a proteome-wide scale (Wu et al. ...

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Sensitive and Accurate Quantitation of Phosphopeptides Using TMT Isobaric Labeling Technique

24.10.2017 | Xiaoyue Jiang; Ryan Bomgarden; Joseph Brown; Devin L. Drew; Aaron M. Robitaille; Rosa Viner; Andreas R. Huhmer, Journal of Proteome Research, 2017

Phosphorylation is an essential post-translational modification for regulating protein function and cellular signal transduction. Mass spectrometry (MS) combined with isobaric tandem mass tags (TMTs) has become a powerful platform for simultaneous, large-scale phospho-proteome site identification ...

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Serum Metabolic Fingerprinting Identified Putatively Annotated Sphinganine Isomer as a Biomarker of Wolfram Syndrome

20.10.2017 | Agnieszka Zmyslowska; Michal Ciborowski; Maciej Borowiec; Wojciech Fendler; Karolina Pietrowska; Ewa Parfieniuk; Kar ..., Journal of Proteome Research, 2017

Wolfram syndrome (WFS) is an example of a rare neurodegenerative disease with coexisting endocrine symptoms including diabetes mellitus as the first clinical symptom. Treatment of WFS is still only symptomatic and associated with poor prognosis. Potential markers of disease progression that could ...

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Proteomic Analysis of Peripheral Blood Mononuclear Cells after a High-Fat, High-Carbohydrate Meal with Orange Juice

20.10.2017 | Daniela F. S. Chaves; Paulo C. Carvalho; Elisa Brasili; Marcelo M. Rogero; Neuza A. Hassimotto; Jolene K. Diedrich; ..., Journal of Proteome Research, 2017

Oxidative stress and inflammation play a role in the physiopathology of insulin resistance, diabetes and cardiovascular disease. A single high-fat, high-carbohydrate (HFHC) meal induces an increase in inflammatory and oxidative stress markers in peripheral blood mononuclear cells (PBMC). Previous ...

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Hydroxylamine Chemical Digestion for Insoluble Extracellular Matrix Characterization

18.10.2017 | Alexander S. Barrett; Matthew J. Wither; Ryan C. Hill; Monika Dzieciatkowska; Angelo D’Alessandro; Julie A. Reisz; K ..., Journal of Proteome Research, 2017

The extracellular matrix (ECM) is readily enriched by decellularizing tissues with nondenaturing detergents to solubilize and deplete the vast majority of cellular components. This approach has been used extensively to generate ECM scaffolds for regenerative medicine technologies and in 3D cell ...

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Elucidating Escherichia coli Proteoform Families Using Intact-Mass Proteomics and a Global PTM Discovery Database

17.10.2017 | Yunxiang Dai; Michael R. Shortreed; Mark Scalf; Brian L. Frey; Anthony J. Cesnik; Stefan Solntsev; Leah V. Schaffer; ..., Journal of Proteome Research, 2017

A proteoform family is a group of related molecular forms of a protein (proteoforms) derived from the same gene. We have previously described a strategy to identify proteoforms and elucidate proteoform families in complex mixtures of intact proteins. The strategy is based upon measurements of two ...

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Experimental Design in Clinical ‘Omics Biomarker Discovery

17.10.2017 | Jenny Forshed, Journal of Proteome Research, 2017

This tutorial highlights some issues in the experimental design of clinical ‘omics biomarker discovery, how to avoid bias and get as true quantities as possible from biochemical analyses, and how to select samples to improve the chance of answering the clinical question at issue. This includes ...

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