Quantitative proteomics
Identification of Differentially Expressed Proteins in Sugarcane in Response to Infection by Xanthomonas albilineans Using iTRAQ Quantitative Proteomics
... The proteomic approach is a powerful tool for the identification of the functions of proteins expressed during plant-pathogen interactions, and therefore for a better understanding of plant immunity [ 15 ]. Investigating ...
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Analysis of durum wheat proteome changes under marine and fungal biostimulant treatments using large-scale quantitative proteomics: A useful dataset of durum wheat proteins
... scale quantitative proteomics analysis of wheat flour samples led to a dataset of 1471 identified ...proteins. Quantitative analysis of 1391 proteins revealed 26 and 38 proteins with a significantly ...
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Molecular characterization of the contribution of autophagy to antigen presentation using quantitative proteomics
... 2.5.3. TNF- α induces specific autophagic elimination of mitochondria in macrophages Our quantitative proteomics analyses indicated that mitochondria proteins were down- regulated in TNF- α activated ...
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Novel Insights into Quantitative Proteomics from an Innovative Bottom-Up Simple Light Isotope Metabolic (bSLIM) Labeling Data Processing Strategy
... C, quantitative proteomics, data processing work flow, OpenMS, KNIME, yeast ■ INTRODUCTION We recently developed a new method to quantify protein half- lives in vivo based on an original labeling strategy, ...
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Label-free quantitative proteomics in Candida yeast species: technical and biological replicates to assess data reproducibility
... Keywords: Mass spectrometry, Label‑free quantitative proteomics, Candida glabrata, Candida albicans, Alkaline pH © The Author(s) 2019. This article is distributed under the terms of the Creative Commons ...
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Label-free quantitative proteomics reveals differentially regulated proteins in the latex of sticky diseased Carica papaya L. plants.
... plant. Quantitative analysis by normalized spectral counting revealed 10 down-regulated proteins in the latex of diseased plants, 9 cysteine proteases (chymopapain) and 1 latex serine proteinase ...
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Development of parallel reaction monitoring (PRM)-based quantitative proteomics applied to HER2-Positive breast cancer
... RESULTS Selection and validation of proteotypic peptides for PRM-based measurements For development of the PRM assay, multiple peptides were obtained from a trypsin digest of EGFR, HER2, HER3 and Phosphatase and tensin ...
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The Whereabouts of 2D Gels in Quantitative Proteomics.
... gel-based proteomics is often depicted as an outdated technique, on the basis of its poor ability to analyze membrane proteins (82) and of its moderate analysis depth (83, ...of proteomics setups, 2D gels ...
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DOP49 Quantitative proteomics analysis of macrophages from Crohn’s disease patients and infected with adherent-invasive Escherichia coli
... The main aim of this study was to com- pare the proteomic profile of macrophages from CD patients with and without anti-TNFα treatment, to those from ulcerative colitis (UC) patients o[r] ...
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Quantitative proteomics methods for the analysis of histone post-translational modifications
... targeted quantitative MS-based strategy to profile changes in histone acetylation occupancies in fission yeast strains lacking major HAT (Gcn5 and/or Mst2) and HDAC (Clr3, Clr6, Hos2 and Sir2) ...a ...
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Gentle Introduction to the Statistical Foundations of False Discovery Rate in Quantitative Proteomics
... for proteomics research, and who represent an increasing proportion of this ...(FDP). Proteomics counterparts to some of these notions were introduced a long time ago, when it first became necessary to ...
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Calibration plot for proteomics: A graphical tool to visually check the assumptions underlying FDR control in quantitative experiments
... France. 4 INSERM, BGE, F-38000 Grenoble, France. November 4, 2015 Abstract: In mass-spectrometry based quantitative proteomics, the false discovery rate control (i.e. the limitation of the number of ...
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Protein-Level Statistical Analysis of Quantitative Label-Free Proteomics Data with ProStaR
... spectrometry-based proteomics, the raw mass spectrometer outputs are processed by bioinformatics tools, so as to identify peptides and quantify them, by means of precursor ion chromatogram ...
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Contribution of proteomics to colorectal cancer diagnosis
... of proteomics combines technologies which are in constant evolution and ...profiling, quantitative proteomics using methods like isotope coded affinity tag (ICAT), isotope tag for relative and ...
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Editorial for Special Issue: 2017 Plant Proteomics.
... years, proteomics has become a critical key to understanding the physiological processes involving the regulation of expression of many genes from transcription to the production of ...Plant proteomics has ...
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Plant cell wall functional genomics: Novelties from proteomics
... Is proteomics redundant with regard to transcriptomics? Transcript profiling is one of the most widespread methods to identify genes involved in a developmental process or in response to environmental ...
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The puzzle of protein location in plant proteomics
... 8. Brugière, S., Kowalski, S., Ferro, M., Seigneurin-Berny, D., Miras, S., Salvi, D., Ravanel, S., d'Herin, P., Garin, J., Bourguignon, J., Joyard, J. and Rolland, N. (2004). The hydrophobic proteome of mitochondrial ...
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Cell wall proteins: a new insight through proteomics.
... 50]. Proteomics provide additional information on the great diversity of proteases, such as homologs of subtilisin, carboxypeptidases, aspartyl, and cysteine ...
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Two-dimensional gel electrophoresis in proteomics: A tutorial.
... Thus, progress in the optimal use of 2D gel-based proteomics will come from two sides. The upstream side will be to use more and more 2D gels on cell fractions, and decisive progress will come when more robust ...
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How to use 2D gel electrophoresis in plant proteomics.
... shotgun proteomics, but it can also be used with 2D gel-based proteomics as ...gel-based proteomics, thanks to the easy interface provided by the blotting process between 2D gels and affinity ...
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