Quantitative methods in proteomics / edited by Katrin Marcus.

Contributor(s): Marcus, Katrin, 1972-
Material type: TextTextSeries: Methods in molecular biology (Clifton, N.J.): v. 893.Publisher: New York : Humana Press : Springer, ©2012Description: 1 online resource (xv, 539 pages) : illustrations (some color)Content type: text Media type: computer Carrier type: online resourceISBN: 9781617798856; 1617798851; 1617798843; 9781617798849Subject(s): Proteomics -- Laboratory manuals | Genomics | Biochemistry | Chemistry | Biological Science Disciplines | Genetics | Computational Biology | Biology | Natural Science Disciplines | Disciplines and Occupations | Proteomics | Proteomics | Biology | Human Anatomy & Physiology | Health & Biological Sciences | Animal Biochemistry | Biophysics | Life sciences | Proteomics | Biochemistry | Protein Science | eiwitten | proteins | eiwitexpressieanalyseGenre/Form: Electronic books. | Laboratory manuals. Additional physical formats: Print version:: Quantitative methods in proteomics.DDC classification: 572/.6 LOC classification: QP551 | .Q36 2012Online resources: Click here to access online
Contents:
Important issues in planning a proteomics experiment : statistical considerations of quantitative proteomic data / Katharina Podwojski, Christian Stephan, and Martin Eisenacher -- Whereabouts of 2D gels in quantitative proteomics / Thierry Rabilloud -- Proteome analysis with classical 2D-PAGE / Caroline May [and others] -- Fast and sensitive coomassie staining in quantitative proteomics / Nadine Dyballa and Sabine Metzger -- Silver staining of 2D dlectrophoresis gels / Thierry Rabilloud -- Differential proteome analysis using 2D-DIGE / Caroline May [and others] -- Quantitative mass spectrometry-based proteomics : an overview / Miroslav Nikolov, Carla Schmidt, and Henning Urlaub -- Robust workflow for iTRAQ-based peptide and protein quantification / Florian Beck [and others] -- Relative protein quantification by MS/MS using the tandem mass tag technology / Loic Dayon and Jean-Charles Sanchez -- Rapid approach for isobaric peptide termini labeling / Christian J. Koehler [and others] -- Isotope-coded protein label / Josef Kellermann and Friedrich Lottspeich -- Hydroponic isotope labeling of entire plants and high-performance mass spectrometry for quantitative plant proteomics / Laurence V. Bindschedler, Davinia J.S. Mills, and Rainer Cramer -- In vivo quantitative proteome profiling : planning and evaluation of SILAC experiments / Marieluise Kirchner and Matthias Selbach -- SILAC for the study of mammalian cell lines and yeast protein complexes / Heike Piechura, Silke Oeljeklaus, and Bettina Warscheid -- Post-digestion ¹⁸O exchange/labeling for quantitative shotgun proteomics of membrane proteins / Xiaoying Ye [and others] -- Application of label-free proteomics for differential analysis of lung carcinoma cell line A549 / Barbara Sitek [and others] -- Absolute quantification of proteins using standard peptides and multiple reaction monitoring / Carla Schmidt and Henning Urlaub -- Absolute multiplexed protein quantification using QconCAT technology / Philip J. Brownridge [and others] -- Practical guide to the FLEXIQuant method / Sasha Singh [and others] -- Label-free protein quantitation using weighted spectral counting / Christine Vogel and Edward M. Marcotte -- Discovering the phosphoproteome of the hydrophobic cytochrome c oxidase membrane protein complex / Stefan Helling [and others] -- KiC assay : a quantitative mass spectrometry-based approach / Yadong Huang and Jay J. Thelen -- Robust and high-throughput sample preparation for (semi- )quantitative analysis of N-glycosylation profiles from plasma samples / L. Renee Ruhaak [and others] -- quantitative redox proteomics : the NOxICAT method / Claudia Lindemann and Lars I. Leichert -- Quantitative analysis of S-nitrosylated proteins / Federico Torta and Angela Bachi -- Analysis of ubiquitinated proteome by quantitative mass spectrometry / Chan Hyun Na and Junmin Peng -- Identification of endogenous SUMO1 accepter sites by mass spectrometry / He-Hsuan Hsiao, Erik Meulmeester, and Henning Urlaub -- Search and decoy : the automatic identification of mass spectra / Martin Eisenacher [and others] -- Software tools for MS-based quantitative proteomics : a brief overview / Simone Lemeer [and others] -- iTRAQ data interpretation / Marc Vaudel [and others] -- MSQuant : a platform for stable isotope-based quantitative proteomics / Joost W. Gouw and Jeroen Krijgsveld.
Summary: Protein modifications and changes made to them, as well as the quantities of expressed proteins, can define the various functional stages of the cell. Accordingly, perturbations can lead to various diseases and disorders. As a result, it has become paramount to be able to detect and monitor post-translational modifications and to measure the abundance of proteins within the cell with extreme sensitivity. While protein identification is an almost routine requirement nowadays, reliable techniques for quantifying unmodified proteins (including those that escape detection under standard conditions, such as protein isoforms and membrane proteins) is not routine. Quantitative Methods in Proteomics gives a detailed survey of topics and methods on the principles underlying modern protein analysis, from statistical issues when planning proteomics experiments, to gel-based and mass spectrometry-based applications. The quantification of post-translational modifications is also addressed, followed by the "hot" topics of software and data analysis, as well as various overview chapters which provide a comprehensive overview of existing methods in quantitative proteomics. Written in the successful Methods in Molecular Biology"!series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and easily accessible, Quantitative Methods in Proteomics serves as a comprehensive and competent overview of the important and still growing field of quantitative proteomics.
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Includes bibliographical references and index.

Important issues in planning a proteomics experiment : statistical considerations of quantitative proteomic data / Katharina Podwojski, Christian Stephan, and Martin Eisenacher -- Whereabouts of 2D gels in quantitative proteomics / Thierry Rabilloud -- Proteome analysis with classical 2D-PAGE / Caroline May [and others] -- Fast and sensitive coomassie staining in quantitative proteomics / Nadine Dyballa and Sabine Metzger -- Silver staining of 2D dlectrophoresis gels / Thierry Rabilloud -- Differential proteome analysis using 2D-DIGE / Caroline May [and others] -- Quantitative mass spectrometry-based proteomics : an overview / Miroslav Nikolov, Carla Schmidt, and Henning Urlaub -- Robust workflow for iTRAQ-based peptide and protein quantification / Florian Beck [and others] -- Relative protein quantification by MS/MS using the tandem mass tag technology / Loic Dayon and Jean-Charles Sanchez -- Rapid approach for isobaric peptide termini labeling / Christian J. Koehler [and others] -- Isotope-coded protein label / Josef Kellermann and Friedrich Lottspeich -- Hydroponic isotope labeling of entire plants and high-performance mass spectrometry for quantitative plant proteomics / Laurence V. Bindschedler, Davinia J.S. Mills, and Rainer Cramer -- In vivo quantitative proteome profiling : planning and evaluation of SILAC experiments / Marieluise Kirchner and Matthias Selbach -- SILAC for the study of mammalian cell lines and yeast protein complexes / Heike Piechura, Silke Oeljeklaus, and Bettina Warscheid -- Post-digestion ¹⁸O exchange/labeling for quantitative shotgun proteomics of membrane proteins / Xiaoying Ye [and others] -- Application of label-free proteomics for differential analysis of lung carcinoma cell line A549 / Barbara Sitek [and others] -- Absolute quantification of proteins using standard peptides and multiple reaction monitoring / Carla Schmidt and Henning Urlaub -- Absolute multiplexed protein quantification using QconCAT technology / Philip J. Brownridge [and others] -- Practical guide to the FLEXIQuant method / Sasha Singh [and others] -- Label-free protein quantitation using weighted spectral counting / Christine Vogel and Edward M. Marcotte -- Discovering the phosphoproteome of the hydrophobic cytochrome c oxidase membrane protein complex / Stefan Helling [and others] -- KiC assay : a quantitative mass spectrometry-based approach / Yadong Huang and Jay J. Thelen -- Robust and high-throughput sample preparation for (semi- )quantitative analysis of N-glycosylation profiles from plasma samples / L. Renee Ruhaak [and others] -- quantitative redox proteomics : the NOxICAT method / Claudia Lindemann and Lars I. Leichert -- Quantitative analysis of S-nitrosylated proteins / Federico Torta and Angela Bachi -- Analysis of ubiquitinated proteome by quantitative mass spectrometry / Chan Hyun Na and Junmin Peng -- Identification of endogenous SUMO1 accepter sites by mass spectrometry / He-Hsuan Hsiao, Erik Meulmeester, and Henning Urlaub -- Search and decoy : the automatic identification of mass spectra / Martin Eisenacher [and others] -- Software tools for MS-based quantitative proteomics : a brief overview / Simone Lemeer [and others] -- iTRAQ data interpretation / Marc Vaudel [and others] -- MSQuant : a platform for stable isotope-based quantitative proteomics / Joost W. Gouw and Jeroen Krijgsveld.

Online resource; title from PDF title page (Springer Protocols, viewed Oct. 12, 2012).

Protein modifications and changes made to them, as well as the quantities of expressed proteins, can define the various functional stages of the cell. Accordingly, perturbations can lead to various diseases and disorders. As a result, it has become paramount to be able to detect and monitor post-translational modifications and to measure the abundance of proteins within the cell with extreme sensitivity. While protein identification is an almost routine requirement nowadays, reliable techniques for quantifying unmodified proteins (including those that escape detection under standard conditions, such as protein isoforms and membrane proteins) is not routine. Quantitative Methods in Proteomics gives a detailed survey of topics and methods on the principles underlying modern protein analysis, from statistical issues when planning proteomics experiments, to gel-based and mass spectrometry-based applications. The quantification of post-translational modifications is also addressed, followed by the "hot" topics of software and data analysis, as well as various overview chapters which provide a comprehensive overview of existing methods in quantitative proteomics. Written in the successful Methods in Molecular Biology"!series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and easily accessible, Quantitative Methods in Proteomics serves as a comprehensive and competent overview of the important and still growing field of quantitative proteomics.

English.

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