Kohler / Patrie Mass Spectrometry of Glycoproteins

Methods and Protocols
2013
ISBN: 978-1-62703-146-2
Verlag: Humana Press
Format: PDF
Kopierschutz: 1 - PDF Watermark

E-Book, Englisch, Band 951, 339 Seiten, eBook

Reihe: Methods in Molecular Biology

 Glycosylation is the most abundant post-translational modification of proteins.  Estimates vary widely, but a common assessment is that upwards of 50% of eukaryotic proteins are modified by some type of glycan. In Mass Spectrometry of Glycoproteins: Methods and Protocols, expert researchers in the field detail many of the methods that are now commonly used for glycoproteomics.  These methods and techniques include robust sample preparation techniques; advanced chromatographic strategies for improving dynamic range; state-of-the-art mass spectrometry instrumentation and associated ionization and fragmentation methods; and informatics tools used for identifying glycoproteins and characterizing the associated glycans. Written in the highly 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 laboratory protocols, and key tips on troubleshooting and avoiding known pitfalls.

Authoritative and practical, Mass Spectrometry of Glycoproteins: Methods and Protocol  is  an essential resource for those who work at the interface of glycobiology and mass spectrometry.

Zielgruppe

Professional/practitioner

Autoren/Hrsg.

Kohler, Jennifer J.

Patrie, Steven M.

Inhaltsverzeichnis

1. Introduction to Glycosylation and Mass SpectrometrySteven M. Patrie, Michael J. Roth and Jennifer J. Kohler  Part I – Enrichment and Isolation Methods 2. Tandem Lectin Weak Affinity Chromatography (LWAC) for Glycoprotein EnrichmentZhi Yuan Ma, Yuliya Skorobogatko, and Keith Vosseller 3. CSC Technology - Selective Labeling of Glycoproteins by Mild Oxidation to Phenotype CellsAndreas Hofmann,Damaris Bausch-Fluck, and Bernd Wollscheid 4. Use of Boronic Acid Nanoparticles in Glycoprotein EnrichmentYawei Xu, Lijuan Zhang and Haojie Lu 5. Incorporation of Unnatural Sugars for the Identification of GlycoproteinsBalyn W. Zaro , Howard C. Hang , Matthew R. Pratt 6. Characterization of Membrane-associated Glycoproteins using Lectin Affinity Chromatography and Mass SpectrometryYashu Liu, Jintang He and David M. Lubman 7. Sialic Acid Capture-and-Release and LC-MSn Analysis of GlycopeptidesJonas Nilsson and Göran Larson Part II – Sample Preparation 8. In-Solution Digestion of Glycoproteins for Glycopeptide-Based Mass AnalysisEden P. Go, Kathryn R. Rebecchi, and Heather Desaire 9. Nano-HPLC-MS of Glycopeptides Obtained After Non-specific ProteolysisGerhild Zauner, Carolien A. M. Koeleman, André M. Deelder and Manfred Wuhrer Part III – Separation Methods 10. Glycopeptide Enrichment for MALDI-TOF Mass Spectrometry Analysis by Hydrophilic Interaction Liquid Chromatography Solid Phase Extraction (HILIC SPE)Pia Hønnerup Jensen, Simon Mysling, Peter Højrup and Ole Nørregaard Jensen 11. Separation and Identification of Glycoforms by Capillary Electrophoresis with Electrospray Ionization Mass Spectrometric DetectionAlina D. Zamfir , Corina Flangea, Alina Serb3, Ana-Maria Zagrean4, Andreas M. Rizzi5 and Eugen Sisu 12. Structural Separations by Ion Mobility-MS for Glycomics and Glycoproteomics Larissa S. Fenn and John A. McLean  Part IV – Quantitation Methods 13. Quantitative Analysis of Glycoprotein GlycansRon Orlando 14. Stable Isotope Labeling of N-glycosylated Peptides by Enzymatic Deglycosylation for Mass Spectrometry-based GlycoproteomicsHiroyuki Kaji and Toshiaki Isobe 15. Approaches for Site Mapping and Quantification of O-linked GlycopeptidesPeng Zhao, Stephanie H. Stalnaker, Lance Wells 16. Glycan Profiling: Label-free Analysis of GlycoproteinsYoshinao Wada Part V – Computational Tools 17. Introduction to Informatics in Glycoprotein AnalysisKiyoko F. Aoki-Kinoshita 18. Software Tools for Glycan ProfilingChuan-Yih Yu, Anoop Mayampurath, Haixu Tang Part VI – Case Studies in Mass Spectrometry of Glycoproteins 19. Quantitative Characterization of Glycoproteins in Neurodegenerative Disorders using iTRAQMin Shi, Hyejin Hwang and Jing Zhang 20. Quantitative Proteomic Analysis of N-linked Glycoproteins in Human Tear FluidLei Zhou and Roger W. Beuerman 21. Elucidation of N-glycosites Within Human Plasma Glycoproteins for Cancer Biomarker DiscoveryPenelope Drake, Birgit Schilling, Brad Gibson and Susan Fisher 22. Characterizing the Glycosylation State of Therapeutic Recombinant GlycoproteinsNicole Samuels, David Kates, Jun Liu, Joanne Severs 11. Separation and Identification of Glycoforms by Capillary Electrophoresis with Electrospray Ionization Mass Spectrometric DetectionAlina D. Zamfir , Corina Flangea, Alina Serb3, Ana-Maria Zagrean4, Andreas M. Rizzi5 and Eugen Sisu 12. Structural Separations by Ion Mobility-MS for Glycomics and Glycoproteomics Larissa S. Fenn and John A. McLean  Part IV – Quantitation Methods 13. Quantitative Analysis of Glycoprotein GlycansRon Orlando 14. Stable Isotope Labeling of N-glycosylated Peptides by Enzymatic Deglycosylation for Mass Spectrometry-based GlycoproteomicsHiroyuki Kaji and Toshiaki Isobe 15. Approaches for Site Mapping and Quantification of O-linked GlycopeptidesPeng Zhao, Stephanie H. Stalnaker, Lance Wells 16. Glycan Profiling: Label-free Analysis of GlycoproteinsYoshinao Wada Part V – Computational Tools 17. Introduction to Informatics in Glycoprotein AnalysisKiyoko F. Aoki-Kinoshita 18. Software Tools for Glycan ProfilingChuan-Yih Yu, Anoop Mayampurath, Haixu Tang Part VI – Case Studies in Mass Spectrometry of Glycoproteins 19. Quantitative Characterization of Glycoproteins in Neurodegenerative Disorders using iTRAQMin Shi, Hyejin Hwang and Jing Zhang 20. Quantitative Proteomic Analysis of N-linked Glycoproteins in Human Tear FluidLei Zhou and Roger W. Beuerman 21. Elucidation of N-glycosites Within Human Plasma Glycoproteins for Cancer Biomarker DiscoveryPenelope Drake, Birgit Schilling, Brad Gibson and Susan Fisher 22. Characterizing the Glycosylation State of Therapeutic Recombinant GlycoproteinsNicole Samuels, David Kates, Jun Liu, Joanne Severs 5. Incorporation of Unnatural Sugars for the Identification of GlycoproteinsBalyn W. Zaro , Howard C. Hang , Matthew R. Pratt 6. Characterization of Membrane-associated Glycoproteins using Lectin Affinity Chromatography and Mass SpectrometryYashu Liu, Jintang He and David M. Lubman 7. Sialic Acid Capture-and-Release and LC-MSn Analysis of GlycopeptidesJonas Nilsson and Göran Larson Part II – Sample Preparation 8. In-Solution Digestion of Glycoproteins for Glycopeptide-Based Mass AnalysisEden P. Go, Kathryn R. Rebecchi, and Heather Desaire 9. Nano-HPLC-MS of Glycopeptides Obtained After Non-specific ProteolysisGerhild Zauner, Carolien A. M. Koeleman, André M. Deelder and Manfred Wuhrer Part III – Separation Methods 10. Glycopeptide Enrichment for MALDI-TOF Mass Spectrometry Analysis by Hydrophilic Interaction Liquid Chromatography Solid Phase Extraction (HILIC SPE)Pia Hønnerup Jensen, Simon Mysling, Peter Højrup and Ole Nørregaard Jensen 11. Separation and Identification of Glycoforms by Capillary Electrophoresis with Electrospray Ionization Mass Spectrometric DetectionAlina D. Zamfir , Corina Flangea, Alina Serb3, Ana-Maria Zagrean4, Andreas M. Rizzi5 and Eugen Sisu 12. Structural Separations by Ion Mobility-MS for Glycomics and Glycoproteomics Larissa S. Fenn and John A. McLean  Part IV – Quantitation Methods 13. Quantitative Analysis of Glycoprotein GlycansRon Orlando 14. Stable Isotope Labeling of N-glycosylated Peptides by Enzymatic Deglycosylation for Mass Spectrometry-based GlycoproteomicsHiroyuki Kaji and Toshiaki Isobe 15. Approaches for Site Mapping and Quantification of O-linked GlycopeptidesPeng Zhao, Stephanie H. Stalnaker, Lance Wells 16. Glycan Profiling: Label-free Analysis of GlycoproteinsYoshinao Wada Part V – Computational Tools 17. Introduction to Informatics in Glycoprotein AnalysisKiyoko F. Aoki-Kinoshita 18. Software Tools for Glycan ProfilingChuan-Yih Yu, Anoop Mayampurath, Haixu Tang Part VI – Case Studies in Mass Spectrometry of Glycoproteins 19. Quantitative Characterization of Glycoproteins in Neurodegenerative Disorders using iTRAQMin Shi, Hyejin Hwang and Jing Zhang 20. Quantitative Proteomic Analysis of N-linked Glycoproteins in Human Tear FluidLei Zhou and Roger W. Beuerman 21. Elucidation of N-glycosites Within Human Plasma Glycoproteins for Cancer Biomarker DiscoveryPenelope Drake, Birgit Schilling, Brad Gibson and Susan Fisher 22. Characterizing the Glycosylation State of Therapeutic Recombinant GlycoproteinsNicole Samuels, David Kates, Jun Liu, Joanne Severs 4. Use of Boronic Acid Nanoparticles in Glycoprotein EnrichmentYawei Xu, Lijuan Zhang and Haojie Lu 5. Incorporation of Unnatural Sugars for the Identification of GlycoproteinsBalyn W. Zaro , Howard C. Hang , Matthew R. Pratt 6. Characterization of Membrane-associated Glycoproteins using Lectin Affinity Chromatography and Mass SpectrometryYashu Liu, Jintang He and David M. Lubman 7. Sialic Acid Capture-and-Release and LC-MSn Analysis of GlycopeptidesJonas Nilsson and Göran Larson Part II – Sample Preparation 8. In-Solution Digestion of Glycoproteins for Glycopeptide-Based Mass AnalysisEden P. Go, Kathryn R. Rebecchi, and Heather Desaire 9. Nano-HPLC-MS of Glycopeptides Obtained After Non-specific ProteolysisGerhild Zauner, Carolien A. M. Koeleman, André M. Deelder and Manfred Wuhrer Part III – Separation Methods 10. Glycopeptide Enrichment for MALDI-TOF Mass Spectrometry Analysis by Hydrophilic Interaction Liquid Chromatography Solid Phase Extraction (HILIC SPE)Pia Hønnerup Jensen, Simon Mysling, Peter Højrup and Ole Nørregaard Jensen 11. Separation and Identification of Glycoforms by Capillary Electrophoresis with Electrospray Ionization Mass Spectrometric DetectionAlina D. Zamfir , Corina Flangea, Alina Serb3, Ana-Maria Zagrean4, Andreas M. Rizzi5 and Eugen Sisu 12. Structural Separations by Ion Mobility-MS for Glycomics and Glycoproteomics Larissa S. Fenn and John A. McLean  Part IV – Quantitation Methods 13. Quantitative Analysis of Glycoprotein GlycansRon Orlando 14. Stable Isotope Labeling of N-glycosylated Peptides by Enzymatic Deglycosylation for Mass Spectrometry-based GlycoproteomicsHiroyuki Kaji and Toshiaki Isobe 15. Approaches for Site Mapping and Quantification of O-linked GlycopeptidesPeng Zhao, Stephanie H. Stalnaker, Lance Wells 16. Glycan Profiling: Label-free Analysis of GlycoproteinsYoshinao Wada Part V – Computational Tools 17. Introduction to Informatics in Glycoprotein AnalysisKiyoko F. Aoki-Kinoshita 18. Software Tools for Glycan ProfilingChuan-Yih Yu, Anoop Mayampurath, Haixu Tang Part VI – Case Studies in Mass Spectrometry of Glycoproteins 19. Quantitative Characterization of Glycoproteins in Neurodegenerative Disorders using iTRAQMin Shi, Hyejin Hwang and Jing Zhang 20. Quantitative Proteomic Analysis of N-linked Glycoproteins in Human Tear FluidLei Zhou and Roger W. Beuerman 21. Elucidation of N-glycosites Within Human Plasma Glycoproteins for Cancer Biomarker DiscoveryPenelope Drake, Birgit Schilling, Brad Gibson and Susan Fisher 22. Characterizing the Glycosylation State of Therapeutic Recombinant GlycoproteinsNicole Samuels, David Kates, Jun Liu, Joanne Severs 11. Separation and Identification of Glycoforms by Capillary Electrophoresis with Electrospray Ionization Mass Spectrometric DetectionAlina D. Zamfir , Corina Flangea, Alina Serb3, Ana-Maria Zagrean4, Andreas M. Rizzi5 and Eugen Sisu 12. Structural Separations by Ion Mobility-MS for Glycomics and Glycoproteomics Larissa S. Fenn and John A. McLean  Part IV – Quantitation Methods 13. Quantitative Analysis of Glycoprotein GlycansRon Orlando 14. Stable Isotope Labeling of N-glycosylated Peptides by Enzymatic Deglycosylation for Mass Spectrometry-based GlycoproteomicsHiroyuki Kaji and Toshiaki Isobe 15. Approaches for Site Mapping and Quantification of O-linked GlycopeptidesPeng Zhao, Stephanie H. Stalnaker, Lance Wells 16. Glycan Profiling: Label-free Analysis of GlycoproteinsYoshinao Wada Part V – Computational Tools 17. Introduction to Informatics in Glycoprotein AnalysisKiyoko F. Aoki-Kinoshita 18. Software Tools for Glycan ProfilingChuan-Yih Yu, Anoop Mayampurath, Haixu Tang Part VI – Case Studies in Mass Spectrometry of Glycoproteins 19. Quantitative Characterization of Glycoproteins in Neurodegenerative Disorders using iTRAQMin Shi, Hyejin Hwang and Jing Zhang 20. Quantitative Proteomic Analysis of N-linked Glycoproteins in Human Tear FluidLei Zhou and Roger W. Beuerman 21. Elucidation of N-glycosites Within Human Plasma Glycoproteins for Cancer Biomarker DiscoveryPenelope Drake, Birgit Schilling, Brad Gibson and Susan Fisher 22. Characterizing the Glycosylation State of Therapeutic Recombinant GlycoproteinsNicole Samuels, David Kates, Jun Liu, Joanne Severs 5. Incorporation of Unnatural Sugars for the Identification of GlycoproteinsBalyn W. Zaro , Howard C. Hang , Matthew R. Pratt 6. Characterization of Membrane-associated Glycoproteins using Lectin Affinity Chromatography and Mass SpectrometryYashu Liu, Jintang He and David M. Lubman 7. Sialic Acid Capture-and-Release and LC-MSn Analysis of GlycopeptidesJonas Nilsson and Göran Larson Part II – Sample Preparation 8. In-Solution Digestion of Glycoproteins for Glycopeptide-Based Mass AnalysisEden P. Go, Kathryn R. Rebecchi, and Heather Desaire 9. Nano-HPLC-MS of Glycopeptides Obtained After Non-specific ProteolysisGerhild Zauner, Carolien A. M. Koeleman, André M. Deelder and Manfred Wuhrer Part III – Separation Methods 10. Glycopeptide Enrichment for MALDI-TOF Mass Spectrometry Analysis by Hydrophilic Interaction Liquid Chromatography Solid Phase Extraction (HILIC SPE)Pia Hønnerup Jensen, Simon Mysling, Peter Højrup and Ole Nørregaard Jensen 11. Separation and Identification of Glycoforms by Capillary Electrophoresis with Electrospray Ionization Mass Spectrometric DetectionAlina D. Zamfir , Corina Flangea, Alina Serb3, Ana-Maria Zagrean4, Andreas M. Rizzi5 and Eugen Sisu 12. Structural Separations by Ion Mobility-MS for Glycomics and Glycoproteomics Larissa S. Fenn and John A. McLean  Part IV – Quantitation Methods 13. Quantitative Analysis of Glycoprotein GlycansRon Orlando 14. Stable Isotope Labeling of N-glycosylated Peptides by Enzymatic Deglycosylation for Mass Spectrometry-based GlycoproteomicsHiroyuki Kaji and Toshiaki Isobe 15. Approaches for Site Mapping and Quantification of O-linked GlycopeptidesPeng Zhao, Stephanie H. Stalnaker, Lance Wells 16. Glycan Profiling: Label-free Analysis of GlycoproteinsYoshinao Wada Part V – Computational Tools 17. Introduction to Informatics in Glycoprotein AnalysisKiyoko F. Aoki-Kinoshita 18. Software Tools for Glycan ProfilingChuan-Yih Yu, Anoop Mayampurath, Haixu Tang Part VI – Case Studies in Mass Spectrometry of Glycoproteins 19. Quantitative Characterization of Glycoproteins in Neurodegenerative Disorders using iTRAQMin Shi, Hyejin Hwang and Jing Zhang 20. Quantitative Proteomic Analysis of N-linked Glycoproteins in Human Tear FluidLei Zhou and Roger W. Beuerman 21. Elucidation of N-glycosites Within Human Plasma Glycoproteins for Cancer Biomarker DiscoveryPenelope Drake, Birgit Schilling, Brad Gibson and Susan Fisher 22. Characterizing the Glycosylation State of Therapeutic Recombinant GlycoproteinsNicole Samuels, David Kates, Jun Liu, Joanne Severs 11. Separation and Identification of Glycoforms by Capillary Electrophoresis with Electrospray Ionization Mass Spectrometric DetectionAlina D. Zamfir , Corina Flangea, Alina Serb3, Ana-Maria Zagrean4, Andreas M. Rizzi5 and Eugen Sisu 12. Structural Separations by Ion Mobility-MS for Glycomics and Glycoproteomics Larissa S. Fenn and John A. McLean  Part IV – Quantitation Methods 13. Quantitative Analysis of Glycoprotein GlycansRon Orlando 14. Stable Isotope Labeling of N-glycosylated Peptides by Enzymatic Deglycosylation for Mass Spectrometry-based GlycoproteomicsHiroyuki Kaji and Toshiaki Isobe 15. Approaches for Site Mapping and Quantification of O-linked GlycopeptidesPeng Zhao, Stephanie H. Stalnaker, Lance Wells 16. Glycan Profiling: Label-free Analysis of GlycoproteinsYoshinao Wada Part V – Computational Tools 17. Introduction to Informatics in Glycoprotein AnalysisKiyoko F. Aoki-Kinoshita 18. Software Tools for Glycan ProfilingChuan-Yih Yu, Anoop Mayampurath, Haixu Tang Part VI – Case Studies in Mass Spectrometry of Glycoproteins 19. Quantitative Characterization of Glycoproteins in Neurodegenerative Disorders using iTRAQMin Shi, Hyejin Hwang and Jing Zhang 20. Quantitative Proteomic Analysis of N-linked Glycoproteins in Human Tear FluidLei Zhou and Roger W. Beuerman 21. Elucidation of N-glycosites Within Human Plasma Glycoproteins for Cancer Biomarker DiscoveryPenelope Drake, Birgit Schilling, Brad Gibson and Susan Fisher 22. Characterizing the Glycosylation State of Therapeutic Recombinant GlycoproteinsNicole Samuels, David Kates, Jun Liu, Joanne Severs