Sample Preparation in Biological Mass Spectrometry
(Sprache: Englisch)
The aim of this book is to provide the researcher with important sample preparation strategies in a wide variety of analyte molecules, specimens, methods, and biological applications requiring mass spectrometric analysis as a detection end-point.
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Produktinformationen zu „Sample Preparation in Biological Mass Spectrometry “
The aim of this book is to provide the researcher with important sample preparation strategies in a wide variety of analyte molecules, specimens, methods, and biological applications requiring mass spectrometric analysis as a detection end-point.
Klappentext zu „Sample Preparation in Biological Mass Spectrometry “
The goal and philosophy of sample preparation in biological mass spectrometry is to reveal the actual multicomponent molecular structure of a biological specimen that can be assessed by mass spectrometry tools. Unfortunately, sample preparation is often looked at as a necessary but boring step which does not warrant any efforts beyond a paragraph or two in a Methods section; it is believed not to be conducive to innovation, and does not elicit the enthusiasm of funding agencies. Nevertheless, in recent years, the attention to sample preparation methods has risen considerably, both in Academia and in the life science industry. The aim of this book is to provide the researcher with important sample preparation strategies for a wide variety of analyte molecules, specimens, methods, and biological applications demanding mass spectrometric analysis as the detection end-point. In this volume we have compiled contributions from several laboratories that employ mass spectrometry for biological analysis. With the latest inventions and the introduction of highly sophisticated mass spectrometry equipment, sample preparation has become an extremely important bottleneck of biomedical analysis. This book is structured as a compilation of contributed chapters ranging from step-by-step protocols to research articles and reviews. The main philosophy of this volume is that sample preparation methods have to be optimized and validated for every project, for every sample type and for every downstream analytical technique.
Inhaltsverzeichnis zu „Sample Preparation in Biological Mass Spectrometry “
Introduction: Sample Preparation - Boring but Important! Alexander Lazarev1 and Alexander R. Ivanov Section I. Traditional and improved techniques in sample preparation for proteomics
1. Gel-based and Gel-free Sample Preparation for LC-MS/MS Analysis; Xianyin Lai and Frank A. Witzmann 2. Manipulating the Mass Spectrometric Properties of Peptides through Selective Chemical Modification; David Arnott, Peter S. Liu, Patricia Molina, Lilian Phu, and Wendy N. Sandoval 3. Sample Preparation for 2D Electrophoresis and CE-based Proteomics; Judit M. Nagy, Alexandria Lipka, Fiona Pereira, Nicky Marlin, and Stuart Hassard 4. Filtration as a Sample Preparation Technique Prior to Mass Spectrometry: Selecting the Right Filtration Device; Vivek Joshi and Elena Chernokalskaya 5. Pressure-Assisted Lysis of Mammalian Cell Cultures Prior to Proteomic Analysis; Emily Freeman, Yelena Margolin, and Alexander R. Ivanov 6. Multiplexed Preparation of Biological Samples for Mass Spectrometry using Gel Electrophoresis; Jeremy L. Norris, Alan A. Doucette
Section II. Methods for Improved Proteolytic Digestion
7. Development of an On-bead Digestion Procedure for Immunoprecipitated Proteins; Matthew J. Berberich, Jeffrey Kowalak, Anthony Makusky, Brian Martin, Detlef Vullhorst, Andres Buonanno, and Sanford Markey 8. Ultra-Fast Sample Preparation for High-Throughput Proteomics; Daniel Lopez-Ferrer, Kim K. Hixson, Mikhail E. Belov, and Richard D. Smith 9. Exploring the Capabilities of the Protein Identification by Unconventional Sample Preparation Approaches: LC/MALDI/On-target Digestion Approach and High Pressure-assisted In-gel Tryptic Digestion; Melkamu Getie-Kebtie and Michail A. Alterman
Section III. Methods for Tissue, Cell, and Organelle Preparation and Analysis
10. Sample Preparation of Formalin-Fixed Paraffin-Embedded (FFPE) Tissue for Proteomic Analyses; Diem Tran, Mark Daniels, Ben Colson, Dikran Aivazian, Antonio Boccia, Ingrid
... mehr
Joseph, Steffan Ho, Steve French, Alex Buko, and Jing Wei 11. Brain Proteomics: Sample Preparation Techniques for the Analysis of Rat Brain Samples using Mass Spectrometry; Yoshinori Masuo, Misato Hirano, Junko Shibato, Hyung Wook Nam, Isabelle Fournier, Mériaux Céline, Maxence Wisztorski, Michel Salzet, Hideaki Soya, Ganesh Kumar Agrawal, and Randeep Rakwal 12. Subcellular Fractionation Using Step-Wise Density Extraction for Mass Spectrometry Analysis; WenKui Lan, Marc J. Horn, Fumihiko Urano, Andre Kopoyan, and Sun W. Tam
Section IV. 2D Gel-based Proteomics
13. Two-dimensional Polyacrylamide Gel Electrophoresis; Aisling A. Robinson, Ciara A. McManus, and Michael J. Dunn 14. Quantitative Intact Proteomic Strategies to Detect Changes in Protein Modification and Genomic Variation; David B. Friedman 15. Two-dimensional Non-denaturing Gel Electrophoresis for Characterization of Proteins in Multi-molecular Particles by Mass Spectrometry; Susan T. Weintraub and Philip Serwer
Section V. Sample Preparation and Analysis Techniques for Biological Fluids and Biomarker Discovery
16. Pre-Analytical Variables for Plasma and Serum Proteome Analyses; Craig A. Gelfand and Gilbert S. Omenn 17. Biomarker Discovery in Biological Fluids; Wasfi Alrawashdeh and Tatjana Crnogorac-Jurcevic 18. Sample Handling of Body Fluids for Proteomics; Joao A. Paulo, Ali R. Vaezzadeh, Darwin L. Conwell, Richard S. Lee, and Hanno Steen
Section VI. Sample Preparation Methods in Plant Proteomics
19. Quantitative Plant Proteomics Using Hydroponic Isotope Labeling of Entire Plants (HILEP); Laurence V. Bindschedler, Celia J. Smith and Rainer Cramer 20. Efficient Strategies for Analysis of Low Abundance Proteins in Plant Proteomics; Olga A. Koroleva, Laurence V. Bindschedler 21. Plant Plasma Membrane Proteomics: Challenges and Possibilities; Anders Laurell Blom Møller, Katja Witzel, Annelies Vertommen, Vibeke Barkholt, Birte Svensson, Sebastien Carpentier, Hans-Peter Mock, and Christine Finnie
Section VII. Affinity Interaction and Biochemichal Enrichment Techniques
22. Affinity and Chemical Enrichment for Mass Spectrometry-based Proteomics Analyses; Guillaume Adelmant, Job D. Cardoza, Scott B. Ficarro, Timothy W. Sikorski, Yi Zhang, and Jarrod A. Marto 23. A Multidimensional Chromatography Strategy using HILIC and IMAC for Quantitative Phosphoproteome Analysis; Dean E. McNulty, Michael J. Huddleston, and Roland S. Annan 24. Glycomic Analysis of Membrane Associated Proteins; Diarmuid T. Kenny, Liaqat Ali, Samah Issa, and Niclas G. Karlsson 25. Multi-Lectin Affinity Chromatography (M-LAC) in combination with High Abundance Protein Depletion for the Discovery of Glycoprotein Disease Biomarkers; Marina Hincapie, Tatiana Plavina, William S. Hancock 26. Analysis of Glycopeptides Using Porous Graphite Chromatography and LTQ Orbitrap XL ETD Hybrid MS; Terry Zhang, Rosa Viner, Zhiqi Hao, Vlad Zabrouskov
Section VIII. Methods for Quantitative proteomics
27. Stable Isotopic Labeling for Proteomics; Keith Ashman, María Isabel Ruppen Cañás, Jose L. Luque-Garcia, and Fernando García Martínez 28. Standard Operating Procedures and Protocols for the Preparation and Analysis of Plasma Samples Using the iTRAQ Methodology; Leanne B. Ohlund, Darryl B. Hardie, Monica H. Elliott, Derek S. Smith, Jennifer D. Reid, Gabriela V. Cohen-Freue, Axel P. Bergman, Mayu Sasaki, Lisa Robertson, Robert F. Balshaw, Raymond T. Ng, Alice Mui, Bruce M. McManus, Paul A. Keown, W. Robert McMaster, Carol E. Parker, and Christoph H. Borchers
Section IX. Sample Preparation in Functional Proteomics
29. Methods for the Isolation of Phosphoproteins and Phosphopeptides for Mass Spectrometry Analysis: Toward Increased Functional Phosphoproteomics; Tapasree Goswami and Bryan A. Ballif 30. Adipose Tissue Lysis and Protein Extraction Followed by MS-based Proteomic Profiling Reveals Constituents of Oxidative Stress in Obesity; Emily A Freeman, Vera Gross, Ilyana Romanovsky, Alexander Lazarev, and Alexander R Ivanov 31. Protocols for LC-MS/MS-based Quantitative Analysis of Proteolytic Substrates from Complex Mixtures ; Mari Enoksson, Miklós Békés, Laurence M. Brill, and Khatereh Motamedchaboki
Section X. Characterization of Membrane Proteins
32. Mass Spectrometry-based Proteomics Analyses of Integral Membrane Proteins ; Eric Bonneil, Sylvain Brunet, Michel Jaquinod, Joseph P.M. Hui, Anik Forest, and Pierre Thibault 33. Matrix-Assisted Laser Desorption/Ionization-Mass Spectrometry of Hydrophobic Proteins in Mixtures; Rachel R. Ogorzalek Loo
Section XI. Methods for MALDI MS Enabled Biomedical Applications
34. MALDI MS-based Biomarker Profiling of Blood Samples; Ali Tiss, Celia J. Smith, and Rainer Cramer 35. Sample Preparation in Biological Analysis by Atmospheric Pressure Matrix Assisted Laser/Desorption Ionization (AP-MALDI) Mass Spectrometry; Appavu K. Sundaram, Berk Oktem, Jane Razumovskaya, Shelley N. Jackson, Amina S. Woods, and Vladimir M. Doroshenko 36. MALDI Imaging Mass Spectrometry for Investigating the Brain; Isabelle Fournier, Mériaux Céline, Maxence Wisztorski, Randeep Rakwal and Michel Salzet 37. UV MALDI for DNA Analysis and the Developments in Sample Preparation Methods; Igor P. Smirnov
Section XII. Clinical Research and Applications
38. Sample Preparation Techniques for Cancer Proteomics; Paul Dowling, Martin Clynes, and Dr. Paula Meleady 39. Sample Preparation of Primary Astrocyte Cellular and Secreted Proteins for 2-D Gel Electrophoresis and Protein Identification by Mass Spectrometry; Melissa A. Sondej, Philip Doran, Joseph A. Loo, and Ina-Beate Wanner
Section XIII. Sample Preparation Techniques in Metabolomics and Drug Discovery
40. Mass Spectrometry-based Metabolomics. Sample Preparation, Data Analysis, and Related Analytical Approaches; Oliver A.H. Jones, Lee D. Roberts, and Mahon L. Maguire 41. Targeted Quantitative Analysis of Jasmonic Acid (JA) and its Amino Acid Conjugates in Plant Using HPLC-Electrospray Ionization-Tandem Mass Spectrometry (ESI-LC-MS/MS); Shigeru Tamogami, Ganesh Kumar Agrawal, and Randeep Rakwal 42. Quantitative Analysis of Lipid Peroxidation Products using Mass Spectrometry; Yasukazu Yoshida and Mototada Shichiri 43. Samples preparation for drug metabolism studies; Natalia Penner, Biplab Das, Caroline Woodward, and Chandra Prakash
Section XIV. Sample Preparation in Analysis or Exotic and Limited Availability Specimens
44. Development of Micro-scale Sample Preparation and Prefractionation Methods in Shotgun Proteomic Studies; Lan Dai, Chen Li, and David M Lubman 45. Revisiting Jurassic Park: The Isolation of Proteins from Aamber Encapsulated Organisms Millions of Years Old; Gary B. Smejkal, George O. Poinar Jr., Pier Giorgio Righetti, and Feixia Chu
Section XV. Sample Treatment in Biodefense, Forensics and Infectious Diseases
46. Inactivation and Extraction of Bacterial Spores for Systems Biological Analysis; Bradford S. Powell and Robert J. Cybulski Section XVI. Novel Approaches in Sample Preparation and LC-MS Analysis 47. New Developments in LC-MS and Other Hyphenated Techniques; Mikhail Belov, Ruwan Kurulugama, Daniel Lopez-Ferrer, Yehia Ibrahim, Erin Baker 48. Reversed-phase HPLC of Peptides - a Valuable Sample Preparation Tool in Bottom-up Proteomics: Separation Selectivity in Single and Multi-dimensional Separation Modes; Ravi C. Dwivedi, Vic Spicer, Oleg V. Krokhin 49. Applications of Microfluidic Devices with Mass Spectrometry Detection in Proteomics; Xiuli Mao and Iulia M. Lazar
Section IV. 2D Gel-based Proteomics
13. Two-dimensional Polyacrylamide Gel Electrophoresis; Aisling A. Robinson, Ciara A. McManus, and Michael J. Dunn 14. Quantitative Intact Proteomic Strategies to Detect Changes in Protein Modification and Genomic Variation; David B. Friedman 15. Two-dimensional Non-denaturing Gel Electrophoresis for Characterization of Proteins in Multi-molecular Particles by Mass Spectrometry; Susan T. Weintraub and Philip Serwer
Section V. Sample Preparation and Analysis Techniques for Biological Fluids and Biomarker Discovery
16. Pre-Analytical Variables for Plasma and Serum Proteome Analyses; Craig A. Gelfand and Gilbert S. Omenn 17. Biomarker Discovery in Biological Fluids; Wasfi Alrawashdeh and Tatjana Crnogorac-Jurcevic 18. Sample Handling of Body Fluids for Proteomics; Joao A. Paulo, Ali R. Vaezzadeh, Darwin L. Conwell, Richard S. Lee, and Hanno Steen
Section VI. Sample Preparation Methods in Plant Proteomics
19. Quantitative Plant Proteomics Using Hydroponic Isotope Labeling of Entire Plants (HILEP); Laurence V. Bindschedler, Celia J. Smith and Rainer Cramer 20. Efficient Strategies for Analysis of Low Abundance Proteins in Plant Proteomics; Olga A. Koroleva, Laurence V. Bindschedler 21. Plant Plasma Membrane Proteomics: Challenges and Possibilities; Anders Laurell Blom Møller, Katja Witzel, Annelies Vertommen, Vibeke Barkholt, Birte Svensson, Sebastien Carpentier, Hans-Peter Mock, and Christine Finnie
Section VII. Affinity Interaction and Biochemichal Enrichment Techniques
22. Affinity and Chemical Enrichment for Mass Spectrometry-based Proteomics Analyses; Guillaume Adelmant, Job D. Cardoza, Scott B. Ficarro, Timothy W. Sikorski, Yi Zhang, and Jarrod A. Marto 23. A Multidimensional Chromatography Strategy using HILIC and IMAC for Quantitative Phosphoproteome Analysis; Dean E. McNulty, Michael J. Huddleston, and Roland S. Annan 24. Glycomic Analysis of Membrane Associated Proteins; Diarmuid T. Kenny, Liaqat Ali, Samah Issa, and Niclas G. Karlsson 25. Multi-Lectin Affinity Chromatography (M-LAC) in combination with High Abundance Protein Depletion for the Discovery of Glycoprotein Disease Biomarkers; Marina Hincapie, Tatiana Plavina, William S. Hancock 26. Analysis of Glycopeptides Using Porous Graphite Chromatography and LTQ Orbitrap XL ETD Hybrid MS; Terry Zhang, Rosa Viner, Zhiqi Hao, Vlad Zabrouskov
Section VIII. Methods for Quantitative proteomics
27. Stable Isotopic Labeling for Proteomics; Keith Ashman, María Isabel Ruppen Cañás, Jose L. Luque-Garcia, and Fernando García Martínez 28. Standard Operating Procedures and Protocols for the Preparation and Analysis of Plasma Samples Using the iTRAQ Methodology; Leanne B. Ohlund, Darryl B. Hardie, Monica H. Elliott, Derek S. Smith, Jennifer D. Reid, Gabriela V. Cohen-Freue, Axel P. Bergman, Mayu Sasaki, Lisa Robertson, Robert F. Balshaw, Raymond T. Ng, Alice Mui, Bruce M. McManus, Paul A. Keown, W. Robert McMaster, Carol E. Parker, and Christoph H. Borchers
Section IX. Sample Preparation in Functional Proteomics
29. Methods for the Isolation of Phosphoproteins and Phosphopeptides for Mass Spectrometry Analysis: Toward Increased Functional Phosphoproteomics; Tapasree Goswami and Bryan A. Ballif 30. Adipose Tissue Lysis and Protein Extraction Followed by MS-based Proteomic Profiling Reveals Constituents of Oxidative Stress in Obesity; Emily A Freeman, Vera Gross, Ilyana Romanovsky, Alexander Lazarev, and Alexander R Ivanov 31. Protocols for LC-MS/MS-based Quantitative Analysis of Proteolytic Substrates from Complex Mixtures ; Mari Enoksson, Miklós Békés, Laurence M. Brill, and Khatereh Motamedchaboki
Section X. Characterization of Membrane Proteins
32. Mass Spectrometry-based Proteomics Analyses of Integral Membrane Proteins ; Eric Bonneil, Sylvain Brunet, Michel Jaquinod, Joseph P.M. Hui, Anik Forest, and Pierre Thibault 33. Matrix-Assisted Laser Desorption/Ionization-Mass Spectrometry of Hydrophobic Proteins in Mixtures; Rachel R. Ogorzalek Loo
Section XI. Methods for MALDI MS Enabled Biomedical Applications
34. MALDI MS-based Biomarker Profiling of Blood Samples; Ali Tiss, Celia J. Smith, and Rainer Cramer 35. Sample Preparation in Biological Analysis by Atmospheric Pressure Matrix Assisted Laser/Desorption Ionization (AP-MALDI) Mass Spectrometry; Appavu K. Sundaram, Berk Oktem, Jane Razumovskaya, Shelley N. Jackson, Amina S. Woods, and Vladimir M. Doroshenko 36. MALDI Imaging Mass Spectrometry for Investigating the Brain; Isabelle Fournier, Mériaux Céline, Maxence Wisztorski, Randeep Rakwal and Michel Salzet 37. UV MALDI for DNA Analysis and the Developments in Sample Preparation Methods; Igor P. Smirnov
Section XII. Clinical Research and Applications
38. Sample Preparation Techniques for Cancer Proteomics; Paul Dowling, Martin Clynes, and Dr. Paula Meleady 39. Sample Preparation of Primary Astrocyte Cellular and Secreted Proteins for 2-D Gel Electrophoresis and Protein Identification by Mass Spectrometry; Melissa A. Sondej, Philip Doran, Joseph A. Loo, and Ina-Beate Wanner
Section XIII. Sample Preparation Techniques in Metabolomics and Drug Discovery
40. Mass Spectrometry-based Metabolomics. Sample Preparation, Data Analysis, and Related Analytical Approaches; Oliver A.H. Jones, Lee D. Roberts, and Mahon L. Maguire 41. Targeted Quantitative Analysis of Jasmonic Acid (JA) and its Amino Acid Conjugates in Plant Using HPLC-Electrospray Ionization-Tandem Mass Spectrometry (ESI-LC-MS/MS); Shigeru Tamogami, Ganesh Kumar Agrawal, and Randeep Rakwal 42. Quantitative Analysis of Lipid Peroxidation Products using Mass Spectrometry; Yasukazu Yoshida and Mototada Shichiri 43. Samples preparation for drug metabolism studies; Natalia Penner, Biplab Das, Caroline Woodward, and Chandra Prakash
Section XIV. Sample Preparation in Analysis or Exotic and Limited Availability Specimens
44. Development of Micro-scale Sample Preparation and Prefractionation Methods in Shotgun Proteomic Studies; Lan Dai, Chen Li, and David M Lubman 45. Revisiting Jurassic Park: The Isolation of Proteins from Aamber Encapsulated Organisms Millions of Years Old; Gary B. Smejkal, George O. Poinar Jr., Pier Giorgio Righetti, and Feixia Chu
Section XV. Sample Treatment in Biodefense, Forensics and Infectious Diseases
46. Inactivation and Extraction of Bacterial Spores for Systems Biological Analysis; Bradford S. Powell and Robert J. Cybulski Section XVI. Novel Approaches in Sample Preparation and LC-MS Analysis 47. New Developments in LC-MS and Other Hyphenated Techniques; Mikhail Belov, Ruwan Kurulugama, Daniel Lopez-Ferrer, Yehia Ibrahim, Erin Baker 48. Reversed-phase HPLC of Peptides - a Valuable Sample Preparation Tool in Bottom-up Proteomics: Separation Selectivity in Single and Multi-dimensional Separation Modes; Ravi C. Dwivedi, Vic Spicer, Oleg V. Krokhin 49. Applications of Microfluidic Devices with Mass Spectrometry Detection in Proteomics; Xiuli Mao and Iulia M. Lazar
... weniger
Bibliographische Angaben
- 2011, 1089 Seiten, Masse: 16 x 24,1 cm, Gebunden, Englisch
- Herausgegeben:Ivanov, Alexander R.; Lazarev, Alexander V.
- Herausgegeben: Alexander V. Lazarev, Alexander R. Ivanov
- Verlag: Springer Netherlands
- ISBN-10: 9400707584
- ISBN-13: 9789400707580
- Erscheinungsdatum: 17.06.2011
Sprache:
Englisch
Rezension zu „Sample Preparation in Biological Mass Spectrometry “
Anal Bioanal Chem (2012) 404:1331-1332: DOI 10.1007/s00216-012-6260-8http://www.springerlink.com/content/7r2569j2175k81m2/Alexander R. Ivanov, Alexander V. Lazarev (Eds): Sample preparation in biological mass spectrometryby David C. Muddiman"This book focuses on the burgeoning field of sample preparation as it relates to downstream integration with mass spectrometry. This is an expanding field, because of the diverse array of biological questions that can be addressed by use of mass spectrometry. A critical aspect of the successful outcome of an experiment is the 800-pound gorilla in the room called "sample preparation". It is widely accepted by the biological mass spectrometry community that sample preparation is a key aspect of effectively learning more about the in-depth biology under investigation.""Sample Preparation in Biological Mass Spectrometry is a monograph which addresses a critical issue in a very diverse and important field. Several chapters are written by leaders in their field and are comprehensive and educational, and provide detailed procedures. Other chapters are less substantial in their content. Overall, the book has value for the novice getting started, because it provides a balance of background on the subject with some practical methods of analysis."
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