Analyzing Biomolecular Interactions by Mass Spectrometry

Name: Analyzing Biomolecular Interactions by Mass Spectrometry
Brand: Wiley-VCH
Price: 142.99 EUR
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Jeroen Kool Wilfried M.A. Niessen(Herausgeber*in)

Wiley-VCH (Verlag)

1. Auflage

Erschienen am 9. Februar 2015

XXII, 378 Seiten

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Jeroen Kool focused on the integration of chemical and biochemical detection after separation methodologies during his PhD study at the VU University Amsterdam. Following his PhD, he was responsible for target evaluation, hit screening and identification, and lead optimization processes at Kiadis Pharma. He continued his academic career in 2005 as a postdoc in the Biomolecular Mass Spectrometry group in Utrecht working on proteomics and biomarker discovery. From 2007 to present, he is responsible for the research line Bioanalytical Screening Methodologies at the VU University Amsterdam with a particular focus on hyphenated analytical techniques combining mass spectrometry and chromatography with novel bioassay techniques for bioactive mixture analysis. He published over 50 peer reviewed articles and one book chapter.

Wilfried M.A. Niessen studied chemistry at the VU University Amsterdam. After his PhD, he worked for 9 years as an analytical chemist within the Leiden/ Amsterdam Center for Drug Research at Leiden University. After leaving the university in 1996, he started the company hyphen MassSpec, providing independent consultancy and training in the field of analytical mass spectrometry. In parallel to this, he was extraordinary professor in bioanalytical mass spectrometry at the Faculty of Science of the VU University Amsterdam between 2002 and 2014. There, he was involved in high-resolution screening and the role of MS therein. His main research interests involve principles, instrumentation and applications of liquid chromatography-mass spectrometry as well as interpretation of small-molecule MS-MS mass spectra. He is (co)author of more than 200 peer reviewed publications in the field of LC-MS and more than 40 book chapters. Wilfried Niessen authored and edited five books, and was guest editor on several special journal issues.

Herausgeber*in

Jeroen Kool

VU University Amsterdam, The Netherlands

Wilfried M.A. Niessen

VU University Amsterdam, The Netherlands

Inhalt

Preface

INTRODUCTION TO MASS SPECTROMETRY, A TUTORIAL
Introduction
Figures of Merit
Analyte Ionization
Mass Analyzer Building Blocks
Tandem Mass Spectrometry
Data Interpretation and Analytical Strategies
Conclusion and Perspectives

PART I: Direct MS Based Affinity Techniques

STUDYING PROTEIN-PROTEIN INTERACTIONS BY COMBINING NATIVE MASS SPECTROMETRY AND CHEMICAL CROSS-LINKING
Introduction
Protein Analysis by Mass Spectrometry
Native MS
Chemical Cross-Linking MS
Value of Combining Native MS with Chemical Cross-Linking MS
Regulating the Giant
Capturing Transient Interactions
An Integrative Approach for Obtaining Low-Resolution Structures of Native Protein Complexes
Future Directions

NATIVE MASS SPECTROMETRY APPROACHES USING ION MOBILITY-MASS SPECTROMETRY
Introduction
Sample Preparation
Electrospray Ionization
Mass Analyzers and Tandem MS Approaches
Ion Mobility
Data Processing
Challenges and Future Perspectives

PART II: LC-MS Based with Indirect Assays

METHODOLOGIES FOR EFFECT-DIRECTED ANALYSIS: ENVIRONMENTAL APPLICATIONS, FOOD ANALYSIS, AND DRUG DISCOVERY
Introduction
Principle of Traditional Effect-Directed Analysis
Sample Preparation
Fractionation for Bioassay Testing
Miscellaneous Approaches
Identification of Confirmation Process
Conclusion and Perspectives

MS BINDING ASSAYS
Introduction
MS Binding Assays - Strategy
Application of MS Binding Assays
Summary and Perspectives

METABOLIC PROFILING APPROACHES FOR THE IDENTIFICATION OF BIOACTIVE METABOLITES IN PLANTS
Introduction to Plant Metabolic Profiling
Sample Collection and Processing
Hyphenated Techniques
Mass Spectrometry
Mass Spectrometric Imaging
Data Analysis
Future Perspectives

ANTIVENOMICS: A PROTEOMICS TOOL FOR STUDYING THE IMMUNOREACTIVITY OF ANTIVENOMS
Introduction
Challenge of Fighting Human Envenoming by Snakebites
Toolbox for Studying the Immunological Profile of Antivenoms
First-Generation Antivenomics
Snake Venomics
Second-Generation Antivenomics
Concluding Remarks

PART III: Direct Pre- and On-Column Coupled Techniques

FRONTAL AND ZONAL AFFINITY CHROMATOGRAPHY COUPLED TO MASS SPECTROMETRY
Introduction
Frontal Affinity Chromatography
Staircase Method
Simultaneous Frontal Analysis of a Complex Mixture
Multiprotein Stationary Phase
Zonal Chromatography
Nonlinear Chromatography

ONLINE AFFINITY ASSESSMENT AND IMMUNOAFFINITY SAMPLE PRETREATMENT IN CAPILLARY ELECTROPHORESIS-MASS SPECTROMETRY
Introduction
Capillary Electrophoresis
Affinity Capillary Electrophoresis
Immunoaffinity Capillary Electrophoresis
Capillary Electrophoresis-Mass Spectrometry
Application of ACE-MS
Applications of IA-CE-MS
Conclusions

LABEL-FREE BIOSENSOR AFFINITY ANALYSIS COUPLED TO MASS SPECTROMETRY
Introduction to MS-Coupled Biosensor Platforms
Strategies for Coupling Label-Free Analysis with Mass Spectrometry
New Sensor and MS Platforms, Opportunities for Integration

PART IV: Direct Post Column Coupled Affinity Techniques

HIGH-RESOLUTION SCREENING: POST-COLUMN CONTINUOUS-FLOW BIOASSAYS
Introduction
The High-Resolution Screening Platform
Data Analysis
Conclusions and Perspectives

CONCLUSIONS

Index

Abbreviations

µ Electrophoretic mobility 2DE Two-dimensional electrophoresis 5-HT 5-Hydroxytryptamine, serotonin 5-HT2A 5-Hydroxytryptamine (serotonin) receptor subtype 2A Ab Antibody ACE Affinity capillary electrophoresis ACE Angiotensin converting enzyme AChBP Acetyl choline binding protein Ag Antigen Ag-Ab Antigen-antibody complex AhR Aryl hydrocarbon receptor AMAC Accelerated membrane assisted clean-up APCI Atmospheric pressure chemical ionization API Atmospheric pressure ionization AR-CALUX Androgen chemically activated luciferase expression BGE Background electrolyte BGF Bioassay guided fractionation BGT1 Betaine-GABA transporter BLAST Basic local alignment search tool BS2G Bis(sulfosuccinimidyl)suberate CCT Chaperonin containing Tcp1 CDER Center for drug evaluation and research CE Capillary electrophoresis CECs Chemicals of emerging concern CHCA a-Cyano-4-hydroxy cinnamic acid CI Chemical ionization CID Collision-induced dissociation CID-MS/MS Collision-induced dissociation tandem mass spectrometry CRISPR Clustered regularly interspaced short palindromic repeat CZE Capillary zone electrophoresis D1-5 Dopamine receptor subtypes D1 to D5 DAD Diode array detector DCC Dynamic combinatorial chemistry DCL Dynamic combinatorial library DDA Data dependent acquisition DVB/CAR/PDMS Divinyl-benzene/carboxen/polydimethylsiloxane EC Electrochemical conversion ECD Electron-capture dissociation EDA Effect-directed analysis EI Electron ionization EIC Extracted ion chromatograms EICs Extracted ion currents ELSD Evaporative light scattering detection EOF Electroosmotic flow ER Estrogen receptor EROD Ethoxyresorufin-O-deethylase ESI Electron spray ionization ESI Electrospray ionization ESI-MS Electrospray-ionization mass spectrometry ETD Electron-transfer dissociation FA Formic acid FA Frontal analysis Fab Fragment antigen-binding FACCE Frontal analysis continuous capillary electrophoresis FDA US Food and Drug Administration FIA Flow-injection analysis FLD Fluorescence detection FRAP Ferric reducing antioxidant power FRET Fluorescence resonance energy transfer FWHM Full width at half maximum GABA ?-Aminobutyric acid GAT1-3 GABA transporter subtypes 1-3 (according to HUGO) GC-MS Gas chromatography mass spectrometry GC-O Gas chromatography olfactometry GCxGC Comprehensive two dimensional gas chromatography GPC Gel permeation chromatography GPCR G protein-coupled receptor GSI Global snakebite initiative GST Glutathione-S-transferase HBH Histidine-biotin-histidine HDX Hydrogen-deuterium exchange HEK Human embryonic kidney cells HPLC High performance liquid chromatography HRS High-resolution screening HTLC High-temperature liquid chromatography HTS High throughput screening I.D. Inner diameter IA-CE Immunoaffinity capillary electrophoresis IC50 Half maximal inhibitory concentration ICP Inductively coupled plasma ICP-MS Inductively coupled plasma MS ID Inner diameter IMS Ion mobility spectrometry ISD In-source decay IT Ion-trap MS IT-TOF Tandem ion-trap - time-of-flight MS Ka Association constant Kd Dissociation constant Kd Equilibrium dissociation constant kDa kilodalton (103 Da) Ki Affinity constant koff Rate constant of complex dissociation kon Rate constant of complex formation L Ligand LC Liquid chromatography LC-MS Liquid chromatography mass spectrometry LC-MSE Liquid chromatography mass spectrometry in an alternating energy mode LIF Laser induced fluorescence LLE Liquid liquid extraction LLOQ Lower limit of quantification MALDI Matrix assisted laser desorption ionization MS Mass spectrometry/mass spectrometer MS/MS Tandem mass spectrometry MTS 3-(4,5-Dimethylthiazol-2-yl)-5-(3-carboxymethoxyphenyl)-2-(4-sulfophenyl)-2H-tetrazolium MTT 3-(4,5-Dimethyldiazol-2-yl)-2,5 diphenyl tetrazolium bromid nAChR Nicotinic acetylcholine receptor NECEEM Non-equilibrium capillary electrophoresis of equilibrium mixtures NHS N-Hydroxysuccinimide NMR Nuclear magnetic resonance NMR Nuclear magnetic resonance spectrometry np-HPLC Normal phase high performance liquid chromatography p38 p38 mitogen-activated protein kinase PAHs Poly aromatic hydrocarbons PDE Phosphodiesterase PEEK Polyether ether ketone PEG Polyethylene glycol PLE Pressurized liquid extraction POCIS Polar organic chemical integrative sampler PTFE Polytetrafluoroethylene QSAR Quantitative structure-activity relationships QTAX Quantitative analysis of tandem affinity purified in vivo cross-linked protein complexes Q-TOF Quadrupole time-of-flight q-TOF Tandem quadropule - time-of-flight MS R Receptor rhSHBG Recombinant human sex hormone binding...

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