Book Volume 1550 2017

Proteomics

Methods and Protocols

Editors:

ISBN: 978-1-4939-6745-2 (Print) 978-1-4939-6747-6 (Online)

Table of contents (23 protocols)

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  1. Front Matter

    Pages i-xii

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    Protocol

    Pages 1-10

    A Robust Protocol for Protein Extraction and Digestion

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    Protocol

    Pages 11-18

    Improving Proteome Coverage and Sample Recovery with Enhanced FASP (eFASP) for Quantitative Proteomic Experiments

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    Protocol

    Pages 19-33

    Proteome Characterization of a Chromatin Locus Using the Proteomics of Isolated Chromatin Segments Approach

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    Protocol

    Pages 35-46

    Profiling Cell Lines Nuclear Sub-proteome

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    Protocol

    Pages 47-60

    Optimized Enrichment of Phosphoproteomes by Fe-IMAC Column Chromatography

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    Protocol

    Pages 61-67

    Full Membrane Protein Coverage Digestion and Quantitative Bottom-Up Mass Spectrometry Proteomics

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    Protocol

    Pages 69-82

    Hydrophilic Strong Anion Exchange (hSAX) Chromatography Enables Deep Fractionation of Tissue Proteomes

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    Protocol

    Pages 83-98

    High pH Reversed-Phase Micro-Columns for Simple, Sensitive, and Efficient Fractionation of Proteome and (TMT labeled) Phosphoproteome Digests

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    Protocol

    Pages 99-113

    Multi-Lectin Affinity Chromatography for Separation, Identification, and Quantitation of Intact Protein Glycoforms in Complex Biological Mixtures

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    Protocol

    Pages 115-136

    Parallel Exploration of Interaction Space by BioID and Affinity Purification Coupled to Mass Spectrometry

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    Protocol

    Pages 137-148

    LUMIER: A Discovery Tool for Mammalian Protein Interaction Networks

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    Protocol

    Pages 149-170

    Dual-Color, Multiplex Analysis of Protein Microarrays for Precision Medicine

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    Protocol

    Pages 171-184

    Quantitative Proteomics Using SILAC

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    Protocol

    Pages 185-198

    Relative Protein Quantification Using Tandem Mass Tag Mass Spectrometry

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    Protocol

    Pages 199-221

    Pathway-Informed Discovery and Targeted Proteomic Workflows Using Mass Spectrometry

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    Protocol

    Pages 223-233

    Generation of High-Quality SWATH® Acquisition Data for Label-free Quantitative Proteomics Studies Using TripleTOF® Mass Spectrometers

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    Protocol

    Pages 235-260

    Annotating Mutational Effects on Proteins and Protein Interactions: Designing Novel and Revisiting Existing Protocols

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    Protocol

    Pages 261-270

    Protein Micropatterning Assay: Quantitative Analysis of Protein–Protein Interactions

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    Protocol

    Pages 271-288

    Designing Successful Proteomics Experiments

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    Protocol

    Pages 289-307

    Automated SWATH Data Analysis Using Targeted Extraction of Ion Chromatograms

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