Neuroproteomics

1. Front Matter

   Pages i-xiii

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2. Neuroproteomics: The Methods

   • Ka Wan Li

   Pages 1-6

3. Dissection of Rodent Brain Regions: Guided Free-Hand Slicing and Dissection of Frozen Tissue

   • Sabine Spijker, Leonidas Faliagkas, Priyanka Rao-Ruiz

   Pages 7-19

4. Isolation of Synapse Sub-Domains by Subcellular Fractionation Using Sucrose Density Gradient Centrifugation: Purification of the Synaptosome, Synaptic Plasma Membrane, Postsynaptic Density, Synaptic Membrane Raft, and Postsynaptic Density Lattice

   • Tatsuo Suzuki, Yoshinori Shirai, Weidong Li

   Pages 21-42

5. Laser Microdissection for Spatial Proteomics of Postmortem Brain Tissue

   • David C. Hondius, Jeroen J. M. Hoozemans, Annemieke J. M. Rozemuller, August B. Smit

   Pages 43-53

6. High-pH Reversed-Phase Pre-Fractionation for In-Depth Shotgun Proteomics

   • Ning Chen, Mingwei Liu, Jun Qin, Wei Sun, Fuchu He

   Pages 55-65

7. Sample Preparation for Proteomics Analysis: Filter-Aided Sample Preparation (FASP) and Single-Pot Solid-Phase Sample Preparation (SP3)

   • Ka Wan Li

   Pages 67-73

8. Enrichment of Low-Molecular-Weight Phosphorylated Biomolecules Using Phos-Tag Tip

   • Eiji Kinoshita, Emiko Kinoshita-Kikuta, Tohru Koike

   Pages 75-84

9. Integrated Immunoprecipitation: Blue Native Gel Electrophoresis—Mass Spectrometry for the Identification of Protein Subcomplexes

   • Sophie J. F. van der Spek, August B. Smit, Nikhil J. Pandya

   Pages 85-94

10. Analysis of Synaptic Protein–Protein Interaction by Cross-linking Mass Spectrometry

    • Fan Liu

    Pages 95-102

11. TMT-MS3-Enabled Proteomic Quantification of Human IPSC-Derived Neurons

    • Nikhil J. Pandya, David Avila, Tom Dunkley, Ravi Jagasia, Manuel Tzouros

    Pages 103-117

12. Data-Independent Acquisition (SWATH) Mass Spectrometry Analysis of Protein Content in Primary Neuronal Cultures

    • Miguel A. Gonzalez-Lozano, Frank Koopmans

    Pages 119-127

13. Quantitative Analysis of Mass Spectrometry-Based Proteomics Data

    • Thang V. Pham, Connie R. Jimenez

    Pages 129-142

14. 2D-DIGE as a Tool in Neuroproteomics

    • Florian Weiland

    Pages 143-159

15. Neuropeptidomics of the Mammalian Brain

    • Fang Xie, Krishna D. B. Anapindi, Elena V. Romanova, Jonathan V. Sweedler

    Pages 161-177

16. MALDI Imaging Mass Spectrometry: Neurochemical Imaging of Proteins and Peptides

    • Jörg Hanrieder, Henrik Zetterberg, Kaj Blennow

    Pages 179-197

17. A Combined Cellomics and Proteomics Approach to Uncover Neuronal Pathways to Psychiatric Disorder

    • Martina Rosato, Titia Gebuis, Iryna Paliukhovich, Sven Stringer, Patrick F. Sullivan, August B. Smit et al.

    Pages 199-215

18. Back Matter

    Pages 217-218

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This second edition volume expands on the previous edition with updates on the latest techniques used in the field of proteomics. Tissue and cellular proteins are now being analyzed at near proteome-wide levels and mass spectrometers are achieving higher sensitivity and speed, resolution, and accuracy. The chapters in this book cover various new methods used in proteomic workflows such as laser microdissection for spatial proteomics of post-mortem brain tissue, sample preparation in single vessel with FASP and SP3 protocols, the crosslinking mass spectrometry, TMT-MS3 based proteomic with synchronous precursor selection, mass spectrometric data dependent acquisition (DDA) and data independent acquisition (DIA, SWATH) methods, 2D-DIGE, and MALDI Imaging Mass Spectrometry. In Neuromethods series style, chapters include the kind of detail and key advice from the specialists needed to get successful results in your laboratory.



Cutting-edge and comprehensive, Neuroproteomics, Second Edition is a valuable guide that help researchers obtain the finest results from current proteomics platforms.

• rodent brain regions
• synaptic organelles
• Laser capture microdissection
• pluripotent brain stem cells
• DIGE
• Proteomics

• Department of Molecular and Cellular Neurobiology, Center for Neurogenomics and Cognitive Research, Amsterdam Neuroscience, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands

  Ka Wan Li

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