Neuroproteomics

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.

Series Preface…

Preface…

Table of Contents…

Contributing Authors…

1. Neuroproteomics: The Methods

Ka Wan Li

Sabine Spijker, Leonidas Faliagkas, and Priyanka Rao-Ruiz

3. 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, and Weidong Li

4. Laser Microdissection for Spatial Proteomics of Post Mortem Brain Tissue

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

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

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

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

Ka Wan Li

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

Eiji Kinoshita, Emiko Kinoshita-Kikuta, and Tohru Koike

8. Integrated Immunoprecipitation: Blue Native Gel Electrophoresis - Mass Spectrometry for the Identification of Protein Sub-Complexes

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

9. Analysis of Synaptic Protein-Protein Interaction by Crosslinking-Mass Spectrometry

Fan Liu 

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

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

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

Miguel A. Gonzalez-Lozano and Frank Koopmans

12. Quantitative Analysis of Mass Spectrometry-Based Proteomics Data

Thang V. Pham and Connie R. Jimenez

13. 2D-DIGE as a Tool in Neuroproteomics

Florian Weiland

14. Neuropeptidomics of the Mammalian Brain

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

15. MALDI Imaging Mass Spectrometry - Neurochemical Imaging of Proteins and Peptides

Jörg Hanrieder, Henrik Zetterberg, and Kaj Blennow

16. 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, and Ronald E. van Kesteren