Neuroproteomics

Part I: Introduction 1. Neuroproteomics: Deciphering Brain Function and Disorders Ka Wan Li Part II: Fractionation of Brain Regions, Organelles, and Protein Complexes 2. Dissection of Rodent Brain Regions Sabine Spijker 3. Subcellular Fractionation of Brain Tissue Using Free Flow Electrophoresis Markus Islinger, Joachim Kirsch, Sabine Angermüller, Ramona Rotaru, Afsaneh Abdolzade-Bavil, and Gerhard Weber 4. Isolation of Synapse Sub-Domains by Subcellular Fractionation Using Sucrose Density Gradient Centrifugation Tatsuo Suzuki 5. Enrichment of Plasma Membranes from Small Brain Samples by Aqueous Polymer Two-Phase Systems Jens Schindler 6. Identification and Characterization of Protein Complexes from Total Brain and Synaptoneurosomes: Heterogeneity of Molecular Complexes in Distinct Subcellular Domains Silvia De Rubeis and Claudia Bagni 7. Analysis of Protein Complexes by 2D Blue Native/SDS-PAGE and Antibody-Shift Assay Dong Yang, Xinyu Deng, Ying Jiang, and Fuchu He Part III: Analytical Tools for Neuroproteomics 8. 2-Dimensional Gel Electrophoresis-Based Proteomic Analysis of Brain Synapses Karl-Heinz Smalla and Ursula Wyneken 9. 2-Dimensional BAC-SDS Polyacrylamide Gel Electrophoresis for the Fractionation and Identification of Synaptic Vesicle Proteins and the Presynaptic Active Zone Joern Barth and Walter Volknandt 10. iTRAQ-Based LC-LC MALDI TOF/TOF MS Quantitative Analysis of Membrane Proteins from Human Glioma Uroš Rajčević 11. OFFGEL-Isoelectric Focusing Fractionation for the Analysis of Complex Proteome Emilie Ernoult and Catherine Guette 12. A 1D-PAGE/LC-ESI Linear Ion Trap Orbitrap MS Approach for the Analysis of Synapse Proteomes and Synaptic Protein Complexes Ning Chen, Roel C. vd Schors and August B. Smit 13. SDS-PAGE Immuno-Blot Analysis Patricia Klemmer 14. Phosphoproteomics by Highly Selective IMAC Protocol Chia-Feng Tsai, Yi-Ting Wang, Pei-Yi Lin, and Yu-Ju Chen 15. Global Analysis of Ubiquitination David Meierhofer and Peter Kaiser 16. High-Throughput High-Content Functional Image Analysis of Neuronal Proteins Implicated in Parkinson’s Disease Eva Blaas and Ronald E. van Kesteren Part IV: Analysis of Specific Brain Tissues and Fluid 17. Neuropeptidomics of the Mammalian Brain Fang Xie, Elena V. Romanova, and Jonathan V. Sweedler 18. In-Depth Analysis of the Cerebrospinal Fluid Proteome and Biomarker Discovery: Abundant Protein Depletion Sample Pretreatment Method Silvina A. Fratantoni and Connie R. Jimenez 19. Lipidomics of the Nervous System: Phospholipidomics by Liquid Chromatography Coupled to Mass Spectrometry or Tandem Mass Spectrometry Su Chen Part V: Bioinformatics 20. Bioinformatics Procedures for Analysis of Quantitative Proteomics Experiments Using iTRAQ Pim van Nierop and Maarten Loos 21. Statistical Analysis of Spectral Count Data Generated by Label-Free Tandem Mass Spectrometry-Based P