This volume focuses on protein analysis covering a wide spectrum of the utility of mass spectrometry within neurobiological disciplines. The chapters in this book discuss label (iTRAQ, TMT, protein arrays) and label-free workflows (SWATH, MALDI Imaging, and label-free quantitation). Other chapters look at experimental strategies targeted to the identification and quantitation of specific lipids and post-translational modifications, as well as proteomic workflows that focus on characterization of subcellular proteomes. The last few chapters in the book describe various bioinformatics pipelines used to analyze the molecular data derived from high-throughput transcriptomic and proteomic experiments on brain tissue. The Neuromethods series offers chapters with key advice and procedure specifics to empower the readers to successfully achieve their own scientific and experimental goals.Thorough and comprehensive, Current Proteomic Approaches Applied to Brain Function is a valuable resource for graduate students and postdoctoral fellows interested in neuroproteomics, as well as researchers looking for further insight into the growing field of mass spectrometry in neuroscience.

Includes cutting-edge methods and protocols

Preface to the SeriesPrefaceTable of ContentsContributing AuthorsPART I Introduction 1. Brain Proteomics: Decoding Neuroproteomes using Mass-SpectrometryJoaquín Fernández-Irigoyen and Enrique Santamaría PART II Labeling Methods in Neuroproteomics 2. Applications of Amine-Reactive Tandem Mass Tags (TMT) in Human NeuroproteomicsLinnéa Lagerstedt, Leire Azurmendi, and Jean-Charles Sanchez3. Application of Isobaric Tags for Relative and Absolute Quantitation (iTRAQ) to Monitor Olfactory Proteomes during Alzheimer¿s Disease ProgressionAndrea González-Morales, Mercedes Lachén-Montes, María Ibañez-Vea, Enrique Santamaría, and Joaquín Fernández-Irigoyen  4.  Protein Microarrays in Neurodegenerative DiseasesPablo San Segundo-Acosta, María Garranzo-Asensio, Ana Montero-Calle, Carmen Oeo-Santos, Mayte Villalba, Ana Guzmán-Aránguez, and Rodrigo BarderasPART III Label-Free Methods in Neuroproteomics5. Comprehensive Shotgun Proteomic Analyses of Oligodendrocytes using Ion Mobility and Data Independent AcquisitionJuliana S. Cassoli and Daniel Martins-de-Souza 6. Non-Targeted Brain Lipidomics Profiling Performed by UPLC-ESI-qTOF-MS/MSAlba Naudí, Rosanna Cabré, Mariona Jové, and Reinald Pamplona 7. Methods for Human Olfactory Bulb-Tissue Studies using Peptide/Protein MALDI-TOF Imaging Mass Spectrometry (MALDI-IMS)Ibon Iloro, Joaquín Fernández-Irigoyen, Iraide Escobes, Mikel Azkargorta, Enrique Santamaría, Felix Elortza 8. Neuroproteomics using Short GeLC-SWATH: From the Evaluation of Proteome Changes to the Clarification of Protein FunctionSandra I. Anjo, Cátia Santa, Susana C. Saraiva, Karolina Freitas, Faraj Barah, Bruno Carreira, Inês Araújo, and Bruno Manadas PART IV Mass Spectrometry-based Neuroproteomics to Analyze Post-Translational Modificiations 9. Analysis of Brain Phosphoproteome using Titanium Dioxide Enrichment and High Resolution LC-MS/MSJeffrey M. Sifford, Haiyan Tan, Hong Wang, and Junmin Peng10. N-Glycomics and N-Glycoproteomics of Human Cerebrospinal FluidSophie Cholet, Arnaud Goyallon, Christophe Junot, and François Fenaille  11. In Vivo Strategies to Isolate and Characterize the Neuronal Ubiquitinated ProteomeJuanma Ramírez, Nagore Elu, Aitor Martinez, Benoit Lectez, and Ugo Mayor 12. Characterization of the Phosphoproteome and Sialoproteome in Brain Tissues by Mass SpectrometryMaría Ibañez-Vea, Stefan J. Kempf, and Martin R. Larsen13. Proteomic Analysis of SUMOylation in the Post-Ischemic BrainJ. Will Thompson, Meng Jiang, and Wei Yang 14. S-Nitrosylation in Alzheimer¿s Disease using Oxidized Cysteine-Selective cPILOTRyan R. Dyer, Liqing Gu, and Renã A.S. Robinson PART V Subcellular Neuroproteomics 15. Proteomic Analysis of Extracellular Vesicles in Neurological DiseasesMatías Sáenz-Cuesta, Enrique Santamaría, Joaquín Fernández-Irigoyen, and David Otaegui 16. Quantitative In-Depth Profiling of the Postsynaptic Density Proteome to Understand the Molecular Mechanisms Governing Synaptic Physiology and PathologyRita Reig-Viader and Alex Bayés 17. Nuclear Proteomics for Exploring MK-801 Treated Oligodendrocytes to Better Understand SchizophreniaAline G. Santana, Giuliana S. Zuccoli, Verônica Saia-Cereda, Juliana S. Cassoli, and Daniel Martins-de-Souza 18. Localized Proteomics of Individual Neurons Isolated from Formalin-Fixed, Paraffin Embedded Tissue Sections using Laser Capture MicrodissectionEleanor Drummond, Shruti Nayak, Beatrix Ueberheide, and Thomas Wisniewski PART VI Bioinformatics 19. Creation of Reusable Bioinformatics Workflows for Reproducible Analysis of LC-MS Proteomics DataJulian Uskoreit, Maike Ahrens, Katalin Barkovits, Katrin Marcus, and Martin Eisencacher  20. Integration of Transcriptomic and Proteomic Data for Disease InsightsRavi Sirdeshmukh, Savita Jayaram, Manoj Kumar Gupta, Pranali Sonpatki, Manika Singh, Raksha A. Ganesh, Chaitra S. Reddy, and Nameeta Shah