Current proteomic approaches applied to brain function / edited by Enrique Santamaría and Joaquín Fernández-Irigoyen.

Contributor(s): Santamaria, Enrique [editor.] | Fernandez-Irigoyen, Joaquin [editor.]
Material type: TextTextSeries: Neuromethods: v. 127.Publisher: New York, NY : Humana Press : Springer, [2017]Copyright date: ©2017Description: 1 online resource (xvi, 360 pages) : illustrations (some color)Content type: text | still image Media type: computer Carrier type: online resourceISBN: 9781493971190; 1493971190Subject(s): Proteomics -- Laboratory manuals | Neurobiology -- Laboratory manuals | Proteomics -- methods | Brain Chemistry | Mass Spectrometry | Neurobiology | ProteomicsGenre/Form: Laboratory Manual. | Electronic books. | Laboratory manuals. Additional physical formats: Print version:: Current proteomic approaches applied to brain function.DDC classification: 572/.6 LOC classification: QP551Online resources: Click here to access online
Contents:
Brain proteomics : decoding neuroproteomes using mass spectrometry / Joaquín Fernández-Irigoyen and Enrique Santamaría -- Applications of amine-reactive tandem mass tags (TMT) in human neuroproteomics / Linnéa Lagerstedt, Leire Azurmendi, and Jean-Charles Sanchez -- Application of isobaric tags for relative and absolute quantitation (iTRAQ) to monitor olfactory proteomes during Alzheimer's disease / Andrea González Morales, Mercedes Lachén-Montes, María Ibáñez-Vea, Enrique Santamaría, and Joaquín Fernández-Irigoyen -- Protein microarrays in neurodegenerative diseases / Pablo San Segundo-Acosta, María Garranzo-Asensio, Ana Montero-Calle, Carmen Oeo-Santos, Mayte Villalba, Ana Guzman-Aranguez, and Rodrigo Barderas -- Comprehensive shotgun proteomic analyses of oligodendrocytes using ion mobility and data-independent acquisition / Juliana S. Cassoli and Daniel Martins-de-Souza -- Nontargeted brain lipidomic profiling performed by UPLC-ESI-qToF-MS/MS / Alba Naudí, Rosanna Cabré, Mariona Jové, and Reinald Pamplona -- 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, and Felix Elortza -- Neuroproteomics using short GeLC-SWATH : from the evaluation of proteome changes to the clarification of protein function / Sandra I. Anjo, Cátia Santa, Susana C. Saraiva, Karolina Freitas, Faraj Barah, Bruno Carreira, Inês Araújo, and Bruno Manadas -- Analysis of brain phosphoproteome using titanium dioxide enrichment and high-resolution LC-MS/MS / Jeffrey M. Sifford, Haiyan Tan, Hong Wang, and Junmin Peng -- N-glycomics and N-glycoproteomics of human cerebrospinal fluid / Sophie Cholet, Arnaud Goyallon, Christophe Junot, and François Fenaille -- In vivo strategies to isolate and characterize the neuronal ubiquitinated proteome / Juanma Ramirez, Nagore Elu, Aitor Martinez, Benoit Lectez, and Ugo Mayor -- Characterization of the phosphoproteome and sialoproteome in brain tissues by mass spectrometry / María Ibáñez-Vea, Stefan J. Kempf, and Martin R. Larsen -- Proteomic analysis of SUMOylation in the post-ischemic brain / J. Will Thompson, Meng Jiang, and Wei Yang -- S-nitrosylation in Alzheimer's disease using oxidized cysteine-selective cPILOT / Ryan R. Dyer, Liqing Gu, and Renã A.S. Robinson -- Proteomic analysis of extracellular vesicles in neurological diseases / Matías Sáenz-Cuesta, Enrique Santamaría, Joaquin Fernández-Irigoyen, and David Otaegui -- Quantitative in-depth profiling of the postsynaptic density proteome to understand the molecular mechanisms governing synaptic physiology and pathology / Rita Reig-Viader and Àlex Bayés -- Nuclear proteomics for exploring MK-801-treated oligodendrocytes to better understand schizophrenia / Aline G. Santana, Giuliana S. Zuccoli, Verônica M. Saia-Cereda, Juliana S. Cassoli, and Daniel Martins-de-Souza -- Localized proteomics of individual neurons isolated from formalin-fixed, paraffin-embedded tissue sections using laser capture microdissection / Eleanor Drummond, Shruti Nayak, Beatrix Ueberheide, and Thomas Wisniewski -- Creation of reusable bioinformatics workflows for reproducible analysis of LC-MS proteomics data / Julian Uskoreit, Maike Ahrens, Katalin Barkovits, Katrin Marcus, and Martin Eisenacher -- Integration of transcriptomic and proteomic data for disease insights / Ravi Sirdeshmukh, Savita Jayaram, Manoj Kumar Gupta, Pranali Sonpatki, Manika Singh, Raksha A. Ganesh, Chaitra B. Amaresha, and Nameeta Shah.
Summary: 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.
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Includes bibliographical references and index.

Brain proteomics : decoding neuroproteomes using mass spectrometry / Joaquín Fernández-Irigoyen and Enrique Santamaría -- Applications of amine-reactive tandem mass tags (TMT) in human neuroproteomics / Linnéa Lagerstedt, Leire Azurmendi, and Jean-Charles Sanchez -- Application of isobaric tags for relative and absolute quantitation (iTRAQ) to monitor olfactory proteomes during Alzheimer's disease / Andrea González Morales, Mercedes Lachén-Montes, María Ibáñez-Vea, Enrique Santamaría, and Joaquín Fernández-Irigoyen -- Protein microarrays in neurodegenerative diseases / Pablo San Segundo-Acosta, María Garranzo-Asensio, Ana Montero-Calle, Carmen Oeo-Santos, Mayte Villalba, Ana Guzman-Aranguez, and Rodrigo Barderas -- Comprehensive shotgun proteomic analyses of oligodendrocytes using ion mobility and data-independent acquisition / Juliana S. Cassoli and Daniel Martins-de-Souza -- Nontargeted brain lipidomic profiling performed by UPLC-ESI-qToF-MS/MS / Alba Naudí, Rosanna Cabré, Mariona Jové, and Reinald Pamplona -- 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, and Felix Elortza -- Neuroproteomics using short GeLC-SWATH : from the evaluation of proteome changes to the clarification of protein function / Sandra I. Anjo, Cátia Santa, Susana C. Saraiva, Karolina Freitas, Faraj Barah, Bruno Carreira, Inês Araújo, and Bruno Manadas -- Analysis of brain phosphoproteome using titanium dioxide enrichment and high-resolution LC-MS/MS / Jeffrey M. Sifford, Haiyan Tan, Hong Wang, and Junmin Peng -- N-glycomics and N-glycoproteomics of human cerebrospinal fluid / Sophie Cholet, Arnaud Goyallon, Christophe Junot, and François Fenaille -- In vivo strategies to isolate and characterize the neuronal ubiquitinated proteome / Juanma Ramirez, Nagore Elu, Aitor Martinez, Benoit Lectez, and Ugo Mayor -- Characterization of the phosphoproteome and sialoproteome in brain tissues by mass spectrometry / María Ibáñez-Vea, Stefan J. Kempf, and Martin R. Larsen -- Proteomic analysis of SUMOylation in the post-ischemic brain / J. Will Thompson, Meng Jiang, and Wei Yang -- S-nitrosylation in Alzheimer's disease using oxidized cysteine-selective cPILOT / Ryan R. Dyer, Liqing Gu, and Renã A.S. Robinson -- Proteomic analysis of extracellular vesicles in neurological diseases / Matías Sáenz-Cuesta, Enrique Santamaría, Joaquin Fernández-Irigoyen, and David Otaegui -- Quantitative in-depth profiling of the postsynaptic density proteome to understand the molecular mechanisms governing synaptic physiology and pathology / Rita Reig-Viader and Àlex Bayés -- Nuclear proteomics for exploring MK-801-treated oligodendrocytes to better understand schizophrenia / Aline G. Santana, Giuliana S. Zuccoli, Verônica M. Saia-Cereda, Juliana S. Cassoli, and Daniel Martins-de-Souza -- Localized proteomics of individual neurons isolated from formalin-fixed, paraffin-embedded tissue sections using laser capture microdissection / Eleanor Drummond, Shruti Nayak, Beatrix Ueberheide, and Thomas Wisniewski -- Creation of reusable bioinformatics workflows for reproducible analysis of LC-MS proteomics data / Julian Uskoreit, Maike Ahrens, Katalin Barkovits, Katrin Marcus, and Martin Eisenacher -- Integration of transcriptomic and proteomic data for disease insights / Ravi Sirdeshmukh, Savita Jayaram, Manoj Kumar Gupta, Pranali Sonpatki, Manika Singh, Raksha A. Ganesh, Chaitra B. Amaresha, and Nameeta Shah.

Online resource; title from pdf title page (SpringerProtocol, viewed June 28, 2017).

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.

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