Peptidomics: Methods and Strategies(1719 Methods in Molecular Biology)

This volume describes protocols for basic state-of-the-art approaches in the field of peptidomics. Most of these approaches are independent of the instruments used for analysis and can easily be adapted for equipment that is available in a typical proteomics facility. Chapters detail many of the basic techniques used to detect and identify peptides, methods for the relative quantitation of peptides between samples using isotopic labels or label-free approaches, and biological species as well as sample types. Written in the highly successful format of the Methods in Molecular Biology series, each chapter includes an introduction to the topic, a list of the necessary materials and reagents, reproducible step-by-step laboratory protocols, and tips on troubleshooting common problems and avoiding pitfalls. Authoritative and practical, Peptidomics: Methods and Strategies provides useful guidance for studies in the rapidly growing field of peptidomics. 

Table of Contents:
Origins, Technological Development and Applications of Peptidomics.- Brain Tissue Sample Stabilization and Extraction Strategies for Neuropeptidomics.- Isolation of Endogenous Peptides from Cultured Cell Conditioned Media for Mass Spectrometry.- Mass Spectrometric Identification of Endogenous Peptides.- Bioinformatics for Prohormone and Neuropeptide Discovery.- Substrate Capture Assay using Inactive Oligopeptidases to Identify Novel Peptides.- Non-targeted Identification of d-amino Acid-containing Peptides through Enzymatic Screening, Chiral Amino Acid Analysis and LC-MS.- Quantitative Peptidomics: General Considerations.- Quantitative Peptidomics with Isotopic and Isobaric Tags.- Quantitative Peptidomics using Reductive Methylation of Amines.- Metabolic Labeling to Quantify Drosophila neuropeptides and Peptide Hormones.- Data Preprocessing, Visualization and Statistical Analyses of Non-targeted Peptidomics Data from MALDI-MS.- Affinity Purification of Neuropeptide Precursors from Mice Lacking Carboxypeptidase E Activity.- Mass Spectrometry Based Immunopeptidomics for the Discovery of Cancer Neo-antigens.- Milk Peptidomics to Identify Functional Peptides and for Quality Control of Dairy Products.- Neuropeptidomic Analysis of Zebrafish Brain.- Identification, Quantitation, and Imaging of the Crustacean Peptidome.- Identification of Endogenous Neuropeptides in the Nematode C. elegans using Mass Spectrometry.- EndoProteoFASP as a Tool to Unveil the Peptidome-protease Profile: Application to Salivary Diagnostics.- Methodology for Urine Peptidome Analysis Based on Nano-HPLC coupled to Fourier Transform Ion Cyclotron Resonance Mass Spectrometry.- Identification of Components in Frog Skin Secretions with Therapeutic Potential as Anti-diabetic Agents.- High-Accuracy Mass Spectrometry Based Screening Method for the Discovery of Cysteine Containing Peptides in Animal Venoms and Toxins.- Analysis of the Snake Venom Peptidome.- Identification of Peptides in Spider Venom Using Mass Spectrometry.- Single Cell Peptidomics: Approach for Peptide Identification by N-Terminal Peptide Derivatization.- Peptidomic Identification of Cysteine-Rich Peptides from Plants.- Analysis of Endogenous Peptide Pools of Physcomitrella patens Moss.- The Bright Future of Peptidomics.