Overview

The feld of proteomics moves rapidly. New methods, techniques, applications, standards, models and software appear almost on a daily basis. Accompanying this are plenty of texts on the experimental side of the feld and a few appearing on the informatic and data analysis side. This latterly includes one in the Methods in Molecular Biology series tackling the specifc analysis of “Mass spectrometry data in proteomics” in MMB vol. 376. This current collection builds on this, but takes a broader view of proteome data analysis covering data analysis essentials, but also the databases and data models, as well as practical consid- ations for analysing database search results, annotating genomes, and speeding up searches. It also digs deeper into some topics, such as decoy database searching and aspects of signal processing in proteomic mass spectrometry. The aim of the volume is to provide the reader with a mix of reviews and methodology chapters, which build from the essentials of database searching in proteomics, on through specifc data processing challenges to databases, data standards and data models.

Full Product Details

Author:   Simon J. Hubbard ,  Andrew R. Jones
Publisher:   Humana Press Inc.
Imprint:   Humana Press Inc.
Edition:   2010 ed.
Volume:   604
Dimensions:   Width: 17.80cm , Height: 2.10cm , Length: 25.40cm
Weight:   0.787kg
ISBN:  

9781617796807

ISBN 10:   1617796808
Pages:   404
Publication Date:   03 May 2012
Audience:   Professional and scholarly ,  Professional & Vocational
Format:   Paperback
Publisher's Status:   Active
Availability:   Manufactured on demand  
We will order this item for you from a manufactured on demand supplier.

Table of Contents

An Introduction to Proteome Bioinformatics.- Bioinformatics Methods for Protein Identification Using Peptide Mass Fingerprinting.- Computational Approaches to Peptide Identification via Tandem MS.- Scoring and Validation of Tandem MS Peptide Identification Methods.- Target-Decoy Search Strategy for Mass Spectrometry-Based Proteomics.- Understanding and Exploiting Peptide Fragment Ion Intensities Using Experimental and Informatic Approaches.- Spectral Library Searching for Peptide Identification via Tandem MS.- De Novo Sequencing Methods in Proteomics.- Cross Species Proteomics.- Gene Model Detection Using Mass Spectrometry.- Signal Processing in Proteomics.- A High-Performance Reconfigurable Computing Solution for Peptide Mass Fingerprinting.- Mining Proteomic MS/MS Data for MRM Transitions.- OpenMS and TOPP: Open Source Software for LC-MS Data Analysis.- Trans-Proteomic Pipeline: A Pipeline for Proteomic Analysis.- Informatics and Statistics for Analyzing 2-D Gel Electrophoresis Images.- Automated Generic Analysis Tools for Protein Quantitation Using Stable Isotope Labeling.- An Overview of Label-Free Quantitation Methods in Proteomics by Mass Spectrometry.- The PeptideAtlas Project.- Using the PRIDE Proteomics Identifications Database for Knowledge Discovery and Data Analysis.- Molecular Interactions and Data Standardisation.- Mass Spectrometer Output File Format mzML.- Managing Experimental Data Using FuGE.- Proteomics Data Collection (ProDaC): Publishing and Collecting Proteomics Data Sets in Public Repositories Using Standard Formats.- Computational Resources for the Prediction and Analysis of Native Disorder in Proteins.

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