Abstract
With the advent of whole genome sequencing, large-scale proteomics has rapidly come to dominate the postgenomic age. As such, tandem mass spectrometry has emerged as the most promising and powerful technique in this area but analysis of raw spectra remains one of the principle bottlenecks to making effective use of the technology. Analytical approaches for identifying proteins from MS/MS data fall into two categories: comparing measured fragment spectra to theoretical spectra from sequence databases and de novo peptide sequencing. Available methods still have weaknesses, highlighting the need for new powerful algorithms that are able to exploit the enormous volume of data generated by proteomic experiments. Recent efforts have also been directed towards the identification of post-translational modifications, biomarker discovery and quantitative proteomics. Overall, the intended goal of this review is to give as thorough as possible an overview of state-of-the-art approaches and tools developed to analyze tandem mass spectra in different fields and discuss future directions aimed at overcoming the limits of present methods.
Keywords: Mass spectrometry, proteomics, database searching algorithms, spectra analysis, de novo sequencing, quantitative proteomics
Current Bioinformatics
Title: Mass Spectrometry Data Analysis in the Proteomics Era
Volume: 2 Issue: 1
Author(s): Francesca Forner, Leonard J. Foster and Stefano Toppo
Affiliation:
Keywords: Mass spectrometry, proteomics, database searching algorithms, spectra analysis, de novo sequencing, quantitative proteomics
Abstract: With the advent of whole genome sequencing, large-scale proteomics has rapidly come to dominate the postgenomic age. As such, tandem mass spectrometry has emerged as the most promising and powerful technique in this area but analysis of raw spectra remains one of the principle bottlenecks to making effective use of the technology. Analytical approaches for identifying proteins from MS/MS data fall into two categories: comparing measured fragment spectra to theoretical spectra from sequence databases and de novo peptide sequencing. Available methods still have weaknesses, highlighting the need for new powerful algorithms that are able to exploit the enormous volume of data generated by proteomic experiments. Recent efforts have also been directed towards the identification of post-translational modifications, biomarker discovery and quantitative proteomics. Overall, the intended goal of this review is to give as thorough as possible an overview of state-of-the-art approaches and tools developed to analyze tandem mass spectra in different fields and discuss future directions aimed at overcoming the limits of present methods.
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Cite this article as:
Forner Francesca, Foster J. Leonard and Toppo Stefano, Mass Spectrometry Data Analysis in the Proteomics Era, Current Bioinformatics 2007; 2 (1) . https://dx.doi.org/10.2174/157489307779314285
DOI https://dx.doi.org/10.2174/157489307779314285 |
Print ISSN 1574-8936 |
Publisher Name Bentham Science Publisher |
Online ISSN 2212-392X |
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