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iPiG: integrating peptide spectrum matches into genome browser visualizations

Proteogenomic approaches have gained increasing popularity, however it is still difficult to integrate mass spectrometry identifications with genomic data due to differing data formats. To address this difficulty, we introduce iPiG as a tool for the integration of peptide identifications from mass s...

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Published in:PloS one 2012-12, Vol.7 (12), p.e50246-e50246
Main Authors: Kuhring, Mathias, Renard, Bernhard Y
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Language:English
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description Proteogenomic approaches have gained increasing popularity, however it is still difficult to integrate mass spectrometry identifications with genomic data due to differing data formats. To address this difficulty, we introduce iPiG as a tool for the integration of peptide identifications from mass spectrometry experiments into existing genome browser visualizations. Thereby, the concurrent analysis of proteomic and genomic data is simplified and proteomic results can directly be compared to genomic data. iPiG is freely available from https://sourceforge.net/projects/ipig/. It is implemented in Java and can be run as a stand-alone tool with a graphical user-interface or integrated into existing workflows. Supplementary data are available at PLOS ONE online.
doi_str_mv 10.1371/journal.pone.0050246
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subjects Algorithms
Analysis
Annotations
Bioinformatics
Biology
Computer Graphics
Computer Science
Databases, Protein
Genes
Genomes
Genomics
Identification
Java (Programming language)
Mass spectrometry
Mass spectroscopy
Open source software
Peptides
Peptides - chemistry
Peptides - genetics
Proteins
Proteomics
Scientific imaging
Spectroscopy
User-Computer Interface
Visualization (Computer)
Web browsers
Zebrafish
title iPiG: integrating peptide spectrum matches into genome browser visualizations
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