MASPECTRAS: a platform for management and analysis of proteomics LC-MS/MS data View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2007-12

AUTHORS

Jürgen Hartler, Gerhard G Thallinger, Gernot Stocker, Alexander Sturn, Thomas R Burkard, Erik Körner, Robert Rader, Andreas Schmidt, Karl Mechtler, Zlatko Trajanoski

ABSTRACT

BACKGROUND: The advancements of proteomics technologies have led to a rapid increase in the number, size and rate at which datasets are generated. Managing and extracting valuable information from such datasets requires the use of data management platforms and computational approaches. RESULTS: We have developed the MAss SPECTRometry Analysis System (MASPECTRAS), a platform for management and analysis of proteomics LC-MS/MS data. MASPECTRAS is based on the Proteome Experimental Data Repository (PEDRo) relational database schema and follows the guidelines of the Proteomics Standards Initiative (PSI). Analysis modules include: 1) import and parsing of the results from the search engines SEQUEST, Mascot, Spectrum Mill, X! Tandem, and OMSSA; 2) peptide validation, 3) clustering of proteins based on Markov Clustering and multiple alignments; and 4) quantification using the Automated Statistical Analysis of Protein Abundance Ratios algorithm (ASAPRatio). The system provides customizable data retrieval and visualization tools, as well as export to PRoteomics IDEntifications public repository (PRIDE). MASPECTRAS is freely available at http://genome.tugraz.at/maspectras CONCLUSION: Given the unique features and the flexibility due to the use of standard software technology, our platform represents significant advance and could be of great interest to the proteomics community. More... »

PAGES

197

Identifiers

URI

http://scigraph.springernature.com/pub.10.1186/1471-2105-8-197

DOI

http://dx.doi.org/10.1186/1471-2105-8-197

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1028987552

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/17567892


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Download the RDF metadata as:  json-ld nt turtle xml License info

HOW TO GET THIS DATA PROGRAMMATICALLY:

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N-Triples is a line-based linked data format ideal for batch operations.

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Turtle is a human-readable linked data format.

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RDF/XML is a standard XML format for linked data.

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