A common open representation of mass spectrometry data and its application to proteomics research View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2004-11-01

AUTHORS

Patrick G A Pedrioli, Jimmy K Eng, Robert Hubley, Mathijs Vogelzang, Eric W Deutsch, Brian Raught, Brian Pratt, Erik Nilsson, Ruth H Angeletti, Rolf Apweiler, Kei Cheung, Catherine E Costello, Henning Hermjakob, Sequin Huang, Randall K Julian, Eugene Kapp, Mark E McComb, Stephen G Oliver, Gilbert Omenn, Norman W Paton, Richard Simpson, Richard Smith, Chris F Taylor, Weimin Zhu, Ruedi Aebersold

ABSTRACT

A broad range of mass spectrometers are used in mass spectrometry (MS)-based proteomics research. Each type of instrument possesses a unique design, data system and performance specifications, resulting in strengths and weaknesses for different types of experiments. Unfortunately, the native binary data formats produced by each type of mass spectrometer also differ and are usually proprietary. The diverse, nontransparent nature of the data structure complicates the integration of new instruments into preexisting infrastructure, impedes the analysis, exchange, comparison and publication of results from different experiments and laboratories, and prevents the bioinformatics community from accessing data sets required for software development. Here, we introduce the 'mzXML' format, an open, generic XML (extensible markup language) representation of MS data. We have also developed an accompanying suite of supporting programs. We expect that this format will facilitate data management, interpretation and dissemination in proteomics research. More... »

PAGES

1459-1466

Journal

TITLE

Nature Biotechnology

ISSUE

11

VOLUME

22

Identifiers

URI

http://scigraph.springernature.com/pub.10.1038/nbt1031

DOI

http://dx.doi.org/10.1038/nbt1031

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1015988303

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/15529173


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

HOW TO GET THIS DATA PROGRAMMATICALLY:

JSON-LD is a popular format for linked data which is fully compatible with JSON.

curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1038/nbt1031'

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

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1038/nbt1031'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/nbt1031'

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

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/nbt1031'


 

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