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High Speed Data Processing for Imaging MS-Based Molecular Histology Using Graphical Processing Units
Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Pharmacy, Department of Pharmaceutical Biosciences. (Medicinsk masspektrometri)
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2012 (English)In: Journal of the American Society for Mass Spectrometry, ISSN 1044-0305, E-ISSN 1879-1123, Vol. 23, no 4, 745-752 p.Article in journal (Refereed) Published
Abstract [en]

Imaging MS enables the distributions of hundreds of biomolecular ions to be determined directly from tissue samples. The application of multivariate methods, to identify pixels possessing correlated MS profiles, is referred to as molecular histology as tissues can be annotated on the basis of the MS profiles. The application of imaging MS-based molecular histology to larger tissue series, for clinical applications, requires significantly increased computational capacity in order to efficiently analyze the very large, highly dimensional datasets. Such datasets are highly suited to processing using graphical processor units, a very cost-effective solution for high speed processing. Here we demonstrate up to 13x speed improvements for imaging MS-based molecular histology using off-the-shelf components, and demonstrate equivalence with CPU based calculations. It is then discussed how imaging MS investigations may be designed to fully exploit the high speed of graphical processor units.

Place, publisher, year, edition, pages
2012. Vol. 23, no 4, 745-752 p.
Keyword [en]
Imaging mass spectrometry, Molecular histology, Graphical processor units, GPU, Bioinformatics
National Category
Medical and Health Sciences
Identifiers
URN: urn:nbn:se:uu:diva-173998DOI: 10.1007/s13361-011-0327-1ISI: 000302469200019OAI: oai:DiVA.org:uu-173998DiVA: diva2:526103
Available from: 2012-05-10 Created: 2012-05-09 Last updated: 2017-12-07Bibliographically approved

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Andrén, Per E.

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