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A comparison of quantitative reconstruction techniques for PIXE-tomography analysis applied to biological samples

dc.contributor.authorBEASLEY, D. G.
dc.contributor.authorALVES, L. C.
hal.structure.identifierCentre d'Etudes Nucléaires de Bordeaux Gradignan [CENBG]
dc.contributor.authorBARBERET, Philippe
hal.structure.identifierInterface Physique et Chimie pour le Vivant [IPCV]
dc.contributor.authorBOURRET, Stéphane
hal.structure.identifierCentre d'Etudes Nucléaires de Bordeaux Gradignan [CENBG]
dc.contributor.authorDEVÈS, Guillaume
hal.structure.identifierInterface Physique et Chimie pour le Vivant [IPCV]
dc.contributor.authorGORDILLO, Nuria
hal.structure.identifierCentre d'Etudes Nucléaires de Bordeaux Gradignan [CENBG]
dc.contributor.authorMICHELET, Claire
hal.structure.identifierCentre d'Etudes Nucléaires de Bordeaux Gradignan [CENBG]
hal.structure.identifierInstitut de Chimie de la Matière Condensée de Bordeaux [ICMCB]
dc.contributor.authorLE TREQUESSER, Quentin
hal.structure.identifierInstituto de Plasmas e Fusão Nuclear
dc.contributor.authorMARQUES, A. C.
hal.structure.identifierCentre d'Etudes Nucléaires de Bordeaux Gradignan [CENBG]
dc.contributor.authorSEZNEC, Hervé
hal.structure.identifierInstituto de Plasmas e Fusão Nuclear
dc.contributor.authorDA SILVA, R. C.
dc.date.issued2014
dc.identifier.issn0168-583X
dc.description.abstractEnThe tomographic reconstruction of biological specimens requires robust algorithms, able to deal with low density contrast and low element concentrations. At the IST/ITN microprobe facility new GPU-accelerated reconstruction software, JPIXET, has been developed, which can significantly increase the speed of quantitative reconstruction of Proton Induced X-ray Emission Tomography (PIXE-T) data. It has a user-friendly graphical user interface for pre-processing, data analysis and reconstruction of PIXE-T and Scanning Transmission Ion Microscopy Tomography (STIM-T). The reconstruction of PIXE-T data is performed using either an algorithm based on a GPU-accelerated version of the Maximum Likelihood Expectation Maximisation (MLEM) method or a GPU-accelerated version of the Discrete Image Space Reconstruction Algorithm (DISRA) (Sakellariou (2001) [2]). The original DISRA, its accelerated version, and the MLEM algorithm, were compared for the reconstruction of a biological sample of Caenorhabditis elegans - a small worm. This sample was analysed at the microbeam line of the AIFIRA facility of CENBG, Bordeaux. A qualitative PIXE-T reconstruction was obtained using the CENBG software package TomoRebuild (Habchi et al. (2013) [6]). The effects of pre-processing and experimental conditions on the elemental concentrations are discussed.
dc.language.isoen
dc.publisherElsevier
dc.subject.enCUDA
dc.subject.enSimulation
dc.subject.enPIXE
dc.subject.enTomography
dc.subject.enSTIM
dc.subject.enElegans
dc.subject.enCells
dc.title.enA comparison of quantitative reconstruction techniques for PIXE-tomography analysis applied to biological samples
dc.typeArticle de revue
dc.identifier.doi10.1016/j.nimb.2014.01.028
dc.subject.halChimie/Matériaux
bordeaux.journalNuclear Instruments and Methods in Physics Research Section B: Beam Interactions with Materials and Atoms
bordeaux.page248-252
bordeaux.volume331
bordeaux.peerReviewedoui
hal.identifierhal-01044829
hal.version1
hal.popularnon
hal.audienceInternationale
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-01044829v1
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Nuclear%20Instruments%20and%20Methods%20in%20Physics%20Research%20Section%20B:%20Beam%20Interactions%20with%20Materials%20and%20Atoms&rft.date=2014&rft.volume=331&rft.spage=248-252&rft.epage=248-252&rft.eissn=0168-583X&rft.issn=0168-583X&rft.au=BEASLEY,%20D.%20G.&ALVES,%20L.%20C.&BARBERET,%20Philippe&BOURRET,%20St%C3%A9phane&DEV%C3%88S,%20Guillaume&rft.genre=article


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