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

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• 作者：D.G. Beasley^a ; ^{dgbeasley@ctn.ist.utl.pt" class="auth_mail} ; L.C. Alves^a ; Ph. Barberet^c ; ^d ; S. Bourret^c ; ^d ; G. Devè ; s^c ; ^d ; N. Gordillo^c ; ^d ; C. Michelet^c ; ^d ; Q. Le Trequesser^c ; ^d ; ^e ; A.C. Marques^b ; H. Seznec^c ; ^d ; R.C. da Silva^b
• 关键词：CUDA ; Simulation ; PIXE ; Tomography ; STIM ; Elegans ; Cells
• 刊名：Nuclear Instruments and Methods in Physics Research Section B: Beam Interactions with Materials and Atoms
• 出版年：15 July 2014
• 年：2014
• 卷：331
• 期：Complete
• 页码：248-252
• 全文大小：539 K

文摘

The 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.