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TOWARDS LARGE SCALE AUTOMATED INTERPRETATION OF CYTOGENETIC BIODOSIMETRY DATA

Asanka Wickramasinghe1Akila Subasinghe A.1Jagath Samarabandu1Joan Knoll1,2Ruth Wilkins3Farrah Flegal4Peter Rogan1,2

1. Western University2. Cytognomix Inc.3. Health Canada4. Atomic Energy of Canada Ltd.,Ontario,Canada

摘要:Cytogenetic biodosimetry is the definitive test for assessing exposure to ionizing radiation.It involves manual assessment of the frequency of dicentric chromosomes(DCs) on a microscope slide,which potentially contains hundreds of metaphase cells.We developed an algorithm that can automatically and accurately locate centromeres in DAPIstained metaphase chromosomes and that will detect DCs.In this algorithm,a set of 200-250 metaphase cell images are ranked and sorted.The 50 top-ranked images are used in the triage DC assay(DCA).To meet the requirement of DCA in a mass casualty event,we are accelerating our algorithm through parallelization.In this paper,we present our finding in accelerating our ranking and segmentation algorithms.Using data parallelization on a desktop system,the ranking module was up to 4-fold faster than the serial version and the Gradient Vector Flow module(GVF) used in our segmentation algorithm was up to 8-fold faster.Large scale data parallelization of the ranking module processed 18,694 samples in 11.40 hr.Task parallelization of Image ranking with parallelized labeling on a desktop computer reduced processing time by 20% of a serial process,and GVF module recoded with parallelized matrix inversion reduced time by 70%.Overall,we estimate that the automated DCA will require around 1 min per sample on a 64-core computing system.Our long-term goal is to implement these algorithms on a high performance computer cluster to assess radiation exposures for thousands of individuals in a few hours.
会议名称:

2012 IEEE 6th International Conference on Information and Automation for Sustainability(ICIAFS2012)

会议时间:

2012-09-27

会议地点:

中国北京

  • 专辑:

    信息科技

  • 专题:

    计算机软件及计算机应用

  • 分类号:

    TP391.41;Q343-3

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