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The NOVA project - maximizing beam time efficiency through synergistic analyses of SRμCT data

机译：NOVA项目-通过对SRμCT数据进行协同分析来最大程度地提高光束时间效率

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摘要

Beamtime and resulting SRμCT data are a valuable resource for researchers of a broad scientific community in life sciences. Most research groups, however, are only interested in a specific organ and use only a fraction of their data. The rest of the data usually remains untapped. By using a new collaborative approach, the NOVA project (Network for Online Visualization and synergistic Analysis of tomographic data) aims to demonstrate, that more efficient use of the valuable beam time is possible by coordinated research on different organ systems. The biological partners in the project cover different scientific aspects and thus serve as model community for the collaborative approach. As proof of principle, different aspects of insect head morphology will be investigated (e.g., biomechanics of the mouthparts, and neurobiology with the topology of sensory areas). This effort is accomplished by development of advanced analysis tools for the ever-increasing quantity of tomographic datasets. In the preceding project ASTOR, we already successfully demonstrated considerable progress in semi-automatic segmentation and classification of internal structures. Further improvement of these methods is essential for an efficient use of beam time and will be refined in the current NOVA-project. Significant enhancements are also planned at PETRA Ⅲ beamline p05 to provide all possible contrast modalities in x-ray imaging optimized to biological samples, on the reconstruction algorithms, and the tools for subsequent analyses and management of the data. All improvements made on key technologies within this project will in the long-term be equally beneficial for all users of tomography instrumentations.
机译：射线时间和所得的SRμCT数据对于生命科学领域的广泛科学界的研究人员而言是宝贵的资源。但是，大多数研究小组仅对特定器官感兴趣，并且仅使用其数据的一小部分。其余数据通常保持未开发状态。通过使用一种新的协作方法，NOVA项目（在线可视化网络和层析数据的协同分析）旨在证明，通过对不同器官系统的协调研究，可以更有效地利用宝贵的射线时间。该项目中的生物伙伴涵盖了不同的科学方面，因此成为协作方法的模范社区。作为原理的证明，将研究昆虫头部形态的不同方面（例如，口器的生物力学以及具有感觉区域拓扑的神经生物学）。通过开发用于不断增长的层析数据集的高级分析工具，可以完成这项工作。在之前的ASTOR项目中，我们已经成功地展示了半自动分割和内部结构分类方面的可观进展。这些方法的进一步改进对于有效利用束时间至关重要，并将在当前的NOVA项目中进行完善。还计划在PETRAⅢ光束线p05上进行重大改进，以提供针对生物样品优化的X射线成像中的所有可能的对比模态，重建算法以及用于后续数据分析和管理的工具。从长远来看，该项目中对关键技术的所有改进将对所有层析成像仪器用户均同样有利。

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  • 来源
    《Developments in X-ray tomography XI》|2017年|103910P.1-103910P.17|共17页
  • 会议地点 San Diego(US)
  • 作者

    Sebastian Schmelzle; Michael Heethoff; Vincent Heuveline; Philipp Loesel; Juergen Becker; Felix Beckmann; Frank Schluenzen; Joerg U. Hammel; Andreas Kopmann; Wolfgang Mexner; Matthias Vogelgesang; Nicholas Tan Jerome; Oliver Betz; Rolf Beutel; Benjamin Wipfler; Alexande;

  • 作者单位

    Ecological Networks, Department of Biology, Technische Universitaet Darmstadt, Schnittspahnstr. 3, D-64287 Darmstadt;

    Ecological Networks, Department of Biology, Technische Universitaet Darmstadt, Schnittspahnstr. 3, D-64287 Darmstadt;

    Engineering Mathematics and Computing Lab (EMCL), Interdisciplinary Center for Scientific Computing (IWR), University of Heidelberg, Im Neuenheimer Feld 205, D-69120 Heidelberg;

    Engineering Mathematics and Computing Lab (EMCL), Interdisciplinary Center for Scientific Computing (IWR), University of Heidelberg, Im Neuenheimer Feld 205, D-69120 Heidelberg;

    Institute for Information Processing Technologies (ITIV), Karlsruhe Institute of Technology (KIT), Kaiserstr. 12, D-76131 Karlsruhe, Germany;

    Institute of Materials Research, Outstation at DESY, Helmholtz-Zentrum Geesthacht, Notkestr. 85, Building 66, D-22607 Hamburg;

    Deutsches Elektronen Synchrotron DESY, Notkestrasse 85, D-22607 Hamburg;

    Institute of Materials Research, Outstation at DESY, Helmholtz-Zentrum Geesthacht, Notkestr. 85, Building 66, D-22607 Hamburg,Institute of Systematic Zoology and Evolutionary Biology with Phyletic Museum, Friedrich-Schiller-University Jena, Erbertstr. 1, D-07743 Jena;

    Institute for Data Processing and Electronics (IPE), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, D-76344 Eggenstein-Leopoldshafen, Germany;

    Institute for Beam Physics and Technology (IBPT), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, D-76344 Eggenstein-Leopoldshafen, Germany;

    Institute for Data Processing and Electronics (IPE), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, D-76344 Eggenstein-Leopoldshafen, Germany;

    Institute for Data Processing and Electronics (IPE), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, D-76344 Eggenstein-Leopoldshafen, Germany;

    Evolutionary Biology of Invertebrates, Institute of Evolution and Ecology, Universitaet Tuebingen, Auf der Morgenstelle 28E, D-72076 Tuebingen;

    Institute of Systematic Zoology and Evolutionary Biology with Phyletic Museum, Friedrich-Schiller-University Jena, Erbertstr. 1, D-07743 Jena;

    Institute of Systematic Zoology and Evolutionary Biology with Phyletic Museum, Friedrich-Schiller-University Jena, Erbertstr. 1, D-07743 Jena;

    Institute of Zoology, University of Cologne, Zuelpicher Strasse 47b, D-50674 Koeln;

    Cytology and Evolutionary Biology, Zoological Institute and Museum, University of Greifswald, Soldmannstr. 23, Haus 6.1, D-17489 Greifswald;

    Cytology and Evolutionary Biology, Zoological Institute and Museum, University of Greifswald, Soldmannstr. 23, Haus 6.1, D-17489 Greifswald;

    Laboratory for Applications of Synchrotron Radiation (LAS), Karlsruhe Institute of Technology (KIT), Kaiserstr. 12, D-76131 Karlsruhe, Germany,Institute for Photon Science and Synchrotron Radiation (IPS), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, D-76344 Eggenstein-Leopoldshafen, Germany;

    Laboratory for Applications of Synchrotron Radiation (LAS), Karlsruhe Institute of Technology (KIT), Kaiserstr. 12, D-76131 Karlsruhe, Germany;

  • 会议组织
  • 原文格式 PDF
  • 正文语种 eng
  • 中图分类
  • 关键词

    Synchrotron X-ray micro computed tomography; cooperative data analysis; insect head; semi-automatic segmentation; web portal for scientific data; 3D web visualization; visual data browsing; Virtual Reality for scientific data; interactive interfaces; data catalog;

    机译：同步加速器X射线计算机断层扫描；合作数据分析；虫头半自动分割；科学数据门户网站； 3D Web可视化；可视数据浏览；用于科学数据的虚拟现实；互动界面；数据目录;

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