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      Opportunities and challenges for digital morphology

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          Abstract

          Advances in digital data acquisition, analysis, and storage have revolutionized the work in many biological disciplines such as genomics, molecular phylogenetics, and structural biology, but have not yet found satisfactory acceptance in morphology. Improvements in non-invasive imaging and three-dimensional visualization techniques, however, permit high-throughput analyses also of whole biological specimens, including museum material. These developments pave the way towards a digital era in morphology. Using sea urchins (Echinodermata: Echinoidea), we provide examples illustrating the power of these techniques. However, remote visualization, the creation of a specialized database, and the implementation of standardized, world-wide accepted data deposition practices prior to publication are essential to cope with the foreseeable exponential increase in digital morphological data.

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          This article was reviewed by Marc D. Sutton (nominated by Stephan Beck), Gonzalo Giribet (nominated by Lutz Walter), and Lennart Olsson (nominated by Purificación López-García).

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          Most cited references32

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          Hard-X-ray dark-field imaging using a grating interferometer.

          Imaging with visible light today uses numerous contrast mechanisms, including bright- and dark-field contrast, phase-contrast schemes and confocal and fluorescence-based methods. X-ray imaging, on the other hand, has only recently seen the development of an analogous variety of contrast modalities. Although X-ray phase-contrast imaging could successfully be implemented at a relatively early stage with several techniques, dark-field imaging, or more generally scattering-based imaging, with hard X-rays and good signal-to-noise ratio, in practice still remains a challenging task even at highly brilliant synchrotron sources. In this letter, we report a new approach on the basis of a grating interferometer that can efficiently yield dark-field scatter images of high quality, even with conventional X-ray tube sources. Because the image contrast is formed through the mechanism of small-angle scattering, it provides complementary and otherwise inaccessible structural information about the specimen at the micrometre and submicrometre length scale. Our approach is fully compatible with conventional transmission radiography and a recently developed hard-X-ray phase-contrast imaging scheme. Applications to X-ray medical imaging, industrial non-destructive testing and security screening are discussed.
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            Applications of X-ray synchrotron microtomography for non-destructive 3D studies of paleontological specimens

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              Visualization of image data from cells to organisms.

              Advances in imaging techniques and high-throughput technologies are providing scientists with unprecedented possibilities to visualize internal structures of cells, organs and organisms and to collect systematic image data characterizing genes and proteins on a large scale. To make the best use of these increasingly complex and large image data resources, the scientific community must be provided with methods to query, analyze and crosslink these resources to give an intuitive visual representation of the data. This review gives an overview of existing methods and tools for this purpose and highlights some of their limitations and challenges.
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                Author and article information

                Journal
                Biol Direct
                Biology Direct
                BioMed Central
                1745-6150
                2010
                6 July 2010
                : 5
                : 45
                Affiliations
                [1 ]Institut für Immungenetik, Charité-Universitätsmedizin Berlin, Campus Benjamin Franklin, Freie Universität Berlin, Thielallee 73, 14195 Berlin, Germany
                [2 ]GKSS-Forschungszentrum Geesthacht, Institut für Werkstoffforschung, Max-Planck-Strasse 1, 21502 Geesthacht, Germany
                [3 ]Zuse Institute Berlin, Takustrasse 7, 14195 Berlin, Germany
                Article
                1745-6150-5-45
                10.1186/1745-6150-5-45
                2908069
                20604956
                975c1c97-8861-4147-9d15-aec27177166e
                Copyright ©2010 Ziegler et al; licensee BioMed Central Ltd.

                This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                : 25 June 2010
                : 6 July 2010
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                Life sciences
                Life sciences

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