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      Call for Papers: Green Renal Replacement Therapy: Caring for the Environment

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      Image Processing Software for 3D Light Microscopy

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          Abstract

          Advances in microscopy now enable researchers to easily acquire multi-channel three-dimensional (3D) images and 3D time series (4D). However, processing, analyzing, and displaying this data can often be difficult and time- consuming. We discuss some of the software tools and techniques that are available to accomplish these tasks.

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          Concepts for nanoscale resolution in fluorescence microscopy.

          Marcus Dyba, Stefan Jakobs, Stefan Hell (2004)
          Spatio-temporal visualization of cellular structures by fluorescence microscopy has become indispensable in biology. However, the resolution of conventional fluorescence microscopy is limited by diffraction to about 180 nm in the focal plane and to about 500 nm along the optic axis. Recently, concepts have emerged that overcome the diffraction resolution barrier fundamentally. Formed on the basis of reversible saturable optical transitions, these concepts might eventually allow us to investigate hitherto inaccessible details within live cells.
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            Fluorescence microscopy with super-resolved optical sections.

            Alexander Egner, Stefan Hell (2005)
            The fluorescence microscope, especially its confocal variant, has become a standard tool in cell biology research for delivering 3D-images of intact cells. However, the resolution of any standard optical microscope is at least 3 times poorer along the axis of the lens that in its focal plane. Here, we review principles and applications of an emerging family of fluorescence microscopes, such as 4Pi microscopes, which improve axial resolution by a factor of seven by employing two opposing lenses. Noninvasive axial sections of 80-160 nm thickness deliver more faithful 3D-images of subcellular features, providing a new opportunity to significantly enhance our understanding of cellular structure and function.
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              VisBio: a computational tool for visualization of multidimensional biological image data.

              Curtis Rueden, Kevin Eliceiri, John White (2004)
              New laser scanning microscopy techniques enable biologists to acquire larger, more complex image datasets. Emerging imaging modalities such as multispectral, harmonic, and fluorescence lifetime can generate data with six or more dimensions; however, existing software is not well suited to the visualization or analysis of such data. To address these concerns, we have developed VisBio, an application and toolkit for visualization and analysis of multidimensional, biological image data of any dimensionality.
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                Author and article information

                Journal
                Journal ID (publisher-id): NEE
                Journal ID (nlm-ta): Nephron Exp Nephrol
                Journal ID (doi): 10.1159/issn.1660-2129
                Title: Cardiorenal Medicine
                Publisher: S. Karger AG
                ISBN: 978-3-8055-8074-8
                ISBN: 978-3-318-01315-3
                ISSN (Electronic): 1660-2129
                Publication date Subscription-year: 2006
                Publication date (Print): March 2006
                Publication date (Electronic): 13 March 2006
                Volume: 103
                Issue: 2
                Pages: e50-e54
                Affiliations
                aDepartment of Medicine, Division of Nephrology and Indiana Center for Biological Microscopy, Indiana University School of Medicine, Indianapolis, Ind., and bDepartment of Medicine, Division of Nephrology, Mount Sinai School of Medicine, New York, N.Y., USA
                Article
                Publisher ID: 90616 Other ID: Nephron Exp Nephrol 2006;103:e50–e54
                DOI: 10.1159/000090616
                PubMed ID: 16543764
                SO-VID: ef5dc77b-3036-4c32-93c0-c91673ccecfa
                Copyright © © 2006 S. Karger AG, Basel
                License:

                Copyright: All rights reserved. No part of this publication may be translated into other languages, reproduced or utilized in any form or by any means, electronic or mechanical, including photocopying, recording, microcopying, or by any information storage and retrieval system, without permission in writing from the publisher. Drug Dosage: The authors and the publisher have exerted every effort to ensure that drug selection and dosage set forth in this text are in accord with current recommendations and practice at the time of publication. However, in view of ongoing research, changes in government regulations, and the constant flow of information relating to drug therapy and drug reactions, the reader is urged to check the package insert for each drug for any changes in indications and dosage and for added warnings and precautions. This is particularly important when the recommended agent is a new and/or infrequently employed drug. Disclaimer: The statements, opinions and data contained in this publication are solely those of the individual authors and contributors and not of the publishers and the editor(s). The appearance of advertisements or/and product references in the publication is not a warranty, endorsement, or approval of the products or services advertised or of their effectiveness, quality or safety. The publisher and the editor(s) disclaim responsibility for any injury to persons or property resulting from any ideas, methods, instructions or products referred to in the content or advertisements.

                History
                Page count
                Figures: 4, Tables: 1, References: 14, Pages: 1
                Categories
                Subject: Microscopic Imaging

                ScienceOpen disciplines: Cardiovascular Medicine,Nephrology
                Keywords: Software,Image analysis,3D,Microscopy,Image processing
                Data availability:
                ScienceOpen disciplines: Cardiovascular Medicine, Nephrology
                Keywords: Software, Image analysis, 3D, Microscopy, Image processing

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