% This file was created with JabRef 2.6. % Encoding: UTF8 @ARTICLE{Abramoff2004, author = {Abramoff, M.D. and Magelhaes, P.J. and Ram, S.J}, title = {Image {P}rocessing with {I}mage{J}}, journal = {Biophotonics International}, year = {2004}, volume = {11}, pages = {36-42}, number = {7}, owner = {habi}, timestamp = {2007.05.16} } @BOOK{Adams1984, title = {{So Long, and Thanks for All the Fish (The Hitch Hiker's Guide to the Galaxy IV)}}, publisher = {Pan Books}, year = {1984}, author = {Douglas Adams}, bdsk-url-1 = {http://en.wikipedia.org/w/index.php?title=So_Long,_and_Thanks_for_All_the_Fish&direction=next&oldid=351175356}, isbn = {0-330-28700-1}, owner = {habi}, timestamp = {2010.02.24}, url = {http://en.wikipedia.org/w/index.php?title=So_Long,_and_Thanks_for_All_the_Fish&direction=next&oldid=351175356} } @ARTICLE{Amy1977, author = {Amy, R.W.M. and Bowes, D. and Burri, P.H. and Haines, J. and Thurlbeck, W.M.}, title = {Postnatal growth of the mouse lung}, journal = {J.Anat.}, year = {1977}, volume = {124}, pages = {131--151}, keywords = {FO:, GROWTH, lung, lung-, lung-development-morphology, LUWA / P, mouse, postnatal}, owner = {habi}, refid = {961}, timestamp = {2006.11.30} } @ARTICLE{Armato1999, author = {Armato, Samuel G., III and Giger, Maryellen L. and Moran, Catherine J. and Blackburn, James T. and Doi, Kunio and MacMahon, Heber}, title = {Computerized Detection of Pulmonary Nodules on CT Scans}, journal = {Radiographics}, year = {1999}, volume = {19}, pages = {1303--1311}, number = {5}, month = sep, abstract = {Helical computed tomography (CT) is the most sensitive imaging modality for detection of pulmonary nodules. However, a single CT examination produces a large quantity of image data. Therefore, a computerized scheme has been developed to automatically detect pulmonary nodules on CT images. This scheme includes both two- and three-dimensional analyses. Within each section, gray-level thresholding methods are used to segment the thorax from the background and then the lungs from the thorax. A rolling ball algorithm is applied to the lung segmentation contours to avoid the loss of juxtapleural nodules. Multiple gray-level thresholds are applied to the volumetric lung regions to identify nodule candidates. These candidates represent both nodules and normal pulmonary structures. For each candidate, two- and three-dimensional geometric and gray-level features are computed. These features are merged with linear discriminant analysis to reduce the number of candidates that correspond to normal structures. This method was applied to a 17-case database. Receiver operating characteristic (ROC) analysis was used to evaluate the automated classifier. Results yielded an area under the ROC curve of 0.93 in the task of classifying candidates detected during thresholding as nodules or nonnodules.}, bdsk-url-1 = {http://radiographics.rsnajnls.org/cgi/content/abstract/19/5/1303}, file = {Armato1999.pdf:Armato1999.pdf:PDF}, owner = {habi}, timestamp = {2007.05.25}, url = {http://radiographics.rsnajnls.org/cgi/content/abstract/19/5/1303} } @ARTICLE{Attmann2007, author = {Attmann, T. and Quaden, R. and Theisen-Kunde, D. and Brinkmann, R. and Lutter, G.}, title = {{Er: YAG laser-assisted resection of human calcified heart valves}}, journal = {Medical Laser Application}, year = {2007}, volume = {22}, pages = {7--14}, number = {1}, file = {Attmann2007.pdf:Attmann2007.pdf:PDF}, owner = {habi}, publisher = {Elsevier}, timestamp = {2008.07.30} } @BOOK{Attwood2007, title = {Soft X-Rays and Extreme Ultraviolet Radiation: Principles and Applications}, publisher = {Cambridge University Press}, year = {2007}, author = {David Attwood}, isbn = {9780521029971}, owner = {habi}, price = {$65.00}, timestamp = {2010.03.25}, totalpages = {504} } @ARTICLE{Aykac2003, author = {Aykac, D. and Hoffman, E.A. and McLennan, G. and Reinhardt, J.M.}, title = {{Segmentation and analysis of the human airway tree from three-dimensional X-ray CT images}}, journal = {IEEE transactions on medical imaging}, year = {2003}, volume = {22}, pages = {940--950}, number = {8}, bdsk-url-1 = {http://dx.doi.org/10.1109/TMI.2003.815905}, owner = {habi}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1109/TMI.2003.815905} } @ARTICLE{Ballard1982, author = {Ballard, D.H. and Brown, C.M.}, title = {{Computer Vision Prentice-Hall}}, journal = {Englewood Cliffs, NJ, USA}, year = {1982}, owner = {habi}, timestamp = {2010.04.30} } @MASTERSTHESIS{Barre2009, author = {Sebastien Barr\'e}, title = {Multimodal Imaging of Lung Tissue}, school = {Biomedical Engineering, University of Bern}, year = {2009}, month = {September}, file = {Barre2009.pdf:Barre2009.pdf:PDF}, owner = {habi}, timestamp = {2009.09.25} } @ARTICLE{Bastacky1992, author = {Bastacky, J. and Goerke, J.}, title = {{Pores of Kohn are filled in normal lungs: low-temperature scanning electron microscopy}}, journal = {J Appl Physiol}, year = {1992}, volume = {73}, pages = {88-95}, number = {1}, bdsk-url-1 = {http://jap.physiology.org/cgi/content/abstract/73/1/88}, eprint = {http://jap.physiology.org/cgi/reprint/73/1/88.pdf}, file = {Bastacky1992.pdf:Bastacky1992.pdf:PDF}, owner = {habi}, timestamp = {2010.04.06}, url = {http://jap.physiology.org/cgi/content/abstract/73/1/88} } @MISC{Bathe1995, author = {Bathe, KJ}, title = {{Finite element procedures. 1995}}, year = {1995}, owner = {habi}, publisher = {Prentice-Hall, Englewood Cliffs, NJ}, timestamp = {2010.04.30} } @ARTICLE{Bautz2005, author = {W. Bautz and W. Kalender}, title = {[Godfrey N. Hounsfield and his influence on radiology]}, journal = {Radiologe}, year = {2005}, volume = {45}, pages = {350--355}, number = {4}, month = {Apr}, abstract = {On August 12, 2004 Sir Godfrey N. Hounsfield died at the age of 84 years. Computed tomography, which he developed, has been the most important invention in radiology since the discovery of X-rays; it revolutionized the medical diagnostic undisputedly. The essay gives an insight into the personality and the achievments of G. N. Hounsfield as well as the evolution of computed tomography of the classical sequential scanning via single to the current multislice spiral technique. The perspectives of computed tomography are shown.}, bdsk-url-1 = {http://dx.doi.org/10.1007/s00117-005-1200-7}, institution = {Institut f\"{u}r Diagnostische Radiologie, Universit\"{a}t Erlangen-N\"{u}rnberg, Erlangen.}, keywords = {England; History, 20th Century; History, 21st Century; Radiology, history; Tomography, X-Ray Computed, history}, language = {ger}, medline-pst = {ppublish}, owner = {habi}, pmid = {15806341}, timestamp = {2010.04.28}, url = {http://dx.doi.org/10.1007/s00117-005-1200-7} } @ARTICLE{Bayat2008, author = {Sam Bayat and Liisa Porra and Heikki Suhonen and Tibor Janosi and Satu Strengell and Walid Habre and Ferenc Petak and Zoltan Hantos and Pekka Suortti and Anssi Sovij\"{a}rvi}, title = {Imaging of lung function using synchrotron radiation computed tomography: What's new?}, journal = {European Journal of Radiology}, year = {2008}, volume = {68}, pages = {S78 - S83}, number = {3, Supplement 1}, note = {Proceedings of the 5th Medical Application of Synchrotron Radiation 2007}, abstract = {There is a growing interest in imaging techniques as non-invasive means of quantitatively measuring regional lung structure and function. Abnormalities in lung ventilation due to alterations in airway function such as those observed in asthma and COPD are highly heterogeneous, and experimental methods to study this heterogeneity are crucial for better understanding of disease mechanisms and drug targeting strategies. In severe obstructive diseases requiring mechanical ventilation, the optimal ventilatory strategy to achieve recruitment of poorly ventilated lung zones remains a matter of considerable debate. We have used synchrotron radiation computed tomography (SRCT) for the in vivo study of regional lung ventilation and airway function. This imaging technique allows direct quantification of stable Xenon (Xe) gas used as an inhaled contrast agent using K-edge subtraction imaging. Dynamics of Xe wash-in can be used to calculate quantitative maps of regional specific lung ventilation. More recently, the development of Spiral-CT has allowed the acquisition of 3D images of the pulmonary bronchial tree and airspaces. This technique gives access to quantitative measurements of regional lung volume, ventilation, and mechanical properties. Examples of application in an experimental model of allergic asthma and in imaging lung recruitment as a function of mechanical ventilation parameters will be presented. The future orientations of this tecnique will be discussed.}, bdsk-url-1 = {http://dx.doi.org/10.1016/j.ejrad.2008.04.043}, file = {Bayat2008.pdf:Bayat2008.pdf:PDF}, issn = {0720-048X}, keywords = {Computed tomography}, owner = {habi}, timestamp = {2009.03.02}, url = {http://dx.doi.org/10.1016/j.ejrad.2008.04.043} } @ARTICLE{Bayat2006, author = {Bayat, S. and Porra, L. and Suhonen, H. and Nemoz, C. and Suortti, P. and Sovij\"{a}rvi, A. R.}, title = {{{D}ifferences in the time course of proximal and distal airway response to inhaled histamine studied by synchrotron radiation {C}{T}}}, journal = {J. Appl. Physiol.}, year = {2006}, volume = {100}, pages = {1964--1973}, month = {Jun}, abstract = {We studied the kinetics of proximal and distal bronchial response to histamine aerosol in healthy anesthetized and mechanically ventilated rabbits up to 60 min after histamine administration using a novel xenon-enhanced synchrotron radiation computed tomography imaging technique. Individual proximal airway constriction was assessed by measuring the luminal cross-sectional area. Distal airway obstruction was estimated by measuring the ventilated alveolar area after inhaled xenon administration. Respiratory system conductance was assessed continuously. Proximal airway cross-sectional area decreased by 57% of the baseline value by 20 min and recovered gradually but incompletely within 60 min. The ventilated alveolar area decreased immediately after histamine inhalation by 55% of baseline value and recovered rapidly thereafter. The results indicate that the airway reaction to inhaled histamine and the subsequent recovery are significantly slower in proximal than in distal bronchi in healthy rabbit. The findings suggest that physiological reaction mechanisms to inhaled histamine in the airway walls of large and small bronchi are not similar.}, bdsk-url-1 = {http://dx.doi.org/10.1152/japplphysiol.00594.2005}, file = {Bayat2006.pdf:Bayat2006.pdf:PDF}, owner = {habi}, timestamp = {2009.06.02}, url = {http://dx.doi.org/10.1152/japplphysiol.00594.2005} } @ARTICLE{Bayat2009, author = {Bayat, S. and Porra, L. and Suhonen, H. and Suortti, P. and Sovij\"{a}rvi, A. R.}, title = {{{P}aradoxical conducting airway responses and heterogeneous regional ventilation after histamine inhalation in rabbit studied by synchrotron radiation {C}{T}}}, journal = {J. Appl. Physiol.}, year = {2009}, volume = {106}, pages = {1949--1958}, month = {Jun}, abstract = {We studied both central conducting airway response and changes in the distribution of regional ventilation induced by inhaled histamine in healthy anesthetized and mechanically ventilated rabbit using a novel xenon-enhanced synchrotron radiation computed tomography (CT) imaging technique, K-edge subtraction imaging (KES). Images of specific ventilation were obtained using serial KES during xenon washin, in three axial lung slices, at baseline and twice after inhalation of histamine aerosol (50 or 125 mg/ml) in two groups of animals (n = 6 each). Histamine inhalation caused large clustered areas of poor ventilation, characterized by a drop in average specific ventilation (sV(m)), but an increase in sV(m) in the remaining lung zones indicating ventilation redistribution. Ventilation heterogeneity, estimated as coefficient of variation (CV) of sV(m) significantly increased following histamine inhalation. The area of ventilation defects and CV were significantly larger with the higher histamine dose. In conducting airways, histamine inhalation caused a heterogeneous airway response combining narrowing and dilatation in individual airways of different generations, with the probability for constriction increasing peripherally. This finding provides further in vivo evidence that airway reactivity in response to inhaled histamine is complex and that airway response may vary substantially with location within the bronchial tree.}, bdsk-url-1 = {http://dx.doi.org/10.1152/japplphysiol.90550.2008}, file = {Bayat2009.pdf:Bayat2009.pdf:PDF}, owner = {habi}, timestamp = {2009.06.02}, url = {http://dx.doi.org/10.1152/japplphysiol.90550.2008} } @ARTICLE{Beckmann2006, author = {E. C. Beckmann}, title = {CT scanning the early days.}, journal = {Br J Radiol}, year = {2006}, volume = {79}, pages = {5--8}, number = {937}, month = {Jan}, abstract = {CT scanning has become an established diagnostic tool within the radiology department. This article covers some of the history of the development and early days of CT scanning. It is based upon the lecture given on the Memorial Day for Sir Godfrey Hounsfield during the British Institute of Radiology President's Conference 2005.}, bdsk-url-1 = {http://dx.doi.org/10.1259/bjr/29444122}, keywords = {Animals; Equipment Design; History, 20th Century; Humans; Image Interpretation, Computer-Assisted; Swine; Tomography Scanners, X-Ray Computed, history; Tomography, X-Ray Computed, history/instrumentation}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pii = {79/937/5}, pmid = {16421398}, timestamp = {2010.04.28}, url = {http://dx.doi.org/10.1259/bjr/29444122} } @ARTICLE{VanBeek2008, author = {van Beek, E.J.R. and Hoffman, E.A.}, title = {{Functional imaging: CT and MRI}}, journal = {Clinics in chest medicine}, year = {2008}, volume = {29}, pages = {195--216}, number = {1}, bdsk-url-1 = {http://dx.doi.org/10.1016/j.ccm.2007.12.003}, owner = {habi}, publisher = {Elsevier}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1016/j.ccm.2007.12.003} } @ARTICLE{Benz2009, author = {Christoph Benz}, title = {3D X-ray and the Beatles.}, journal = {Int J Comput Dent}, year = {2009}, volume = {12}, pages = {111--113}, number = {2}, keywords = {Cone-Beam Computed Tomography, history; Great Britain; History, 20th Century; Humans; Imaging, Three-Dimensional, history; Tomography, Spiral Computed, history; Tomography, X-Ray Computed, history}, language = {engger}, medline-pst = {ppublish}, owner = {habi}, pmid = {19413267}, timestamp = {2010.04.28} } @ARTICLE{Berend1991, author = {Berend, N. and Rynell, AC and Ward, HE}, title = {{Structure of a human pulmonary acinus.}}, journal = {British Medical Journal}, year = {1991}, volume = {46}, pages = {117}, number = {2}, bdsk-url-1 = {http://dx.doi.org/10.1136/thx.46.2.117}, owner = {habi}, publisher = {Br Thoracic Soc}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1136/thx.46.2.117} } @ARTICLE{XCOM, author = {Berger, MJ and Hubbell, JH and Seltzer, SM and Chang, J. and Coursey, JS and Sukumar, R. and Zucker, DS}, title = {{XCOM: photon cross sections database}}, journal = {NIST Standard Reference Database}, year = {1998}, volume = {8}, pages = {87--3597}, abstract = {The Department of Energy and the National Institute of Standards and Technology provide XCOM, a Photon (x-rays and gamma rays) Cross Sections Database. This Web database can be used to "calculate photon cross sections for scattering, photoelectric absorption and pair production, as well as total attenuation coefficients, for any element, compound or mixture, at energies from 1keV to 100GeV." At the site, researchers can use the database to generate total or partial cross sections and attenuation coefficients for incoherent scattering, coherent scattering, photoelectric absorption, and pair production in the atomic nucleus and atomic electron fields. In addition, partial and mass interaction coefficients can be calculated for compounds. The site provides detailed information on using the database and on its limitations. This site is useful to obtain data on scattering and absorption of photons for scientific, engineering, and medical applications. A database search form is also included at the homepage, where the user can obtain photon cross section data for a single element, compound or mixture.}, bdsk-url-1 = {http://physics.nist.gov/PhysRefData/Xcom/Text/XCOM.html}, institution = {National Institute of Informatics Metadata Database [http://ju.nii.ac.jp/cgi-bin/oai/oai2.0] (Japan)}, location = {http://www.scientificcommons.org/20408160}, owner = {habi}, timestamp = {2010.03.29}, url = {http://physics.nist.gov/PhysRefData/Xcom/Text/XCOM.html} } @ARTICLE{Bitter2007, author = {Ingmar Bitter and Robert Van Uitert and Ivo Wolf and Luis Ib{\'a}{\~n}ez and Jan-Martin Kuhnigk}, title = {{Comparison of Four Freely Available Frameworks for Image Processing and Visualization That Use ITK}}, journal = {IEEE Trans Vis Comput Graph}, year = {2007}, volume = {13}, pages = {483--493}, number = {3}, abstract = {Most image processing and visualization applications allow users to configure computation parameters and manipulate the resulting visualizations. SCIRun, VolView, MeVisLab, and the Medical Interaction Toolkit (MITK) are four image processing and visualization frameworks that were built for these purposes. All frameworks are freely available and all allow the use of the ITK C++ library. In this paper, the benefits and limitations of each visualization framework are presented to aid both application developers and users in the decision of which framework may be best to use for their application. The analysis is based on more than 50 evaluation criteria, functionalities, and example applications. We report implementation times for various steps in the creation of a reference application in each of the compared frameworks. The data-flow programming frameworks, SCIRun and MeVisLab, were determined to be best for developing application prototypes, while VolView was advantageous for nonautomatic end-user applications based on existing ITK functionalities, and MITK was preferable for automated end-user applications that might include new ITK classes specifically designed for the application.}, bdsk-url-1 = {http://dx.doi.org/10.1109/TVCG.2007.1001}, institution = {Claron Technology Inc., MaRS Centre, South Tower, Toronto, ON, Canada. ingmar@clarontech.com}, keywords = {Algorithms; Humans; Image Processing, Computer-Assisted, methods/statistics /&/ numerical data; Software}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {17356215}, timestamp = {2010.04.22}, url = {http://dx.doi.org/10.1109/TVCG.2007.1001} } @INBOOK{Blum1967, chapter = {{Transformation for Extracting New Descriptors of Shapes}}, pages = {362--380}, title = {{Models for the Perception of Speech and Visual Form}}, publisher = {MIT Press, Cambridge, MA}, year = {1967}, editor = {W. Wathen-Dunn}, author = {H. A. Blum}, file = {Blum1967.pdf:Blum1967.pdf:PDF}, owner = {habi}, timestamp = {2010.05.12} } @ARTICLE{Bonneau1984, author = {E. Bonneau}, title = {[From Wilhelm Konrad Roentgen to Godfrey Hounsfield]}, journal = {Actual Odontostomatol (Paris)}, year = {1984}, volume = {38}, pages = {577--587}, number = {148}, month = {Dec}, keywords = {History, 19th Century; History, 20th Century; Radiography, Dental, history; Radiology, history; Tomography, X-Ray Computed, history}, language = {fre}, medline-pst = {ppublish}, owner = {habi}, pmid = {6399809}, timestamp = {2010.04.28} } @CONFERENCE{Bonse2008, author = {Ulrich Bonse}, title = {X-ray imaging: past and present}, year = {2008}, editor = {Stuart R. Stock}, volume = {7078}, pages = {707802}, publisher = {SPIE}, bdsk-url-1 = {http://dx.doi.org/10.1117/12.794694}, eid = {707802}, journal = {Developments in X-Ray Tomography VI}, location = {San Diego, CA, USA}, numpages = {18}, owner = {habi}, timestamp = {2010.04.28}, url = {http://dx.doi.org/10.1117/12.794694} } @ARTICLE{Bonse1996, author = {Bonse, U. and Busch, F.}, title = {{X-ray computed microtomography ($\mu$CT) using synchrotron radiation (SR)}}, journal = {Progress in biophysics and molecular biology}, year = {1996}, volume = {65}, pages = {133--169}, number = {1-2}, owner = {habi}, publisher = {Elsevier}, timestamp = {2010.04.30} } @INPROCEEDINGS{Boskamp05, author = {Tobias Boskamp and Horst Hahn and Milo Hindennach and Steffen Oeltze and Bernhard Preim and Stephan Zidowitz and Heinz-otto Peitgen}, title = {Geometrical and structural analysis of vessel systems in 3d medical image datasets}, booktitle = {Medical Imaging Systems Technology}, year = {2005}, pages = {1--60}, publisher = {World Scientific}, file = {Boskamp2005.PDF:Boskamp2005.PDF:PDF}, owner = {habi}, timestamp = {2011.05.26}, url = {http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.143.1983} } @ARTICLE{Boskamp2004, author = {Boskamp, Tobias and Rinck, Daniel and Link, Florian and Kummerlen, Bernd and Stamm, Georg and Mildenberger, Peter}, title = {{New Vessel Analysis Tool for Morphometric Quantification and Visualization of Vessels in CT and MR Imaging Data Sets}}, journal = {Radiographics}, year = {2004}, volume = {24}, pages = {287-297}, number = {1}, abstract = {Image processing algorithms and a prototypical research software tool have been developed for visualization and quantitative analysis of vessels in data sets from computed tomography and magnetic resonance imaging. The software is based on a sequence of processing steps, which are as follows: (a) vessel segmentation based on a region growing algorithm, (b) interactive "premasking" to optionally exclude interfering structures close to the vessels of interest, (c) distance transform-based skeletonization, (d) multiplanar reformation orthogonal to the vessel path, (e) identification of the lumen boundary on the orthogonal cross-section images, and (f) morphometric measurements. The development of the algorithmic components and the application user interface has been carried out in close cooperation with clinical users to achieve a high degree of usability and flexible support of work flow. The software has been successfully applied to the intracranial arteries, carotid arteries, and abdominal and thoracic aorta, as well as the renal, coronary, and peripheral arteries. (C) RSNA, 2004}, bdsk-url-1 = {http://dx.doi.org/10.1148/rg.241035073}, eprint = {http://radiographics.rsnajnls.org/cgi/reprint/24/1/287.pdf}, file = {Boskamp2004.pdf:Boskamp2004.pdf:PDF}, owner = {habi}, timestamp = {2009.02.13}, url = {http://dx.doi.org/10.1148/rg.241035073} } @ARTICLE{Boyden1971, author = {Boyden, E.A.}, title = {{The structure of the pulmonary acinus in a child of six years and eight months}}, journal = {American Journal of Anatomy}, year = {1971}, volume = {132}, pages = {275--299}, number = {3}, owner = {habi}, timestamp = {2010.04.30} } @BOOK{bringhurst:2002, title = {The Elements of Typographic Style}, publisher = {Hartley \& Marks, Publishers}, year = {2002}, author = {Robert Bringhurst}, series = {Version 2.5}, address = {Point Roberts, WA, USA}, bdsk-url-1 = {http://en.wikipedia.org/w/index.php?title=The_Elements_of_Typographic_Style&oldid=349204139}, owner = {habi}, timestamp = {2010.04.30}, url = {http://en.wikipedia.org/w/index.php?title=The_Elements_of_Typographic_Style&oldid=349204139} } @ARTICLE{Brown1991, author = {Brown, RH and Herold, CJ and Hirshman, CA and Zerhouni, EA and Mitzner, W.}, title = {{In vivo measurements of airway reactivity using high-resolution computed tomography.}}, journal = {The American review of respiratory disease}, year = {1991}, volume = {144}, pages = {208}, number = {1}, owner = {habi}, timestamp = {2010.04.30} } @INBOOK{Burri1999, chapter = {Lung development and pulmonary angiogenesis}, pages = {122-151.}, title = {Lung Disease}, publisher = {Oxford University Press, New York.}, year = {1999}, editor = {C. Gaultier and J. Bourbon and M. Post}, author = {P.H. Burri}, owner = {habi}, timestamp = {2010.03.18} } @ARTICLE{Burri1974, author = {Burri, Peter H. and Dbaly, Jaroslav and Weibel, Ewald R.}, title = {{The postnatal growth of the rat lung. I. Morphometry}}, journal = {The Anatomical Record}, year = {1974}, volume = {178}, pages = {711--730}, number = {4}, abstract = {Abstract The postnatal growth of the lung was quantitatively investigated in rats aged 1, 4, 7, 10, 13, 21, 44 and 131 days by light and electron microscopic morphometry.Lung volume (VL) increased first directly with body weight (W). After day 10 VL followed the function W0.70. Based on the quantitative findings the postnatal lung growth could be divided into three phases. * 1Lung expansion (up to day 4): Lung volume increase resulted almost exclusively from an 87% enlargement of the existing air spaces. * 2Tissue proliferation (day 4 to 13): All tissue compartments showed a pronounced mass increase, followed by a high gain in capillary volume. Alveolar and capillary surface areas (Sa, Sc) developed rapidly due to subdivision of the primitive air sacs. * 3Equilibrated growth (third week to adult age): An initial period of redistribution of tissue mass with septal lengthening and further rapid increase in Sa and Sc was followed by proportionate alveolar growth. In the adult further lengthening of the interalveolar septa or continued alveolar formation could not be excluded.During the period of fundamental internal remodelling of the lung, its function, as determined by the morphometric pulmonary diffusing capacity, was not impaired.}, file = {Burri1974.PDF:Burri1974.PDF:PDF}, issn = {1097-0185}, owner = {habi}, publisher = {Wiley Subscription Services, Inc., A Wiley Company}, timestamp = {2011.08.04}, url = {http://dx.doi.org/10.1002/ar.1091780405} } @ARTICLE{Burrowes2005, author = {Burrowes, K. S. and Hunter, P. J. and Tawhai, M. H.}, title = {{{A}natomically based finite element models of the human pulmonary arterial and venous trees including supernumerary vessels}}, journal = {J. Appl. Physiol.}, year = {2005}, volume = {99}, pages = {731--738}, month = {Aug}, abstract = {Studies of the origin of pulmonary blood flow heterogeneity have highlighted the significant role of vessel branching structure on flow distribution. To enable more detailed investigation of structure-function relationships in the pulmonary circulation, an anatomically based finite element model of the arterial and venous networks has been developed to more accurately reflect the geometry found in vivo. Geometric models of the arterial and venous tree structures are created using a combination of multidetector row X-ray computed tomography imaging to define around 2,500 vessels from each tree, a volume-filling branching algorithm to generate the remaining accompanying conducting vessels, and an empirically based algorithm to generate the supernumerary vessel geometry. The explicit generation of supernumerary vessels is a unique feature of the computational model. Analysis of branching properties and geometric parameters demonstrates close correlation between the model geometry and anatomical measures of human pulmonary blood vessels. A total of 12 Strahler orders for the arterial system and 10 Strahler orders for the venous system are generated, down to the equivalent level of the terminal bronchioles in the bronchial tree. A simple Poiseuille flow solution, assuming rigid vessels, is obtained within the arterial geometry of the left lung, demonstrating a large amount of heterogeneity in the flow distribution, especially with inclusion of supernumerary vessels. This model has been constructed to accurately represent available morphometric data derived from the complex asymmetric branching structure of the human pulmonary vasculature in a form that will be suitable for application in functional simulations.}, file = {Burrowes2005.pdf:Burrowes2005.pdf:PDF}, owner = {habi}, timestamp = {2009.06.02} } @ARTICLE{Carminati2007, author = {Carminati, A. and Kaestner, A. and Fl{\"{u}}hler, H. and Lehmann, P. and Or, D. and Lehmann, E. and Stampanoni, M.}, title = {{Hydraulic contacts controlling water flow across porous grains}}, journal = {Physical Review E}, year = {2007}, volume = {76}, pages = {26311}, number = {2}, owner = {habi}, publisher = {APS}, timestamp = {2008.08.25} } @MISC{TheMeaningOfLife, author = {Graham Chapman and John Cleese and Terry Gilliam and Eric Idle and Terry Jones and Michael Palin}, title = {{The Meaning of Life}}, howpublished = {Celandine Films}, month = {March}, year = {1983}, bdsk-url-1 = {http://is.gd/bpLvW}, comment = {http://www.imdb.com/title/tt0164052/maindetails}, owner = {habi}, timestamp = {2010.03.02}, url = {http://is.gd/bpLvW} } @ARTICLE{Chaturvedi2005, author = {Chaturvedi, A. and Lee, Z.}, title = {{Three-dimensional segmentation and skeletonization to build an airway tree data structure for small animals}}, journal = {Physics in Medicine and Biology}, year = {2005}, volume = {50}, pages = {1405--1419}, number = {7}, bdsk-url-1 = {http://dx.doi.org/10.1088/0031-9155/50/7/005}, file = {Chaturvedi2005.pdf:Chaturvedi2005.pdf:PDF}, owner = {habi}, publisher = {Citeseer}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1088/0031-9155/50/7/005} } @ARTICLE{Chaussard2011, author = {John Chaussard and Michel Couprie and Hugues Talbot}, title = {Robust skeletonization using the discrete [lambda]-medial axis}, journal = {Pattern Recognition Letters}, year = {2011}, volume = {32}, pages = {1384 - 1394}, number = {9}, __markedentry = {[habi]}, abstract = {Medial axes and skeletons are notoriously sensitive to contour irregularities. This lack of stability is a serious problem for applications in e.g. shape analysis and recognition. In 2005, Chazal and Lieutier introduced the [lambda]-medial axis as a new concept for computing the medial axis of a shape subject to single parameter filtering. The [lambda]-medial axis is stable under small shape perturbations, as proved by these authors. In this article, a discrete [lambda]-medial axis (DLMA) is introduced and compared with the recently introduced integer medial axis (GIMA). We show that DLMA provides measurably better results than GIMA, with regard to stability and sensibility to rotations. We give efficient algorithms to compute the DLMA, and we also introduce a variant of the DLMA which may be computed in linear-time.}, file = {Chaussard2011.PDF:Chaussard2011.PDF:PDF}, issn = {0167-8655}, keywords = {Skeleton}, owner = {habi}, timestamp = {2011.05.26}, url = {http://dx.doi.org/10.1016/j.patrec.2010.09.002} } @ARTICLE{Chen2002, author = {Chen, Shawn and Shih, Tian-Yuan}, title = {On the evaluation of edge preserving smoothing Filter}, journal = {Proceedings of Geoinformatics}, year = {2002}, volume = {June 1-3, 2002}, pages = {--}, bdsk-url-1 = {http://nhmrc.cv.nctu.edu.tw/People/tyshih/Publications/C43.pdf}, comment = {Paper Nr. C43}, file = {Chen2002.pdf:Chen2002.pdf:PDF}, owner = {habi}, refid = {CHEN2002}, timestamp = {2006.11.30}, url = {http://nhmrc.cv.nctu.edu.tw/People/tyshih/Publications/C43.pdf} } @ARTICLE{Chen2005, author = {Chen, Yen-Yu and Tai, Shen-Chuan}, title = {Enhancing ultrasound images by morphology filter and eliminating ringing effect}, journal = {European Journal of Radiology}, year = {2005}, volume = {53}, pages = {293--305}, number = {2}, month = feb, abstract = {Various medical image compression techniques have been proposed for accelerating image propagation in many applications. JPEG2000 is a new generation technique that can encode near lossless ultrasound images at medium bit-rate with diagnostically acceptable quality. Because the coder of JPEG2000 is based on wavelet transform, the reconstructed image will contain some ringing artifacts. Some de-ringing algorithm must be applied to enhance image quality. This study presents quad-tree decomposition and a set of morphological filters for reducing the ringing artifacts of ultrasound images. Specifically, the presented morphological filters use eight predefined morphological operations, including four structuring elements (SE) that include both dilation and erosion. The proposed voting strategy can be used to select the morphological filter for each block to optimize decoded image quality. Image quality can be enhanced by applying the appropriate morphological filter to each block. Experimental results demonstrate that the proposed technique enhances reconstructed ultrasound image quality compared to JPEG2000 at the same bit-rate in terms of both PSNR and the perceptual results.}, bdsk-url-1 = {http://dx.doi.org/10.1016/j.ejrad.2004.02.010}, file = {Chen2005.pdf:Chen2005.pdf:PDF}, keywords = {JPEG2000, Ringing artifacts, Morphological filter}, owner = {habi}, timestamp = {2007.05.21}, url = {http://dx.doi.org/10.1016/j.ejrad.2004.02.010} } @ARTICLE{Chen2003, author = {Chen, Zikuan and Molloi, Sabee}, title = {Automatic 3D vascular tree construction in CT angiography}, journal = {Computerized Medical Imaging and Graphics}, year = {2003}, volume = {27}, pages = {469--479}, number = {6}, abstract = {This study presents an automatic method for 3D reconstruction of vascular trees using computed-tomography angiographic (CTA) images. The program starts with the CTA slices, performs a sequential procedure of 3D image formation, preprocessing, segmentation, thinning, skeleton pruning and tree construction. It ends with vascular trees along with quantitative data about the trees such as values of diameter, length and bifurcation angles. All the involved algorithms are presented with the emphasis given to the skeleton pruning and tree construction algorithms. The skeletons obtained using a 3D thinning algorithm may contain cycles, spurs, isolated sticks, and non-unit-width parts, which hinder tree construction. As a solution to this problem, a skeleton pruning and tree construction algorithm is proposed. At each stage of the automatic procedure, 3D rendering is provided for visual inspection of the computed results. In the final output, the constructed vascular trees are visualized by rendering the 3D trees and the 3D binary image together in a transparent display mode. The program is carried out in a fully automatic fashion, with a few default settings. Occasionally, user intervention is needed at the 3D segmentation stage to impose an appropriate threshold when the automatic 3D segmentation is obviously sub-optimal for vessel delineation. Experimental demonstrations on both coronary artery phantom and a cast of coronary artery tree of a swine animal model are provided.}, bdsk-url-1 = {http://dx.doi.org/10.1016/S0895-6111(03)00039-9}, file = {Chen2003.pdf:Chen2003.pdf:PDF}, keywords = {Vascular tree, Computed-tomography angiography, 3D thinning, Skeleton pruning, Quantitative analysis}, owner = {habi}, timestamp = {2007.11.06}, url = {http://dx.doi.org/10.1016/S0895-6111(03)00039-9} } @CONFERENCE{Cheng2007, author = {Cheng, I. and Nilufar, S. and Flores-Mir, C. and Basu, A.}, title = {{Airway segmentation and measurement in CT images}}, booktitle = {Engineering in Medicine and Biology Society, 2007. EMBS 2007. 29th Annual International Conference of the IEEE}, year = {2007}, pages = {795--799}, owner = {habi}, timestamp = {2010.04.30} } @ARTICLE{Chiro1980, author = {G. Di Chiro and R. A. Brooks}, title = {The 1979 Nobel Prize in Physiology or Medicine.}, journal = {J Comput Assist Tomogr}, year = {1980}, volume = {4}, pages = {241--245}, number = {2}, month = {Apr}, keywords = {England; History, 20th Century; Mathematics; Medicine; Models, Biological; Nobel Prize; Tomography, X-Ray Computed, history; United States}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {6988476}, timestamp = {2010.04.28} } @ARTICLE{Chiro1979, author = {G. Di Chiro and R. A. Brooks}, title = {The 1979 Nobel prize in physiology or medicine.}, journal = {Science}, year = {1979}, volume = {206}, pages = {1060--1062}, number = {4422}, month = {Nov}, keywords = {History, 20th Century; Medicine; Nobel Prize; Tomography, X-Ray Computed, history}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {386516}, timestamp = {2010.04.28} } @ARTICLE{Chooi2004, author = {Chooi, WK and Morcos, SK}, title = {{High resolution volume imaging of airways and lung parenchyma with multislice CT}}, journal = {British Journal of Radiology}, year = {2004}, volume = {77}, pages = {S98}, number = {Special Issue 1}, bdsk-url-1 = {http://dx.doi.org/10.1259/bjr/27596725}, owner = {habi}, publisher = {Br Inst Radiology}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1259/bjr/27596725} } @ARTICLE{DeClerck2004, author = {Nora M De Clerck and Kris Meurrens and Horst Weiler and Dirk Van Dyck and Greet Van Houtte and Piter Terpstra and Andrei A Postnov}, title = {High-resolution {X}-ray microtomography for the detection of lung tumors in living mice.}, journal = {Neoplasia}, year = {2004}, volume = {6}, pages = {374-9}, number = {4}, file = {DeClerck2004.pdf:DeClerck2004.pdf:PDF}, owner = {habi}, timestamp = {2006.12.06} } @MISC{TheBigLebowski, author = {Joel Coen and Ethan Coen}, title = {{The Big Lebowski}}, howpublished = {Polygram Filmed Entertainment}, month = {March}, year = {1998}, bdsk-url-1 = {http://www.imdb.com/title/tt0118715/}, comment = {http://www.imdb.com/title/tt0118715/maindetails}, owner = {habi}, timestamp = {2010.03.02}, url = {http://www.imdb.com/title/tt0118715/} } @ARTICLE{Compton1923, author = {Compton, Arthur H.}, title = {A Quantum Theory of the Scattering of X-rays by Light Elements}, journal = {Phys. Rev.}, year = {1923}, volume = {21}, pages = {483--502}, number = {5}, month = {May}, bdsk-url-1 = {http://ds.doi.org/10.1103/PhysRev.21.483}, file = {Compton1923.pdf:Compton1923.pdf:PDF}, numpages = {19}, owner = {habi}, publisher = {American Physical Society}, timestamp = {2010.04.01}, url = {http://ds.doi.org/10.1103/PhysRev.21.483} } @ARTICLE{Cookson1993, author = {Cookson, MJ and Davies, CJ and Entwistle, A. and Whimster, WF}, title = {{The microanatomy of the alveolar duct of the human lung imaged by confocal microscpy and visualised with computer-based 3D reconstruction}}, journal = {Computerized medical imaging and graphics}, year = {1993}, volume = {17}, pages = {201--210}, number = {3}, bdsk-url-1 = {http://dx.doi.org/10.1016/0895-6111(93)90044-N}, owner = {habi}, publisher = {Elsevier Science}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1016/0895-6111(93)90044-N} } @OTHER{Cormack1979, author = {Cormack, AM}, bdsk-url-1 = {http://nobelprize.org/nobel_prizes/medicine/laureates/1979/cormack-lecture.pdf}, owner = {habi}, timestamp = {2010.03.26}, title = {{Nobel lecture}}, url = {http://nobelprize.org/nobel_prizes/medicine/laureates/1979/cormack-lecture.pdf}, year = {1979} } @ARTICLE{Cormack1978, author = {Cormack, AM}, title = {{Sampling the Radon transform with beams of finite width}}, journal = {Physics in Medicine and Biology}, year = {1978}, volume = {23}, pages = {1141--1148}, number = {6}, file = {Cormack1978.pdf:Cormack1978.pdf:PDF}, owner = {habi}, timestamp = {2008.11.03} } @ARTICLE{Cormack1963, author = {Cormack, AM}, title = {{Representation of a Function by Its Line Integrals, with Some Radiological Applications}}, journal = {Journal of Applied Physics}, year = {1963}, volume = {34}, pages = {2722}, bdsk-url-1 = {http://dx.doi.org/10.1063/1.1729798}, comment = {http://is.gd/b0Bnr}, owner = {habi}, timestamp = {2010.03.26}, url = {http://dx.doi.org/10.1063/1.1729798} } @INPROCEEDINGS{Cornea2005, author = {Cornea, N.D. and Silver, D. and Min, P.}, title = {Curve-skeleton applications}, booktitle = {Visualization, 2005. VIS 05. IEEE}, year = {2005}, pages = {95--102}, month = {23-28 Oct.}, bdsk-url-1 = {http://dx.doi.org/10.1109/VISUAL.2005.1532783}, file = {Cornea2005.pdf:Cornea2005.pdf:PDF}, owner = {habi}, timestamp = {2007.08.23}, url = {http://dx.doi.org/10.1109/VISUAL.2005.1532783} } @ARTICLE{Dame2006, author = {Dame Carroll, JR and Chandra, A. and Jones, AS and Berend, N. and Magnussen, JS and King, GG}, title = {{Airway dimensions measured from micro-computed tomography and high-resolution computed tomography}}, journal = {European Respiratory Journal}, year = {2006}, volume = {28}, pages = {712}, number = {4}, bdsk-url-1 = {http://dx.doi.org/10.1183/09031936.06.00012405}, file = {Dame2006.pdf:Dame2006.pdf:PDF}, owner = {habi}, publisher = {Eur Respiratory Soc}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1183/09031936.06.00012405} } @ARTICLE{Danielsson1980, author = {Danielsson, P.E.}, title = {{Euclidean distance mapping}}, journal = {Computer Graphics and image processing}, year = {1980}, volume = {14}, pages = {6--8}, number = {227-248}, file = {Danielsson1980.pdf:Danielsson1980.pdf:PDF}, owner = {habi}, timestamp = {2010.01.12} } @ARTICLE{Danovaro2010, author = {Danovaro, Roberto and Dell'Anno, Antonio and Pusceddu, Antonio and Gambi, Cristina and Heiner, Iben and Mobjerg Kristensen, Reinhardt}, title = {The first metazoa living in permanently anoxic conditions}, journal = {BMC Biology}, year = {2010}, volume = {8}, pages = {30}, number = {1}, abstract = {BACKGROUND:Several unicellular organisms (prokaryotes and protozoa) can live under permanently anoxic conditions. Although a few metazoans can survive temporarily in the absence of oxygen, it is believed that multi-cellular organisms cannot spend their entire life cycle without free oxygen. Deep seas include some of the most extreme ecosystems on Earth, such as the deep hypersaline anoxic basins of the Mediterranean Sea. These are permanently anoxic systems inhabited by a huge and partly unexplored microbial biodiversity.RESULTS:During the last ten years three oceanographic expeditions were conducted to search for the presence of living fauna in the sediments of the deep anoxic hypersaline L'Atalante basin (Mediterranean Sea). We report here that the sediments of the L'Atalante basin are inhabited by three species of the animal phylum Loricifera (Spinoloricus nov. sp., Rugiloricus nov. sp. and Pliciloricus nov. sp.) new to science. Using radioactive tracers, biochemical analyses, quantitative X-ray microanalysis and infrared spectroscopy, scanning and transmission electron microscopy observations on ultra-sections, we provide evidence that these organisms are metabolically active and show specific adaptations to the extreme conditions of the deep basin, such as the lack of mitochondria, and a large number of hydrogenosome-like organelles, associated with endosymbiotic prokaryotes.CONCLUSIONS:This is the first evidence of a metazoan life cycle that is spent entirely in permanently anoxic sediments. Our findings allow us also to conclude that these metazoans live under anoxic conditions through an obligate anaerobic metabolism that is similar to that demonstrated so far only for unicellular eukaryotes. The discovery of these life forms opens new perspectives for the study of metazoan life in habitats lacking molecular oxygen.}, bdsk-url-1 = {http://dx.doi.org/10.1186/1741-7007-8-30}, file = {Danovaro2010.pdf:Danovaro2010.pdf:PDF}, issn = {1741-7007}, owner = {habi}, pubmedid = {20370908}, timestamp = {2010.04.22}, url = {http://dx.doi.org/10.1186/1741-7007-8-30} } @ARTICLE{Davenport2007, author = {Davenport, A.J. and Padovani, C. and Connolly, B.J. and Stevens, N.P.C. and Beale, T.A.W. and Groso, A. and Stampanoni, M.}, title = {{Synchrotron X-Ray Microtomography Study of the Role of Y in Corrosion of Magnesium Alloy WE43}}, journal = {Electrochemical and Solid-State Letters}, year = {2007}, volume = {10}, pages = {C5}, owner = {habi}, publisher = {ECS}, timestamp = {2008.08.25} } @ARTICLE{Donnelley2010, author = {Donnelley, Martin and Siu, Karen K. W. and Morgan, Kaye S. and Skinner, William and Suzuki, Yoshio and Takeuchi, Akihisa and Uesugi, Kentaro and Yagi, Naoto and Parsons, David W.}, title = {{A new technique to examine individual pollutant particle and fibre deposition and transit behaviour in live mouse trachea}}, journal = {Journal of Synchrotron Radiation}, year = {2010}, volume = {17}, number = {6}, month = {Nov}, file = {Donnelley2010.PDF:Donnelley2010.PDF:PDF}, owner = {habi}, timestamp = {2010.09.06}, url = {http://dx.doi.org/10.1107/S0909049510028451} } @ARTICLE{Donoghue2006, author = {Donoghue, P.C.J. and Bengtson, S. and Dong, X.P. and Gostling, N.J. and Huldtgren, T. and Cunningham, J.A. and Yin, C. and Yue, Z. and Peng, F. and Stampanoni, M.}, title = {{Synchrotron X-ray tomographic microscopy of fossil embryos}}, journal = {Nature}, year = {2006}, volume = {442}, pages = {680--683}, number = {7103}, owner = {habi}, timestamp = {2008.08.25} } @ARTICLE{Dowd1999, author = {{Dowd}, B.~A. and {Campbell}, G.~H. and {Marr}, R.~B. and {Nagarkar}, V.~V. and {Tipnis}, S.~V. and {Axe}, L. and {Siddons}, D.~P.}, title = {{Developments in synchrotron x-ray computed microtomography at the National Synchrotron Light Source}}, journal = {SPIE Developments in X-Ray Tomography II, Denver, CO (US), 07/18/1999--07/23/1999}, year = {1999}, volume = {3772}, pages = {224-236}, month = sep, bdsk-url-1 = {http://dx.doi.org/10.1117/12.363725}, editor = {{Bonse}, U.}, file = {Dowd1999.pdf:Dowd1999.pdf:PDF}, owner = {habi}, series = {Presented at the Society of Photo-Optical Instrumentation Engineers (SPIE) Conference}, timestamp = {2008.06.04}, url = {http://dx.doi.org/10.1117/12.363725} } @ARTICLE{Downing2007, author = {Downing, Kenneth H. and Sui, Haixin and Auer and Manfred}, title = {Electron Tomography: A 3D View of the Subcellular World}, journal = {Analytical Chemistry}, year = {2007}, volume = {79}, pages = {7949--7957}, number = {21}, month = nov, bdsk-url-1 = {http://dx.doi.org/10.1021/ac071982u}, issn = {0003-2700}, owner = {habi}, publisher = {American Chemical Society}, timestamp = {2010.04.28}, url = {http://dx.doi.org/10.1021/ac071982u} } @ARTICLE{Driehuys2007, author = {Driehuys, B. and Walker, J. and Pollaro, J. and Cofer, G.P. and Mistry, N. and Schwartz, D. and Johnson, G.A.}, title = {{\textsuperscript{3}He MRI in mouse models of asthma}}, journal = {Magnetic resonance in medicine: official journal of the Society of Magnetic Resonance in Medicine/Society of Magnetic Resonance in Medicine}, year = {2007}, volume = {58}, pages = {893}, number = {5}, bdsk-url-1 = {http://dx.doi.org/10.1002/mrm.21306}, owner = {habi}, publisher = {NIH Public Access}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1002/mrm.21306} } @ARTICLE{Dullin2007, author = {Dullin, Christian AND Missbach-Guentner, Jeannine AND Vogel, Wolfgang F AND Grabbe, Eckhardt AND Alves, Frauke}, title = {Semi-Automatic Classification of Skeletal Morphology in Genetically Altered Mice Using Flat-Panel Volume Computed Tomography}, journal = {PLoS Genet}, year = {2007}, volume = {3}, pages = {e118}, number = {7}, month = {Jul}, bdsk-url-1 = {http://dx.doi.org/10.1371/journal.pgen.0030118}, file = {Dullin2007.pdf:Dullin2007.pdf:PDF}, owner = {habi}, publisher = {Public Library of Science}, timestamp = {2009.01.06}, url = {http://dx.doi.org/10.1371/journal.pgen.0030118} } @ARTICLE{Edholm1979, author = {E. Edholm}, title = {[Computer tomography--modern visualization of the internal]}, journal = {Lakartidningen}, year = {1979}, volume = {76}, pages = {3743--3746}, number = {43}, month = {Oct}, keywords = {History, 20th Century; Humans; Nobel Prize; Tomography, X-Ray Computed, history/instrumentation}, language = {swe}, medline-pst = {ppublish}, owner = {habi}, pmid = {529918}, timestamp = {2010.04.28} } @BOOK{Davies1990, title = {{Machine vision: theory, algorithms, practicalities}}, publisher = {Academics Press}, year = {1990}, author = {ER, Davies}, owner = {habi}, timestamp = {2010.04.30} } @ARTICLE{VanErtbruggen2005, author = {van Ertbruggen, C. and Hirsch, C. and Paiva, M.}, title = {{Anatomically based three-dimensional model of airways to simulate flow and particle transport using computational fluid dynamics}}, journal = {Journal of Applied Physiology}, year = {2005}, volume = {98}, pages = {970}, number = {3}, bdsk-url-1 = {http://dx.doi.org/10.1152/japplphysiol.00795.2004}, owner = {habi}, publisher = {Am Physiological Soc}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1152/japplphysiol.00795.2004} } @ARTICLE{Filipovic2010, author = {Filipovic, Nenad and Haberth\"{u}r, David and Henry, Frank S. and Milasinovic, Danko and Nikolic, Dalibor and Schittny, Johannes C. and Tsuda, Akira}, title = {{Recirculation Identified In A 3D Alveolar Duct Reconstructed Using Synchrotron Radiation Based X-ray Tomographic Microscopy}}, journal = {Am. J. Respir. Crit. Care Med.}, year = {2010}, volume = {181}, pages = {A2192-}, number = {1-MeetingAbstracts}, note = {Poster: \url{http://is.gd/fzBpU}}, bdsk-url-1 = {http://ajrccm.atsjournals.org/cgi/reprint/181/1_MeetingAbstracts/A2192.pdf}, file = {Filipovic2010.pdf:Filipovic2010.pdf:PDF}, owner = {habi}, timestamp = {2010.05.04}, url = {http://ajrccm.atsjournals.org/cgi/reprint/181/1_MeetingAbstracts/A2192.pdf} } @ARTICLE{Fischgold1976, author = {H. Fischgold}, title = {[The Hounsfield x-ray scanner. Current status]}, journal = {Nouv Presse Med}, year = {1976}, volume = {5}, pages = {2959--2964}, number = {43}, month = {Dec}, keywords = {Brain, radiography; History of Medicine; Humans; Mediastinum, radiography; Radiography, Thoracic; Tomography, X-Ray Computed, history/instrumentation/methods}, language = {fre}, medline-pst = {ppublish}, owner = {habi}, pmid = {794828}, timestamp = {2010.04.28} } @INPROCEEDINGS{Fouard2004, author = {Fouard, C. and Cassot, E. and Malandain, G. and Mazel, C. and Prohaska, S. and Asselot, D. and Westerhoff, M. and Marc-Vergnes, J.P.}, title = {Skeletonization by blocks for large 3D datasets: application to brain microcirculation}, booktitle = {Biomedical Imaging: Nano to Macro, 2004. IEEE International Symposium on}, year = {2004}, pages = {89--92 Vol. 1}, abstract = {Skeletons are compact representations that allow mathematical analysis of objects. A skeleton must be homotopic, thin and medial in relation to the object it represents. Numerous approaches already exist which focus on computational efficiency. However, when dealing with data too large to be loaded into the main memory of a personal computer, such approaches can no longer be used. We present in this article a skeletonization algorithm that processes the data locally (in sub-images) while preserving global properties (medial localization). Our privileged application is the study of the cerebral micro-vascularisation, and we show some results obtained on a mosaic of 3-D images acquired by confocal microscopy.}, bdsk-url-1 = {http://citeseer.ist.psu.edu/fouard04skeletonization.html}, citeseerurl = {http://citeseer.ist.psu.edu/fouard04skeletonization.html}, file = {Fouard2004.pdf:Fouard2004.pdf:PDF}, keywords = {biomedical optical imaging, brain, haemorheology, image thinning, medical image processing, optical microscopy, 3-D images, brain microcirculation, cerebral microvascularisation, confocal microscopy, image skeletonization, large 3D datasets, mathematical analysis, medial localization, object it represents}, owner = {habi}, timestamp = {2007.07.10} } @ARTICLE{Fouard2006, author = {C�line Fouard and Gr�goire Malandain and Steffen Prohaska and Malte Westerhoff}, title = {Blockwise processing applied to brain microvascular network study.}, journal = {IEEE Trans Med Imaging}, year = {2006}, volume = {25}, pages = {1319--1328}, number = {10}, month = {Oct}, abstract = {The study of cerebral microvascular networks requires high-resolution images. However, to obtain statistically relevant results, a large area of the brain (several square millimeters) must be analyzed. This leads us to consider huge images, too large to be loaded and processed at once in the memory of a standard computer. To consider a large area, a compact representation of the vessels is required. The medial axis is the preferred tool for this application. To extract it, a dedicated skeletonization algorithm is proposed. Numerous approaches already exist which focus on computational efficiency. However, they all implicitly assume that the image can be completely processed in the computer memory, which is not realistic with the large images considered here. We present in this paper a skeletonization algorithm that processes data locally (in subimages) while preserving global properties (i.e., homotopy). We then show some results obtained on a mosaic of three-dimensional images acquired by confocal microscopy.}, file = {Fouard2006.pdf:Fouard2006.pdf:PDF}, keywords = {Algorithms; Artificial Intelligence; Brain; Cerebrovascular Circulation; Computing Methodologies; Humans; Image Enhancement; Image Interpretation, Computer-Assisted; Imaging, Three-Dimensional; Information Storage and Retrieval; Microcirculation; Microscopy, Confocal; Pattern Recognition, Automated; Reproducibility of Results; Sensitivity and Specificity}, owner = {habi}, pmid = {17024835}, timestamp = {2007.07.10} } @PATENT{Frank1942, number = {2281931}, year = {1942}, author = {Gabriel Frank}, title = {X-ray apparatus}, month = {May}, url = {http://www.freepatentsonline.com/2281931.html}, bdsk-url-1 = {http://www.freepatentsonline.com/2281931.html}, file = {Frank1942.pdf:Frank1942.pdf:PDF}, owner = {habi}, timestamp = {2010.03.26} } @ARTICLE{Freitag2000, author = {Freitag, L.A. and Plassmann, P.}, title = {{Local optimization-based simplicial mesh untangling and improvement}}, journal = {International Journal for Numerical Methods in Engineering}, year = {2000}, volume = {49}, pages = {109--125}, number = {1}, owner = {habi}, publisher = {Citeseer}, timestamp = {2010.04.30} } @ARTICLE{Friis2007, author = {Friis, E.M. and Crane, P.R. and Pedersen, K.R. and Bengtson, S. and Donoghue, PC and Grimm, G.W. and Stampanoni, M.}, title = {{Phase-contrast X-ray microtomography links Cretaceous seeds with Gnetales and Bennettitales}}, journal = {NATURE-LONDON-}, year = {2007}, volume = {450}, pages = {549}, number = {7169}, owner = {habi}, publisher = {Nature Publishing Group}, timestamp = {2008.08.25} } @ARTICLE{Fung1988, author = {Y. C. Fung}, title = {A model of the lung structure and its validation.}, journal = {J Appl Physiol}, year = {1988}, volume = {64}, pages = {2132--2141}, number = {5}, month = {May}, abstract = {As a framework to describe the structure of the lung, a theory is presented under the assumptions that all alveoli are initially equal and space filling, are ventilated as uniformly as possible, and obey the laws of elasticity. A combination of the tetrakaidecahedron (14-hedron) and the order-2 14-hedron formed by 14 14-hedra surrounding a central one that is perforated for ventilation meets the requirements. Alveolar ductal tree is formed by these order-2 polyhedra. Equilibrium and elasticity require the alveolar mouths to be curved and convex toward the alveolar wall. Perforation of additional walls causes a variety of alveolar shapes. The predicted shapes of the alveoli, the shapes of alveolar mouths, the lengths of sacs and ducts, the statistics of the dihedral angles, stars, corners, lines, dots, and vertices compare well with available morphometric data. The vascular and bronchial trees are joined at the alveolar level: each arteriole supplies 0.75 and each venule drains 0.72 order-2 polyhedra.}, bdsk-url-1 = {http://jap.physiology.org/cgi/content/abstract/64/5/2132}, file = {Fung1988.pdf:Fung1988.pdf:PDF}, keywords = {Lung; Models, Anatomic; Pulmonary Alveoli}, owner = {habi}, pmid = {3391912}, timestamp = {2007.04.27}, url = {http://jap.physiology.org/cgi/content/abstract/64/5/2132} } @ARTICLE{Gagvani1999, author = {Gagvani, N. and Silver, D.}, title = {{Parameter-Controlled Volume Thinning}}, journal = {Graphical Models and Image Processing}, year = {1999}, volume = {61}, pages = {149--164}, number = {3}, bdsk-url-1 = {http://dx.doi.org/10.1006/gmip.1999.0495}, file = {Gagvani1999.pdf:Gagvani1999.pdf:PDF}, owner = {habi}, publisher = {Elsevier}, timestamp = {2008.07.15}, url = {http://dx.doi.org/10.1006/gmip.1999.0495} } @ARTICLE{Gallucci2007, author = {Gallucci, E. and Scrivener, K. and Groso, A. and Stampanoni, M. and Margaritondo, G.}, title = {{3D experimental investigation of the microstructure of cement pastes using synchrotron X-ray microtomography ($\mu$CT)}}, journal = {Cement and Concrete Research}, year = {2007}, volume = {37}, pages = {360--368}, number = {3}, owner = {habi}, publisher = {Elsevier}, timestamp = {2008.08.25} } @ARTICLE{Gao2004, author = {Gao, J. and Quan, Wen}, title = {Automatic 3D Vascular Tree Construction of Perforator Flaps for Plastic Surgery Planning}, journal = {Engineering in Medicine and Biology Society, 2004. IEMBS '04. 26th Annual International Conference of the IEEE}, year = {1-5 Sept. 2004}, volume = {2}, pages = {3424-3427}, abstract = {Perforator flaps have been increasingly used in the past few years for trauma and reconstructive surgical cases. With the thinned flap design, greater survivability and a decrease in donor site morbidity have been reported. Knowledge of the 3D vascular tree will provide insight information about the dissection region, vascular territory, and fascia levels. In this paper, we will propose a computational framework for the automatic 3D vascular tree construction. The computational framework begins with an image segmentation algorithm, spedge-and-medge, which is an integration of Canny edge detector, edge-linking, and split-and-merge to initially segment out the vessels from the background. To deal with the possible broken vessels, a vascular cross-sectional tree repairing and interpolation algorithm is then developed based on the 3D connectivity and root-converging properties of the tree branches. Furthermore, to extract the essential characteristics of the vascular structure, 3D thinning algorithms are used to build up the skeletons of the tree. At each stage of the framework, 3D rendering results are provided for the visualization of the computed results. The proposed method achieves good performance and has been used for the 3D vascular tree construction and surgical danger zone measurements on 39 harvested cadaver perforator flaps with the types of ALTP, GAP, and TAP.}, file = {Gao2004.pdf:Gao2004.pdf:PDF}, keywords = {3D thinning, 3D vascular tree, ALPT, CT images, GAP, TAP, perforator flaps, plastic surgery, reconstruction}, owner = {habi}, timestamp = {2007.11.19} } @ARTICLE{Gavrieli1992, author = {Gavrieli, Y and Sherman, Y and Ben-Sasson, SA}, title = {{Identification of programmed cell death in situ via specific labeling of nuclear DNA fragmentation}}, journal = {J. Cell Biol.}, year = {1992}, volume = {119}, pages = {493-501}, number = {3}, bdsk-url-1 = {http://dx.doi.org/10.1083/jcb.119.3.493}, eprint = {http://jcb.rupress.org/cgi/reprint/119/3/493.pdf}, owner = {habi}, timestamp = {2006.09.09}, url = {http://dx.doi.org/10.1083/jcb.119.3.493} } @ARTICLE{Gehr1978, author = {Gehr, Peter and Bachofen, Marianne and Weibel, Ewald R.}, title = {The normal human lung - Ultrastructure and morphometric estimation of diffusion capacity}, journal = {Respiration Physiology}, year = {1978}, volume = {32}, pages = {121-140}, month = {Feb.}, file = {Gehr1978.pdf:Gehr1978.pdf:PDF}, owner = {habi}, timestamp = {2008.03.11} } @ARTICLE{Gilboy1995, author = {W. B. Gilboy}, title = {Microtomography with ionising radiations}, journal = {Applied Radiation and Isotopes}, year = {1995}, volume = {46}, pages = {689 - 699}, number = {6-7}, abstract = {The physical requirements for tomographic imaging with x-ray photons and energetic ions beams are reviewed and some illustrative applications are briefly described. The number of x-ray photons needed to produce tomographic images of a given quality in terms of spatial and density resolution is shown to be independent of object size. Consequently high resolution microtomography requires very intense sources of photons. The performance of microtomography imaging systems based on synchrotron light sources and microfocus x-ray tubes is intercompared and the latter are found to be surprisingly competitive. For objects smaller than a few hundred microns microtomography with MeV ion beams has been developed in recent years and sub-micron resolution demonstrated. For a given image quality ion beam tomography requires substantially lower fluxes than is the case with photon beams but despite this the absorbed doses are similar, being as high as 105 Gy for 1 [mu]m resolution on a 100 [mu]m sample.}, bdsk-url-1 = {http://dx.doi.org/10.1016/0969-8043(95)00134-4}, file = {Gilboy1995.pdf:Gilboy1995.pdf:PDF}, issn = {0969-8043}, owner = {habi}, timestamp = {2010.03.29}, url = {http://dx.doi.org/10.1016/0969-8043(95)00134-4} } @ARTICLE{Gonzalez1992, author = {Gonzalez, R.C. and Richard, E.}, title = {{Woods, Digital image processing}}, journal = {Addison Wisley}, year = {1992}, owner = {habi}, timestamp = {2010.04.30} } @ARTICLE{Goodman2010, author = {Lawrence R Goodman}, title = {The Beatles, the Nobel Prize, and CT scanning of the chest.}, journal = {Radiol Clin North Am}, year = {2010}, volume = {48}, pages = {1--7}, number = {1}, month = {Jan}, abstract = {From its first test scan on a mouse, in 1967, to current medical practice, the CT scanner has become a core imaging tool in thoracic diagnosis. Initially financed by money from Beatles' record sales, the first patient scan was performed in 1971. Only 8 years later, a Nobel Prize in Physics and Medicine was awarded to Hounsfield and Cormack for their discovery. This article traces the history of CT scanner development and how each technical advance expanded chest diagnostic frontiers. Chest imaging now accounts for 30\% of all CT scanning.}, bdsk-url-1 = {http://dx.doi.org/10.1016/j.rcl.2009.09.008}, institution = {Department of Radiology, Medical College of Wisconsin, Milwaukee, WI 53226-3596, USA. lgoodman@mcw.edu}, keywords = {Animals; Biomedical Research, economics/history; Great Britain; History, 20th Century; Humans; Mice; Nobel Prize; Radiography, Thoracic, economics/history/methods; South Africa; Tomography, X-Ray Computed, economics/history/methods}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pii = {S0033-8389(09)00178-X}, pmid = {19995626}, timestamp = {2010.04.28}, url = {http://dx.doi.org/10.1016/j.rcl.2009.09.008} } @ARTICLE{Gostling2008, author = {Gostling, N.J. and Thomas, C.W. and Greenwood, J.M. and Dong, X. and Bengtson, S. and Raff, E.C. and Raff, R.A. and Degnan, B.M. and Stampanoni, M. and Donoghue, P.C.J.}, title = {{Deciphering the fossil record of early bilaterian embryonic development in light of experimental taphonomy}}, journal = {Evolution \& Development}, year = {2008}, volume = {10}, pages = {339--349}, number = {3}, owner = {habi}, publisher = {Blackwell Synergy}, timestamp = {2008.08.25} } @ARTICLE{Grodzins1983, author = {Grodzins, L.}, title = {{Optimum energies for x-ray transmission tomography of small samples:: Applications of synchrotron radiation to computerized tomography I}}, journal = {Nuclear Instruments and Methods in Physics Research}, year = {1983}, volume = {206}, pages = {541--545}, number = {3}, bdsk-url-1 = {http://dx.doi.org/10.1016/0167-5087(83)90393-9}, owner = {habi}, publisher = {Elsevier}, timestamp = {2010.03.29}, url = {http://dx.doi.org/10.1016/0167-5087(83)90393-9} } @ARTICLE{Grodzins1983a, author = {Grodzins, L.}, title = {{Critical absorption tomography of small samples:: Proposed applications of synchrotron radiation to computerized tomography II}}, journal = {Nuclear Instruments and Methods in Physics Research}, year = {1983}, volume = {206}, pages = {547--552}, number = {3}, bdsk-url-1 = {http://dx.doi.org/10.1016/0167-5087(83)90394-0}, owner = {habi}, publisher = {Elsevier}, timestamp = {2010.03.29}, url = {http://dx.doi.org/10.1016/0167-5087(83)90394-0} } @ARTICLE{Groso2006, author = {A. Groso and M. Stampanoni and R. Abela and P. Schneider and S. Linga and R. M\"{u}ller}, title = {Phase contrast tomography: An alternative approach}, journal = {Applied Physics Letters}, year = {2006}, volume = {88}, pages = {214104}, number = {21}, eid = {214104}, bdsk-url-1 = {http://dx.doi.org/10.1063/1.2207221}, file = {Groso2006.pdf:Groso2006.pdf:PDF}, keywords = {computerised tomography; diagnostic radiography; absorption coefficients; refractive index; image reconstruction; medical image processing; image resolution}, numpages = {3}, owner = {habi}, publisher = {AIP}, timestamp = {2010.02.25}, url = {http://dx.doi.org/10.1063/1.2207221} } @ARTICLE{Gwinn2006, author = {Gwinn, Maureen R. AND Vallyathan, Val}, title = {Nanoparticles: Health Effects---Pros and Cons}, journal = {Environ Health Perspect}, year = {2006}, volume = {114}, number = {12}, month = {08}, abstract = {
With the advent of nanotechnology, the prospects for using engineered nanomaterials with diameters of < 100 nm in industrial applications, medical imaging, disease diagnoses, drug delivery, cancer treatment, gene therapy, and other areas have progressed rapidly. The potential for nanoparticles (NPs) in these areas is infinite, with novel new applications constantly being explored. The possible toxic health effects of these NPs associated with human exposure are unknown. Many fine particles generally considered ``nuisance dusts'' are likely to acquire unique surface properties when engineered to nanosize and may exhibit toxic biological effects. Consequently, the nuisance dust may be transported to distant sites and could induce adverse health effects. In addition the beneficial uses of NPs in drug delivery, cancer treatment, and gene therapy may cause unintentional human exposure. Because of our lack of knowledge about the health effects associated with NP exposure, we have an ethical duty to take precautionary measures regarding their use. In this review we highlight the possible toxic human health effects that can result from exposure to ultrafine particles (UFPs) generated by anthropogenic activities and their cardiopulmonary outcomes. The comparability of engineered NPs to UFPs suggests that the human health effects are likely to be similar. Therefore, it is prudent to elucidate their toxicologic effect to minimize occupational and environmental exposure. Highlighting the human health outcomes caused by UFPs is not intended to give a lesser importance to either the unprecedented technologic and industrial rewards of the nanotechnology or their beneficial human uses.
}, bdsk-url-1 = {http://dx.doi.org/10.1289/ehp.8871}, file = {Gwinn2006.pdf:Gwinn2006.pdf:PDF}, owner = {habi}, publisher = {National Institute of Environmental Health Sciences}, timestamp = {2010.05.12}, url = {http://dx.doi.org/10.1289/ehp.8871} } @PHDTHESIS{Haberthuer2010, author = {Haberth\"{u}r, David}, title = {High resolution tomographic imaging of the alveolar region of the mammalian lung}, school = {University of Bern, Switzerland}, year = {2010}, month = {May}, file = {Haberthuer2010.pdf:Haberthuer2010.pdf:PDF}, owner = {habi}, timestamp = {2010.06.07}, url = {http://is.gd/fzFXh} } @MISC{Haberthuer2008a, author = {Haberth\"{u}r, David}, title = {3{D}-{D}arstellung des terminalen {B}ronchialbaums}, howpublished = {Talk}, month = {February}, year = {2008}, note = {Tag der Anatomie 2008, University of Bern, Switzerland}, bdsk-url-1 = {http://www.ana.unibe.ch/~haberthuer/publications%5C#talks}, owner = {habi}, timestamp = {2008.02.19}, url = {http://www.ana.unibe.ch/~haberthuer/publications\#talks} } @MASTERSTHESIS{Haberthuer2008c, author = {David Haberth\"{u}r}, title = {Quality guided wide field x-ray tomographic imaging}, school = {University of Bern, Switzerland, Paul Scherrer Institut, Switzerland, ETH Z\"{u}rich, Switzerland}, year = {2008}, month = {August}, bdsk-url-1 = {http://is.gd/blDya}, file = {Haberthuer2008c.pdf:Haberthuer2008c.pdf:PDF}, owner = {habi}, timestamp = {2008.12.08}, url = {http://is.gd/blDya} } @MISC{Haberthuer2008d, author = {David Haberth\"{u}r}, title = {Quality guided wide field x-ray tomographic imaging}, howpublished = {Talk}, month = {November}, year = {2008}, note = {MAS Abschlusstagung, Seminahotel Sempachersee, Switzerland}, bdsk-url-1 = {http://www.ana.unibe.ch/~haberthuer/publications%5C#talks}, owner = {habi}, timestamp = {2008.12.08}, url = {http://www.ana.unibe.ch/~haberthuer/publications\#talks} } @MISC{Haberthuer2007, author = {David Haberth\"{u}r}, title = {High Resolution Three Dimensional Lung Reconstruction by Synchrotron Radiation X-Ray Tomographic Microscopy}, howpublished = {Talk}, month = {February}, year = {2007}, note = {Tag der Anatomie 2007, University of Bern, Switzerland}, bdsk-url-1 = {http://www.ana.unibe.ch/~haberthuer/publications%5C#talks}, owner = {habi}, timestamp = {2008.12.07}, url = {http://www.ana.unibe.ch/~haberthuer/publications\#talks} } @MASTERSTHESIS{Haberthuer2002, author = {David Haberth\"{u}r}, title = {Use of Lasers in Medicine: Tissue Soldering and Precise Cutting}, school = {Philosophisch-Naturwissenschaftliche Fakult\"{a}t, Universit\"{a}t Bern}, year = {2002}, month = {October}, bdsk-url-1 = {http://www.ana.unibe.ch/~haberthuer/publications%5C#theses}, file = {Haberthuer2002.pdf:Haberthuer2002.pdf:PDF}, owner = {habi}, timestamp = {2006.12.06}, url = {http://www.ana.unibe.ch/~haberthuer/publications\#theses} } @CONFERENCE{Haberthuer2011, author = {David Haberth\"{u}r and S\'{e}bastien Barr\'{e} and Marco Stampanoni and Johannes C. Schittny}, title = {During Postnatal Development the Mean Acinar Volume Shows an Unproportional Increase Compared to the Total Lung Volume. An X-ray Tomographic Microscopical Study}, booktitle = {ATS 2011, International Conference}, year = {2011}, owner = {habi}, timestamp = {2011.05.24}, url = {http://is.gd/sdF9LB} } @MISC{Haberthuer2009a, author = {David Haberth\"{u}r and Christoph Hinterm\"{u}ller, Marco Stampanoni and Johannes C. Schittny}, title = {Quality-guided synchrotron-based tomographic microscopy of large lung samples}, howpublished = {Poster}, month = {January}, year = {2009}, note = {3rd Graduate School Students' Symposium, January 28, University of Bern, Switzerland, Poster 101}, bdsk-url-1 = {http://www.ana.unibe.ch/~haberthuer/posters}, owner = {habi}, timestamp = {2008.12.08}, url = {http://www.ana.unibe.ch/~haberthuer/posters} } @ARTICLE{Haberthuer2009b, author = {David Haberth\"{u}r and Christoph Hinterm\"{u}ller and Johannes C Schittny and Marco Stampanoni}, title = {{Quality Guided Synchrotron Radiation Based X-Ray Tomographic Microscopy of Large Lung Samples.}}, journal = {Am. J. Respir. Crit. Care Med.}, year = {2009}, volume = {179}, pages = {A1060-}, number = {1-MeetingAbstracts}, note = {Talk: \url{http://is.gd/fzBzk}}, bdsk-url-1 = {http://ajrccm.atsjournals.org/cgi/reprint/179/1_MeetingAbstracts/A1060.pdf}, eprint = {http://ajrccm.atsjournals.org/cgi/reprint/179/1_MeetingAbstracts/A1060.pdf}, owner = {habi}, timestamp = {2009.03.25}, url = {http://ajrccm.atsjournals.org/cgi/reprint/179/1_MeetingAbstracts/A1060.pdf} } @MISC{Haberthuer2008, author = {Haberth\"{u}r, David and Hinterm\"{u}ller,Christoph and Stampanoni, Marco and Schitty,Johannes}, title = {High resolution three dimensional lung imaging for the extraction of the airway skeleton}, howpublished = {Poster}, month = {January}, year = {2008}, note = {CIMST-Symposium - Imaging: Pushing the Limits in Bio-medical Research, January 21 \& 22, 2008, ETH Z\"{u}rich, Switzerland, Poster 41}, bdsk-url-1 = {http://www.ana.unibe.ch/~haberthuer/posters}, file = {Haberthuer2008.pdf:NDS\\Haberthuer2008.pdf:PDF}, owner = {habi}, timestamp = {2008.02.18}, url = {http://www.ana.unibe.ch/~haberthuer/posters} } @ARTICLE{Haberthuer2009c, author = {Haberth\"{u}r, D and Hinterm\"{u}ller, C and Tsuda, A and Stampanoni, M and Schittny, JC}, title = {{Generation of Acinar Skeletons after Synchrotron Radiation Based X-Ray Tomographic Microscopy of the Lung Parenchyma.}}, journal = {Am. J. Respir. Crit. Care Med.}, year = {2009}, volume = {179}, pages = {A3531-}, number = {1-MeetingAbstracts}, note = {Poster: \url{http://is.gd/fzBvm}}, bdsk-url-1 = {http://ajrccm.atsjournals.org/cgi/reprint/179/1_MeetingAbstracts/A3531.pdf}, eprint = {http://ajrccm.atsjournals.org/cgi/reprint/179/1_MeetingAbstracts/A3531.pdf}, owner = {habi}, timestamp = {2009.03.25}, url = {http://ajrccm.atsjournals.org/cgi/reprint/179/1_MeetingAbstracts/A3531.pdf} } @MISC{Haberthuer2008b, author = {David Haberth\"{u}r and Manuela Semmler-Behnke and Wolfgang G. Kreyling and Marco Stampanoni and Akira Tsuda and Johannes C. Schittny}, title = {Multimodal Imaging for the Detection of Ultrafine Particles in the Gas-exchange Region of the Mammalian Lung}, howpublished = {Poster}, month = {July}, year = {2008}, note = {9th International Conference on X-Ray Microscopy - XRM 2008, July 21-25, ETH Z\"{u}rich, Switzerland, Poster P1\_052}, bdsk-url-1 = {http://www.ana.unibe.ch/~haberthuer/posters}, owner = {habi}, timestamp = {2008.12.08}, url = {http://www.ana.unibe.ch/~haberthuer/posters} } @INPROCEEDINGS{Haberthuer2009, author = {David Haberth\"{u}r and Manuela Semmler-Behnke and Shinji Takenaka and Wolfgang G. Kreyling and Marco Stampanoni and Akira Tsuda and Johannes C. Schittny}, title = {Multimodal imaging for the detection of sub-micron particles in the gas-exchange region of the mammalian lung}, year = {2009}, volume = {186}, series = {Conference Series}, pages = {012040 (3pp)}, organization = {Journal of Physics}, publisher = {IOP Publishing}, abstract = {The deposition sites of inhaled aerosols in the gas-exchange region of the lung represent one of the key parameters needed for the understanding of the interaction between these particles and lung tissue. In order to develop a method for three-dimensional imaging of sub-micron particles in lung tissue we applied gold particles (200 and 700 nm) to rat lungs by intratracheal instillation. The samples were scanned at TOMCAT, the beamline for TOmographic Microscopy and Coherent rAdiology experimenTs at the Swiss Light Source. The 200 nm particles were slightly below the detection capabilities of TOMCAT. Therefore, their localization was obtained only by electron microscopy. At a voxel size of 350 nm we observed single and clustered gold particles (700 nm) in alveoli, alveolar ducts, and small bronchioli. The locations of the gold particles were verified by transmission electron microscopical serial sections. We observed a very high correlation between these two imaging modalities. We conclude that a combination of x-ray tomographic microscopy and electron microscopy allows the full unrestricted 3D localization of particles smaller than the resolution of x-ray tomographic microscopy. We are planning to use this method for the verification of the simulation of particle deposition in the airway tree.}, bdsk-url-1 = {http://dx.doi.org/10.1088/1742-6596/186/1/012040}, file = {Haberthuer2009.pdf:Haberthuer2009.pdf:PDF}, journal = {Journal of Physics: Conference Series}, owner = {habi}, timestamp = {2009.10.01}, url = {http://dx.doi.org/10.1088/1742-6596/186/1/012040} } @ARTICLE{Haberthuer2010a, author = {Haberth{\"{u}}r, David and Hinterm{\"{u}}ller, Christoph and Marone, Federica and Schittny, Johannes C. and Stampanoni, Marco}, title = {{Radiation dose optimized lateral expansion of the~field of view in synchrotron radiation X-ray tomographic microscopy}}, journal = {Journal of Synchrotron Radiation}, year = {2010}, volume = {17}, pages = {590--599}, number = {5}, month = {Sep}, abstract = {Volumetric data at micrometer level resolution can be acquired within a few minutes using synchrotron-radiation-based tomographic microscopy. The field of view along the rotation axis of the sample can easily be increased by stacking several tomograms, allowing the investigation of long and thin objects at high resolution. On the contrary, an extension of the field of view in the perpendicular direction is non-trivial. This paper presents an acquisition protocol which increases the field of view of the tomographic dataset perpendicular to its rotation axis. The acquisition protocol can be tuned as a function of the reconstruction quality and scanning time. Since the scanning time is proportional to the radiation dose imparted to the sample, this method can be used to increase the field of view of tomographic microscopy instruments while optimizing the radiation dose for radiation-sensitive samples and keeping the quality of the tomographic dataset on the required level. This approach, dubbed wide-field synchrotron radiation tomographic microscopy, can increase the lateral field of view up to five times. The method has been successfully applied for the three-dimensional imaging of entire rat lung acini with a diameter of 4.1 mm at a voxel size of 1.48 µm.}, file = {Haberthuer2010a.pdf:Haberthuer2010a.pdf:PDF}, owner = {habi}, timestamp = {2009.08.05}, url = {http://dx.doi.org/10.1107/S0909049510019618} } @ARTICLE{Haefeli1988, author = {Haefeli-Bleuer, B. and Weibel, E.R.}, title = {{Morphometry of the human pulmonary acinus}}, journal = {The Anatomical Record}, year = {1988}, volume = {220}, pages = {401--414}, number = {4}, owner = {habi}, timestamp = {2010.04.30} } @ARTICLE{Haefeli-Bleuer1988, author = {Haefeli-Bleuer, Beatrice and Weibel, Ewald R.}, title = {Morphometry of the human pulmonary acinus}, journal = {The Anatomical Record}, year = {1988}, volume = {220}, pages = {401--414}, number = {4}, abstract = {The geometry and morphometry of intraacinar airways in human lungs were studied on silicone rubber casts from two adult lungs. We defined acini as the complex of alveolated airways distal to the terminal bronchioles�-�that is, beginning with the first-order respiratory or transitional bronchiole. The morphological properties of pulmonary acini are described. The acinar volume averages 187 mm3 (SD � 79 mm3). Intraacinar airways branch dichotomously over about 9 generations (range 6-12). The internal airway diameter falls from 500 mum to 270 mum between acinar generations 0 and 10, whereas the outer diameter (including the sleeve of alveoli) remains constant at 700 mum. Towards the periphery the size of alveoli increases and clusters of alveoli become more numerous. The longitudinal path length of acinar airways (defined as the distance along the ducts from the transitional bronchiole to the alveolar sacs) averages 8.8 mm (� 1.4 mm). The morphometric data collected in this study are used to construct an idealized model of human acinar airways that can be related to existing models of the human bronchial tree.}, bdsk-url-1 = {http://dx.doi.org/10.1002/ar.1092200410}, file = {Haefeli-Bleuer1988.pdf:Haefeli-Bleuer1988.pdf:PDF}, owner = {habi}, timestamp = {2008.07.17}, url = {http://dx.doi.org/10.1002/ar.1092200410} } @ARTICLE{Hagadorn2006, author = {Hagadorn, J.W. and Xiao, S. and Donoghue, P.C.J. and Bengtson, S. and Gostling, N.J. and Pawlowska, M. and Raff, E.C. and Raff, R.A. and Turner, F.R. and Chongyu, Y. and others}, title = {{Cellular and Subcellular Structure of Neoproterozoic Animal Embryos}}, journal = {Science}, year = {2006}, volume = {314}, pages = {291--294}, number = {5797}, owner = {habi}, publisher = {American Association for the Advancement of Science}, timestamp = {2008.08.25} } @ARTICLE{Hall1997, author = {F. M. Hall}, title = {Re: The birth of CT.}, journal = {AJR Am J Roentgenol}, year = {1997}, volume = {168}, pages = {1622}, number = {6}, month = {Jun}, keywords = {History, 20th Century; Humans; Nobel Prize; Tomography, X-Ray Computed, history}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {9199096}, timestamp = {2010.04.28} } @ARTICLE{Hanna2005, author = {Hanna, N. and Saltzman, D. and Mukai, D. and Chen, Z. and Sasse, S. and Milliken, J. and Guo, S. and Jung, W. and Colt, H. and Brenner, M.}, title = {{Two-dimensional and 3-dimensional optical coherence tomographic imaging of the airway, lung, and pleura}}, journal = {The Journal of Thoracic and Cardiovascular Surgery}, year = {2005}, volume = {129}, pages = {615--622}, number = {3}, bdsk-url-1 = {http://dx.doi.org/10.1016/j.jtcvs.2004.10.022}, owner = {habi}, publisher = {Elsevier}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1016/j.jtcvs.2004.10.022} } @ARTICLE{Hansen1975, author = {Hansen, JE and Ampaya, EP}, title = {{Human air space shapes, sizes, areas, and volumes}}, journal = {Journal of Applied Physiology}, year = {1975}, volume = {38}, pages = {990}, number = {6}, owner = {habi}, publisher = {Am Physiological Soc}, timestamp = {2010.04.30} } @ARTICLE{Hansen1975a, author = {Hansen, JE and Ampaya, EP and Bryant, GH and Navin, JJ}, title = {{Branching pattern of airways and air spaces of a single human terminal bronchiole}}, journal = {Journal of Applied Physiology}, year = {1975}, volume = {38}, pages = {983}, number = {6}, owner = {habi}, publisher = {Am Physiological Soc}, timestamp = {2010.04.30} } @ARTICLE{Hasegawa2006, author = {Hasegawa, Masaru and Nasuhara, Yasuyuki and Onodera, Yuya and Makita, Hironi and Nagai, Katsura and Fuke, Satoshi and Ito, Yoko and Betsuyaku, Tomoko and Nishimura, Masaharu}, title = {{Airflow Limitation and Airway Dimensions in Chronic Obstructive Pulmonary Disease}}, journal = {Am. J. Respir. Crit. Care Med.}, year = {2006}, volume = {173}, pages = {1309-1315}, number = {12}, abstract = {Rationale: Chronic obstructive pulmonary disease (COPD) is characterized by airflow limitation caused by emphysema and/or airway narrowing. Computed tomography has been widely used to assess emphysema severity, but less attention has been paid to the assessment of airway disease using computed tomography. Objectives: To obtain longitudinal images and accurately analyze short axis images of airways with an inner diameter [>=] 2 mm located anywhere in the lung with new software for measuring airway dimensions using curved multiplanar reconstruction. Methods: In 52 patients with clinically stable COPD (stage I, 14; stage II, 22; stage III, 14; stage IV, 2), we used the software to analyze the relationship of the airflow limitation index (FEV1, % predicted) with the airway dimensions from the third to the sixth generations of the apical bronchus (B1) of the right upper lobe and the anterior basal bronchus (B8) of the right lower lobe. Measurements and Main Results: Airway luminal area (Ai) and wall area percent (WA%) were significantly correlated with FEV1 (% predicted). More importantly, the correlation coefficients (r) improved as the airways became smaller in size from the third (segmental) to sixth generations in both bronchi (Ai: r = 0.26, 0.37, 0.58, and 0.64 for B1; r = 0.60, 0.65, 0.63, and 0.73 for B8). Conclusions: We are the first to use three-dimensional computed tomography to demonstrate that airflow limitation in COPD is more closely related to the dimensions of the distal (small) airways than proximal (large) airways.}, bdsk-url-1 = {http://dx.doi.org/10.1164/rccm.200601-037OC}, eprint = {http://ajrccm.atsjournals.org/cgi/reprint/173/12/1309.pdf}, file = {Hasegawa2006.pdf:Hasegawa2006.pdf:PDF}, owner = {habi}, timestamp = {2008.12.09}, url = {http://dx.doi.org/10.1164/rccm.200601-037OC} } @ARTICLE{Haycock1978, author = {Haycock, G.B. and Schwartz, G.J. and Wisotsky, D.H.}, title = {{Geometric method for measuring body surface area: A height-weight formula validated in infants, children, and adults+}}, journal = {The Journal of Pediatrics}, year = {1978}, volume = {93}, pages = {62--66}, number = {1}, bdsk-url-1 = {http://dx.doi.org/10.1016/S0022-3476(78)80601-5}, owner = {habi}, publisher = {Elsevier}, timestamp = {2010.04.19}, url = {http://dx.doi.org/10.1016/S0022-3476(78)80601-5} } @ARTICLE{Heinrich2010, author = {Heinrich, Henriette and Goetze, Oliver and Menne, Dieter and Iten, Peter X and Fruehauf, Heiko and Vavricka, Stephan R and Schwizer, Werner and Fried, Michael and Fox, Mark}, title = {{Effect on gastric function and symptoms of drinking wine, black tea, or schnapps with a Swiss cheese fondue: randomised controlled crossover trial}}, journal = {BMJ}, volume = {341}, abstract = {Objective To compare the effects of drinking white wine or black tea with Swiss cheese fondue followed by a shot of cherry schnapps on gastric emptying, appetite, and abdominal symptoms.Design Randomised controlled crossover study.Participants 20 healthy adults (14 men) aged 23-58.Interventions Cheese fondue (3260 kJ, 32% fat) labelled with 150 mg sodium 13Carbon-octanoate was consumed with 300 ml of white wine (13%, 40 g alcohol) or black tea in randomised order, followed by 20 ml schnapps (40%, 8 g alcohol) or water in randomised order.Main outcome measures Cumulative percentage dose of 13C substrate recovered over four hours (higher values indicate faster gastric emptying) and appetite and dyspeptic symptoms (visual analogue scales).Results Gastric emptying was significantly faster when fondue was consumed with tea or water than with wine or schnapps (cumulative percentage dose of 13C recovered 18.1%, 95% confidence interval 15.2% to 20.9% v 7.4%, 4.6% to 10.3%; P<0.001). An inverse dose-response relation between alcohol intake and gastric emptying was evident. Appetite was similar with consumption of wine or tea (difference 0.11, −0.12 to 0.34; P=0.35), but reduced if both wine and schnapps were consumed (difference −0.40, −0.01 to −0.79; P<0.046). No difference in dyspeptic symptoms was present.Conclusions Gastric emptying after a Swiss cheese fondue is noticeably slower and appetite suppressed if consumed with higher doses of alcohol. This effect was not associated with dyspeptic symptoms.Trial registration ClinicalTrials.gov NCT00943696.}, eprint = {http://www.bmj.com/content/341/bmj.c6731.full.pdf}, file = {Heinrich2010.PDF:Heinrich2010.PDF:PDF}, owner = {habi}, timestamp = {2011.02.03}, url = {http://dx.doi.org/10.1136/bmj.c6731} } @ARTICLE{Heinzer2006, author = {Heinzer, Stefan and Krucker, Thomas and Stampanoni, Marco and Abela, Rafael and Meyer, Eric P. and Schuler, Alexandra and Schneider, Philipp and Muller, Ralph}, title = {Hierarchical microimaging for multiscale analysis of large vascular networks}, journal = {NeuroImage}, year = {2006}, volume = {32}, pages = {626--636}, number = {2}, month = aug, abstract = {There is a wide range of diseases and normal physiological processes that are associated with alterations of the vascular system in organs. Ex vivo imaging of large vascular networks became feasible with recent developments in microcomputed tomography ([mu]CT). Current methods permit to visualize only limited numbers of physically excised regions of interests (ROIs) from larger samples. We developed a method based on modified vascular corrosion casting (VCC), scanning electron microscopy (SEM), and desktop and synchrotron radiation [mu]CT (SR[mu]CT) technologies to image vasculature at increasing levels of resolution, also referred to as hierarchical imaging. This novel approach allows nondestructive 3D visualization and quantification of large microvascular networks, while retaining a precise anatomical context for ROIs scanned at very high resolution. Scans of entire mouse brain VCCs were performed at 16-[mu]m resolution with a desktop [mu]CT system. Custom-made navigation software with a ROI selection tool enabled the identification of anatomical brain structures and precise placement of multiple ROIs. These were then scanned at 1.4-[mu]m voxel size using SR[mu]CT and a local tomography setup. A framework was developed for fast sample positioning, precise selection of ROIs, and sequential high-throughput scanning of a large numbers of brain VCCs. Despite the use of local tomography, exceptional image quality was achieved with SR[mu]CT. This method enables qualitative and quantitative assessment of vasculature at unprecedented resolution and volume with relatively high throughput, opening new possibilities to study vessel architecture and vascular alterations in models of disease}, bdsk-url-1 = {http://dx.doi.org/10.1016/j.neuroimage.2006.03.043}, file = {Heinzer2006.pdf:Heinzer2006.pdf:PDF}, keywords = {Hierarchical imaging, Micro-CT, Microvasculature, Mouse brain, Synchrotron radiation}, owner = {habi}, refid = {HEINZER2006}, timestamp = {2006.12.14}, url = {http://dx.doi.org/10.1016/j.neuroimage.2006.03.043} } @ARTICLE{Heinzer2008, author = {Heinzer, S. and Kuhn, G. and Krucker, T. and Meyer, E. and Ulmann-Schuler, A. and Stampanoni, M. and Gassmann, M. and Marti, H.H. and M{\"{u}}ller, R. and Vogel, J.}, title = {{Novel three-dimensional analysis tool for vascular trees indicates complete micro-networks, not single capillaries, as the angiogenic endpoint in mice overexpressing human VEGF165 in the brain}}, journal = {Neuroimage}, year = {2008}, volume = {39}, pages = {1549--1558}, number = {4}, owner = {habi}, publisher = {Elsevier}, timestamp = {2008.08.25} } @INPROCEEDINGS{Heinzer2007, author = {{Heinzer}, S. and {M{\"{u}}ller}, R. and {Stampanoni}, M. and {Abela}, R. and {Meyer}, E.~P. and {Ulmann-Schuler}, A. and {Krucker}, T.}, title = {{Computer-based analysis of microvascular alterations in a mouse model for Alzheimer's disease}}, booktitle = {Medical Imaging 2007: Physiology, Function, and Structure from Medical Images. Edited by Manduca, Armando; Hu, Xiaoping P.. Proceedings of the SPIE, Volume 6511, pp. 651104 (2007).}, year = {2007}, volume = {6511}, series = {Presented at the Society of Photo-Optical Instrumentation Engineers (SPIE) Conference}, month = mar, adsnote = {Provided by the Smithsonian/NASA Astrophysics Data System}, adsurl = {http://adsabs.harvard.edu/abs/2007SPIE.6511E...3H}, bdsk-url-1 = {http://dx.doi.org/10.1117/12.708869}, file = {Heinzer2007.pdf:Heinzer2007.pdf:PDF}, owner = {habi}, timestamp = {2007.08.10}, url = {http://dx.doi.org/10.1117/12.708869} } @ARTICLE{Higgins1998, author = {Higgins, WE and Ramaswamy, K. and Swift, RD and McLennan, G. and Hoffman, EA}, title = {{Virtual bronchoscopy for three--dimensional pulmonary image assessment: state of the art and future needs.}}, journal = {Radiographics}, year = {1998}, volume = {18}, pages = {761}, number = {3}, owner = {habi}, publisher = {Radiological Society of North America}, timestamp = {2010.04.30} } @ARTICLE{Hildebrand1999, author = {Hildebrand,Tor and Laib,Andres and Muller,Ralph and Dequeker,Jan and Ruegsegger,Peter}, title = {Direct Three-Dimensional Morphometric Analysis of Human Cancellous Bone: Microstructural Data from Spine, Femur, Iliac Crest, and\ Calcaneus}, journal = {Journal of Bone and Mineral Research}, year = {1999}, volume = {14}, pages = {1167-1174}, number = {7}, bdsk-url-1 = {http://dx.doi.org/10.1359/jbmr.1999.14.7.1167}, eprint = {http://www.jbmronline.org/doi/pdf/10.1359/jbmr.1999.14.7.1167}, file = {Hildebrand1999.pdf:Hildebrand1999.pdf:PDF}, owner = {habi}, timestamp = {2007.08.13}, url = {http://dx.doi.org/10.1359/jbmr.1999.14.7.1167} } @MISC{Hintermueller2008, author = {Hinterm\"{u}ller, C. AND Coats, J. S. AND Obenaus, A. AND Nelson, G. AND Krucker, T. AND Stampanoni, M.}, title = {Assessment of Radiation Induced Alterations in Brain Micro Vasculature Using X-Ray Tomographic Microscopy}, howpublished = {Poster - 18th Annual NASA Space Radiation Investigators' Workshop}, month = {June}, year = {2007}, owner = {habi}, timestamp = {2008.08.25} } @ARTICLE{Hintermueller2010, author = {Hinterm{\"{u}}ller, C. and Marone, F. and Isenegger, A. and Stampanoni, M.}, title = {{Image processing pipeline for synchrotron-radiation-based tomographic microscopy}}, journal = {Journal of Synchrotron Radiation}, year = {2010}, volume = {17}, number = {4}, month = {Jul}, bdsk-url-1 = {http://dx.doi.org/10.1107/S0909049510011830}, file = {:Hintermueller2010.pdf:PDF}, owner = {habi}, timestamp = {2010.06.02}, url = {http://dx.doi.org/10.1107/S0909049510011830} } @ARTICLE{Hoffman2005, author = {Hoffman, Eric A. and Chon, Deokiee}, title = {{Computed Tomography Studies of Lung Ventilation and Perfusion}}, journal = {Proc Am Thorac Soc}, year = {2005}, volume = {2}, pages = {492-498}, number = {6}, bdsk-url-1 = {http://dx.doi.org/10.1513/pats.200509-099DS}, file = {Hoffman2005.pdf:Hoffman2005.pdf:PDF}, owner = {habi}, timestamp = {2010.04.26}, url = {http://dx.doi.org/10.1513/pats.200509-099DS} } @ARTICLE{Hoffman2004, author = {Eric A. Hoffman and Anne V. Clough and Gary E. Christensen and Ching-long Lin and Geoffrey McLennan and Joseph M. Reinhardt and Brett A. Simon and Milan Sonka and Merryn H. Tawhai and Edwin J.R. van Beek and Ge Wang}, title = {{The comprehensive imaging-based analysis of the lung: A forum for team science}}, journal = {Academic Radiology}, year = {2004}, volume = {11}, pages = {1370 - 1380}, number = {12}, bdsk-url-1 = {http://dx.doi.org/10.1016/j.acra.2004.09.005}, file = {Hoffman2004.pdf:Hoffman2004.pdf:PDF}, issn = {1076-6332}, owner = {habi}, timestamp = {2009.06.02}, url = {http://dx.doi.org/10.1016/j.acra.2004.09.005} } @ARTICLE{Hoffman1990, author = {Hoffman, EA and Gefter, WB}, title = {{Multimodality imaging of the upper airway: MRI, MR spectroscopy, and ultrafast X-ray CT.}}, journal = {Progress in clinical and biological research}, year = {1990}, volume = {345}, pages = {291}, owner = {habi}, timestamp = {2010.04.30} } @ARTICLE{Honda2002, author = {Honda, T. and Ota, H. and Arai, K. and Hayama, M. and Fujimoto, K. and Yamazaki, Y. and Haniuda, M.}, title = {{Three-dimensional analysis of alveolar structure in usual interstitial pneumonia}}, journal = {Virchows Archiv}, year = {2002}, volume = {441}, pages = {47--52}, number = {1}, bdsk-url-1 = {http://dx.doi.org/10.1007/s00428-001-0567-8}, owner = {habi}, publisher = {Springer}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1007/s00428-001-0567-8} } @MISC{RManual, author = {Kurt Hornik}, title = {The {R} {FAQ}}, year = {2011}, note = {{ISBN} 3-900051-08-9}, owner = {habi}, timestamp = {2011.05.09}, url = {http://CRAN.R-project.org/doc/FAQ/R-FAQ.html} } @ARTICLE{Horsfield1976, author = {Horsfield, K.}, title = {{Some mathematical properties of branching trees with application to the respiratory system}}, journal = {Bulletin of Mathematical Biology}, year = {1976}, volume = {38}, pages = {305--315}, number = {3}, file = {Horsfield1976.pdf:Horsfield1976.pdf:PDF}, owner = {habi}, publisher = {Springer}, timestamp = {2008.08.11} } @ARTICLE{Hounsfield1976a, author = {Hounsfield, GN}, title = {{Historical notes on computerized axial tomography.}}, journal = {Journal of the Canadian Association of Radiologists}, year = {1976}, volume = {27}, pages = {135}, number = {3}, owner = {habi}, timestamp = {2010.03.26} } @ARTICLE{Hounsfield1995, author = {G. N. Hounsfield}, title = {Computerized transverse axial scanning (tomography): Part I. Description of system. 1973.}, journal = {Br J Radiol}, year = {1995}, volume = {68}, pages = {H166--H172}, number = {815}, month = {Nov}, keywords = {History, 20th Century; Tomography, X-Ray Computed, history/instrumentation}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {8542219}, timestamp = {2010.04.28} } @ARTICLE{Hounsfield1980, author = {G. N. Hounsfield}, title = {Computed medical imaging.}, journal = {Science}, year = {1980}, volume = {210}, pages = {22--28}, number = {4465}, month = {Oct}, keywords = {Animals; Forecasting; History, 20th Century; Humans; Magnetic Resonance Spectroscopy, methods; Radiotherapy Dosage; Radiotherapy, instrumentation; Tomography, X-Ray Computed, history/instrumentation/methods}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {6997993}, timestamp = {2010.04.28} } @ARTICLE{Hounsfield1980a, author = {G. N. Hounsfield}, title = {Computed medical imaging. Nobel lecture, Decemberr 8, 1979.}, journal = {J Comput Assist Tomogr}, year = {1980}, volume = {4}, pages = {665--674}, number = {5}, month = {Oct}, keywords = {Absorption; Animals; Brain Diseases, radiography; Data Display; Female; History, 20th Century; Humans; Magnetic Resonance Spectroscopy; Nobel Prize; Radiation Dosage; Radiographic Image Enhancement; Radiography; Tomography, Emission-Computed; Tomography, X-Ray; Tomography, X-Ray Computed, history/methods}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {6997341}, timestamp = {2010.04.28} } @ARTICLE{Hounsfield1980b, author = {G. N. Hounsfield}, title = {Nobel Award address. Computed medical imaging.}, journal = {Med Phys}, year = {1980}, volume = {7}, pages = {283--290}, number = {4}, keywords = {Autobiography; History, 20th Century; Humans; London; Magnetic Resonance Spectroscopy; Nobel Prize; Technology, Radiologic; Tomography, X-Ray Computed, history}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {6993911}, timestamp = {2010.04.28} } @PATENT{Hounsfield1976, number = {3940625}, year = {1976}, author = {Hounsfield, Godfrey Newbold (Newark, EN)}, title = {Apparatus for examining objects by means of penetrating radiation}, month = {February}, url = {http://www.freepatentsonline.com/3940625.html}, bdsk-url-1 = {http://www.freepatentsonline.com/3940625.html}, file = {Hounsfield1976.pdf:Hounsfield1976.pdf:PDF}, owner = {habi}, timestamp = {2010.03.26} } @ARTICLE{Hsia2010, author = {Connie C. W. Hsia and Dallas M. Hyde and Matthias Ochs and Ewald R. Weibel}, title = {{An Official Research Policy Statement of the American Thoracic Society/European Respiratory Society: Standards for Quantitative Assessment of Lung Structure}}, journal = {Am. J. Respir. Crit. Care Med.}, year = {2010}, volume = {181}, pages = {394-418}, number = {4}, bdsk-url-1 = {http://dx.doi.org/10.1164/rccm.200809-1522ST}, eprint = {http://ajrccm.atsjournals.org/cgi/reprint/181/4/394.pdf}, file = {Hsia2010.pdf:Hsia2010.pdf:PDF}, owner = {habi}, timestamp = {2010.04.19}, url = {http://dx.doi.org/10.1164/rccm.200809-1522ST} } @BOOK{Hsieh2003, title = {{Computed tomography: Principles, design, artifacts, and recent advances}}, publisher = {SPIE press}, year = {2003}, author = {Hsieh, J.}, bdsk-url-1 = {http://books.google.com/books?id=JX__lLLXFHkC}, owner = {habi}, timestamp = {2009.03.02}, url = {http://books.google.com/books?id=JX__lLLXFHkC} } @ARTICLE{Hyde2007, author = {Hyde, Dallas M. and Blozis, Shelley A. and Avdalovic, Mark V. and Putney, Lei F. and Dettorre, Rachel and Quesenberry, Nathanial J. and Singh, Paramjit and Tyler, Nancy K.}, title = {{Alveoli increase in number but not size from birth to adulthood in rhesus monkeys}}, journal = {Am J Physiol Lung Cell Mol Physiol}, year = {2007}, volume = {293}, pages = {L570-579}, number = {3}, abstract = {Postnatal developmental stages of lung parenchyma in rhesus monkeys is about one-third that of humans. Alveoli in humans are reported to be formed up to 8 yr of age. We used design-based stereological methods to estimate the number of alveoli (Nalv) in male and female rhesus monkeys over the first 7 yr of life. Twenty-six rhesus monkeys (13 males ranging in age from 4 to 1,920 days and lung volumes from 41.7 to 602 cm3, 13 females ranging in age from 22 to 2,675 days and lung volumes from 43.5 to 380 cm3) were necropsied and lungs fixed, isotropically oriented, fractionated, sampled, embedded, and sectioned for alveolar counting. Parenchymal, alveolar, alveolar duct core air, and interalveolar septal tissue volumes increased rapidly during the first 2 yr with slowed growth from 2 to 7 yr. The rate of change was greater in males than females. Nalv also showed consistent growth throughout the study, with increases in Nalv best predicted by increases in lung volume. However, mean alveolar volume showed little relationship with age, lung volume, or body weight but was larger in females and showed a greater size distribution than in males. Alveoli increase in number but not volume throughout postnatal development in rhesus monkeys.}, bdsk-url-1 = {http://dx.doi.org/10.1152/ajplung.00467.2006}, file = {Hyde2007.pdf:Hyde2007.pdf:PDF}, owner = {habi}, timestamp = {2010.04.27}, url = {http://dx.doi.org/10.1152/ajplung.00467.2006} } @ARTICLE{Hyde2004, author = {D. M. Hyde and N. K. Tyler and L. F. Putney and P. Singh and H. J G Gundersen}, title = {Total number and mean size of alveoli in mammalian lung estimated using fractionator sampling and unbiased estimates of the Euler characteristic of alveolar openings.}, journal = {Anat Rec A Discov Mol Cell Evol Biol}, year = {2004}, volume = {277}, pages = {216--226}, number = {1}, month = {Mar}, abstract = {Estimation of alveolar number in the lung has traditionally been done by assuming a geometric shape and counting alveolar profiles in single, independent sections. In this study, we used the unbiased disector principle to estimate the Euler characteristic (and thereby the number) of alveolar openings in rat lungs and rhesus monkey lung lobes and to obtain robust estimates of average alveolar volume. The estimator of total alveolar number was based on systematic, uniformly random sampling using the fractionator sampling design. The number of alveoli in the rat lung ranged from 17.3 x 10(6) to 24.6 x 10(6), with a mean of 20.1 x 10(6). The average number of alveoli in the two left lung lobes in the monkey ranged from 48.8 x 10(6) to 67.1 x 10(6) with a mean of 57.7 x 10(6). The coefficient of error due to stereological sampling was of the order of 0.06 in both rats and monkeys and the biological variation (coefficient of variance between individuals) was 0.15 in rat and 0.13 in monkey (left lobe, only). Between subdivisions (left/right in rat and cranial/caudal in monkey) there was an increase in variation, most markedly in the rat. With age (2-13 years) the alveolar volume increased 3-fold (as did parenchymal volume) in monkeys, but the alveolar number was unchanged. This study illustrates that use of the Euler characteristic and fractionator sampling is a robust and efficient, unbiased principle for the estimation of total alveolar number in the lung or in well-defined parts of it.}, bdsk-url-1 = {http://dx.doi.org/10.1002/ar.a.20012}, file = {:Hyde2004.pdf:PDF}, institution = {California National Primate Research Center, University of California, Davis, 95616, USA. dmhyde@primate.ucdsavis.edu}, keywords = {Age Factors; Animals; Cell Count; Cell Fractionation; Cell Size; Female; Macaca mulatta; Male; Pulmonary Alveoli; Rats; Rats, Wistar; Statistics as Topic}, owner = {habi}, pmid = {14983516}, timestamp = {2008.02.11}, url = {http://dx.doi.org/10.1002/ar.a.20012} } @ARTICLE{Hyvaluoma2007, author = {J. Hyv\"{a}luoma and T. Turpeinen and P. Raiskinm\"{a}ki and A. J\"{a}sberg and A. Koponen and M. Kataja and J. Timonen and S. Ramaswamy}, title = {Intrusion of nonwetting liquid in paper}, journal = {Physical Review E (Statistical, Nonlinear, and Soft Matter Physics)}, year = {2007}, volume = {75}, pages = {036301}, number = {3}, eid = {036301}, bdsk-url-1 = {http://dx.doi.org/10.1103/PhysRevE.75.036301}, file = {Hyvaluoma2007.pdf:Hyvaluoma2007.pdf:PDF}, keywords = {porous materials; porosity; X-ray microscopy; ab initio calculations; lattice theory; Boltzmann equation; percolation; flow through porous media}, numpages = {4}, owner = {habi}, publisher = {APS}, timestamp = {2009.02.04}, url = {http://dx.doi.org/10.1103/PhysRevE.75.036301} } @ARTICLE{Iida2003, author = {Atsuo IIda}, title = {{X-ray analysis by synchrotron radiation-X-ray fluorescence analysis and XAFS}}, journal = {Biomed Res}, year = {2003}, volume = {14}, pages = {188--195}, number = {3}, owner = {habi}, timestamp = {2010.04.30} } @ARTICLE{Ikura2004, author = {Ikura, H. and Shimizu, K. and Ikezoe, J. and Nagareda, T. and Yagi, N.}, title = {{In vitro evaluation of normal and abnormal lungs with ultra-high-resolution CT}}, journal = {Journal of Thoracic Imaging}, year = {2004}, volume = {19}, pages = {8}, number = {1}, owner = {habi}, timestamp = {2010.04.30} } @ARTICLE{Jeanmart1983, author = {L. Jeanmart}, title = {[Radiodiagnosis from Roentgen to Hounsfield]}, journal = {Flash Inf}, year = {1983}, pages = {3--7}, keywords = {Europe; History, 20th Century; Nobel Prize; Radiography, history; Radiology, history}, language = {fre}, medline-pst = {ppublish}, owner = {habi}, pmid = {6357940}, timestamp = {2010.04.28} } @MISC{HRCT2006, author = {Hans-Holger Jend}, title = {{HRCT} der {L}unge}, howpublished = {\url{http://tinyurl.com/y8r7ev}}, month = {26. October}, year = {2006}, owner = {habi}, timestamp = {2006.12.04} } @ARTICLE{Jheon2006, author = {Jheon, S. and Youn, H.S. and Kim, H.T. and Choi, G.H. and Kim, J.K.}, title = {{High-resolution X-ray refraction imaging of rat lung and histological correlations}}, journal = {Microscopy research and technique}, year = {2006}, volume = {69}, pages = {656--659}, number = {8}, bdsk-url-1 = {http://dx.doi.org/10.1002/jemt.20335}, owner = {habi}, publisher = {New York, NY: Wiley-Liss, c1992-}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1002/jemt.20335} } @BOOK{Johns1983, title = {Physics of Radiology, Fourth Edition}, publisher = {Charles C. Thomas Publisher}, year = {1983}, author = {Harold Elford Johns and John Robert Cunningham}, edition = {4 Sub}, month = {2}, bdsk-url-1 = {http://amazon.com/o/ASIN/0398046697/}, isbn = {9780398046699}, owner = {habi}, price = {$91.95}, timestamp = {2010.03.31}, totalpages = {796}, url = {http://amazon.com/o/ASIN/0398046697/} } @ARTICLE{Jorgensen1998, author = {Jorgensen, S.M. and Demirkaya, O. and Ritman, E.L.}, title = {{Three-dimensional imaging of vasculature and parenchyma in intact rodent organs with X-ray micro-CT}}, journal = {American Journal of Physiology- Heart and Circulatory Physiology}, year = {1998}, volume = {275}, pages = {H1103}, number = {3}, owner = {habi}, publisher = {Am Physiological Soc}, timestamp = {2010.04.30} } @BOOK{Kak2002, title = {{Principles of computerized tomographic imaging}}, publisher = {IEEE Press}, year = {1988}, author = {Kak, Avinash C. and Slaney, Malcolm}, bdsk-url-1 = {http://www.slaney.org/pct/}, file = {:Kak2002.pdf:PDF}, keywords = {computerised tomography}, owner = {habi}, timestamp = {2008.04.23}, url = {http://www.slaney.org/pct/} } @ARTICLE{Kalender2004, author = {Willi Kalender}, title = {[Worthiness of Sir Godfrey N. Hounsfield]}, journal = {Z Med Phys}, year = {2004}, volume = {14}, pages = {274--275}, number = {4}, keywords = {Great Britain; History, 20th Century; Humans; Nobel Prize; Tomography, Spiral Computed, history; Tomography, X-Ray Computed, history}, language = {ger}, medline-pst = {ppublish}, owner = {habi}, pmid = {15656110}, timestamp = {2010.04.28} } @CONFERENCE{Kawata2011, author = {Y. Kawata and T. Hosokawa and N. Niki and K. Umetani and Y. Nakano and H. Ohmatsu and N. Moriyama and H. Itoh}, title = {Human pulmonary acinar airspace segmentation from three-dimensional synchrotron radiation micro CT images of secondary pulmonary lobule}, year = {2011}, editor = {John B. Weaver and Robert C. Molthen}, volume = {7965}, number = {1}, pages = {79651P}, publisher = {SPIE}, eid = {79651P}, file = {Kawata2011.pdf:Kawata2011.pdf:PDF}, journal = {Medical Imaging 2011: Biomedical Applications in Molecular, Structural, and Functional Imaging}, location = {Lake Buena Vista, Florida, USA}, numpages = {6}, owner = {habi}, review = {cites Tsuda2008}, timestamp = {2011.06.27}, url = {http://dx.doi.org/10.1117/12.877938} } @CONFERENCE{Kawata2010, author = {Y. Kawata and K. Kageyama and N. Niki and K. Umetani and K. Yada and H. Ohamatsu and N. Moriyama and H. Itoh}, title = {Microstructural analysis of secondary pulmonary lobule imaged by synchrotron radiation micro CT using offset scan mode}, year = {2010}, editor = {Robert C. Molthen and John B. Weaver}, volume = {7626}, number = {1}, pages = {762610}, publisher = {SPIE}, eid = {762610}, file = {Kawata2010.pdf:Kawata2010.pdf:PDF}, journal = {Medical Imaging 2010: Biomedical Applications in Molecular, Structural, and Functional Imaging}, location = {San Diego, California, USA}, numpages = {9}, owner = {habi}, review = {cites Tsuda2008}, timestamp = {2011.01.10}, url = {http://dx.doi.org/10.1117/12.845583} } @ARTICLE{Kelly2004, author = {Kelly, D. M. and Hasegawa, I. and Borders, R. and Hatabu, H. and Boiselle, P. M.}, title = {{High-Resolution CT Using MDCT: Comparison of Degree of Motion Artifact Between Volumetric and Axial Methods}}, journal = {Am. J. Roentgenol.}, year = {2004}, volume = {182}, pages = {757-759}, number = {3}, abstract = {OBJECTIVE. The purpose of this study was to compare the degree of motion artifact on high-resolution CT images obtained using volumetric and axial (nonvolumetric) CT methods. CONCLUSION. Volumetric high-resolution CT is associated with significantly greater motion artifact compared with axial noncontiguous high-resolution imaging.}, bdsk-url-1 = {http://www.ajronline.org/cgi/content/abstract/182/3/757}, eprint = {http://www.ajronline.org/cgi/reprint/182/3/757.pdf}, file = {Kelly2004.pdf:Kelly2004.pdf:PDF}, owner = {habi}, timestamp = {2009.09.28}, url = {http://www.ajronline.org/cgi/content/abstract/182/3/757} } @CONFERENCE{Koenig2006, author = {Matthias Koenig and Wolf Spindler and Jan Rexilius and Julien Jomier and Florian Link and Heinz-Otto Peitgen}, title = {{Embedding VTK and ITK into a visual programming and rapid prototyping platform}}, booktitle = {{Proc. SPIE / Volume 6141 / Visualization Poster Session}}, year = {2006}, editor = {Kevin R. Cleary and Robert L. Galloway and Jr.}, volume = {6141}, pages = {61412O}, publisher = {SPIE}, bdsk-url-1 = {http://dx.doi.org/10.1117/12.652102}, eid = {61412O}, file = {Koenig2006.pdf:Koenig2006.pdf:PDF}, journal = {Medical Imaging 2006: Visualization, Image-Guided Procedures, and Display}, location = {San Diego, CA, USA}, numpages = {11}, owner = {habi}, timestamp = {2007.11.19}, url = {http://dx.doi.org/10.1117/12.652102} } @ARTICLE{Kohn1893, author = {Hans Nathan Kohn}, title = {{Zur Histologie der indurirenden fibrin\"{o}sen Pneumonie}}, journal = {M\"{u}nchener Medicinische Wochenschrift}, year = {1893}, volume = {40}, pages = {42-45}, owner = {habi}, timestamp = {2010.04.06} } @ARTICLE{Kormano1979, author = {M. Kormano}, title = {[1979 Nobel laureates of physiology and medicine]}, journal = {Duodecim}, year = {1979}, volume = {95}, pages = {1643--1647}, number = {24}, keywords = {History, 20th Century; Medicine; Nobel Prize; Tomography, X-Ray Computed, history}, language = {fin}, medline-pst = {ppublish}, owner = {habi}, pmid = {397046}, timestamp = {2010.04.28} } @ARTICLE{Kruszynski2007, author = {Kruszynski, K. and Kaandorp, J. and van Liere, R.}, title = {A computational method for quantifying morphological variation in scleractinian corals}, journal = {Coral Reefs}, year = {2007}, pages = {--}, abstract = {Abstract Morphological variation in marine sessile organisms is frequently related to environmental factors. Quantifying such variation is relevant in a range of ecological studies. For example, analyzing the growth form of fossil organisms may indicate the state of the physical environment in which the organism lived. A quantitative morphological comparison is important in studies where marine sessile organisms are transplanted from one environment to another. This study presents a method for the quantitative analysis of three-dimensional (3D) images of scleractinian corals obtained with X-ray Computed Tomography scanning techniques. The advantage of Computed Tomography scanning is that a full 3D image of a complex branching object, including internal structures, can be obtained with a very high precision. There are several complications in the analysis of this data set. In the analysis of a complex branching object, landmark-based methods usually do not work and different approaches are required where various artifacts (for example cavities, holes in the skeleton, scanning artifacts, etc.) in the data set have to be removed before the analysis. A method is presented, which is based on the construction of a medial axis and a combination of image-processing techniques for the analysis of a 3D image of a complex branching object where the complications mentioned above can be overcome. The method is tested on a range of 3D images of samples of the branching scleractinian coral Madracis mirabilis collected at different depths. It is demonstrated that the morphological variation of these samples can be quantified, and that biologically relevant morphological characteristics, like branch-spacing and surface/volume ratios, can be computed.}, bdsk-url-1 = {http://dx.doi.org/10.1007/s00338-007-0270-6}, file = {Kruszynski2007.pdf:Kruszynski2007.pdf:PDF}, owner = {habi}, timestamp = {2007.08.08}, url = {http://dx.doi.org/10.1007/s00338-007-0270-6} } @PROCEEDINGS{Kruszynski2006, title = {An interactive visualization system for quantifying coral structures}, year = {2006}, editor = {B. Sousa Santos, T. Ertl, K. Joy}, address = {Lisbon, Portugal}, month = {May 2006}, organization = {Proceedings Eurographics / IEEE VGTC Symposium on Visualization (EuroVis 2006)}, author = {Kruszynski, KH AND van Liere, R AND Kaandor, JA}, file = {Kruszynski2006.pdf:Kruszynski2006.pdf:PDF}, owner = {habi}, timestamp = {2007.08.08} } @PROCEEDINGS{Kruszynski2005, title = {Quantifying Differences in Skeletonization Algorithms: a Case Study}, year = {2005}, editor = {J.J. Villanueva}, address = {Benidorm, Spain}, month = {September 2005}, organization = {Proceedings IASTED International Conference on Visualization, Imaging, \& Image Processing (VIIP 2005)}, author = {Kruszynski, K. and van Liere, R. and Kaandorp, J.}, file = {Kruszynski2005.pdf:Kruszynski2005.pdf:PDF}, owner = {habi}, timestamp = {2007.08.08} } @ARTICLE{Kuipers1977, author = {J. M. Kuipers}, title = {Reminiscences of early emiscanner development.}, journal = {Australas Radiol}, year = {1977}, volume = {21}, pages = {94--97}, number = {1}, month = {Mar}, keywords = {England; History, 20th Century; Tomography, X-Ray Computed, history}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {332145}, timestamp = {2010.04.28} } @CONFERENCE{Kvistedal2006, author = {Kvistedal, YA and Tawhai, M. and Hunter, P. and Nielsen, PMF}, title = {{High resolution 3D imaging of lung tissue using structured light microscopy}}, booktitle = {Engineering in Medicine and Biology Society, 2005. IEEE-EMBS 2005. 27th Annual International Conference of the}, year = {2006}, pages = {193--195}, publisher = {IEEE}, owner = {habi}, timestamp = {2010.04.30} } @ARTICLE{Laczay1980, author = {A. Laczay}, title = {[Nobel Prize in medicine for 1979]}, journal = {Orv Hetil}, year = {1980}, volume = {121}, pages = {463--465}, number = {8}, month = {Feb}, keywords = {England; History, 20th Century; Nobel Prize; South Africa; Tomography, X-Ray Computed, history; United States}, language = {hun}, medline-pst = {ppublish}, owner = {habi}, pmid = {6992046}, timestamp = {2010.04.28} } @ARTICLE{Lanari1979, author = {C. F. Lanari}, title = {[Nobel Prize for medicine 1979]}, journal = {Medicina (B Aires)}, year = {1979}, volume = {39}, pages = {853--854}, number = {6}, keywords = {History of Medicine; Humans; Medicine; Nobel Prize; Tomography, X-Ray Computed}, language = {spa}, medline-pst = {ppublish}, owner = {habi}, pmid = {398942}, timestamp = {2010.04.28} } @ARTICLE{Langheinrich2004a, author = {Langheinrich, A.C. and Leith\"{a}user, B. and Greschus, S. and von Gerlach, S. and Breithecker, A. and Matthias, F.R. and Rau, W.S. and Bohle, R.M.}, title = {{Acute rat lung injury: feasibility of assessment with micro-CT}}, journal = {Radiology}, year = {2004}, volume = {233}, pages = {165}, number = {1}, bdsk-url-1 = {http://dx.doi.org/10.1148/radiol.2331031340}, owner = {habi}, publisher = {RSNA}, timestamp = {2010.04.29}, url = {http://dx.doi.org/10.1148/radiol.2331031340} } @ARTICLE{Langheinrich2004, author = {A. C. Langheinrich and R. M. Bohle and A. Breithecker and D. Lommel and W. S. Rau}, title = {Micro-computed tomography of the vasculature in parenchymal organs and lung alveoli}, journal = {Rofo}, year = {2004}, volume = {176}, pages = {1219--1225}, number = {9}, month = {Sep}, abstract = {Micro-CT has become a powerful technique in non-destructive 3D imaging and morphometric analysis. First results were limited to the investigation of osteoporosis in cancellous bone. But the availability of systems with almost microscopic resolution and sufficient soft tissue contrast has opened up entirely new applications for laboratory investigation of blood vessels and soft tissues. This article gives an overview of micro-CT technology and the potential of three-dimensional imaging of the vessel wall and soft-tissue architecture imaging in different organs using different contrast perfusion and staining techniques. Micro-CT provides quantitative information on human plaque morphology equivalent to histomorphometric analysis. Based on differences in grey-scale attenuations, micro-CT also correctly identifies atherosclerotic lesions that are histologically classified as fibrous plaques, calcified lesions, fibroatheroma, and lipid rich lesions. Micro-CT is a promising method to visualize the architecture of the renal vasculature and, importantly, to separate cortex and medulla for the visualization of glomeruli and their afferent and efferent arterioles. Micro-CT can determine the vascular surface in a defined placental volume. Combining of micro-CT data and total placental volume enables an estimation of the approximate surface of the placental vasculature. The diameter of opacified vessels in the investigated samples ranged from 2 mm (chorion plate artery) to 14 micro m (smallest vessel diameter, terminal loop). Recognizing that lung parenchyma can only be visualized if the alveoli are completely expanded and the contrast of the thin alveolar walls is enhanced, we tested two preparation methods: (1) fixation of lung tissue with formalin vapour and staining with silver nitrate, and (2) intravenous injection of a barium sulfate-gelatine-thymol mixture in vivo in the anesthetized animal. We evaluated the ability of this mixture to enter the pulmonary microcirculation and the technical feasibility of micro-CT to assess lung micro-architecture.}, bdsk-url-1 = {http://dx.doi.org/10.1055/s-2004-813403}, file = {Langheinrich2004.pdf:Langheinrich2004.pdf:PDF}, institution = {Abteilung f\"{u}r Diagnostische Radiologie, Justus-Liebig-Universit\"{a}t Giessen.}, keywords = {Animals; Arterioles, radiography; Arteriosclerosis, pathology/radiography; Blood Vessels, pathology; Feasibility Studies; Female; Histological Techniques; Humans; Imaging, Three-Dimensional; Male; Mice; Microcirculation; Microradiography; Placenta, blood supply/radiography; Pulmonary Alveoli, radiography; Rabbits; Staining and Labeling; Tomography, X-Ray Computed, methods}, language = {ger}, medline-pst = {ppublish}, owner = {habi}, pmid = {15346254}, timestamp = {2010.04.22}, url = {http://dx.doi.org/10.1055/s-2004-813403} } @ARTICLE{Lee2008, author = {Lee, Dongyoub and Fanucchi, Michelle V. and Plopper, Charles G. and Fung, Jennifer and Wexler, Anthony S.}, title = {{Pulmonary Architecture in the Conducting Regions of Six Rats}}, journal = {The Anatomical Record: Advances in Integrative Anatomy and Evolutionary Biology}, year = {2008}, volume = {291}, pages = {916--926}, number = {8}, abstract = {Rats are widely used for studies of pulmonary toxicology and lung disease. Several studies suggest nominal geometric parameters describing the architecture of the rat airway. However, intersubject variance has never been reported due to the huge effort and time to take these manual measurements. In this study, we present statistics of the branching pattern of six healthy male Sprague Dawley rats by automatically analyzing computed tomography images of silicon casts of their airways. Details of branching characteristics and also intersubject variance are presented. In addition, this study shows that mean and standard deviation of many geometric parameters insufficiently represent pulmonary architecture because some, such as diameter-asymmetry, are not normally distributed. Detailed statistics including inter- and intrasubject variance and distribution of the geometric parameters will aid in constructing more realistic airway models for particle transport and studies of normal and abnormal respiratory physiology. Anat Rec, 291:916-926, 2008. � 2008 Wiley-Liss, Inc.}, bdsk-url-1 = {http://dx.doi.org/10.1002/ar.20726}, file = {Lee2008.pdf:Lee2008.pdf:PDF}, owner = {habi}, timestamp = {2008.09.30}, url = {http://dx.doi.org/10.1002/ar.20726} } @ARTICLE{Leutner2001, author = {Leutner, C. and Schild, H.}, title = {{MRT} des {L}ungenparenchyms}, journal = {R\"{o}Fo - Fortschritte auf dem Gebiet der R\"{o}ntgenstrahlen und der Bildgebenden Verfahren}, year = {2001}, pages = {168--175}, number = {3}, bdsk-url-1 = {http://dx.doi.org/10.1055/s-2001-11593}, file = {Leutner2001.pdf:Leutner2001.pdf:PDF}, owner = {habi}, refid = {101055S200111593}, timestamp = {2007.08.16}, url = {http://dx.doi.org/10.1055/s-2001-11593} } @ARTICLE{Ley2008, author = {Ley-Zaporozhan, J. and Ley, S. and Kauczor, H.U.}, title = {{Morphological and functional imaging in COPD with CT and MRI: present and future}}, journal = {European Radiology}, year = {2008}, volume = {18}, pages = {510--521}, number = {3}, bdsk-url-1 = {http://dx.doi.org/10.1007/s00330-007-0772-1}, owner = {habi}, publisher = {Springer}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1007/s00330-007-0772-1} } @ARTICLE{Link1998, author = {T. M. Link and S. Majumdar and P. Augat and J. C. Lin and D. Newitt and Y. Lu and N. E. Lane and H. K. Genant}, title = {In vivo high resolution MRI of the calcaneus: differences in trabecular structure in osteoporosis patients.}, journal = {J Bone Miner Res}, year = {1998}, volume = {13}, pages = {1175--1182}, number = {7}, month = {Jul}, abstract = {The purpose of this study was to use high resolution (HR) magnetic resonance (MR) images of the calcaneus to investigate the trabecular structure of patients with and without osteoporotic hip fractures and to compare these techniques with bone mineral density (BMD) in differentiating fracture and nonfracture patients. Axial and sagittal HR MR images of the calcaneus were obtained in 50 female (23 postmenopausal patients with osteoporotic hip fractures and 27 postmenopausal controls). A three-dimensional gradient-echo sequence was used with a slice thickness of 500 micron and in plane resolution of 195 x 195 micron. Texture analysis was performed using morphological features, analogous to standard histomorphometry and fractal dimension. Additionally, BMd measurements of the hip (dual-energy X-ray absorptiometry) were obtained in all patients. Significant differences between both patient groups were obtained using morphological parameters and fractal dimension as well as hip BMD (p < 0.05). Odds ratios for the texture parameters apparent (app.) bone volume/total volume and app. trabecular separation were higher than for hip BMD. Receiver operator characteristic values of texture measures and hip BMD were comparable. In conclusion, trabecular structure measures derived from HR MR images of the calcaneus can differentiate between postmenopausal women with and without osteoporotic hip fractures.}, file = {Link1998.pdf:Link1998.pdf:PDF}, keywords = {Aged; Aged, 80 and over; Bone Density; Calcaneus; Densitometry, X-Ray; Female; Hip Fractures; Hip Joint; Humans; Magnetic Resonance Imaging; Osteoporosis, Postmenopausal}, owner = {habi}, pmid = {9661082}, timestamp = {2007.08.16} } @ARTICLE{Litzlbauer2006, author = {Litzlbauer, H.D. and Neuhaeuser, C. and Moell, A. and Greschus, S. and Breithecker, A. and Franke, F.E. and Kummer, W. and Rau, W.S.}, title = {{Three-dimensional imaging and morphometric analysis of alveolar tissue from microfocal X-ray-computed tomography}}, journal = {American Journal of Physiology- Lung Cellular and Molecular Physiology}, year = {2006}, volume = {291}, pages = {L535}, number = {3}, bdsk-url-1 = {http://dx.doi.org/10.1152/ajplung.00088.2005}, file = {Litzlbauer2006.pdf:Litzlbauer2006.pdf:PDF}, owner = {habi}, publisher = {Am Physiological Soc}, timestamp = {2010.04.13}, url = {http://dx.doi.org/10.1152/ajplung.00088.2005} } @ARTICLE{Litzlbauer2010, author = {Litzlbauer, H. D. and Korbel, K. and Kline, T. L. and Jorgensen, S. M. and Eaker, D. R. and Bohle, R. M. and Ritman, E. L. and Langheinrich, A. C.}, title = {Synchrotron-Based Micro-CT Imaging of the Human Lung Acinus}, journal = {Anat Rec}, year = {2010}, volume = {293}, pages = {1607--1614}, number = {9}, abstract = {Abstract 10.1002/ar.21161.abs Structural data about the human lung fine structure are mainly based on stereological methods applied to serial sections. As these methods utilize 2D images, which are often not contiguous, they suffer from inaccuracies which are overcome by analysis of 3D micro-CT images of the never-sectioned specimen. The purpose of our study was to generate a complete data set of the intact three-dimensional architecture of the human acinus using high-resolution synchrotron-based micro-CT (synMCT). A human lung was inflation-fixed by formaldehyde ventilation and then scanned in a 64-slice CT over its apex to base extent. Lung samples (8-mm diameter, 10-mm height, N = 12) were punched out, stained with osmium tetroxide, and scanned using synMCT at (4 μm)3 voxel size. The lung functional unit (acinus, N = 8) was segmented from the 3D tomographic image using an automated tree-analysis software program. Morphometric data of the lung were analyzed by ANOVA. Intra-acinar airways branching occurred over 11 generations. The mean acinar volume was 131.3 ± 29.2 mm3 (range, 92.5–171.3 mm3) and the mean acinar surface was calculated with 1012 ± 26 cm2. The airway internal diameter (starting from the bronchiolus terminalis) decreases distally from 0.66 ± 0.04 mm to 0.34 ± 0.06 mm (P < 0.001) and remains constant after the seventh generation (P < 0.5). The length of each generation ranges between 0.52 and 0.93 mm and did not show significant differences between the second and eleventh generation. The branching angle between daughter branches varies between 113-degree and 134-degree without significant differences between the generations (P < 0.3). This study demonstrates the feasibility of quantitating the 3D structure of the human acinus at the spatial resolution readily achievable using synMCT. Anat Rec 293:1607–1614, 2010. © 2010 Wiley-Liss, Inc.}, file = {Litzlbauer2010.pdf:Litzlbauer2010.pdf:PDF}, issn = {1932-8494}, keywords = {imaging, human lung, acinus, micro-CT}, owner = {habi}, publisher = {Wiley Subscription Services, Inc., A Wiley Company}, timestamp = {2010.09.20}, url = {http://dx.doi.org/10.1002/ar.21161} } @ARTICLE{Lowe2004, author = {Lowe, David G.}, title = {Distinctive Image Features from Scale-Invariant Keypoints}, journal = {International Journal of Computer Vision}, year = {2004}, volume = {60}, pages = {91--110}, number = {2}, month = nov, abstract = {This paper presents a method for extracting distinctive invariant features from images that can be used to perform reliable matching between different views of an object or scene. The features are invariant to image scale and rotation, and are shown to provide robust matching across a substantial range of affine distortion, change in 3D viewpoint, addition of noise, and change in illumination. The features are highly distinctive, in the sense that a single feature can be correctly matched with high probability against a large database of features from many images. This paper also describes an approach to using these features for object recognition. The recognition proceeds by matching individual features to a database of features from known objects using a fast nearest-neighbor algorithm, followed by a Hough transform to identify clusters belonging to a single object, and finally performing verification through least-squares solution for consistent pose parameters. This approach to recognition can robustly identify objects among clutter and occlusion while achieving near real-time performance.}, bdsk-url-1 = {http://dx.doi.org/10.1023/B:VISI.0000029664.99615.94}, file = {:P\:\\doc\\Papers-Books-Works\\Lowe2004.pdf:PDF}, owner = {habi}, timestamp = {2010.06.09}, url = {http://dx.doi.org/10.1023/B:VISI.0000029664.99615.94} } @ARTICLE{Lucic2005, author = {Lu\u{c}i\'{c}, Vladan and F\"{o}rster, Friedrich and Baumeister, Wolfgang}, title = {{Structural Studies by Electron Tomography: From Cells to Molecules}}, journal = {Annual Review of Biochemistry}, year = {2005}, volume = {74}, pages = {833-865}, number = {1}, bdsk-url-1 = {http://dx.doi.org/10.1146/annurev.biochem.73.011303.074112}, file = {Lucic2005.pdf:Lucic2005.pdf:PDF}, owner = {habi}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1146/annurev.biochem.73.011303.074112} } @ARTICLE{Lucic2008, author = {Lu\u{c}i\'{c}, Vladan and Leis, Andrew and Baumeister, Wolfgang}, title = {Cryo-electron tomography of cells: connecting structure and function}, journal = {Histochemistry and Cell Biology}, year = {2008}, volume = {130}, pages = {185--196}, number = {2}, month = aug, abstract = {Abstract Cryo-electron tomography (cryo-ET) allows the visualization of cellular structures under close-to-life conditions and at molecular resolution. While it is inherently a static approach, yielding structural information about supramolecular organization at a certain time point, it can nevertheless provide insights into function of the structures imaged, in particular, when supplemented by other approaches. Here, we review the use of experimental methods that supplement cryo-ET imaging of whole cells. These include genetic and pharmacological manipulations, as well as correlative light microscopy and cryo-ET. While these methods have mostly been used to detect and identify structures visualized in cryo-ET or to assist the search for a feature of interest, we expect that in the future they will play a more important role in the functional interpretation of cryo-tomograms.}, bdsk-url-1 = {http://dx.doi.org/10.1007/s00418-008-0459-y}, file = {Lucic2008.pdf:Lucic2008.pdf:PDF}, owner = {habi}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1007/s00418-008-0459-y} } @ARTICLE{Luyet2002, author = {Cedric Luyet and Peter H Burri and Johannes C Schittny}, title = {{Suppression of cell proliferation and programmed cell death by dexamethasone during postnatal lung development}}, journal = {American Journal of Physiology- Lung Cellular and Molecular Physiology}, year = {2002}, volume = {282}, pages = {477--483}, number = {3}, bdsk-url-1 = {http://dx.doi.org/10.1152/ajplung.00406.2000}, file = {Luyet2002.pdf:Luyet2002.pdf:PDF}, owner = {habi}, publisher = {Am Physiological Soc}, timestamp = {2009.07.20}, url = {http://dx.doi.org/10.1152/ajplung.00406.2000} } @OTHER{Alveoli, author = {Patrick J. Lynch}, bdsk-url-1 = {http://en.wikipedia.org/wiki/File:Bronchial_anatomy.jpg}, comment = {Creative Commons Attribution 2.5 License 2006}, note = {[Online; 20.04.2010]}, owner = {habi}, timestamp = {2010.04.20}, title = {Bronchial anatomy detail of alveoli and lung circulation}, url = {http://en.wikipedia.org/wiki/File:Bronchial_anatomy.jpg}, year = {2010} } @OTHER{LungDiagram, author = {Patrick J. Lynch}, bdsk-url-1 = {http://en.wikipedia.org/wiki/File:Lungs_diagram_detailed.svg}, comment = {Creative Commons Attribution 2.5 License 2006}, note = {[Online; 18.03.2010]}, owner = {habi}, timestamp = {2010.03.18}, title = {Lungs diagram with internal detail}, url = {http://en.wikipedia.org/wiki/File:Lungs_diagram_detailed.svg}, year = {2010} } @ARTICLE{Muhlfeld2008, author = {M\"{u}hlfeld, Christian and Rothen-Rutishauser, Barbara and Blank, Fabian and Vanhecke, Dimitri and Ochs, Matthias and Gehr, Peter}, title = {{Interactions of nanoparticles with pulmonary structures and cellular responses}}, journal = {Am J Physiol Lung Cell Mol Physiol}, year = {2008}, volume = {294}, pages = {L817-829}, number = {5}, abstract = {Combustion-derived and synthetic nano-sized particles (NSP) have gained considerable interest among pulmonary researchers and clinicians for two main reasons. 1) Inhalation exposure to combustion-derived NSP was associated with increased pulmonary and cardiovascular morbidity and mortality as suggested by epidemiological studies. Experimental evidence has provided a mechanistic picture of the adverse health effects associated with inhalation of combustion-derived and synthetic NSP. 2) The toxicological potential of NSP contrasts with the potential application of synthetic NSP in technological as well as medicinal settings, with the latter including the use of NSP as diagnostics or therapeutics. To shed light on this paradox, this article aims to highlight recent findings about the interaction of inhaled NSP with the structures of the respiratory tract including surfactant, alveolar macrophages, and epithelial cells. Cellular responses to NSP exposure include the generation of reactive oxygen species and the induction of an inflammatory response. Furthermore, this review places special emphasis on methodological differences between experimental studies and the caveats associated with the dose metrics and points out ways to overcome inherent methodological problems.}, bdsk-url-1 = {http://dx.doi.org/10.1152/ajplung.00442.2007}, eprint = {http://ajplung.physiology.org/cgi/reprint/294/5/L817.pdf}, file = {Muhlfeld2008.pdf:Muhlfeld2008.pdf:PDF}, owner = {habi}, timestamp = {2010.04.15}, url = {http://dx.doi.org/10.1152/ajplung.00442.2007} } @ARTICLE{Mueller1994, author = {R. M\"{u}ller and T. Hildebrand and P. R\"{u}egsegger}, title = {Non-invasive bone biopsy: a new method to analyse and display the three-dimensional structure of trabecular bone.}, journal = {Phys Med Biol}, year = {1994}, volume = {39}, pages = {145--164}, number = {1}, month = {Jan}, abstract = {Three-dimensional structure is one of the main factors influencing the mechanical behaviour of cancellous bone. To analyse the trabecular bone structure non-destructively we used a peripheral QCT system and applied a special thin-slice technique to create high-resolution volumetric data sets serving as a basis for something we would like to call non-invasive bone biopsy. In order to obtain binary data sets, the mineralized bone in the CT volume was separated from bone marrow and muscle tissue with the help of a sophisticated three-dimensional segmentation algorithm based on the analysis of directional derivatives, which are computed from a locally approximated fit function of the original CT volume. Binary volumes including either a solid representation of trabecular plates and rods or a topological representation of the cancellous bone architecture were acquired. Such volumes can be processed non-destructively and, even more important, repetitively. By using a surface reconstruction algorithm based on interpolating triangulation it was possible to visualize the three-dimensional surface of the trabecular bone structure. The results showed that surface representation and visualization in combination with a multiple thin-slice measuring technique are valuable tools in studying three-dimensional bone architecture. In the future, the non-invasive bone biopsies will be evaluated by means of three-dimensional mechanical analysis incorporating finite element modelling and direct morphological investigations of the cancellous bone architecture for a better prediction of bone strength as an index for fracture risk or osteoporosis.}, file = {Mueller1994.pdf:Mueller1994.pdf:PDF}, keywords = {Biopsy; Bone and Bones; Humans; Mathematics; Models, Anatomic; Models, Structural; Radius; Tomography, X-Ray Computed}, owner = {habi}, pmid = {7651993}, timestamp = {2006.12.14} } @ARTICLE{Mueller1998, author = {M\"{u}ller, R. and Van Campenhout, H. and Van Damme, B. and Van der Perre, G. and Dequeker, J. and Hildebrand, T. and R\"{u}egsegger, P.}, title = {Morphometric Analysis of Human Bone Biopsies: A Quantitative Structural Comparison of Histological Sections and Micro-Computed Tomography}, journal = {Bone}, year = {1998}, volume = {23}, pages = {59--66}, number = {1}, month = jul, abstract = {As a part of the European Union BIOMED I study "Assessment of Bone Quality in Osteoporosis," the trabecular structure of transiliac bone biopsies was assessed by conventional histomorphometry and by three-dimensional microcomputed tomography ([mu]CT). Sixty-three cylindrical human transiliac bone specimens were obtained post mortem from 27 women and 36 men (age 23-92 years) and evaluated morphometrically in this study. For the conventional histomorphometric analysis, a pair of four undecalcified sections were prepared from two regions in the mediolateral plane of the bone cores. The sections were stained with the von Kossa technique to obtain high-contrast two-dimensional images. Prior to the histologic sectioning the samples were measured with a desktop [mu]CT, providing a 14 [mu]m nominal resolution. The morphometric parameters computed by both methods in two or three dimensions, respectively, were bone volume density (BV/TV), bone surface density (BS/TV), trabecular thickness (Tb.Th), and trabecular separation (Tb.Sp). Results showed highly significant (p < 0.0001) correlations between conventional histology and [mu]CT for BV/TV (r = 0.93), BS/TV (r = 0.91), Tb.Th (r = 0.84), and Tb.Sp (r = 0.91). The mean percentage differences between histology and [mu]CT ranged from 2.5% (BV/TV) to 6.1% (Tb.Th). The high correlations and the low differences in terms of absolute numbers between conventional histomorphometric and micro-tomographic analysis are very promising for the use of micro-tomographic imaging. [mu]CT is a nondestructive, fast, and very precise procedure that allows the measurement of cancellous and compact bone in unprocessed biopsies or small bones, as well as a fully automatic determination of three-dimensional morphometric indices.}, bdsk-url-1 = {http://www.sciencedirect.com/science/article/B6T4Y-3V8D6R0-9/2/216deea29a1f01b35c5cae6f6ba70ab5}, file = {Mueller1998.pdf:Mueller1998.pdf:PDF}, keywords = {Histologic section, Micro-computed tomography ([mu]CT, micro-CT), Quantitative bone morphometry, Bone architecture, Trabecular bone, Iliac crest}, owner = {habi}, timestamp = {2008.11.12}, url = {http://www.sciencedirect.com/science/article/B6T4Y-3V8D6R0-9/2/216deea29a1f01b35c5cae6f6ba70ab5} } @ARTICLE{Mader2011, author = {Kevin Mader and Federica Marone and Christoph Hintermüller and Gordan Mikuljan and Andreas Isenegger and Marco Stampanoni}, title = {High-throughput full-automatic synchrotron-based tomographic microscopy}, journal = {J. Synchrotron Rad.}, year = {2011}, volume = {18}, file = {Mader2011.PDF:Mader2011.PDF:PDF}, owner = {habi}, timestamp = {2011.01.21}, url = {http://dx.doi.org/10.1107/S0909049510047370} } @ARTICLE{Mandelbrot1967, author = {Mandelbrot, B.}, title = {{How long is the coast of Britain? Statistical self-similarity and fractional dimension}}, journal = {Science}, year = {1967}, volume = {156}, pages = {636}, number = {3775}, bdsk-url-1 = {http://dx.doi.org/10.1126/science.156.3775.636}, file = {Mandelbrot1967.pdf:Mandelbrot1967.pdf:PDF}, owner = {habi}, publisher = {AAAS}, timestamp = {2010.04.28}, url = {http://dx.doi.org/10.1126/science.156.3775.636} } @BOOK{Margaritondo2002, title = {Elements of Synchrotron Light: For Biology, Chemistry, and Medical Research (Physics)}, publisher = {Oxford University Press, USA}, year = {2002}, author = {Giorgio Margaritondo}, isbn = {0198509316}, owner = {habi}, timestamp = {2010.03.23} } @ARTICLE{Margaritondo2010, author = {Margaritondo, G. and Rebernik Ribic, Primoz}, title = {{A simplified description of X-ray free-electron lasers}}, journal = {Journal of Synchrotron Radiation}, year = {2011}, volume = {18}, pages = {101--108}, number = {2}, month = {Mar}, file = {Margaritondo2010.pdf:Margaritondo2010.pdf:PDF}, owner = {habi}, review = {Aims to be "the simplest description so far", but is still quite complicated...}, timestamp = {2011.06.08}, url = {http://dx.doi.org/10.1107/S090904951004896X} } @INPROCEEDINGS{Marone2008, author = {Federica Marone and Christoph Hinterm\"{u}ller and Roman Geus and Marco Stampanoni}, title = {{Towards real-time tomography: Fast reconstruction algorithms and GPU implementation}}, booktitle = {IEEE Nuclear Science Symposium Conference Record, 2008. NSS'08}, year = {2008}, pages = {555--561}, organization = {IEEE}, owner = {habi}, timestamp = {2010.01.12} } @ARTICLE{Martone2002, author = {Maryann E. Martone and Amarnath Gupta and Mona Wong and Xufei Qian and Gina Sosinsky and Bertram Lud{\"a}scher and Mark H. Ellisman}, title = {A cell-centered database for electron tomographic data}, journal = {Journal of Structural Biology}, year = {2002}, volume = {138}, pages = {145 - 155}, number = {1-2}, bdsk-url-1 = {http://dx.doi.org/10.1016/S1047-8477(02)00006-0}, issn = {1047-8477}, keywords = {Electron tomography}, owner = {habi}, timestamp = {2010.05.12}, url = {http://dx.doi.org/10.1016/S1047-8477(02)00006-0} } @PATENT{Minsky1961, number = {3013467}, year = {1961}, author = {Marvin, Minsky}, title = {Microscopy apparatus}, month = {December}, url = {http://www.freepatentsonline.com/3013467.html}, bdsk-url-1 = {http://www.freepatentsonline.com/3013467.html}, file = {Minsky1961.pdf:Minsky1961.pdf:PDF}, owner = {habi}, timestamp = {2010.04.09} } @ARTICLE{Mason2001, author = {J. W. Mason}, title = {Amiodarone pulmonary toxicity and Professor Hounsfield.}, journal = {J Cardiovasc Electrophysiol}, year = {2001}, volume = {12}, pages = {437--438}, number = {4}, month = {Apr}, keywords = {Amiodarone, adverse effects; Anti-Arrhythmia Agents, adverse effects; History, 20th Century; Humans; Lung Diseases, chemically induced/radiography; Tomography, X-Ray Computed, history}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {11332564}, timestamp = {2010.04.28} } @ARTICLE{Massaro1985, author = {D. Massaro and N. Teich and S. Maxwell and G. D. Massaro and P. Whitney}, title = {Postnatal development of alveoli. Regulation and evidence for a critical period in rats.}, journal = {J Clin Invest}, year = {1985}, volume = {76}, pages = {1297--1305}, number = {4}, month = {Oct}, abstract = {In many species, including humans, pulmonary alveoli are formed after birth by septal subdivision of the large gas-exchange saccules present at birth. In rats septation occurs mainly between the 4th and 14th postnatal days (Burri, P. H. 1974. Anat. Rec. 180:77-98), but little is known about the regulation of this process. We found that dexamethasone (0.1 micrograms daily) given to rats from age 4 to 13 d markedly impaired saccule septation to at least age 60 d and also diminished the extent of the increase of alveolar surface area (Sa). Underfeeding from birth to age 14 d did not diminish saccule septation but did result in diminished Sa. We conclude dexamethasone-treated rats have a critical period during which the gas-exchange saccules present at birth must be subdivided. Since Sa increased in dexamethasone-treated rats without a change in alveolar size, and, the enlargement of Sa was diminished in underfed rat pups without a deficit of saccule septation, we postulate new alveoli were formed by means other than septation of the large gas-exchange saccules present at birth. Furthermore, these various means of forming alveoli, and hence of increasing Sa, were differently regulated: dexamethasone decreased the enlargement of Sa brought about by both septation of the gas-exchange saccules present at birth and by other, as yet unidentified, means of forming alveoli; underfeeding did not diminish Sa increases produced by saccule septation but did decrease the extent of Sa enlargement due to the other means of forming alveoli.}, bdsk-url-1 = {http://dx.doi.org/10.1172/JCI112103}, file = {Massaro1985.pdf:Massaro1985.pdf:PDF}, keywords = {Animals; Body Weight; DNA Replication, drug effects; DNA, analysis; Dexamethasone, pharmacology; Female; Litter Size; Lung Volume Measurements; Male; Pulmonary Alveoli, drug effects/growth /&/ development/ultrastructure; Rats; Rats, Inbred Strains, growth /&/ development}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {4056033}, timestamp = {2010.04.28}, url = {http://dx.doi.org/10.1172/JCI112103} } @ARTICLE{Massaro1996b, author = {G. D. Massaro and D. Massaro}, title = {Formation of pulmonary alveoli and gas-exchange surface area: quantitation and regulation.}, journal = {Annu Rev Physiol}, year = {1996}, volume = {58}, pages = {73--92}, abstract = {New morphometric procedures allow selection of alveoli for analysis in an unbiased manner and then to determine the volume of individual alveoli. The latter, together with the easily measured lung volume, allows the calculation of alveolar number. These new techniques have greatly increased the rigor of the study of the formation of alveoli and the manner in which this process is regulated. This review deals mainly with work based on these new morphometric methods that explore the regulation of the formation of alveoli and hence the size of the lung's gas-exchange surface area. We expect that continued application of these methods, buttressed with experiments at the cellular and molecular level, will result in a fundamental understanding of how the formation of alveoli and the size of the gas-exchange surface area is regulated. This new information holds the promise of translation into the induction of the formation of alveoli for therapeutic purposes.}, bdsk-url-1 = {http://dx.doi.org/10.1146/annurev.ph.58.030196.000445}, institution = {Department of Pediatrics, Georgetown University School of Medicine, Washington, DC 20007, USA.}, keywords = {Animals; Humans; Pulmonary Alveoli, growth /&/ development/physiology; Pulmonary Gas Exchange, physiology; Surface Properties}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {8815817}, timestamp = {2010.05.05}, url = {http://dx.doi.org/10.1146/annurev.ph.58.030196.000445} } @ARTICLE{Massaro1992, author = {G. D. Massaro and D. Massaro}, title = {Formation of alveoli in rats: postnatal effect of prenatal dexamethasone.}, journal = {Am J Physiol}, year = {1992}, volume = {263}, pages = {L37--L41}, number = {1 Pt 1}, month = {Jul}, abstract = {We administered a glucocorticosteroid (dexamethasone) or its diluent to pregnant rats on gestation days 17, 18, and 19. In male offspring we determined the lung's gas exchange surface area (S(a)), the average volume (v) of gas exchange saccules at age 2 days and alveoli at age 14 days, and their number (N) on these days. S(a), v, and N at 2 days and v at 14 days were not affected by the prenatal administration of dexamethasone. However, S(a) and N were lower in 14-day-old pups from dexamethasone-treated dams than in pups from diluent-treated dams. In separate experiments we found the responsiveness to prenatal dexamethasone, as a depressor of the postnatal increase in S(a), appeared earlier in female than male fetuses; it was present in female but not in male fetuses on days 16-18 and was found in male fetuses on days 17-19. We conclude 1) prenatal administration of dexamethasone diminishes the postnatal increase in S(a), 2) responsiveness to this action of dexamethasone occurs earlier in gestation in female than in male fetuses, and 3) prenatal dexamethasone does not effect the postnatal volume of an average alveolus but diminishes their number in male pups.}, institution = {Lung Biology Laboratory, Georgetown University Medical Center, Washington, DC 20007.}, keywords = {Animals; Dexamethasone, pharmacology; Embryonic and Fetal Development, drug effects; Female; Gestational Age; Pregnancy; Prenatal Exposure Delayed Effects; Pulmonary Alveoli, embryology; Pulmonary Gas Exchange; Rats; Rats, Inbred Strains}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {1636728}, timestamp = {2010.05.05} } @ARTICLE{Mazzone1981, author = {Mazzone, R. W. and Kornblau, S.}, title = {{Size of pores of Kohn: influence of transpulmonary and vascular pressures}}, journal = {J Appl Physiol}, year = {1981}, volume = {51}, pages = {739-745}, number = {3}, bdsk-url-1 = {http://jap.physiology.org/cgi/content/abstract/51/3/739}, eprint = {http://jap.physiology.org/cgi/reprint/51/3/739.pdf}, file = {Mazzone1981.pdf:Mazzone1981.pdf:PDF}, owner = {habi}, timestamp = {2010.04.06}, url = {http://jap.physiology.org/cgi/content/abstract/51/3/739} } @ARTICLE{McDonald2009a, author = {S A McDonald and F Marone and C Hinterm\"{u}ller and J-C Bensadoun and P Aebischer and M Stampanoni}, title = {High-throughput, high-resolution X-ray phase contrast tomographic microscopy for visualisation of soft tissue}, journal = {Journal of Physics: Conference Series}, year = {2009}, volume = {186}, pages = {012043--}, number = {1}, file = {McDonald2009a.pdf:McDonald2009a.pdf:PDF}, issn = {1742-6596}, owner = {habi}, timestamp = {2010.09.29}, url = {http://dx.doi.org/10.1088/1742-6596/186/1/012043} } @ARTICLE{McDonald2009, author = {McDonald, Samuel Alan and Marone, Federica and Hinterm{\"{u}}ller, Christoph and Mikuljan, Gordan and David, Christian and Pfeiffer, Franz and Stampanoni, Marco}, title = {{Advanced phase-contrast imaging using a grating interferometer}}, journal = {Journal of Synchrotron Radiation}, year = {2009}, volume = {16}, pages = {562--572}, number = {4}, month = {Jul}, bdsk-url-1 = {http://dx.doi.org/10.1107/S0909049509017920}, file = {McDonald2009.pdf:McDonald2009.pdf:PDF}, owner = {habi}, timestamp = {2009.06.17}, url = {http://dx.doi.org/10.1107/S0909049509017920} } @ARTICLE{Mcnamara1992, author = {McNamara, AE and Muller, NL and Okazawa, M. and Arntorp, J. and Wiggs, BR and Pare, PD}, title = {{Airway narrowing in excised canine lungs measured by high-resolution computed tomography}}, journal = {Journal of Applied Physiology}, year = {1992}, volume = {73}, pages = {307}, number = {1}, owner = {habi}, publisher = {Am Physiological Soc}, timestamp = {2010.04.30} } @ARTICLE{Mercer1987, author = {Mercer, RR and Laco, JM and Crapo, JD}, title = {{Three-dimensional reconstruction of alveoli in the rat lung for pressure-volume relationships}}, journal = {Journal of Applied Physiology}, year = {1987}, volume = {62}, pages = {1480}, number = {4}, file = {Mercer1987.pdf:Mercer1987.pdf:PDF}, owner = {habi}, publisher = {Am Physiological Soc}, timestamp = {2010.04.30} } @ARTICLE{Miedaner2007, author = {{Miedaner}, M.~M. and {Huthwelker}, T. and {Enzmann}, F. and {Kersten}, M. and {Stampanoni}, M. and {Ammann}, M.}, title = {{X-ray tomographic characterization of impurities in polycrystalline ice}}, journal = {Physics and Chemistry of Ice: proceedings of the 11th International Conference on the Physics and Chemistry of Ice held at Bremerhaven, Germany on 23-28 July, 2006}, year = {2007}, pages = {399-+}, adsnote = {Provided by the SAO/NASA Astrophysics Data System}, adsurl = {http://adsabs.harvard.edu/abs/2007pci..conf..399M}, booktitle = {Physics and Chemistry of Ice}, editor = {{Kuhs}, W.~F.}, owner = {habi}, timestamp = {2008.08.25} } @ARTICLE{Missbach-Guentner2007, author = {Missbach-Guentner, J. and Dullin, C. and Zientkowska, M. and Domeyer-Missbach, M. and Kimmina, S. and Obenauer, S. and Kauer, F. and St{\"{u}}hmer, W. and Grabbe, E. and Vogel, W.F. and others}, title = {{Flat-Panel Detector-Based Volume Computed Tomography: A Novel 3D Imaging Technique to Monitor Osteolytic Bone Lesions in a Mouse Tumor Metastasis Model}}, journal = {Neoplasia (New York, NY)}, year = {2007}, volume = {9}, pages = {755}, number = {9}, bdsk-url-1 = {http://dx.doi.org/10.1593/neo.07466}, owner = {habi}, publisher = {Neoplasia Press}, timestamp = {2009.01.06}, url = {http://dx.doi.org/10.1593/neo.07466} } @ARTICLE{Mokso2011, author = {R. Mokso and F. Marone and D. Haberth\"{u}r and J. C. Schittny and G. Mikuljan and A. Isenegger and M. Stampanoni}, title = {Following Dynamic Processes by X-ray Tomographic Microscopy with Sub-second Temporal Resolution}, journal = {AIP Conference Proceedings}, year = {2011}, volume = {1365}, pages = {38-41}, number = {1}, editor = {Ian McNulty and Catherine Eyberger and Barry Lai}, keywords = {tomography; X-rays; monochromators; multilayers; X-ray beamlines}, owner = {habi}, publisher = {AIP}, timestamp = {2010.09.28}, url = {http://dx.doi.org/10.1063/1.3625299} } @ARTICLE{Monfraix2005, author = {Monfraix, S. and Bayat, S. and Porra, L. and Berruyer, G. and Nemoz, C. and Thomlinson, W. and Suortti, P. and Sovij\"{a}rvi, A.R.A.}, title = {{Quantitative measurement of regional lung gas volume by synchrotron radiation computed tomography}}, journal = {Physics in medicine \& biology(Print)}, year = {2005}, volume = {50}, pages = {1--11}, number = {1}, bdsk-url-1 = {http://dx.doi.org/10.1088/0031-9155/50/1/001}, owner = {habi}, publisher = {Institute of Physics}, timestamp = {2010.04.30}, url = {http://dx.doi.org/10.1088/0031-9155/50/1/001} } @ARTICLE{Montgomery1979, author = {B. J. Montgomery}, title = {CT scanning recognized with Nobel Prize.}, journal = {JAMA}, year = {1979}, volume = {242}, pages = {2380}, number = {22}, month = {Nov}, keywords = {England; History, 20th Century; Nobel Prize; South Africa; Tomography, X-Ray Computed, history; United States}, language = {eng}, medline-pst = {ppublish}, owner = {habi}, pmid = {385920}, timestamp = {2010.04.28} } @PHDTHESIS{Mund2008a, author = {Sonja Ilona Mund}, title = {{Evidence for Late Lung Alveolarization and Effects of Tenascin-C Deficiency on Postnatal Lung Development}}, school = {University of Bern}, year = {2008}, file = {Mund2008a.pdf:Mund2008a.pdf:PDF}, owner = {habi}, timestamp = {2010.03.17} } @ARTICLE{Mund2008, author = {Mund, Sonja I. and Stampanoni, Marco and Schittny, Johannes C.}, title = {Developmental alveolarization of the mouse lung}, journal = {Developmental Dynamics}, year = {2008}, volume = {237}, pages = {2108--2116}, number = {8}, abstract = {Postnatal lung development is not well characterized in mice, especially the time point when alveolarization is completed. Using the total length and the length density of the free septal edge as measured for the formation of new septa, we followed alveolarization throughout postnatal lung development (days 2-125). Furthermore, the alveolar surface area was estimated. The formation of new septa was observed until day 36. Approximately 10% of the septa present in adult mice were formed prenatally by branching morphogenesis, sim50% were generated postnatally before and sim40% after maturation of the alveolar microvasculature. Approximately 5% of the alveolar surface area present during adulthood was present before alveolarization started, sim55% was formed during alveolarization (days 4-36) and sim40% afterward due to growth processes. We conclude that alveolarization continues until young adulthood and that the maturation of the alveolar microvasculature does not preclude further alveolarization. Developmental Dynamics 237:2108-2116, 2008. � 2008 Wiley-Liss, Inc.}, bdsk-url-1 = {http://dx.doi.org/10.1002/dvdy.21633}, file = {Mund2008.pdf:Mund2008.pdf:PDF}, owner = {habi}, timestamp = {2008.09.11}, url = {http://dx.doi.org/10.1002/dvdy.21633} } @ARTICLE{Nakamoto2008, author = {Nakamoto, S.}, title = {Bitcoin: A peer-to-peer electronic cash system}, journal = {Bitcoin. org}, year = {2008}, file = {Nakamoto2008.PDF:Nakamoto2008.PDF:PDF}, owner = {habi}, timestamp = {2011.05.19}, url = {http://bitcoin.org/bitcoin.pdf} } @MISC{Pnas2006, author = {Proceedings of the National Academy of Sciences - News}, howpublished = {\url{http://www.pnas.org/misc/archive071902.shtml}}, month = {10. October}, year = {2006}, bdsk-url-1 = {http://www.pnas.org/misc/archive071902.shtml}, owner = {habi}, timestamp = {2006.12.04}, url = {http://www.pnas.org/misc/archive071902.shtml} } @ARTICLE{Oberdoerster2005, author = {Oberdörster, Günter AND Oberdörster, Eva AND Oberdörster, Jan}, title = {Nanotoxicology: An Emerging Discipline Evolving from Studies of Ultrafine Particles}, journal = {Environ Health Perspect}, year = {2005}, volume = {113}, number = {7}, month = {03}, abstract = {Although humans have been exposed to airborne nanosized particles
(NSPs; < 100 nm) throughout their evolutionary stages, such exposure
has increased dramatically over the last century due to anthropogenic
sources. The rapidly developing field of nanotechnology is likely
to become yet another source through inhalation, ingestion, skin
uptake, and injection of engineered nanomaterials. Information about
safety and potential hazards is urgently needed. Results of older
bio-kinetic studies with NSPs and newer epidemiologic and toxicologic
studies with airborne ultrafine particles can be viewed as the basis
for the expanding field of nanotoxicology, which can be defined as
safety evaluation of engineered nanostructures and nanodevices. Collectively,
some emerging concepts of nanotoxicology can be identified from the
results of these studies. When inhaled, specific sizes of NSPs are
efficiently deposited by diffusional mechanisms in all regions of
the respiratory tract. The small size facilitates uptake into cells
and transcytosis across epithelial and endothelial cells into the
blood and lymph circulation to reach potentially sensitive target
sites such as bone marrow, lymph nodes, spleen, and heart. Access
to the central nervous system and ganglia via translocation along
axons and dendrites of neurons has also been observed. NSPs penetrating
the skin distribute via uptake into lymphatic channels. Endocytosis
and biokinetics are largely dependent on NSP surface chemistry (coating)
and
The The
Visualization Toolkit An Object-Oriented Approach To 3D Graphics
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with the VTK 4.2 CD. The The Visualization Toolkit text is a companion
text to the VTK Users's Guide. While The Visualization Toolkit stresses
algorithmic and data structure details, the VTK User's Guide stresses
how to install, use and program with the software.}},
howpublished = {Paperback},
isbn = {1930934122},
keywords = {geometric-modeling, object-oriented-programming, polygonization, programming,
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owner = {habi},
timestamp = {2008.09.19}
}
@ARTICLE{Scotti1993,
author = {G. Scotti},
title = {1972 Einstein neuroradiology course.},
journal = {AJNR Am J Neuroradiol},
year = {1993},
volume = {14},
pages = {1449--1450},
number = {6},
keywords = {History, 20th Century; Humans; Neurology, history; Tomography, X-Ray
Computed, history; United States},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pmid = {8279344},
timestamp = {2010.04.28}
}
@ARTICLE{Selle2002,
author = {Selle, D. and Preim, B. and Schenk, A. and Peitgen, H.-O.},
title = {Analysis of vasculature for liver surgical planning},
journal = {Medical Imaging, IEEE Transactions on},
year = {2002},
volume = {21},
pages = {1344-1357},
number = {11},
month = {Nov.},
abstract = {For liver surgical planning, the structure and morphology of the hepatic
vessels and their relationship to tumors are of major interest. To
achieve a fast and robust assistance with optimal quantitative and
visual information, we present methods for a geometrical and structural
analysis of vessel systems. Starting from the raw image data a sequence
of image processing steps has to be carried out until a three-dimensional
representation of the relevant anatomic and pathologic structures
is generated. Based on computed tomography (CT) scans, the following
steps are performed. 1) The volume data is preprocessed and the vessels
are segmented. 2) The skeleton of the vessels is determined and transformed
into a graph enabling a geometrical and structural shape analysis.
Using this information the different intrahepatic vessel systems
are identified automatically. 3) Based on the structural analysis
of the branches of the portal vein, their vascular territories are
approximated with different methods. These methods are compared and
validated anatomically by means of corrosion casts of human livers.
4) Vessels are visualized with graphics primitives fitted to the
skeleton to provide smooth visualizations without aliasing artifacts.
The image analysis techniques have been evaluated in the clinical
environment and have been used in more than 170 cases so far to plan
interventions and transplantations.},
bdsk-url-1 = {http://dx.doi.org/10.1109/TMI.2002.801166},
file = {Selle2002.pdf:Selle2002.pdf:PDF},
issn = {0278-0062},
keywords = {blood vessels, computerised tomography, feature extraction, image
segmentation, liver, medical image processing, surgeryaliasing artifacts,
clinical environment, computed tomography scans, corrosion casts,
hepatic vessels, human livers, image analysis techniques, image processing
steps sequence, optimal quantitative information, structural shape
analysis, transplantations, vascular territories, volume data preprocessing},
owner = {habi},
timestamp = {2009.07.29},
url = {http://dx.doi.org/10.1109/TMI.2002.801166}
}
@INPROCEEDINGS{Selle2001,
author = {{Selle}, D. and {Peitgen}, H.-O.},
title = {{Analysis of the morphology and structure of vessel systems using
skeletonization}},
booktitle = {Proc. SPIE Vol. 4321, p. 271-281, Medical Imaging 2001: Physiology
and Function from Multidimensional Images},
year = {2001},
volume = {4321},
series = {Society of Photo-Optical Instrumentation Engineers (SPIE) Conference
Series},
pages = {271-281},
month = may,
adsnote = {Provided by the SAO/NASA Astrophysics Data System},
adsurl = {http://adsabs.harvard.edu/abs/2001SPIE.4321..271S},
bdsk-url-1 = {http://dx.doi.org/10.1117/12.428146},
comment = {Skeletonization-Paper},
file = {Selle2001.pdf:Selle2001.pdf:PDF},
owner = {habi},
timestamp = {2008.03.19},
url = {http://dx.doi.org/10.1117/12.428146}
}
@ARTICLE{Sera2003,
author = {Sera, T. and Fujioka, H. and Yokota, H. and Makinouchi, A. and Himeno,
R. and Schroter, R.C. and Tanishita, K.},
title = {{Three-dimensional visualization and morphometry of small airways
from microfocal X-ray computed tomography}},
journal = {Journal of biomechanics},
year = {2003},
volume = {36},
pages = {1587--1594},
number = {11},
bdsk-url-1 = {http://dx.doi.org/10.1016/S0021-9290(03)00179-9},
owner = {habi},
publisher = {Elsevier},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1016/S0021-9290(03)00179-9}
}
@ARTICLE{Sera2007,
author = {Sera, T. and Uesugi, K. and Himeno, R. and Yagi, N.},
title = {{Small airway changes in healthy and ovalbumin-treated mice during
quasi-static lung inflation}},
journal = {Respiratory Physiology \& Neurobiology},
year = {2007},
volume = {156},
pages = {304--311},
number = {3},
bdsk-url-1 = {http://dx.doi.org/10.1016/j.resp.2006.11.006},
owner = {habi},
publisher = {Elsevier},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1016/j.resp.2006.11.006}
}
@ARTICLE{Sera2005,
author = {Sera, T. and Uesugi, K. and Yagi, N.},
title = {{Morphometric deformations of small airways and alveoli under quasi-static
inflation process}},
journal = {Journal of PHYSIOLOGICAL ANTHROPOLOGY and Applied Human Science},
year = {2005},
volume = {24},
pages = {465--468},
number = {4},
bdsk-url-1 = {http://dx.doi.org/10.2114/jpa.24.465},
owner = {habi},
publisher = {J-STAGE},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.2114/jpa.24.465}
}
@ARTICLE{Seynaeve1995,
author = {P. C. Seynaeve and J. I. Broos},
title = {[The history of tomography]},
journal = {J Belge Radiol},
year = {1995},
volume = {78},
pages = {284--288},
number = {5},
month = {Oct},
abstract = {It is easily forgotten that not yet a hundred years ago the only way
to look into the patients' body was via invasive procedures. Within
the year of the discovery of X-rays by Conrad R\"{o}ntgen the need
for three dimensional imaging had been voiced. The driving force
behind this development was undoubtedly clinical motivation. Planar
X-radiographs were not satisfactory to the clinicians who urged the
radiologists to provide them with tomographic images. Between 1910
and 1940, classical tomography has been the product of individuals
rather than collective groups. It is only in the mid thirties that
scientists found out about each other and started to correspond vigorously.
Mayer was the first to suggest in 1914 the idea of tomography. Bocage,
Grossman and Vallebona all developed the idea further and built their
own equipment. In 1931 Ziedses des Plantes published the most extensive
and thorough study on tomography. In the forties and fifties a stagnation
is noticed, only further refinements to the existing equipment are
carried out. Although Frank and Takahashi published the basic principles
of axial tomography in the mid forties, we had to wait for the necessary
developments in electronics before Hounsfield was able to develop
and commercialize the first axial computer tomography in 1972 (EMI-Scanner).
At the time all the big radiology companies rushed into the field
and soon, second, third and fourth generation CT scanners became
available. Only a few years later a new way of generating images
without using ionizing radiation was introduced. Lauterbur and Damadian
produced the first low quality images with magnetic resonance, a
technique called zeugmatography by its inventors. In 1974 the first
images of a living subject were published and initial scepticism
was replaced by euphoria. This resulted in the spectacular evolution
in Magnetic Resonance that we are now observing. While it is impossible
to predict the future, the development of networks, the increase
in data acquisition and storage will spread a new light on our specialty.
A closer cooperation between radiologists, pathologists and clinicians
will undoubtedly be necessary, as well as a partial redefinition
of the radiologists task.},
institution = {Dienst Radiologie, A.Z. Middelheim, Antwerp, Belgium.},
keywords = {History, 20th Century; Humans; Magnetic Resonance Imaging, history;
Tomography, X-Ray Computed, history; Tomography, X-Ray, history},
language = {dut},
medline-pst = {ppublish},
owner = {habi},
pmid = {8550391},
timestamp = {2010.04.28}
}
@ARTICLE{Shampo1996,
author = {M. A. Shampo and R. A. Kyle},
title = {Godfrey Hounsfield--developer of computed tomographic scanning.},
journal = {Mayo Clin Proc},
year = {1996},
volume = {71},
pages = {990},
number = {10},
month = {Oct},
keywords = {Engineering, history; England; History, 20th Century; Humans; Philately;
Tomography, X-Ray Computed, history},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pmid = {8820775},
timestamp = {2010.04.28}
}
@ARTICLE{Shannon1949,
author = {Shannon, CE},
title = {{Communication in the presence of noise}},
journal = {Proceedings of the IRE},
year = {1949},
volume = {37},
pages = {10--21},
number = {1},
file = {Shannon1949.pdf:Shannon1949.pdf:PDF},
owner = {habi},
timestamp = {2010.04.08}
}
@ARTICLE{Sharif2010,
author = {Sharif, M. Reza Akhavan and Lam, Wilfred W. and Ouriadov, Alexei
V. and Holdsworth, David W. and Santyr, Giles E.},
title = {{Comparison of hyperpolarized \textsuperscript{3}He MRI rat lung
volume measurement with micro-computed tomography}},
journal = {NMR in Biomedicine},
year = {2010},
volume = {23},
pages = {359--367},
number = {4},
bdsk-url-1 = {http://dx.doi.org/10.1002/nbm.1470},
file = {Sharif2010.pdf:Sharif2010.pdf:PDF},
owner = {habi},
timestamp = {2010.04.19},
url = {http://dx.doi.org/10.1002/nbm.1470}
}
@ARTICLE{Shepp1974,
author = {Shepp, LA and Logan, BF},
title = {{The Fourier reconstruction of a head section}},
journal = {IEEE Trans. Nucl. Sci},
year = {1974},
volume = {21},
pages = {21--43},
number = {1},
owner = {habi},
timestamp = {2008.11.03}
}
@ARTICLE{Sigrist2005,
author = {Sigrist, C. and Schweizer, J. and Schindler, H.J. and Dual, J.},
title = {On size and shape effects in snow fracture toughness measurements},
journal = {Cold Regions Science and Technology},
year = {2005},
volume = {43},
pages = {24--35},
number = {1-2},
month = nov,
abstract = {Dry snow slab avalanche release is preceded by two fracture mechanical
processes: shear failure of a weak layer or an interface within the
snowpack, followed by tensile failure of the overlaying slab. For
a slope stability analysis based on fracture mechanics, the fracture
toughness of snow has to be known. The purpose of this work was to
evaluate snow fracture toughness in mode 1, to determine to what
extent it is affected by the specimen size and shape and to search
for adequate correction methods. Edge-cracked beam-shaped snow specimens
cut from homogeneous layers of naturally deposited snow were subjected
to three-point bending and cantilever beam tests. To describe the
size dependence an empirical size effect law and the FAD (failure
assessment diagram) approach were explored. By comparing the three-point
bending with the cantilever beam tests a shape dependence of the
toughness was found. The fracture process zone was estimated to be
in the order of at least one centimetre. Due to the large size of
the fracture process zone a dependence of the toughness on the specimen
size has to be expected, as it is typical for non-linear, quasi-brittle
materials. Experiments with four different specimen sizes clearly
confirmed that toughness is size dependent, possibly up to the scale
of a slab avalanche. Preliminary results suggest that the actual
fracture toughness might be twice as large as the one determined
experimentally. Therefore, size correction functions will be essential
to transform toughness data of laboratory-scaled experiments to the
scale relevant for snow slope stability models. (c) 2005 Elsevier
B.V. All rights reserved},
address = {WSL Swiss Fed Inst Snow \& Avalanche Res SLF, CH-7260 Davos, Switzerland
Mat Tec AG, CH-8401 Winterthur, Switzerland ETH, Swiss Fed Inst Technol,
Inst Mech Syst, CH-8092 Zurich, Switzerland},
bdsk-url-1 = {http://dx.doi.org/10.1016/j.coldregions.2005.05.001},
file = {Sigrist2005.pdf:Sigrist2005.pdf:PDF},
keywords = {avalanche formation, AVALANCHES, fracture mechanics, ICE, shape effect,
SHEAR, SITU TENSILE-STRENGTH, size effect, snow fracture toughness,
snow mechanics},
owner = {habi},
refid = {SIGRIST2005E},
timestamp = {2006.11.30},
url = {http://dx.doi.org/10.1016/j.coldregions.2005.05.001}
}
@ARTICLE{Silver2002,
author = {Silver, D. and Gagvani, N.},
title = {{Reshaping medical volumetric data for enhanced visualization.}},
journal = {Stud Health Technol Inform},
year = {2002},
volume = {85},
pages = {488--93},
owner = {habi},
timestamp = {2008.07.15}
}
@ARTICLE{Siniakowicz2001,
author = {R. M. Siniakowicz and J. S. Steinberg},
title = {The ode to Professor Hounsfield and the development of computed tomography
(CT).},
journal = {J Cardiovasc Electrophysiol},
year = {2001},
volume = {12},
pages = {1206--1207},
number = {10},
month = {Oct},
keywords = {Amiodarone, adverse effects; Anti-Arrhythmia Agents, adverse effects;
Case-Control Studies; History, 20th Century; Humans; Lung Diseases,
chemically induced/radiography; Tomography, X-Ray Computed, history},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pmid = {11699537},
timestamp = {2010.04.28}
}
@MISC{wwwsls,
author = {{SLS Web Site}},
title = {{Description}},
year = {2010},
note = {[Online; accessed 15-February-2010]},
bdsk-url-1 = {http://sls.web.psi.ch/},
owner = {habi},
timestamp = {2010.04.15},
url = {http://sls.web.psi.ch/}
}
@MISC{wwwtomcat,
author = {{SLS Web Site}},
title = {{TOMCAT}},
howpublished = {Website},
month = {04},
year = {2008},
bdsk-url-1 = {http://sls.web.psi.ch/view.php/about/whatis/description/index.html},
date-added = {2008-04-15 14:34:48 +0200},
date-modified = {2008-04-15 14:35:21 +0200},
lastchecked = {15. April 2008},
owner = {habi},
timestamp = {2008.04.15},
url = {http://sls.web.psi.ch/view.php/beamlines/tomcat/}
}
@ARTICLE{Sobin1988,
author = {S. S. Sobin and Y. C. Fung and H. M. Tremer},
title = {Collagen and elastin fibers in human pulmonary alveolar walls.},
journal = {J Appl Physiol},
year = {1988},
volume = {64},
pages = {1659--1675},
number = {4},
month = {Apr},
abstract = {The morphology and morphometric data of collagen and elastin fibers
in the pulmonary alveolar walls are presented. Specimens were obtained
from postmortem lungs quick-frozen at specified transpulmonary pressures.
Collagen was stained by silver, and elastin was stained by orcein.
Photomicrographs were composed by computer. Young lungs typically
show small collagen fibers that radiate from the "posts," whereas
larger fiber bundles traverse the septum irrespective of capillary
blood vessels. In older lungs, rings of collagen around the posts
appear enlarged. Elastin bundles do not show obvious variation in
pattern with age and inflation pressure. Statistical frequency distributions
of the fiber width and curvature are both skewed, but the square
root of the width and the cube root of the curvature have approximate
normal distributions. Typically, for young lungs at transpulmonary
pressure of 4 cmH2O, the mean of (width)1/2 (in micron1/2) for collagen
fibers is 0.952 +/- 0.242 (SD), that of (curvature)1/3 (in micron-1/3)
is 0.349 +/- 0.094. The corresponding values for elastin are 0.986
+/- 0.255 and 0.395 +/- 0.094.},
bdsk-url-1 = {http://jap.physiology.org/cgi/content/abstract/64/4/1659},
file = {Sobin1988.pdf:Sobin1988.pdf:PDF},
keywords = {Adolescent; Adult; Aged; Aging; Collagen; Computer Simulation; Elastin;
Female; Humans; Lung; Male; Middle Aged; Models, Biological; Pulmonary
Alveoli},
owner = {habi},
pmid = {3379000},
timestamp = {2007.04.27},
url = {http://jap.physiology.org/cgi/content/abstract/64/4/1659}
}
@MISC{Stampanoni2006,
author = {Marco Stampanoni},
title = {{TOMCAT}: a new beamline for {T}omographic {M}icroscopy and {C}oherent
{R}adiology experiments at the {S}wiss {L}ight {S}ource},
howpublished = {7th SLS Users' Meeting},
month = {September},
year = {2006},
file = {Stampanoni2006.pdf:Stampanoni2006.pdf:PDF},
institution = {SLS},
owner = {habi},
timestamp = {2006.12.06}
}
@PHDTHESIS{Stampanoni2002a,
author = {Stampanoni, Marco},
title = {A novel approach towards hard X-ray submicrometer computer tomography
with synchrotron radiation},
school = {ETH Z\"{u}rich},
year = {2002},
bdsk-url-1 = {http://dx.doi.org/10.3929/ethz-a-004494073},
file = {Stampanoni2002a.pdf:Stampanoni2002a.pdf:PDF},
owner = {habi},
timestamp = {2009.04.30},
url = {http://dx.doi.org/10.3929/ethz-a-004494073}
}
@ARTICLE{Stampanoni2003,
author = {Stampanoni, M. and Borchert, G. and Abela, R. and Ruegsegger, P.},
title = {Nanotomography based on double asymmetrical Bragg diffraction},
journal = {Applied Physics Letters},
year = {2003},
volume = {82},
pages = {2922--2924},
number = {17},
month = apr,
abstract = {Nondestructive investigations at ultrahigh spatial resolution can
be carried out with synchrotron-based x-ray computer tomography.
The performance of presently used detectors is restricted by scintillation
properties, optical light transfer and charge coupled device granularity
to a limit of 1 mum spatial resolution and efficiency of a few percent.
A recently developed detector, called Bragg magnifier, exploits double
asymmetrical Bragg diffraction to efficiently produce hard x-ray
images with magnification factors up to 100x100 and pixel size of
less than 200x200 nm(2). Combining it with tomography, we obtained
full volumetric information of a sample with spatial resolution well
below 1 mum in less than 40 min. (C) 2003 American Institute of Physics},
address = {Swiss Fed Inst Technol, Inst Biomed Engn, Zurich, Switzerland Univ
Zurich, CH-8006 Zurich, Switzerland Paul Scherrer Inst, Swiss Light
Source, Villigen, Switzerland KFA Julich GmbH, Forschungszentrum,
Inst Kernphys, Julich, Germany},
bdsk-url-1 = {http://dx.doi.org/10.1063/1.1569428},
comment = {Times Cited: 7 Article English Stampanoni, M Swiss Fed Inst Technol,
Inst Biomed Engn, Zurich, Switzerland Cited References Count: 20},
keywords = {DETECTOR, LIGHT-SOURCE, MICROSCOPE, RAY COMPUTED MICROTOMOGRAPHY,
SUBMICRON RESOLUTION, TOMOGRAPHY},
owner = {habi},
refid = {STAMPANONI2003},
timestamp = {2006.11.30},
url = {http://dx.doi.org/10.1063/1.1569428}
}
@ARTICLE{Stampanoni2002,
author = {Stampanoni, Marco and Borchert, Gunther and Wyss, Peter and Abela,
Rafael and Patterson, Bruce and Hunt, Steven and Vermeulen, Detlef
and Ruegsegger, Peter},
title = {High resolution X-ray detector for synchrotron-based microtomography},
journal = {Nuclear Instruments and Methods in Physics Research Section A: Accelerators,
Spectrometers, Detectors and Associated Equipment},
year = {2002},
volume = {491},
pages = {291--301},
number = {1-2},
month = sep,
abstract = {Synchrotron-based microtomographic devices are powerful, non-destructive,
high-resolution research tools. Highly brilliant and coherent X-rays
extend the traditional absorption imaging techniques and enable edge-enhanced
and phase-sensitive measurements. At the Materials Science Beamline
MS of the Swiss Light Source (SLS), the X-ray microtomographic device
is now operative. A high performance detector based on a scintillating
screen optically coupled to a CCD camera has been developed and tested.
Different configurations are available, covering a field of view
ranging from 715x715 [mu]m2 to 7.15x7.15 mm2 with magnifications
from 4x to 40x. With the highest magnification 480 lp/mm had been
achieved at 10% modulation transfer function which corresponds to
a spatial resolution of 1.04 [mu]m. A low-noise fast-readout CCD
camera transfers 2048x2048 pixels within 100-250 ms at a dynamic
range of 12-14 bit to the file server. A user-friendly graphical
interface gives access to the main parameters needed for running
a complete tomographic scan. This novel device will be used to study
the physical structure and chemical composition of biological and
technical materials, e.g. enabling pseudo-dynamic testing of bone
samples to establish structure-function relationships in simulated
osteoporosis or enabling non-destructive testing during the development
of modern composite materials.},
bdsk-url-1 = {http://dx.doi.org/10.1016/S0168-9002(02)01167-1},
keywords = {X-ray microtomography, Synchrotron-CT},
owner = {habi},
timestamp = {2006.09.07},
url = {http://dx.doi.org/10.1016/S0168-9002(02)01167-1}
}
@MISC{Stampanoni2005,
author = {Stampanoni, M. and Groso, A. and Abela, R. and Chen, Q. and Isenegger,
A. and Maden, D. and Lange, M. and Meister, D.},
title = {{XTM-Beamline at the SLS: A novel facility for x-ray tomographic
microscopy and real time coherent radiology}},
howpublished = {Poster},
year = {2005},
bdsk-url-1 = {http://tinyurl.com/4pj3fu},
owner = {habi},
timestamp = {2008.04.15},
url = {http://tinyurl.com/4pj3fu}
}
@ARTICLE{Stampanoni2007,
author = {M. Stampanoni and A. Groso and A. Isenegger and G. Mikuljan and Q.
Chen and D. Meister and M. Lange and R. Betemps and S. Henein and
R. Abela},
title = {{TOMCAT: A beamline for TOmographic Microscopy and Coherent rAdiology
experimenTs}},
journal = {AIP Conference Proceedings},
year = {2007},
volume = {879},
pages = {848-851},
number = {1},
bdsk-url-1 = {http://dx.doi.org/10.1063/1.2436193},
editor = {Jae-Young Choi and Seungyu Rah},
file = {Stampanoni2007.pdf:Stampanoni2007.pdf:PDF},
keywords = {synchrotron radiation; X-ray microscopy; tomography; X-ray monochromators;
optical multilayers; radiology},
owner = {habi},
publisher = {AIP},
timestamp = {2007.08.13},
url = {http://dx.doi.org/10.1063/1.2436193}
}
@ARTICLE{Stampanoni2009,
author = {M Stampanoni and F Marone and G Mikuljan and K Jefimovs and P Trtik
and J Vila-Comamala and C David and R Abela},
title = {Broadband X-ray full field microscopy at a superbend},
journal = {Journal of Physics: Conference Series},
year = {2009},
volume = {186},
pages = {012018},
number = {1},
abstract = {Over the last decade, synchrotron-radiation based X-ray Tomographic
Microscopy (SRXTM) has established itself as a fundamental tool for
non-invasive, quantitative investigations of a broad variety of samples,
with application ranging from space research and materials science
to biology and medicine. The beamline for TO mographic M icroscopy
and C oherent r A diology experimen T s (TOMCAT) has been recently
equipped with a full field, hard X-ray microscope with a theoretical
pixel size down to 30 nm and a field of view of 50 microns. The nanoscope
performs well at X-ray energies between 8 and 12 keV: here we illustrate
the experimental setup and the performance of the instrument in both
microscopy and tomography mode.},
bdsk-url-1 = {http://dx.doi.org/10.1088/1742-6596/186/1/012018},
file = {Stampanoni2009.pdf:Stampanoni2009.pdf:PDF},
owner = {habi},
timestamp = {2010.04.28},
url = {http://dx.doi.org/10.1088/1742-6596/186/1/012018}
}
@ARTICLE{Stampanoni2010a,
author = {M. Stampanoni and F. Marone and P. Modregger and B. Pinzer and T.
Th\"{u}ring and J. Vila-Comamala and C. David and R. Mokso},
title = {Tomographic Hard X-ray Phase Contrast Micro- and Nano-imaging at
TOMCAT},
journal = {AIP Conference Proceedings},
year = {2010},
volume = {1266},
pages = {13-17},
number = {1},
editor = {Karen K. W. Siu},
file = {Stampanoni2010a.pdf:Stampanoni2010a.pdf:PDF},
keywords = {interferometers; tomography; biomedical imaging; X-ray diffraction},
owner = {habi},
publisher = {AIP},
timestamp = {2010.09.29},
url = {http://dx.doi.org/10.1063/1.3478189}
}
@ARTICLE{Stampanoni2010,
author = {Stampanoni, Marco and Mokso, Rajmund and Marone, Federica and Vila-Comamala,
Joan and Gorelick, Sergey and Trtik, Pavel and Jefimovs, Konstantin
and David, Christian},
title = {Phase-contrast tomography at the nanoscale using hard x rays},
journal = {Phys. Rev. B},
year = {2010},
volume = {81},
pages = {140105},
number = {14},
month = {Apr},
bdsk-url-1 = {http://dx.doi.org/10.1103/PhysRevB.81.140105},
file = {Stampanoni2010.pdf:Stampanoni2010.pdf:PDF},
numpages = {4},
owner = {habi},
publisher = {American Physical Society},
timestamp = {2010.04.28},
url = {http://dx.doi.org/10.1103/PhysRevB.81.140105}
}
@CONFERENCE{Stampanoni2010b,
author = {M. Stampanoni and J. Reichold and B. Weber and D. Haberth\"{u}r and
J. Schittny and J. Eller and F. N. B\"{u}chi and F. Marone},
title = {Deciphering complex, functional structures with synchrotron-based
absorption and phase contrast tomographic microscopy},
year = {2010},
editor = {Stuart R. Stock},
volume = {7804},
number = {1},
pages = {78040L},
publisher = {SPIE},
eid = {78040L},
journal = {Developments in X-Ray Tomography VII},
location = {San Diego, California, USA},
numpages = {15},
owner = {habi},
timestamp = {2011.01.17},
url = {http://dx.doi.org/10.1117/12.860208}
}
@CONFERENCE{Stampanoni2006a,
author = {{Stampanoni}, M. and {Groso}, A. and {Isenegger}, A. and {Mikuljan},
G. and {Chen}, Q. and {Bertrand}, A. and {Henein}, S. and {Betemps},
R. and {Frommherz}, U. and {B{\"{o}}hler}, P. and {Meister}, D. and
{Lange}, M. and {Abela}, R.},
title = {{Trends in synchrotron-based tomographic imaging: the SLS experience}},
booktitle = {Society of Photo-Optical Instrumentation Engineers (SPIE) Conference
Series},
year = {2006},
volume = {6318},
series = {Society of Photo-Optical Instrumentation Engineers (SPIE) Conference
Series},
month = {Aug.},
adsurl = {http://adsabs.harvard.edu/abs/2006SPIE.6318E..21S},
bdsk-url-1 = {http://dx.doi.org/10.1117/12.679497},
file = {Stampanoni2006a.pdf:Stampanoni2006a.pdf:PDF},
owner = {habi},
timestamp = {2007.08.13},
url = {http://dx.doi.org/10.1117/12.679497}
}
@ARTICLE{Stauber2006b,
author = {Martin Stauber and Ralph M\"{u}ller},
title = {Volumetric spatial decomposition of trabecular bone into rods and
plates--a new method for local bone morphometry.},
journal = {Bone},
year = {2006},
volume = {38},
pages = {475--484},
number = {4},
month = {Apr},
abstract = {Bone microarchitecture is believed to play a key role in determining
bone quality. We therefore present a new method for the volumetric
spatial decomposition of trabecular bone samples into its basic elements
(rods and plates). This new method is a framework for the element
based description of bone microarchitecture. First, the newly developed
algorithm was validated on computer-generated models. Then, it was
applied to 328 human trabecular bone samples harvested from 70 donors
at five different anatomical sites (calcaneus, femoral head, iliac
crest, lumbar spine 2 and 4), which were previously scanned by microcomputed
tomography. Standard three-dimensional morphometric algorithms were
used to analyze the trabeculae on an individual basis with respect
to their volume, surface, and thickness. The results were statistically
compared for the five sites. In this study, it was possible for the
first time to spatially decompose trabecular bone structures in its
volumetric elements; rods and plates. The size of the largest element
in the structures showed significant differences for the five compared
sites. In samples from femoral head, we found that basically one
"major element" was spanning through the whole structure whereas
in lumbar spine and calcaneus, smaller elements dominate. From this,
we suggest that the strength of strong, dense plate-like structures
is determined by the major elements whereas in looser rod-like structures
the strength is given by the arrangement, quality, and shape of a
whole set of elements. Furthermore, we found that globally determined
structural indices such as the mean curvature of the bone surface
(