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@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 in vivo surface modifications. The greater surface
area per mass compared with larger-sized particles of the same chemistry
renders NSPs more active biologically. This activity includes a potential
for inflammatory and pro-oxidant, but also antioxidant, activity,
which can explain early findings showing mixed results in terms of
toxicity of NSPs to environmentally relevant species. Evidence of
mitochondrial distribution and oxidative stress response after NSP
endocytosis points to a need for basic research on their interactions
with subcellular structures. Additional considerations for assessing
safety of engineered NSPs include careful selections of appropriate
and relevant doses/concentrations, the likelihood of increased effects
in a compromised organism, and also the benefits of possible desirable
effects. An interdisciplinary team approach (e.g., toxicology, materials
science, medicine, molecular biology, and bioinformatics, to name
a few) is mandatory for nanotoxicology research to arrive at an appropriate
risk assessment.
},
file = {Oberdoerster2005.PDF:Oberdoerster2005.PDF:PDF},
owner = {habi},
publisher = {National Institue of Environmental Health Sciences},
review = {Good overview over nanotoxicity -> from David Raemys Second Year Presentation},
timestamp = {2010.11.01},
url = {http://dx.doi.org/10.1289/ehp.7339}
}
@ARTICLE{Ochs2006,
author = {Ochs,Matthias},
title = {A brief update on lung stereology},
journal = {Journal of Microscopy},
year = {2006},
volume = {222},
pages = {188-200},
number = {3},
bdsk-url-1 = {http://dx.doi.org/10.1111/j.1365-2818.2006.01587.x},
file = {Ochs2006.pdf:Ochs2006.pdf:PDF},
owner = {habi},
timestamp = {2006.10.18},
url = {http://dx.doi.org/10.1111/j.1365-2818.2006.01587.x}
}
@ARTICLE{Ochs2004,
author = {Matthias Ochs and Jens R Nyengaard and Anja Jung and Lars Knudsen
and Marion Voigt and Thorsten Wahlers and Joachim Richter and Hans
J\o rgen G Gundersen},
title = {The number of alveoli in the human lung.},
journal = {Am J Respir Crit Care Med},
year = {2004},
volume = {169},
pages = {120--124},
number = {1},
month = {Jan},
bdsk-url-1 = {http://dx.doi.org/10.1164/rccm.200308-1107OC},
file = {Ochs2004.pdf:Ochs2004.pdf:PDF},
keywords = {Comparative Study; Culture Techniques; Female; Graft Survival; Humans;
Lung Transplantation; Lung Volume Measurements; Male; Predictive
Value of Tests; Pulmonary Alveoli; Research Support, Non-U.S. Gov't;
Respiratory Physiology; Sensitivity and Specificity},
owner = {habi},
pii = {200308-1107OC},
pmid = {14512270},
timestamp = {2006.11.30},
url = {http://dx.doi.org/10.1164/rccm.200308-1107OC}
}
@ARTICLE{Oransky2004,
author = {Ivan Oransky},
title = {Sir Godfrey N. Hounsfield.},
journal = {Lancet},
year = {2004},
volume = {364},
pages = {1032},
number = {9439},
bdsk-url-1 = {http://dx.doi.org/10.1016/S0140-6736(04)17049-9},
keywords = {England; History, 20th Century; Radiology, history; Tomography, X-Ray
Computed, history},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pii = {S0140-6736(04)17049-9},
pmid = {15455486},
timestamp = {2010.04.28},
url = {http://dx.doi.org/10.1016/S0140-6736(04)17049-9}
}
@ARTICLE{Otsu1979,
author = {Nobuyuki Otsu},
title = {{A threshold selection method from gray-level histograms}},
journal = {IEEE Transactions on Systems, Man, and Cybernetics},
year = {1979},
volume = {9},
pages = {62--66},
number = {1},
file = {Otsu1979.pdf:Otsu1979.pdf:PDF},
owner = {habi},
timestamp = {2008.09.19}
}
@ARTICLE{Palagyi1999,
author = {Palagyi, Kalman and Kuba, Attila},
title = {A Parallel 3D 12-Subiteration Thinning Algorithm},
journal = {Graphical Models and Image Processing},
year = {1999},
volume = {61},
pages = {199--221},
number = {4},
month = jul,
abstract = {Thinning on binary images is an iterative layer by layer erosion until
only the "skeletons" of the objects are left. This paper presents
an efficient parallel thinning algorithm which produces either curve
skeletons or surface skeletons from 3D binary objects. It is important
that a curve skeleton is extracted directly (i.e., without creating
a surface skeleton). The strategy which is used is called directional:
each iteration step is composed of a number of subiterations each
of which can be executed in parallel. One iteration step of the proposed
algorithm contains 12 subiterations instead of the usual six. The
algorithm makes easy implementation possible, since deletable points
are given by 3x3x3 matching templates. The topological correctness
for (26, 6) binary pictures is proved.},
bdsk-url-1 = {http://dx.doi.org/10.1006/gmip.1999.0498},
file = {Palagyi1999.pdf:Palagyi1999.pdf:PDF},
owner = {habi},
timestamp = {2007.08.10},
url = {http://dx.doi.org/10.1006/gmip.1999.0498}
}
@ARTICLE{Palagyi1998,
author = {Palagyi, Kalman and Kuba, Attila},
title = {A 3D 6-subiteration thinning algorithm for extracting medial lines},
journal = {Pattern Recognition Letters},
year = {1998},
volume = {19},
pages = {613--627},
number = {7},
month = may,
abstract = {Thinning is a frequently used method for extracting skeletons in discrete
spaces. This paper presents an efficient parallel thinning algorithm
that directly extracts medial lines from elongated 3D binary objects
(i.e., without creating medial surface). Our algorithm provides good
results, preserves topology and it is easy to implement.},
bdsk-url-1 = {http://dx.doi.org/10.1016/S0167-8655(98)00031-2},
file = {:Palagyi1998.pdf:PDF},
keywords = {3D parallel thinning algorithms, Discrete topology, Topology preservation},
owner = {habi},
timestamp = {2007.11.19},
url = {http://dx.doi.org/10.1016/S0167-8655(98)00031-2}
}
@ARTICLE{Parameswaran2009,
author = {Parameswaran, H. and Bartol{\`a}k-Suki-Suki, E. and Hamakawa, H.
and Majumdar, A. and Allen, P. G. and Suki, B.},
title = {{Three-dimensional measurement of alveolar airspace volumes in normal
and emphysematous lungs using micro-CT}},
journal = {J. Appl. Physiol.},
year = {2009},
volume = {107},
pages = {583--592},
month = {Aug},
abstract = {In pulmonary emphysema, the alveolar structure progressively breaks
down via a three-dimensional (3D) process that leads to airspace
enlargement. The characterization of such structural changes has,
however, been based on measurements from two-dimensional (2D) tissue
sections or estimates of 3D structure from 2D measurements. In this
study, we developed a novel silver staining method for visualizing
tissue structure in 3D using micro-computed tomographic (CT) imaging,
which showed that at 30 cmH20 fixing pressure, the mean alveolar
airspace volume increased from 0.12 nl in normal mice to 0.44 nl
and 2.14 nl in emphysematous mice, respectively, at 7 and 14 days
following elastase-induced injury. We also assessed tissue structure
in 2D using laser scanning confocal microscopy. The mean of the equivalent
diameters of the alveolar airspaces was lower in 2D compared with
3D, while its variance was higher in 2D than in 3D in all groups.
However, statistical comparisons of alveolar airspace size from normal
and emphysematous mice yielded similar results in 2D and 3D: compared
with control, both the mean and variance of the equivalent diameters
increased by 7 days after treatment. These indexes further increased
from day 7 to day 14 following treatment. During the first 7 days
following treatment, the relative change in SD increased at a much
faster rate compared with the relative change in mean equivalent
diameter. We conclude that quantifying heterogeneity in structure
can provide new insight into the pathogenesis or progression of emphysema
that is enhanced by improved sensitivity using 3D measurements.},
file = {Parameswaran2009.pdf:Parameswaran2009.pdf:PDF},
owner = {habi},
timestamp = {2010.04.06}
}
@ARTICLE{Park1998,
author = {Park, W. and Hoffman, E.A. and Sonka, M.},
title = {{Segmentation of intrathoracic airway trees: a fuzzy logic approach}},
journal = {IEEE Transactions on Medical Imaging},
year = {1998},
volume = {17},
pages = {489--497},
number = {4},
bdsk-url-1 = {http://dx.doi.org/10.1109/42.730394},
owner = {habi},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1109/42.730394}
}
@ARTICLE{Parker1971,
author = {Parker, H. and Horsfield, K. and Cumming, G.},
title = {{Morphology of distal airways in the human lung}},
journal = {J Appl Physiol},
year = {1971},
volume = {31},
pages = {386--391},
number = {3},
owner = {habi},
publisher = {Am Physiological Soc},
timestamp = {2010.04.30}
}
@ARTICLE{Patterson2005,
author = {Patterson, B.D. and Bronnimann, C. and Maden, D. and Gozzo, F. and
Groso, A. and Schmitt, B. and Stampanoni, M. and Willmott, P.R.},
title = {The materials science beamline at the Swiss Light Source},
journal = {Nuclear Instruments \& Methods in Physics Research Section B-Beam
Interactions with Materials and Atoms},
year = {2005},
volume = {238},
pages = {224--228},
number = {1-4},
month = aug,
abstract = {The materials science beamline at the Swiss Light Source is described.
Hard X-rays in the range 5-40 keV are generated by a mini-gap wiggler,
and three experimental stations are served: tomography, powder diffraction
and surface diffraction. Several novel features of the experimental
equipment are presented. (c) 2005 Elsevier B.V. All rights reserved},
address = {Paul Scherrer Inst, Swiss Light Source, CH-5232 Villigen, Switzerland},
bdsk-url-1 = {http://dx.doi.org/10.1016/j.nima.2004.11.018},
keywords = {DIFFRACTION, DIFFRACTOMETER, In, LIGHT-SOURCE, synchrotron radiation,
TOMOGRAPHY, X-ray diffraction, X-RAY-DETECTOR},
owner = {habi},
refid = {PATTERSON2005},
timestamp = {2006.11.30},
url = {http://dx.doi.org/10.1016/j.nima.2004.11.018}
}
@ARTICLE{Peeters1979,
author = {F. Peeters and B. Verbeeten and H. W. Venema},
title = {[Nobel Prize for medicine and physiology 1979 for A.M. Cormack and
G.N. Hounsfield]},
journal = {Ned Tijdschr Geneeskd},
year = {1979},
volume = {123},
pages = {2192--2193},
number = {51},
month = {Dec},
keywords = {England; History of Medicine; Medicine; Nobel Prize; United States},
language = {dut},
medline-pst = {ppublish},
owner = {habi},
pmid = {397415},
timestamp = {2010.04.28}
}
@ARTICLE{Pena2007,
author = {Pena, A.M. and Fabre, A. and Debarre, D. and Marchal-Somme, J. and
Crestani, B. and Martin, J.L. and Beaurepaire, E. and Schanne-Klein,
M.C.},
title = {{Three-dimensional investigation and scoring of extracellular matrix
remodeling during lung fibrosis using multiphoton microscopy}},
journal = {Microscopy Research and Technique},
year = {2007},
volume = {70},
pages = {162},
number = {2},
bdsk-url-1 = {http://dx.doi.org/10.1002/jemt.20400},
owner = {habi},
publisher = {John Wiley \& Sons, Ltd},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1002/jemt.20400}
}
@ARTICLE{Pereira2008,
author = {Erlick A C Pereira and Alexander L Green and Dipankar Nandi and Tipu
Z Aziz},
title = {Stereotactic neurosurgery in the United Kingdom: the hundred years
from Horsley to Hariz.},
journal = {Neurosurgery},
year = {2008},
volume = {63},
pages = {594--606; discussion 606-7},
number = {3},
month = {Sep},
abstract = {The history of stereotactic neurosurgery in the United Kingdom of
Great Britain and Northern Ireland is reviewed. Horsley and Clarke's
primate stereotaxy at the turn of the 20th century and events surrounding
it are described, including Mussen's development of a human version
of the apparatus. Stereotactic surgery after the Second World War
is reviewed, with an emphasis on the pioneering work of Gillingham,
Hitchcock, Knight, and Watkins and the contributions from Bennett,
Gleave, Hughes, Johnson, McKissock, McCaul, and Dutton after the
influences of Dott, Cairns, and Jefferson. Forster's introduction
of gamma knife radiosurgery is summarized, as is the application
of computed tomography by Hounsfield and Ambrose. Contemporary contributions
to the present day from Bartlett, Richardson, Miles, Thomas, Gill,
Aziz, Hariz, and others are summarized. The current status of British
stereotactic neurosurgery is discussed.},
bdsk-url-1 = {http://dx.doi.org/10.1227/01.NEU.0000316854.29571.40},
institution = {Oxford Functional Neurosurgery, Nuffield Department of Surgery, University
of Oxford, Department of Neurological Surgery, The John Radcliffe
Hospital, Oxford, England. eacp@eacp.co.uk},
keywords = {Great Britain; History, 19th Century; History, 20th Century; History,
21st Century; Humans; Neurosurgery, history/instrumentation/methods;
Stereotaxic Techniques, history/instrumentation},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pii = {00006123-200809000-00023},
pmid = {18812971},
timestamp = {2010.04.28},
url = {http://dx.doi.org/10.1227/01.NEU.0000316854.29571.40}
}
@ARTICLE{Perkins1980,
author = {J. Perkins},
title = {A Nobel Prize for biobiomedical engineering.},
journal = {J Biomed Eng},
year = {1980},
volume = {2},
pages = {2},
number = {1},
month = {Jan},
keywords = {Biomedical Engineering, history; Great Britain; History, 20th Century;
Nobel Prize; Tomography, X-Ray Computed, history},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pmid = {6987460},
timestamp = {2010.04.28}
}
@ARTICLE{Plouraboue2004,
author = {Plouraboue,F. and Cloetens,P. and Fonta,C. and Steyer,A. and Lauwers,F.
and Marc-Vergnes,J.-P.},
title = {X-ray high-resolution vascular network imaging},
journal = {Journal of Microscopy},
year = {2004},
volume = {215},
pages = {139-148},
number = {2},
bdsk-url-1 = {http://dx.doi.org/10.1111/j.0022-2720.2004.01362.x},
eprint = {http://www.blackwell-synergy.com/doi/pdf/10.1111/j.0022-2720.2004.01362.x},
file = {Plouraboue2004.pdf:Plouraboue2004.pdf:PDF},
owner = {habi},
timestamp = {2006.10.19},
url = {http://dx.doi.org/10.1111/j.0022-2720.2004.01362.x}
}
@ARTICLE{Powell1980,
author = {J. T. Powell and P. L. Whitney},
title = {{Postnatal Development of Rat Lung. Changes in lung lectin, elastin,
acetylcholinesterase and other enzymes.}},
journal = {Biochem J},
year = {1980},
volume = {188},
pages = {1--8},
number = {1},
month = {Apr},
abstract = {The development of rat lung from a primitive gas-exchange organ to
the mature respiratory organ is in large part a postnatal phenomenon
that has been well characterized by morphological and morphometric
methods. The alveolarization of the lung is achieved during the first
3 weeks of life. Cholinergic innervation of rat lung also appears
postnatally. We have monitored the presence or activity of several
proteins during postnatal rat lung development. Newborn-rat lung
contains negligible amounts of acetylcholinesterase, but the specific
activity of acetylcholinesterase reaches adult values by postnatal
day 10-11. Neonatal-rat lung does not contain significant amounts
of beta-galactoside-binding protein [Powell (1980) Biochem. J.187,
123-129]. The activity of this endogenous lung lectin was apparent
at about day 6, was maximal between days 10 and 13 before declining
8-10-fold to reach adult values. Elastin has been implicated from
morphological evidence as critical to lung restructuring. We have
quantified the amount of desmosine and isodesmosine per g wet wt.
of lung. The concentration of elastin, by this criterion, was low
and stationary until postnatal day 7; a dramatic increase in elastin
concentration occurred between days 10 and 20, when adult values
were reached. The peak of lung-lectin activity was coincident with
the maturation of acetylcholinesterase and the beginning of rapid
elastin cross-linking. The specific activities of angiotensin-converting
enzyme, carbonic anhydrase, choline kinase and glucose 6-phosphate
dehydrogenase were also monitored.},
file = {Powell1980.pdf:Powell1980.pdf:PDF},
keywords = {Acetylcholinesterase, metabolism; Agglutinins, metabolism; Animals;
Carrier Proteins, metabolism; Elastin, metabolism; Galactosides,
metabolism; Galectins; Glycosides, metabolism; Hemagglutinins, metabolism;
Lectins, metabolism; Lung, enzymology/growth /&/ development/metabolism;
Rats},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pmid = {7406872},
review = {ten-fold increase in lung volume over postnatal},
timestamp = {2010.11.03}
}
@ARTICLE{Praestholm1995,
author = {J. Praestholm},
title = {Producing the third dimension of flat radiographic images: analogue
tomography - computer tomography.},
journal = {Dan Medicinhist Arbog},
year = {1995},
pages = {122--144},
abstract = {The inventor of computer tomography, Godfrey N. Hounsfield, mentioned
in his Nobel Foundation lecture the following three main problems
of conventional radiography: 1. It depicts the sum of shadows from
several tissue elements at the same spot of the film. 2. The sensitivity
of the employed photographic medium does not allow to differentiate
between various soft tissue densities. 3. It gives no exact measure
characterizing tissue densities. The first part of this article is
dealing with the solution of problem number one. Researchers within
medical imaging from many countries developed independently of each
other a variety of methods for body-sectional imaging methods, but
he did not construct any equipment. Alessandro Vallebona constructed
equipment and published the first clinical body-section imaging material
ever in 1930, but his method was not ideal. The first clinical material
employing an ideal method was published by Bernhard Ziedses des Plantes
in 1932. Methods for transverse axial tomography was independently
described by William Watson in 1937, Jean Kieffer in 1938, and Shinji
Takahashi in 1947. The limitation in sensitivity of the photographic
medium was revealed in parallel to this development. In 1963 Allan
M. Cormack described the mathematical model for absorption of ionizing
rays in inhomogenous tissue. Godfrey N. Hounsfield combined this
knowledge of mathematics with the fast developing computer technology
and the medical need for a more sensitive registration medium. In
1971 computer tomography was a reality. One of the greatest conquests
in medicine of this century had been made. Recent developments within
scanner technology predict still better and safer diagnostic possibilities.},
keywords = {Great Britain; History, 20th Century; Tomography, X-Ray Computed,
history},
language = {dan},
medline-pst = {ppublish},
owner = {habi},
pmid = {11625126},
timestamp = {2010.04.28}
}
@MISC{Morphologyfilter-ImageJ,
author = {Dimiter Prodanov},
title = {Grayscale Morphology},
howpublished = {Website},
year = {1999},
note = {Available online at \url{http://rsb.info.nih.gov/ij/plugins/gray-morphology.html};
visited on May 16th, 2007},
owner = {habi},
timestamp = {2007.05.16}
}
@INPROCEEDINGS{Prohaska2002,
author = {Prohaska, S. and Hege, H.-C.},
title = {Fast visualization of plane-like structures in voxel data},
booktitle = {Visualization, 2002. VIS 2002. IEEE},
year = {2002},
pages = {29--36},
month = {27 Oct.-1 Nov.},
bdsk-url-1 = {http://dx.doi.org/10.1109/VISUAL.2002.1183753},
file = {Prohaska2002.pdf:Prohaska2002.pdf:PDF},
owner = {habi},
timestamp = {2007.07.10},
url = {http://dx.doi.org/10.1109/VISUAL.2002.1183753}
}
@ARTICLE{Pudney1998,
author = {Pudney, Chris},
title = {Distance-Ordered Homotopic Thinning: A Skeletonization Algorithm
for 3D Digital Images},
journal = {Computer Vision and Image Understanding},
year = {1998},
volume = {72},
pages = {404--413},
number = {3},
month = dec,
abstract = {A technique called distance-ordered homotopic thinning (DOHT) for
skeletonizing 3D binary images is presented. DOHT produces skeletons
that are homotopic, thin, and medial. This is achieved by sequentially
deleting points in ascending distance order until no more can be
safely deleted. A point can be safely deleted only if doing so preserves
topology. Distance information is provided by the chamfer distance
transform, an integer approximation to the Euclidean distance transform.
Two variations of DOHT are presented that arise from using different
rules for preserving points. The first uses explicit rules for preserving
the ends of medial axes or edges of medial surfaces, and the second
preserves the centers of maximal balls identified from the chamfer
distance transform. By thresholding the centers according to their
distance values, the user can control the scale of features represented
in the skeleton. Results are presented for real and synthetic 2D
and 3D data.},
bdsk-url-1 = {http://www.sciencedirect.com/science/article/B6WCX-45JK54Y-D/2/aecaaf6ed8e22fe71b9217c76525bd2b},
file = {:Pudney1998.pdf:PDF},
owner = {habi},
timestamp = {2007.11.19},
url = {http://www.sciencedirect.com/science/article/B6WCX-45JK54Y-D/2/aecaaf6ed8e22fe71b9217c76525bd2b}
}
@ARTICLE{PerezHuerta2009,
author = {A. P{\'e}rez-Huerta and M. Cusack and S. McDonald and F. Marone and
M. Stampanoni and S. MacKay},
title = {Brachiopod punctae: A complexity in shell biomineralisation},
journal = {Journal of Structural Biology},
year = {2009},
volume = {167},
pages = {62 - 67},
number = {1},
abstract = {Perforations (#punctae#) are one of the most characteristic morphological
shell features in calcite brachiopods. The significance of punctae
is that they represent discontinuities in shell biomineralisation
and thus add a level of complexity that must be accounted for in
any model of brachiopod shell formation. A significant hindrance
to understanding punctae growth and formation is the absence of sufficient
information on volume, size and density. Here, we use synchrotron-radiation
X-ray tomographic microscopy (SRXTM) to obtain three-dimensional
information about punctae of five species of calcite brachiopods.
X-ray tomography shows that punctae morphology is species-specific
and reveals previously unknown levels of complexity for each species.
This information is combined with previous data on morphology to
discuss the function and growth of punctae. Overall the present study
demonstrates the need to increase our understanding of discontinuities
and the role of cell biology in the context of biomineralisation.},
bdsk-url-1 = {http://dx.doi.org/10.1016/j.jsb.2009.03.013},
file = {PerezHuerta2009.pdf:PerezHuerta2009.pdf:PDF},
issn = {1047-8477},
keywords = {Synchrotron-radiation X-ray tomographic microscopy (SRXTM)},
owner = {habi},
timestamp = {2009.06.17},
url = {http://dx.doi.org/10.1016/j.jsb.2009.03.013}
}
@MANUAL{R,
title = {R: A Language and Environment for Statistical Computing},
author = {{R Development Core Team}},
organization = {R Foundation for Statistical Computing},
address = {Vienna, Austria},
year = {2010},
note = {{ISBN} 3-900051-07-0},
owner = {habi},
timestamp = {2011.02.17},
url = {http://www.R-project.org/}
}
@ARTICLE{Radon1917,
author = {Johann Radon},
title = {{{\"{U}}ber die Bestimmung von Funktionen durch ihre Integralwerte
l{\"{a}}ngs gewisser Mannigfaltigkeiten}},
journal = {Berichte S{\"{a}}chsische Akademie der Wissenschaften},
year = {1917},
volume = {69},
pages = {262--277},
owner = {habi},
timestamp = {2008.06.04}
}
@ARTICLE{Raju1999,
author = {T. N. Raju},
title = {The Nobel chronicles. 1979: Allan MacLeod Cormack (b 1924); and Sir
Godfrey Newbold Hounsfield (b 1919).},
journal = {Lancet},
year = {1999},
volume = {354},
pages = {1653},
number = {9190},
month = {Nov},
institution = {University of Illinois at Chicago, USA.},
keywords = {Engineering, history; Great Britain; History, 20th Century; Nobel
Prize; Physics, history; Radiology, history; South Africa; Tomography,
X-Ray Computed, history},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pmid = {10560712},
timestamp = {2010.04.28}
}
@ARTICLE{Randell1989,
author = {Randell, SH and Mercer, RR and Young, SL},
title = {{Postnatal growth of pulmonary acini and alveoli in normal and oxygen-exposed
rats studied by serial section reconstructions}},
journal = {American Journal of Anatomy},
year = {1989},
volume = {186},
pages = {55--68},
number = {1},
bdsk-url-1 = {http://dx.doi.org/10.1002/aja.1001860105},
owner = {habi},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1002/aja.1001860105}
}
@MISC{ImageJ,
author = {Rasband, W.S.},
title = {Image{J}, {U.S.} {N}ational {I}nstitutes of {H}ealth, {B}ethesda,
{M}aryland, {USA}, \url{http://rsb.info.nih.gov/ij/}},
year = {1997-2007},
owner = {habi},
timestamp = {2007.05.16}
}
@ARTICLE{Rausch2009,
author = {S. Rausch and C. Dassow and S. Uhlig and W. A. Wall},
title = {{Determination of Material Parameters of Lung Parenchyma Based on
Living Precision�Cut Lung Slices Testing}},
journal = {Journal for Biomechanical Engineering},
year = {2009},
note = {in preparation},
owner = {habi},
timestamp = {2009.01.20}
}
@ARTICLE{Rausch2011,
author = {Rausch, S. and Haberth\"{u}r, D. and Stampanoni, M. and Schittny,
J. and Wall, W.},
title = {Local Strain Distribution in Real Three-Dimensional Alveolar Geometries},
journal = {Annals of Biomedical Engineering},
year = {2011},
pages = {1-9},
note = {10.1007/s10439-011-0328-z},
affiliation = {Institute for Computational Mechanics, Technische Universität München,
Boltzmannstrasse 15, 85747 Garching, Germany},
file = {Rausch2011.PDF:Rausch2011.PDF:PDF},
issn = {0090-6964},
keyword = {Biomedical and Life Sciences},
owner = {habi},
publisher = {Springer Netherlands},
timestamp = {2011.05.31},
url = {http://dx.doi.org/10.1007/s10439-011-0328-z}
}
@ARTICLE{Reiche2011,
author = {Reiche, I. and Muller, K. and Staude, A. and Goebbels, J. and Riesemeier,
H.},
title = {Synchrotron radiation and laboratory micro X-ray computed tomography-useful
tools for the material identification of prehistoric objects made
of ivory{,} bone or antler},
journal = {J. Anal. At. Spectrom.},
year = {2011},
volume = {26},
pages = {1802-1812},
file = {Reiche2011.PDF:Reiche2011.PDF:PDF},
issue = {9},
owner = {habi},
publisher = {The Royal Society of Chemistry},
review = {cites WideFieldScanPaper},
timestamp = {2011.09.01},
url = {http://dx.doi.org/10.1039/C0JA00246A}
}
@ARTICLE{Reinhardt1997,
author = {Reinhardt, JM and D'Souza, N. and Hoffman, EA},
title = {{Accurate measurement of intrathoracic airways}},
journal = {IEEE transactions on medical imaging},
year = {1997},
volume = {16},
pages = {820--827},
number = {6},
bdsk-url-1 = {http://dx.doi.org/10.1109/42.650878},
owner = {habi},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1109/42.650878}
}
@ARTICLE{Rexilius2005,
author = {Rexilius, Jan and Spindler, Wolf and Jomier, Julien and Koenig, Matthias
and Hahn, Horst and Link, Florian and Peitgen, Heinz-Otto},
title = {{A Framework for Algorithm Evaluation and Clinical Application Prototyping
using ITK}},
journal = {IJ - 2005 MICCAI Open-Source Workshop},
year = {2005},
bdsk-url-1 = {http://hdl.handle.net/1926/12},
file = {:Rexilius2005.pdf:PDF},
keywords = {ITK, MeVisLab, Algorithm Evaluation, Clinical Application Prototyping,
Visual Programming},
owner = {habi},
timestamp = {2008.02.28},
url = {http://hdl.handle.net/1926/12}
}
@INBOOK{Richardson1961,
pages = {139--187},
title = {{The problem of contiguity: An appendix to Statistic of Deadly Quarrels}},
publisher = {Ann Arbor, Mich. : The Society},
year = {1961},
author = {Lewis F. Richardson},
volume = {6},
journal = {Gen. Syst},
owner = {habi},
timestamp = {2010.04.28}
}
@ARTICLE{Ritman2005,
author = {Ritman, Erik L.},
title = {{Micro-Computed Tomography of the Lungs and Pulmonary-Vascular System}},
journal = {Proc Am Thorac Soc},
year = {2005},
volume = {2},
pages = {477-480},
number = {6},
bdsk-url-1 = {http://dx.doi.org/10.1513/pats.200508-080DS},
file = {Ritman2005.pdf:Ritman2005.pdf:PDF},
owner = {habi},
timestamp = {2010.04.19},
url = {http://dx.doi.org/10.1513/pats.200508-080DS}
}
@ARTICLE{Robb2003,
author = {Robb, W.L.},
title = {{Perspective on the first 10 years of the CT scanner industry}},
journal = {Academic Radiology},
year = {2003},
volume = {10},
pages = {756--760},
number = {7},
bdsk-url-1 = {http://dx.doi.org/10.1016/S1076-6332(03)80121-6},
file = {Robb2003.pdf:Robb2003.pdf:PDF},
owner = {habi},
publisher = {Elsevier},
timestamp = {2010.03.26},
url = {http://dx.doi.org/10.1016/S1076-6332(03)80121-6}
}
@ARTICLE{Robb2003a,
author = {Walter L Robb},
title = {Perspective on the first 10 years of the CT scanner industry.},
journal = {Acad Radiol},
year = {2003},
volume = {10},
pages = {756--760},
number = {7},
month = {Jul},
institution = {Vantage Management, 3000 Troy-Schenectady Rd, Schenectady, NY 12309,
USA.},
keywords = {England; History, 20th Century; Humans; Tomography Scanners, X-Ray
Computed, history; Tomography, X-Ray Computed, history/instrumentation;
United States},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pmid = {12862285},
timestamp = {2010.04.28}
}
@ARTICLE{Rodriguez1987,
author = {Rodriguez, M. and Bur, S. and Favre, A. and Weibel, E. R.},
title = {Pulmonary acinus: Geometry and morphometry of the peripheral airway
system in rat and rabbit},
journal = {American Journal of Anatomy},
year = {1987},
volume = {180},
pages = {143--155},
number = {2},
bdsk-url-1 = {http://dx.doi.org/10.1002/aja.1001800204},
file = {Rodriguez1987.pdf:Rodriguez1987.pdf:PDF},
owner = {habi},
timestamp = {2008.07.17},
url = {http://dx.doi.org/10.1002/aja.1001800204}
}
@ARTICLE{Rogers2003,
author = {Lee F Rogers},
title = {"My word, what is that?": Hounsfield and the triumph of clinical
research.},
journal = {AJR Am J Roentgenol},
year = {2003},
volume = {180},
pages = {1501},
number = {6},
month = {Jun},
keywords = {Basal Ganglia Hemorrhage, history/radiography; Biomedical Research,
history; History, 20th Century; Humans; Tomography, X-Ray Computed,
history},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pmid = {12760908},
timestamp = {2010.04.28}
}
@ARTICLE{Roth2005,
author = {Roth-Kleiner, M. and Berger, T.M. and Tarek, M.R. and Burri, P.H.
and Schittny, J.C.},
title = {{Neonatal dexamethasone induces premature microvascular maturation
of the alveolar capillary network}},
journal = {Developmental Dynamics},
year = {2005},
volume = {233},
pages = {1261--1271},
number = {4},
bdsk-url-1 = {http://dx.doi.org/10.1002/dvdy.20447},
owner = {habi},
publisher = {New York, NY: Wiley-Liss, Inc., 1992-},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1002/dvdy.20447}
}
@ARTICLE{Roth-Kleiner2004,
author = {Roth-Kleiner, Matthias and Hirsch, Emilio and Schittny, Johannes
C.},
title = {Fetal Lungs of Tenascin-C-Deficient Mice Grow Well, but Branch Poorly
in Organ Culture},
journal = {Am. J. Respir. Cell Mol. Biol.},
year = {2004},
volume = {30},
pages = {360--366},
number = {3},
abstract = {Tenascin-C (TNC) is a multidomain extracellular matrix protein that
contributes to organogenesis and tumorgenesis. To elucidate its developmental
function in the context of TNC deficiency, lung lobes of TNC null
mice were obtained at Embryonic Days E11.5 and E12.5 and cultured
for 3 d. In lung explants of homozygote TNC-deficient embryos (E12.5)
the number of future airway branches was reduced by 36% as compared
with wild-type. In heterozygote explants only half of the reduction
(18%) was observed. No significant alteration, neither of the explant
growth nor of the pattern of airway branching, was noticed in TNC-null
explants. However, the terminal endbuds of the transgenic explants
were enlarged. The results are supported by a morphologic investigation
at Postnatal Day P2, where the airspaces of TNC-deficient lungs appeared
larger than in wild-type lungs. Taken together, our results represent
the first developmental phenotype of TNC-null mice. We conclude that
TNC takes part in the control of fetal lung branching, and that not
only the presence of TNC but also its amount is important. Because
TNC is predominantly expressed at the growing tip of the future airways,
we hypothesize that TNC promotes the penetration into the surrounding
mesenchyme and the branching of the growing airways.},
bdsk-url-1 = {http://ajrcmb.atsjournals.org/cgi/content/abstract/30/3/360},
date = {March 1, 2004},
file = {:Roth-Kleiner2004.pdf:PDF},
owner = {habi},
timestamp = {2008.02.18},
url = {http://ajrcmb.atsjournals.org/cgi/content/abstract/30/3/360}
}
@ARTICLE{Rudolph2008,
author = {Rudolph, Tobias and Puls, Marc and Anderegg, Christoph and Ebert,
Lars and Broehan, Martina and Rudin, Adrian and Kowal, Jens},
title = {{MARVIN: a medical research application framework based on open source
software}},
journal = {Computer Methods and Programs in Biomedicine},
year = {2008},
volume = {91},
pages = {165--174},
number = {2},
bdsk-url-1 = {http://dx.doi.org/10.1016/j.cmpb.2008.04.007},
file = {Rudolph2008.pdf:Rudolph2008.pdf:PDF},
owner = {habi},
publisher = {Elsevier},
timestamp = {2008.12.16},
url = {http://dx.doi.org/10.1016/j.cmpb.2008.04.007}
}
@ARTICLE{Ruegsegger1996,
author = {R{\"{u}}egsegger, P.},
title = {{A Microtomographic System for the Nondestructive Evaluation of Bone
Architecture}},
journal = {Calcified Tissue International},
year = {1996},
volume = {58},
pages = {24--29},
number = {1},
owner = {habi},
publisher = {Springer},
timestamp = {2008.11.12}
}
@ARTICLE{Sauret1999,
author = {V Sauret and K A Goatman and J S Fleming and A G Bailey},
title = {Semi-automated tabulation of the 3D topology and morphology of branching
networks using CT: application to the airway tree},
journal = {Physics in Medicine and Biology},
year = {1999},
volume = {44},
pages = {1625},
number = {7},
abstract = {Detailed information on biological branching networks (optical nerves,
airways or blood vessels) is often required to improve the analysis
of 3D medical imaging data. A semi-automated algorithm has been developed
to obtain the full 3D topology and dimensions (direction cosine,
length, diameter, branching and gravity angles) of branching networks
using their CT images. It has been tested using CT images of a simple
Perspex branching network and applied to the CT images of a human
cast of the airway tree. The morphology and topology of the computer
derived network were compared with the manually measured dimensions.
Good agreement was found. The airways dimensions also compared well
with previous values quoted in literature. This algorithm can provide
complete data set analysis much more quickly than manual measurements.
Its use is limited by the CT resolution which means that very small
branches are not visible. New data are presented on the branching
angles of the airway tree.},
bdsk-url-1 = {http://dx.doi.org/10.1088/0031-9155/44/7/304},
file = {Sauret1999.pdf:Sauret1999.pdf:PDF},
owner = {habi},
timestamp = {2010.05.03},
url = {http://dx.doi.org/10.1088/0031-9155/44/7/304}
}
@ARTICLE{Sauret2002,
author = {Sauret, V. and Halson, PM and Brown, IW and Fleming, JS and Bailey,
AG},
title = {{Study of the three-dimensional geometry of the central conducting
airways in man using computed tomographic (CT) images}},
journal = {Journal of Anatomy},
year = {2002},
volume = {200},
pages = {123},
number = {2},
bdsk-url-1 = {http://dx.doi.org/10.1046/j.0021-8782.2001.00018.x},
owner = {habi},
publisher = {Blackwell Publishing},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1046/j.0021-8782.2001.00018.x}
}
@ARTICLE{Sausbier2009,
author = {Sausbier, M. and Dullin, C. and Kabagema, C. and Flockerzie, K. and
Haberthuer, D. and Wessels, J. and Alves, F. and Schittny, J. C.
and Neuhuber, W. and Ruth, P. and Sausbier, U.},
title = {{Enhanced cathepsin k release from osteoclasts is linked to idiopathic
osteoporosis in mice with BK channel ablation}},
journal = {{Naunyn-Schmiedeberg's Archives of Pharmacology}},
year = {2009},
volume = {379},
pages = {147},
number = {{Suppl. 1}},
month = {{APR}},
note = {{50th Annual Meeting of the Deutsche-Gesellschaft-fur-Experimentelle-und-Klinische-Pharmakologie-und
-Toxikologie, Mainz, GERMANY, MAR 10-12, 2009}},
address = {{233 SPRING ST, NEW YORK, NY 10013 USA}},
affiliation = {{{[}Sausbier, M.; Kabagema, C.; Flockerzie, K.; Ruth, P.; Sausbier,
U.] Univ Tubingen, Inst Pharm, Tubingen, Germany. {[}Dullin, C.;
Wessels, J.; Alves, F.] Uni Klinikum, Gottingen, Germany. {[}Haberthuer,
D.; Schittny, J. C.] Univ Bern, Inst Anat, Bern, Switzerland. {[}Neuhuber,
W.] Univ Erlangen Nurnberg, Inst Anat, Erlangen, Germany.}},
bdsk-url-1 = {http://dx.doi.org/10.1007/s00210-009-0404-1},
doc-delivery-number = {{452TD}},
file = {Sausbier2009.pdf:Sausbier2009.pdf:PDF},
issn = {{0028-1298}},
journal-iso = {{Naunyn-Schmiedebergs Arch. Pharmacol.}},
language = {{English}},
number-of-cited-references = {{0}},
organization = {{Deutsch Gesell Experiment \& Klinis Pharmakol \& Toxikol}},
owner = {habi},
publisher = {{SPRINGER}},
subject-category = {{Pharmacology \& Pharmacy}},
times-cited = {{0}},
timestamp = {2009.11.16},
type = {{Meeting Abstract}},
unique-id = {{ISI:000266563200148}},
url = {http://dx.doi.org/10.1007/s00210-009-0404-1}
}
@ARTICLE{Sausbier2009b,
author = {Ulrike Sausbier and Christian Dullin and Clement Kabagema and Katarina
Flockerzie and David Haberth\"{u}r and Marco Stampanoni and Johannes
C. Schittny and Winfried Neuhuber and Walter St\"{u}hmer and Peter
Ruth and Frauke Alves and Matthias Sausbier},
title = {{BK channel ablation in osteoclasts leads to enhanced Cathepsin K
release and is linked to idiopathic osteoporosis in mice}},
journal = {Nature Medicine},
note = {submitted},
owner = {habi},
timestamp = {2009.12.07}
}
@ARTICLE{Scadeng2007,
author = {Scadeng, M. and Rossiter, H.B. and Dubowitz, D.J. and Breen, E.C.},
title = {{High-resolution three-dimensional magnetic resonance imaging of
mouse lung in situ}},
journal = {Investigative radiology},
year = {2007},
volume = {42},
pages = {50},
number = {1},
bdsk-url-1 = {http://dx.doi.org/10.1097/01.rli.0000248850.13221.61},
file = {Scadeng2007.pdf:Scadeng2007.pdf:PDF},
owner = {habi},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1097/01.rli.0000248850.13221.61}
}
@CONFERENCE{Schenk2008,
author = {Andrea Schenk and Stephan Zidowitz and Holger Bourquain and Milo
Hindennach and Christian Hansen and Horst K. Hahn and Heinz-Otto
Peitgen},
title = {Clinical relevance of model based computer-assisted diagnosis and
therapy},
year = {2008},
editor = {Maryellen L. Giger and Nico Karssemeijer},
volume = {6915},
number = {1},
pages = {691502},
publisher = {SPIE},
bdsk-url-1 = {http://dx.doi.org/10.1117/12.780270},
comment = {MeVisLab-Paper},
eid = {691502},
file = {Schenk2008.pdf:Schenk2008.pdf:PDF},
journal = {Medical Imaging 2008: Computer-Aided Diagnosis},
location = {San Diego, CA, USA},
numpages = {19},
owner = {habi},
timestamp = {2009.07.03},
url = {http://dx.doi.org/10.1117/12.780270}
}
@ARTICLE{Scherle1970,
author = {W. Scherle},
title = {A simple method for volumetry of organs in quantitative stereology.},
journal = {Mikroskopie},
year = {1970},
volume = {26},
pages = {57--60},
number = {1},
month = {Jun},
keywords = {Animals; Buffers; Liver; Methods; Organ Size; Physics; Rats; Water},
owner = {habi},
pmid = {5530651},
timestamp = {2007.08.10}
}
@INBOOK{Schittny2004,
pages = {275--317},
title = {Morphogenesis of the Mammalian Lung: Aspects of Structure and Extracellular
Matrix Components},
publisher = {Marcel Dekker Inc},
year = {2004},
author = {Schittny, J.C. and Burri, P.H.},
booktitle = {Lung Development and Regeneration},
file = {Schittny2004.pdf:Schittny2004.pdf:PDF},
owner = {habi},
timestamp = {2006.11.30}
}
@ARTICLE{Schittny1998,
author = {Schittny, J.C. and Djonov, V. and Fine, L. and Burri, P.H.},
title = {Programmed cell death contributes to postnatal lung development},
journal = {American Journal of Respiratory Cell and Molecular Biology},
year = {1998},
volume = {18},
pages = {786--793},
number = {6},
month = jun,
abstract = {The rat lune undergoes the phase of maturation of the alveolar septa
and of the parenchymal microvascular network mainly during the third
postnatal week. Speculating that programmed cell death may contribute
to the thinning of the alveolar septa, we searched for the presence
of DNA fragmentation in rat lungs between postnatal days 6 and 36
using the TUNEL procedure, The number of positive nuclei was compared
at different days. We observed an 8-fold increase of programmed cell
death toward the end of the third week as compared to the days before
and after this time point. The precise timing of the appearance of
the peak depended on the size of the litter, Double-labeling for
DNA fragmentation (TUNEL) and for type I and type II epithelial cells
(antibodies E11 and MNF-116), as well as morphologic studies at electron
microscopic level, revealed that during the peak of programmed cell
death mainly fibroblasts and type II epithelial cells were dying.
While both dying cell types were TUNEL-positive. nuclear fragments
and apoptotic bodies were exclusively observed in the dying fibroblasts.
We conclude that programmed cell death is involved in the structural
maturation of the lung by reducing the number of fibroblasts and
type II epithelial cells in the third postnatal week, We observed
that the dying fibroblasts are cleared by neighboring fibroblasts
in a later stage of apoptosis, and we hypothesize that type II epithelial
cells are cleared by alveolar macrophages in early stages of the
programmed cell death process},
address = {Univ Bern, Dept Dev Biol, Inst Anat, CH-3012 Bern, Switzerland Boston
Univ, Sch Med, Ctr Pulm, Boston, MA 02118 USA},
bdsk-url-1 = {http://ajrcmb.atsjournals.org/cgi/content/abstract/18/6/786},
comment = {Times Cited: 62 Article English Schittny, J. C Univ Bern, Dept Dev
Biol, Inst Anat, CH-3012 Bern, Switzerland Cited References Count:
41},
file = {Schittny-Programmed Cell Death Contributes to Postnatal Lung Development.pdf:Schittny-Programmed Cell Death Contributes to Postnatal Lung Development.pdf:PDF},
keywords = {Alveoli, APOPTOSIS, Cell Death, development, DNA FRAGMENTATION, EXPRESSION,
FETAL, GROWTH, INJURY, lung, Lung development, lung-development,
morphology, PNEUMOCYTES, postnatal, RAT LUNG},
owner = {habi},
refid = {SCHITTNY1998},
timestamp = {2006.11.30},
url = {http://ajrcmb.atsjournals.org/cgi/content/abstract/18/6/786}
}
@ARTICLE{Schittny1997,
author = {J.C. Schittny and M. Paulsson and C. Vallan and P. H. Burri and N.
Kedei and D. Aeschlimann},
title = {Protein cross-linking mediated by tissue transglutaminase correlates
with the maturation of extracellular matrices during lung development.},
journal = {Am J Respir Cell Mol Biol},
year = {1997},
volume = {17},
pages = {334--343},
number = {3},
month = {Sep},
abstract = {At birth, the mammalian lung is still immature. The alveoli are not
yet formed and the interairspace walls contain two capillary layers
which are separated by an interstitial core. After alveolarization
(first 2 postnatal weeks in rats) the alveolar septa mature: their
capillary layers merge, the amount of connective tissue decreases,
and the mature lung parenchyma is formed (second and third week).
During the first 3 wk of life the role of tissue transglutaminase
(tTG) was studied in rat lung by immunostaining of cryostat and paraffin
sections, by Northern and Western blotting, and by a quantitative
determination of gamma-glutamyl-epsilon-lysine. While enzyme activity
and intracellular tTG were already present before term, the enzyme
product (gamma-glutamyl-epsilon-lysine-crosslink) and extracellular
tTG appeared between postnatal days 10 and 19 in the lung parenchyma.
In large blood vessels and large airways, which mature earlier than
the parenchyma, both the enzyme product and extracellular tTG had
already appeared at the end of the first postnatal week. We conclude
that tTG is expressed and externalized into the extracellular matrix
of lung shortly before maturation of an organ area. Because tTG covalently
and irreversibly crosslinks extracellular matrix proteins, we hypothesize
that it may prevent or delay further remodeling of basement membranes
and may stabilize other extracellular components, such as microfibrils.},
file = {Schittny1997.pdf:Schittny1997.pdf:PDF},
institution = {Department of Developmental Biology, Institute of Anatomy, University
of Bern, Switzerland.},
keywords = {Animals; Antibody Specificity; Cross-Linking Reagents; Dipeptides;
Extracellular Matrix; Female; Fetus; Gene Expression Regulation,
Developmental; Gene Expression Regulation, Enzymologic; Lung; Pregnancy;
RNA, Messenger; Rats; Rats, Wistar; Transglutaminases},
owner = {habi},
pmid = {9308920},
timestamp = {2008.01.11}
}
@UNPUBLISHED{Schittny2007,
author = {Schittny, J.C. AND Stampanoni, M.},
title = {3D High Resolution Lung Imaging by Synchrotron based X-Ray Tomographic
Microscopy (submitted)},
year = {2007},
owner = {habi},
timestamp = {2006.12.04}
}
@ARTICLE{Schittny2011,
author = {J. C. Schittny and S. F. Barr\'{e} and R. Mokso and D. Haberth\"{u}r
and M. Semmler-Behnke and W. G. Kreyling and A. Tsuda and M. Stampanoni},
title = {High-Resolution Phase-Contrast Imaging of Submicron Particles in
Unstained Lung Tissue},
journal = {AIP Conference Proceedings},
year = {2011},
volume = {1365},
pages = {384-387},
number = {1},
editor = {Ian McNulty and Catherine Eyberger and Barry Lai},
keywords = {X-ray imaging; image reconstruction; X-ray optics; X-ray microscopes},
owner = {habi},
publisher = {AIP},
timestamp = {2010.09.28},
url = {http://dx.doi.org/10.1063/1.3625383}
}
@INBOOK{Schittny2007a,
chapter = {5},
pages = {91-114},
title = {Development and Growth of the Lung},
publisher = {McGraw-Hill Professional},
year = {2008},
author = {Johannes C. Schittny and Peter H. Burri},
bdsk-url-1 = {http://books.google.com/books?id=3FjqNJI148oC&pg=PT150},
file = {Schittny2007a.pdf:Schittny2007a.pdf:PDF},
owner = {habi},
timestamp = {2009.09.28},
url = {http://books.google.com/books?id=3FjqNJI148oC&pg=PT150}
}
@ARTICLE{Schittny2010,
author = {Schittny, Johannes C. and Haberth\"{u}r, David and Semmler-Behnke,
Manuela and Takenaka, Shinji and Stampanoni, Marco and Kreyling,
Wolfgang G. and Tsuda, Akira},
title = {{High Resolution 3-dimensional Imaging Of Ultrafine Particles In
The Lung Parenchyma}},
journal = {Am. J. Respir. Crit. Care Med.},
year = {2010},
volume = {181},
pages = {A3643-},
number = {1-MeetingAbstracts},
note = {Poster: \url{http://is.gd/fzBba}},
bdsk-url-1 = {http://ajrccm.atsjournals.org/cgi/reprint/181/1_MeetingAbstracts/A3643.pdf},
file = {Schittny2010.pdf:Schittny2010.pdf:PDF},
owner = {habi},
timestamp = {2010.05.04},
url = {http://ajrccm.atsjournals.org/cgi/reprint/181/1_MeetingAbstracts/A3643.pdf}
}
@ARTICLE{Schittny2000,
author = {J. C. Schittny and G. Miserocchi and M. P. Sparrow},
title = {Spontaneous peristaltic airway contractions propel lung liquid through
the bronchial tree of intact and fetal lung explants.},
journal = {Am J Respir Cell Mol Biol},
year = {2000},
volume = {23},
pages = {11--18},
number = {1},
month = {Jul},
abstract = {Spontaneous contractions of the fetal airways are a well recognized
but poorly characterized phenomenon. In the present study spontaneous
narrowing of the airways was analyzed in freshly isolated lungs from
early to late gestation in fetal pigs and rabbits and in cultured
fetal mouse lungs. Propagating waves of contraction traveling proximal
to distal were observed in fresh lungs throughout gestation which
displaced the lung liquid along the lumen. In the pseudoglandular
and canalicular stages (fetal pigs) the frequency ranged from 2.3
to 3.3 contractions/min with a 39 to 46\% maximum reduction of lumen
diameter. In the saccular stage (rabbit) the frequency was 10 to
12/min with a narrowing of approximately 30\%. In the organ cultures
the waves of narrowing started at the trachea in whole lungs, or
at the main bronchus in lobes (5.2 +/- 1.5 contractions/min, 22 +/-
8\% reduction of lumen diameter), and as they proceeded distally
along the epithelial tubes the luminal liquid was shifted toward
the terminal tubules, which expanded the endbuds. As the tubules
relaxed the flow of liquid was reversed. Thus the behavior of airway
smooth muscle in the fetal lung is phasic in type (like gastrointestinal
muscle) in contrast to that in postnatal lung, where it is tonic.
An intraluminal positive pressure of 2.33 +/- 0.77 cm H(2)O was recorded
in rabbit fetal trachea. It is proposed that the active tone of the
smooth muscle maintains the positive intraluminal pressure and acts
as a stimulus to lung growth via the force exerted across the airway
wall and adjacent parenchyma. The expansion of the compliant endbuds
by the fluid shifts at the airway tip may promote their growth into
the surrounding mesenchyme.},
keywords = {Animals; Bronchi; Bronchoalveolar Lavage Fluid; Embryonic and Fetal
Development; Gestational Age; In Vitro; Lung; Mice; Microscopy, Video;
Muscle Contraction; Muscle Tonus; Muscle, Smooth; Organ Culture Techniques;
Pressure; Rabbits; Research Support, Non-U.S. Gov't; Swine},
owner = {habi},
pmid = {10873148},
timestamp = {2006.11.30}
}
@ARTICLE{Schittny2008,
author = {Schittny, Johannes C. and Mund, Sonja I. and Stampanoni, Marco},
title = {Evidence and structural mechanism for late lung alveolarization},
journal = {Am J Physiol Lung Cell Mol Physiol},
year = {2008},
volume = {294},
pages = {L246--254},
number = {2},
abstract = {According to the current view, the formation of new alveolar septa
from preexisting ones ceases due to the reduction of a double- to
a single-layered capillaries network inside the alveolar septa (microvasculature
maturation postnatal days 1421 in rats). We challenged this view
by measuring stereologically the appearance of new alveolar septa
and by studying the alveolar capillary network in three-dimensional
(3-D) visualizations obtained by high-resolution synchrotron radiation
X-ray tomographic microscopy. We observed that new septa are formed
at least until young adulthood (rats, days 460) and that roughly
half of the new septa are lifted off of mature septa containing single-layered
capillary networks. At the basis of newly forming septa, we detected
a local duplication of the capillary network. We conclude that new
alveoli may be formed in principle at any time and at any location
inside the lung parenchyma and that lung development continues into
young adulthood. We define two phases during developmental alveolarization.
Phase one (days 421), lifting off of new septa from immature preexisting
septa, and phase two (day 14 through young adulthood), formation
of septa from mature preexisting septa. Clinically, our results ask
for precautions using drugs influencing structural lung development
during both phases of alveolarization.},
bdsk-url-1 = {http://dx.doi.org/10.1152/ajplung.00296.2007},
date = {February 1, 2008},
file = {:Schittny2008.pdf:PDF},
owner = {habi},
timestamp = {2008.02.18},
url = {http://dx.doi.org/10.1152/ajplung.00296.2007}
}
@ARTICLE{Schittny1993,
author = {J. C. Schittny and C. M. Schittny},
title = {Role of the B1 short arm in laminin self-assembly.},
journal = {Eur J Biochem},
year = {1993},
volume = {216},
pages = {437--441},
number = {2},
month = {Sep},
abstract = {Laminin self-assembles into a basement membrane polymer through specific
low-affinity interactions. Recently, it was shown that the terminal
short-arm domain (domains VI and V) of the B1 chain (fragment E4)
possesses one of the laminin self-interaction sites [Schittny, J.C.
& Yurchenco, P.D. (1990) J. Cell Biol. 110, 825-832], but that the
binding partner(s) of this domain is unknown. Using affinity retardation
chromatography we now investigate the domain(s) fragment E4 binds
to. The elution of E4 was clearly retarded on immobilized laminin
and fragment E1' (three-chain short-arm complex excluding the distal
part of the B1 chain), but not on immobilized E4 in calcium containing
buffer and at 37 degrees C. Under the same conditions, E1' strongly
interacts with immobilized E4. In addition, E1' is able to non-covalently
cross-link soluble E4 to immobilized E4. No further interaction of
laminin and E4 with additional fragments (P1', A, B2 and B1 chain
short-arm complex without B1-domains VI-IV and without globules;
E8, distal long arm and G1-3; E3, long-arm G subdomains 4 and 5)
could be demonstrated. These data are interpreted as evidence that
(a) the primary laminin-laminin bonds are formed between the short
arms of laminin, that (b) the terminal B1 short-arm domain (E4) can
interact with the short arm(s) of the A and/or B2 chain(s) (domain
E1'), but does not self-interact, and that (c) due to at least three
self-binding sites, laminin polymerization behaves co-operatively.},
keywords = {Animals; Basement Membrane; Biopolymers; Chromatography, Affinity;
Cross-Linking Reagents; Laminin; Mice; Research Support, Non-U.S.
Gov't; Research Support, U.S. Gov't, P.H.S.},
owner = {habi},
pmid = {8375382},
timestamp = {2006.11.30}
}
@ARTICLE{Schneider2007,
author = {Schneider,Philipp and Stauber,Martin and Voide,Romain and Stampanoni,Marco
and Donahue,Leah Rae and M\"{u}ller,Ralph},
title = {Ultrastructural Properties in Cortical Bone Vary Greatly in Two Inbred
Strains of Mice as Assessed by Synchrotron Light Based Micro- and
Nano-CT},
journal = {Journal of Bone and Mineral Research},
year = {2007},
volume = {22},
pages = {1557-1570},
number = {10},
bdsk-url-1 = {http://dx.doi.org/10.1359/jbmr.070703},
eprint = {http://www.jbmronline.org/doi/pdf/10.1359/jbmr.070703},
file = {:Schneider2007.pdf:PDF},
owner = {habi},
timestamp = {2008.08.25},
url = {http://dx.doi.org/10.1359/jbmr.070703}
}
@ARTICLE{Schneiders1996,
author = {Schneiders, R},
title = {A grid-based algorithm for the generation of hexahedral element meshes},
journal = {Engineering with Computers},
year = {1996},
volume = {12},
pages = {168-177},
number = {3-4},
abstract = {An algorithm for the generation of hexahedral-element meshes is presented.
The algorithm works in two steps: first the interior of the volume
is filled with a regular grid; then the boundary region is meshed
by using basically two-dimensional operations. The algorithm was
designed for use in the fem-simulation of metal forming processes
where a remeshing must be done very often. In principle, it can be
used for meshing any geometry with hexahedral elements and examples
of meshes for geometries arising from various applications are given.
The algorithm is checked against the criteria proposed by Sabin [1]
(Advances in Engineering Software, 13, 220-225).},
bdsk-url-1 = {http://dx.doi.org/10.1007/BF01198732},
file = {Schneiders1996.pdf:Schneiders1996.pdf:PDF},
owner = {habi},
timestamp = {2008.03.06},
url = {http://dx.doi.org/10.1007/BF01198732}
}
@ARTICLE{Schreider1981,
author = {Schreider, J.P. and Raabe, O.G.},
title = {{Structure of the human respiratory acinus}},
journal = {American Journal of Anatomy},
year = {1981},
volume = {162},
pages = {221--232},
number = {3},
owner = {habi},
timestamp = {2010.04.30}
}
@BOOK{Schroeder2003,
title = {The Visualization Toolkit, Third Edition},
publisher = {{Kitware Inc.}},
year = {2003},
author = {Schroeder, Will and Martin, Ken and Lorensen, Bill},
abstract = {{The theory and practice of visualization using the VTK Visualization
Toolkit software. This textbook describes techniques for scalar,
vector, and tensor field visualization, as well as texture-map based
and modeling techniques. The book includes such important algorithms
as color mapping, marching cubes, vector warping and coloring, polygon
decimation and smoothing, streamline generation, modeling with implicit
surfaces, boolean textures, hyperstreamlines, Delaunay triangulation,
volume rendering and many more. Extensive descriptions of data structures
and API's, and a succinct description of computer graphics for visualization
are also covered. Each chapter contains complete references and exercises
(the book is used in many college-level visualization and graphics
courses), and algorithms are demonstrated using working VTK code
(updated for VTK version 4.2 and published by Kitware). The The
Visualization Toolkit An Object-Oriented Approach To 3D Graphics
3rd Edition textbook is 496 pages, printed in full color, and comes
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,
visualization},
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
() or related to this the structure model index (SMI) are almost
exclusively explained by the arrangement of the plates. This also
suggests that rods hold independent information characterizing trabecular
bone quality, especially in the spine. These findings may improve
the understanding of the site-specific role of bone microarchitecture
in determining bone quality and in future studies the competence
of bone.},
bdsk-url-1 = {http://dx.doi.org/10.1016/j.bone.2005.09.019},
file = {Stauber2006b.pdf:Stauber2006b.pdf:PDF},
keywords = {Adult; Aged; Aged, 80 and over; Algorithms; Bone and Bones; Female;
Humans; Male; Middle Aged},
owner = {habi},
pii = {S8756-3282(05)00389-3},
pmid = {16338187},
timestamp = {2007.08.10},
url = {http://dx.doi.org/10.1016/j.bone.2005.09.019}
}
@ARTICLE{Stelter1966,
author = {Stelter, GP and Hansen, JE and Fairchild, DG},
title = {{A three-dimensional reconstruction of lung parenchyma.}},
journal = {The American review of respiratory disease},
year = {1966},
volume = {94},
pages = {79},
number = {1},
owner = {habi},
timestamp = {2010.04.30}
}
@ARTICLE{Sterio1984,
author = {D. C. Sterio},
title = {The unbiased estimation of number and sizes of arbitrary particles
using the disector.},
journal = {J Microsc},
year = {1984},
volume = {134},
pages = {127--136},
number = {Pt 2},
month = {May},
abstract = {A three-dimensional counting rule and its integral test system, the
disector, for obtaining unbiased estimates of the number of arbitrary
particles in a specimen is presented. Used in combination with ordinary
and recently developed stereological methods unbiased estimates of
various mean particle sizes and the variance of particle volume are
obtainable on sets of two parallel sections with a known separation.
The same principle allows the unbiased estimation of the distribution
of individual particle volumes in sets of serial sections.},
keywords = {Animals; Cell Nucleus, ultrastructure; Kidney Glomerulus, cytology;
Microscopy, instrumentation/methods; Rats},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pmid = {6737468},
timestamp = {2010.05.10}
}
@ARTICLE{Sternberg1983,
author = {Sternberg, S.R.},
title = {Biomedical Image Processing},
journal = {Computer},
year = {1983},
volume = {16},
pages = {22--34},
number = {1},
bdsk-url-1 = {http://ieeexplore.ieee.org/xpls/abs_all.jsp?isnumber=34674&arnumber=1654163&count=23&index=3},
file = {Sternberg1983.pdf:Sternberg1983.pdf:PDF},
issn = {0018-9162},
owner = {habi},
timestamp = {2007.05.25},
url = {http://ieeexplore.ieee.org/xpls/abs_all.jsp?isnumber=34674&arnumber=1654163&count=23&index=3}
}
@MASTERSTHESIS{Stuker2006,
author = {Florian Stuker},
title = {{Temperature Measurements in Laser Tissue Soldering}},
school = {Universit�at Bern},
year = {2006},
file = {Stuker2006.pdf:Stuker2006.pdf:PDF},
owner = {habi},
timestamp = {2009.09.28}
}
@ARTICLE{Sundar2003,
author = {Sundar, H. and Silver, D. and Gagvani, N. and Dickinson, S.},
title = {{Skeleton based shape matching and retrieval}},
journal = {Shape Modeling International, 2003},
year = {2003},
pages = {130--139},
file = {Sundar2003.pdf:Sundar2003.pdf:PDF},
owner = {habi},
timestamp = {2008.07.15}
}
@ARTICLE{Sundaramoorthy1995,
author = {Sundaramoorthy, G. and Hoford, JD and Hoffman, EA and Higgins, WE},
title = {{Impromptu: a system for automatic 3D medical image-analysis}},
journal = {Computerized medical imaging and graphics},
year = {1995},
volume = {19},
pages = {131--143},
number = {1},
bdsk-url-1 = {http://dx.doi.org/10.1016/0895-6111(94)00042-5},
owner = {habi},
publisher = {Elsevier Science},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1016/0895-6111(94)00042-5}
}
@ARTICLE{Suter2004,
author = {Melissa Suter and Juerg Tschirren and Joseph Reinhardt and Milan
Sonka and Eric Hoffman and William Higgins and Geoffrey McLennan},
title = {Evaluation of the human airway with multi-detector x-ray-computed
tomography and optical imaging},
journal = {Physiological Measurement},
year = {2004},
volume = {25},
pages = {837-847},
number = {4},
abstract = {Defining the healthy human airway is important in enhancing our understanding
of pulmonary disease states such as inflammation and cancer. The
structure of the human airway, both static and dynamic, can be assessed
using multi-detector CT (MDCT) scanning. This modality also allows
for the evaluation of structures outside of the airway. The airway
wall can be directly visualized using CCD chip high-resolution color
optical imaging through endoscopy allowing bronchial wall evaluation
by traditional biopsy methods, as well as by newer optically based
strategies. We suggest that these two imaging modalities, MDCT and
optical imaging, provide complementary information about the normal
airway, and the airway in various diseases. Methods for evaluating
the human airway using MDCT images are presented facilitating automatic
airway segmentation, branchpoint finding and airway dimension analysis.
The airway wall color is objectively evaluated as an important surrogate
for airway wall inflammation and cancer formation, and the integration
of the color endoscopic information into the MDCT scan data set is
currently ongoing. The amalgamation of these two digital imaging
modalities appears increasingly useful for enabling biopsy techniques,
and for relating structure and function of the airway. In addition,
these developments may be progressively more useful in understanding
the normal airway structure and function, for defining airway diseases
patterns and for guiding biopsy and therapeutic procedures.},
bdsk-url-1 = {http://dx.doi.org/10.1088/0967-3334/25/4/005},
file = {Suter2004.pdf:Suter2004.pdf:PDF},
owner = {habi},
timestamp = {2008.12.09},
url = {http://dx.doi.org/10.1088/0967-3334/25/4/005}
}
@UNPUBLISHED{Sznitman2006,
author = {J. Sznitman and F. Heimsch and D. Altorfer and J. C. Schittny and
T. R\"{o}sgen},
title = {{Alveolar flow simulations during rhythmical breathing motion in
reconstructed XTM acinar airspaces }},
file = {Sznitman2006.pdf:Sznitman2006.pdf:PDF},
owner = {habi},
timestamp = {2009.09.28}
}
@ARTICLE{Sznitman2007,
author = {Josu\'{e} Sznitman and Fabian Heimsch and Thomas Heimsch and Daniel
Rusch and Thomas R\"{o}sgen},
title = {{Three-Dimensional Convective Alveolar Flow Induced by Rhythmic Breathing
Motion of the Pulmonary Acinus}},
journal = {Journal of Biomechanical Engineering},
year = {2007},
volume = {129},
pages = {658-665},
number = {5},
bdsk-url-1 = {http://dx.doi.org/10.1115/1.2768109},
file = {Sznitman2007.pdf:Sznitman2007.pdf:PDF},
keywords = {computational fluid dynamics; convection; lung; pneumodynamics; shear
flow},
owner = {habi},
publisher = {ASME},
timestamp = {2008.09.30},
url = {http://dx.doi.org/10.1115/1.2768109}
}
@ARTICLE{Sznitman2009,
author = {Josu\'{e} Sznitman and Thomas Heimsch and Johannes H. Wildhaber and
Akira Tsuda and Thomas R\"{o}sgen},
title = {Respiratory Flow Phenomena and Gravitational Deposition in a Three-Dimensional
Space-Filling Model of the Pulmonary Acinar Tree},
journal = {Journal of Biomechanical Engineering},
year = {2009},
volume = {131},
pages = {031010},
number = {3},
eid = {031010},
bdsk-url-1 = {http://dx.doi.org/10.1115/1.3049481},
file = {Sznitman2009.pdf:Sznitman2009.pdf:PDF},
keywords = {aerodynamics; aerosols; computational fluid dynamics; drugs; health
hazards; kinematics; lung; particle size; pipe flow; pneumodynamics;
sedimentation; trees (mathematics)},
numpages = {16},
owner = {habi},
publisher = {ASME},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1115/1.3049481}
}
@ARTICLE{Sznitman2010,
author = {Sznitman, J. and Sutter, R. and Altorfer, D. and Stampanoni, M. and
Rösgen, T. and Schittny, J.},
title = {Visualization of respiratory flows from 3D reconstructed alveolar
airspaces using X-ray tomographic microscopy},
journal = {Journal of Visualization},
year = {2010},
pages = {--},
__markedentry = {[haberthuer]},
abstract = {Abstract A deeper knowledge of the three-dimensional (3D)
structure of the pulmonary acinus has direct applications in studies
on acinar fluid dynamics and aerosol kinematics. To date, however,
acinar flow simulations have been often based on geometrical models
inspired by morphometrical studies; limitations in the spatial resolution
of lung imaging techniques have prevented the simulation of acinar
flows using 3D reconstructions of such small structures. In the present
study, we use high-resolution, synchrotron radiation-based X-ray
tomographic microscopy (SRXTM) images of the pulmonary acinus of
a mouse to reconstruct 3D alveolar airspaces and conduct computational
fluid dynamic (CFD) simulations mimicking rhythmic breathing motion.
Respiratory airflows and Lagrangian (massless) particle tracking
are visualized in two examples of acinar geometries with varying
size and complexity, representative of terminal sacculi including
their alveoli. The present CFD simulations open the path towards
future acinar flow and aerosol deposition studies in complete and
anatomically realistic multi-generation acinar trees using reconstructed
3D SRXTM geometries.},
file = {Sznitman2010.pdf:Sznitman2010.pdf:PDF},
owner = {habi},
timestamp = {2010.07.21},
url = {http://dx.doi.org/10.1007/s12650-010-0043-0}
}
@ARTICLE{Takahashi1999,
author = {Takahashi, Ichiro and Kiyono, Hiroshi},
title = {{Gut as the Largest Immunologic Tissue}},
journal = {JPEN J Parenter Enteral Nutr},
year = {1999},
volume = {23},
pages = {S7-12},
abstract = {The host is continuously exposed to the environment via the mucosal
surface. To this end, a large number of infectious agents, allergens
and foreign proteins enter the inside of our bodies via the oral
region, nasal and upper respiratory tracts, intestine and reproductive
tract. The total area of these mucosal surfaces, which cover these
tube-like tissues are at least two hundred times larger than those
of skin. To provide an optimal first line of defense for these large
surface areas, the mucosal immune system including secretory immunoglobulin
A (S-IgA), mucosal {alpha}{beta} and {gamma}{delta} T-cells and epithelium
play an essential role. The goal of our research is aimed at understanding
the molecular and cellular aspects of the mucosal immune system and
their defense against infectious diseases, inflammation and immunological
disorders. Further, it is important to quickly apply our fundamental
findings of the mucosal immune system to the development of mucosal
vaccines. (Journal of Parenteral and Enteral Nutrition 23:S7-S12,
1999)},
bdsk-url-1 = {http://dx.doi.org/10.1177/014860719902300503},
eprint = {http://pen.sagepub.com/cgi/reprint/23/5_suppl/S7.pdf},
owner = {habi},
timestamp = {2010.04.19},
url = {http://dx.doi.org/10.1177/014860719902300503}
}
@ARTICLE{Tang2001,
author = {Tang, X. and Ning, R. and Yu, R. and Conover, D.},
title = {Cone beam volume CT image artifacts caused by defective cells in
x-ray flat panel imagers and the artifact removal using a wavelet-analysis-based
algorithm},
journal = {Med.Phys.},
year = {2001},
volume = {28},
pages = {812--825},
number = {5},
month = may,
abstract = {The application of x-ray flat panel imagers (FPIs) in cone beam volume
CT (CBVCT) has attracted increasing attention. However, due to a
deficient semiconductor array manufacturing process, defective cells
unavoidably exist in x-ray FPIs. These defective cells cause their
corresponding image pixels in a projection image to behave abnormally
in signal gray level, and result in severe streak and ring artifacts
in a CBVCT image reconstructed from the projection images. Since
a three-dimensional (3-D) back-projection is involved in CBVCT, the
formation of the streak and ring artifacts is different from that
in the two-dimensional (2-D) fan beam CT. In this paper, a geometric
analysis of the abnormality propagation in the 3D back-projection
is presented, and the morphology of the streak and ring artifacts
caused by the abnormality propagation is investigated through both
computer simulation and phantom studies. In order to calibrate those
artifacts, a 2D wavelet-analysis-based statistical approach to correct
the abnormal pixels is proposed. The approach consists of three steps:
(1) the location-invariant defective cells in an x-ray FPI are recognized
by applying 2-D wavelet analysis on flat-field images, and a comprehensive
defective cell template is acquired; (2) based upon the template,
the abnormal signal gray level of the projection image pixels corresponding
to the location-invariant defective cells is replaced with the interpolation
of that of their normal neighbor pixels; (3) that corresponding to
the isolated location-variant defective cells are corrected using
a narrow-windowed median filter. The CBVCT images of a CT low-contrast
phantom are employed to evaluate this proposed approach, showing
that the streak and ring artifacts can be reliably eliminated. The
novelty and merit of the approach are the incorporation of the wavelet
analysis whose intrinsic multi-resolution analysis and localizability
make the recognition algorithm robust under variable x-ray exposure
levels between 30% and 70% of the dynamic range of an x-ray FPI},
address = {Department of Radiology, University of Rochester, New York 14642,
USA. tang@einstein.rad.rochester.edu},
bdsk-url-1 = {http://dx.doi.org/10.1118/1.1368878},
file = {Tang2001.pdf:Tang2001.pdf:PDF},
keywords = {Algorithms, Calibration, Image Processing,Computer-Assisted, In, instrumentation,
methods, morphology, Phantoms,Imaging, Research Support,U.S.Gov't,P.H.S.,
Tomography,X-Ray Computed, X-Rays},
owner = {habi},
refid = {TANG2001A},
timestamp = {2006.11.30},
url = {http://dx.doi.org/10.1118/1.1368878}
}
@ARTICLE{Tawhai2004,
author = {Tawhai, M.H. and Hunter, P. and Tschirren, J. and Reinhardt, J. and
McLennan, G. and Hoffman, E.A.},
title = {{CT-based geometry analysis and finite element models of the human
and ovine bronchial tree}},
journal = {Journal of Applied Physiology},
year = {2004},
volume = {97},
pages = {2310},
number = {6},
bdsk-url-1 = {http://dx.doi.org/10.1152/japplphysiol.00520.2004},
owner = {habi},
publisher = {Am Physiological Soc},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1152/japplphysiol.00520.2004}
}
@ARTICLE{Tawhai2010,
author = {Tawhai, Merryn H. and Lin, Ching-Long},
title = {Image-based modeling of lung structure and function},
journal = {J. Magn. Reson. Imaging},
year = {2010},
volume = {32},
pages = {1421--1431},
number = {6},
abstract = {Abstract The current state-of-the-art in image-based modeling allows
derivation of patient-specific models of the lung, lobes, airways,
and pulmonary vascular trees. The application of traditional engineering
analyses of fluid and structural mechanics to image-based subject-specific
models has the potential to provide new insight into structure–function
relationships in the individual via functional interpretation that
complements imaging and experimental studies. Three major issues
that are encountered in studies of airflow through the bronchial
airways are the representation of airway geometry, the imposition
of physiological boundary conditions, and the treatment of turbulence.
Here we review some efforts to resolve each of these issues, with
particular focus on image-based models that have been developed to
simulate airflow from the mouth to the terminal bronchiole, and subjected
to physiologically meaningful boundary conditions via image registration
and soft-tissue mechanics models. J. Magn. Reson. Imaging 2010;32:1421–1431.
© 2010 Wiley-Liss, Inc.},
file = {Tawhai2010.PDF:Tawhai2010.PDF:PDF},
issn = {1522-2586},
keywords = {multiscale, computational fluid dynamics, pulmonary mechanics},
owner = {habi},
publisher = {Wiley Subscription Services, Inc., A Wiley Company},
review = {cites Tsuda2008},
timestamp = {2011.01.07},
url = {http://dx.doi.org/10.1002/jmri.22382}
}
@ARTICLE{Tenenbaum2004,
author = {Florence Tenenbaum and Lionel Groussin and Herv{\'e} Foehrenbach
and Fr{\'e}d{\'e}rique Tissier and Herv{\'e} Gouya and J{\'e}r{\^o}me
Bertherat and Bertrand Dousset and Paul Legmann and Bruno Richard
and Xavier Bertagna},
title = {18F-fluorodeoxyglucose positron emission tomography as a diagnostic
tool for malignancy of adrenocortical tumours? Preliminary results
in 13 consecutive patients.},
journal = {Eur J Endocrinol},
year = {2004},
volume = {150},
pages = {789--792},
number = {6},
month = {Jun},
abstract = {DESIGN: This study is a preliminary report on 18F-fluorodeoxyglucose
(18F-FDG) uptake for the characterization of hypersecretory or non-hypersecretory
adrenocortical masses in patients without known neoplastic disease,
thereby minimizing the presence of adrenal metastases, and without
phaeochromocytoma, in comparison with computed tomography (CT) scanning
and with iodocholesterol scintigraphy. METHODS: Thirteen consecutive
patients with an adrenal mass scheduled to have surgery, underwent
hormonal exploration, a CT scan for tumour size measurement and an
18F-FDG positron emission tomography scan. Eleven of these patients
also had unenhanced density measurement at CT scan and iodocholesterol
scintigraphy. RESULTS: CT-scanned adrenal masses ranged in size from
2.2 to 10 cm; attenuation value was <10 Hounsfield units (HUs) in
two cases and >10 HU in nine. All benign lesions demonstrated iodocholesterol
uptake. In the case of malignant tumours, results were non-homogeneous:
no uptake, uptake and non-informative scintigraphy. All patients
with an adrenocortical carcinoma had positive adrenal 18F-FDG uptake
(n=3), one had a liver metastasis with positive 18F-FDG uptake, one
showed 18F-FDG uptake in an adrenal metastasis from an unknown primary
kidney tumour. All patients with a benign adrenocortical lesion had
negative 18F-FDG uptake (n=9). Patients' lesions were hypersecretory
(n=5), or non-hypersecretory (n=8), regardless of the pathology.
CONCLUSION: This short preliminary study indicates that 18F-FDG gave
a correct classification of tissue characterization with accurate
identification of malignant lesions, as well as the disease stage
(metastasis or primary). These promising preliminary results on adrenocortical
lesions, seldom studied with 18F-FDG, are to be confirmed in larger
series.},
institution = {Service de Medecine Nucleaire, Hopital Cochin, Paris, France. florence.tenenbaum@cch.ap-hop-paris.fr},
keywords = {Adrenal Cortex Neoplasms, radionuclide imaging/secretion/surgery;
Adrenal Cortex, pathology; Adult; Female; Fluorodeoxyglucose F18,
diagnostic use; History, 18th Century; Humans; Liver Neoplasms, radionuclide
imaging/secondary; Liver, radionuclide imaging; Male; Middle Aged;
Neoplasm Staging; Tomography, Emission-Computed; Tomography, X-Ray
Computed},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pmid = {15191348},
timestamp = {2010.04.28}
}
@ARTICLE{Thurner2006,
author = {P.J. Thurner and P. Wyss and R. Voide and M. Stauber and M. Stampanoni
and U. Sennhauser and R. M\"{u}ller},
title = {Time-lapsed investigation of three-dimensional failure and damage
accumulation in trabecular bone using synchrotron light},
journal = {Bone},
year = {2006},
volume = {39},
pages = {289 - 299},
number = {2},
abstract = {Synchrotron radiation micro-computed tomography (SR[mu]CT) is a very
useful technique when it comes to three-dimensional (3D) imaging
of complex internal and external geometries. Being a fully non-destructive
technique, SR[mu]CT can be combined with other experiments in situ
for functional imaging. We are especially interested in the combination
of SR[mu]CT with mechanical testing in order to gain new insights
in the failure mechanism of trabecular bone. This interest is motivated
by the immense costs in health care due to patients suffering from
osteoporosis, a systemic skeletal disease resulting in decreased
bone stability and increased fracture risk. To better investigate
the different failure mechanisms on the microlevel, we have developed
a novel in situ mechanical compression device, capable of exerting
both static and dynamic displacements on experimental samples. The
device was calibrated for mechanical testing using solid aluminum
and bovine trabecular bone samples. To study different failure mechanisms
in trabecular bone, we compared a fatigued and a non-fatigued bovine
bone sample with respect to failure initiation and propagation. The
fatigued sample failed in a burst-like fashion in contrast to the
non-fatigued sample, which exhibited a distinct localized failure
band. Moreover, microscopic cracks - microcracks and microfractures
- were uncovered in a 3D fashion illustrating the failure process
in great detail. The majority of these cracks were connected to a
bone surface. The data also showed that the classification of microcracks
and -fractures from 2D section can sometimes be ambiguous, which
is also true for the distinction of diffuse and distinct microdamage.
Detailed investigation of the failure mechanism in these samples
illustrated that trabecular bone often fails in delamination, providing
a mechanism for energy dissipation while conserving trabecular bone
architecture. In the future, this will allow an even better understanding
of bone mechanics related to its hierarchical structural organization.},
bdsk-url-1 = {http://dx.doi.org/10.1016/j.bone.2006.01.147},
issn = {8756-3282},
keywords = {Synchrotron light micro-computed tomography},
owner = {habi},
timestamp = {2009.09.28},
url = {http://dx.doi.org/10.1016/j.bone.2006.01.147}
}
@ARTICLE{Trtik2007,
author = {Trtik, P. and Dual, J. and Keunecke, D. and Mannes, D. and Niemz,
P. and St{\"{a}}hli, P. and Kaestner, A. and Groso, A. and Stampanoni,
M.},
title = {{3D imaging of microstructure of spruce wood}},
journal = {Journal of Structural Biology},
year = {2007},
volume = {159},
pages = {46--55},
number = {1},
owner = {habi},
publisher = {Elsevier},
timestamp = {2008.08.25}
}
@ARTICLE{Tschanz2002,
author = {Stefan A Tschanz and Peter H Burri},
title = {A new approach to detect structural differences in lung parenchyma
using digital image analysis},
journal = {Experimental Lung Research},
year = {2002},
volume = {28},
pages = {457--471},
number = {6},
month = sep,
abstract = {Morphometric investigations using a point and intersection counting
strategy in the lung often are not able to reveal the full set of
morphologic changes. This happens particularly when structural modifications
are not expressed in terms of volume density change and when rough
and fine surface density alterations cancel each other at different
magnifications. Making use of, digital image processing, we present
a methodological approach that allows to easily and quickly quantify
changes of the geometrical properties of the parenchymal lung structure
and reflects closely the visual appreciation of the changes. Randomly
sampled digital image from light microscopic sections of lung parenchyma
are filtered, binarized, and sketelonized. The lung septa are thus
represented as a single-pixel wide line network with nodal points
and end points and the corresponding internodal and end segments.
By automatically counting the number of points and measuring the
lengths of the skeletal segments, the lung architecture can be characterized
and very subtle structural changes can be detected. This new methodological
approach to lung structure analysis is highly sensitive to morphological
changes in the parenchyma: it detected highly significant quantitative
alterations in the structure of lungs of rats treated with a glucocorticoid
hormone, where the classical morphometry had partly failed},
address = {Univ Bern, Inst Anat, CH-3000 Bern 9, Switzerland},
bdsk-url-1 = {http://dx.doi.org/10.1080/01902140290096719},
comment = {Times Cited: 7 Article English Tschanz, S. A Univ Bern, Inst Anat,
Buehlstr 26, CH-3000 Bern 9, Switzerland Cited References Count:
15},
file = {Tschanz2002.pdf:Tschanz2002.pdf:PDF},
keywords = {BONE-STRUCTURE, development, digital image analysis, glucocorticoids,
GROWTH, ILIAC CREST, lung, microscopy, morphology, morphometry, RAT
LUNG, stereology},
owner = {habi},
refid = {TSCHANZ2002B},
timestamp = {2006.11.30},
url = {http://dx.doi.org/10.1080/01902140290096719}
}
@ARTICLE{Tschanz2003,
author = {Stefan A Tschanz and Andrew N Makanya and Beat Haenni and Peter H
Burri},
title = {Effects of neonatal high-dose short-term glucocorticoid treatment
on the lung: a morphologic and morphometric study in the rat.},
journal = {Pediatr Res},
year = {2003},
volume = {53},
pages = {72--80},
number = {1},
month = {Jan},
abstract = {Glucocorticoids are often applied in neonatology and perinatology
to fight the problems of respiratory distress and chronic lung disease.
There are, however, many controversies regarding the adverse side
effects and long-term clinical benefits of this therapeutic approach.
In rats, glucocorticoids are known to seriously impair the formation
of alveoli when applied during the first two postnatal weeks even
at very low dosage. The current study investigates short-term and
long-term glucocorticoid effects on the rat lung by means of morphologic
and morphometric observations at light and electron microscopic levels.
Application of a high-dosage protocol for only few days resulted
in a marked acceleration of lung development with a precocious microvascular
maturation resulting in single capillary network septa in the first
4 postnatal days. By postnatal d 10, the lung morphologic phenotype
showed a step back in the maturational state, with an increased number
of septa with double capillary layer, followed by an exceptional
second round of the alveolarization process. As a result of this
process, there was an almost complete recovery in the parenchymal
lung structure by postnatal d 36, and by d 60, there were virtually
no qualitative or quantitative differences between experimental and
control rats. These findings indicate that both dosage and duration
of glucocorticoid therapy in the early postnatal period are very
critical with respect to lung development and maturation and that
a careful therapeutic strategy can minimize late sequelae of treatment.},
bdsk-url-1 = {http://dx.doi.org/10.1203/01.PDR.0000041513.93422.C8},
file = {Tschanz2003.pdf:Tschanz2003.pdf:PDF},
keywords = {Animals; Animals, Newborn; Body Weight; Female; Glucocorticoids; Lung;
Microscopy, Electron; Organ Size; Pregnancy; Rats; Rats, Sprague-Dawley},
owner = {habi},
pmid = {12508084},
timestamp = {2007.06.01},
url = {http://dx.doi.org/10.1203/01.PDR.0000041513.93422.C8}
}
@ARTICLE{Tschanz2011,
author = {Tschanz, S.A. and Burri, P.H. and Weibel, E.R.},
title = {A simple tool for stereological assessment of digital images: the
STEPanizer},
journal = {Journal of Microscopy},
year = {2011},
volume = {243},
pages = {47--59},
number = {1},
abstract = {Summary STEPanizer is an easy-to-use computer-based software tool
for the stereological assessment of digitally captured images from
all kinds of microscopical (LM, TEM, LSM) and macroscopical (radiology,
tomography) imaging modalities. The program design focuses on providing
the user a defined workflow adapted to most basic stereological tasks.
The software is compact, that is user friendly without being bulky.
STEPanizer comprises the creation of test systems, the appropriate
display of digital images with superimposed test systems, a scaling
facility, a counting module and an export function for the transfer
of results to spreadsheet programs. Here we describe the major workflow
of the tool illustrating the application on two examples from transmission
electron microscopy and light microscopy, respectively.},
file = {Tschanz2011.PDF:Tschanz2011.PDF:PDF},
issn = {1365-2818},
keywords = {Counting, digital imaging, electron microscopy, light microscopy,
morphometry, software, stereology, radiology, test system, tomography},
owner = {habi},
publisher = {Blackwell Publishing Ltd},
timestamp = {2011.06.21},
url = {http://dx.doi.org/10.1111/j.1365-2818.2010.03481.x}
}
@ARTICLE{Tschirren2005,
author = {Tschirren, J. and McLennan, G. and Palagyi, K. and Hoffman, EA and
Sonka, M.},
title = {{Matching and anatomical labeling of human airway tree}},
journal = {IEEE transactions on medical imaging},
year = {2005},
volume = {24},
pages = {1540--1547},
number = {12},
file = {Tschirren2005.pdf:Tschirren2005.pdf:PDF},
owner = {habi},
timestamp = {2009.06.02}
}
@ARTICLE{Tsuda2008,
author = {Tsuda, A. and Filipovic, N. and Haberth\"{u}r, D. and Dickie, R.
and Matsui, Y. and Stampanoni, M. and Schittny, J. C.},
title = {{Finite element 3D reconstruction of the pulmonary acinus imaged
by synchrotron X-ray tomography}},
journal = {J Appl Physiol},
year = {2008},
volume = {105},
pages = {964-976},
number = {3},
abstract = {The alveolated structure of the pulmonary acinus plays a vital role
in gas exchange function. Three-dimensional (3D) analysis of the
parenchymal region is fundamental to understanding this structure-function
relationship, but only a limited number of attempts have been conducted
in the past because of technical limitations. In this study, we developed
a new image processing methodology based on finite element (FE) analysis
for accurate 3D structural reconstruction of the gas exchange regions
of the lung. Stereologically well characterized rat lung samples
(Pediatr Res 53: 72-80, 2003) were imaged using high-resolution synchrotron
radiation-based X-ray tomographic microscopy. A stack of 1,024 images
(each slice: 1024 x 1024 pixels) with resolution of 1.4 {micro}m3
per voxel were generated. For the development of FE algorithm, regions
of interest (ROI), containing [~]7.5 million voxels, were further
extracted as a working subunit. 3D FEs were created overlaying the
voxel map using a grid-based hexahedral algorithm. A proper threshold
value for appropriate segmentation was iteratively determined to
match the calculated volume density of tissue to the stereologically
determined value (Pediatr Res 53: 72-80, 2003). The resulting 3D
FEs are ready to be used for 3D structural analysis as well as for
subsequent FE computational analyses like fluid dynamics and skeletonization.},
bdsk-url-1 = {http://dx.doi.org/10.1152/japplphysiol.90546.2008},
file = {Tsuda2008.pdf:Tsuda2008.pdf:PDF},
owner = {habi},
pmid = {18583378},
timestamp = {2008.07.17},
url = {http://dx.doi.org/10.1152/japplphysiol.90546.2008}
}
@ARTICLE{Tsuda2002,
author = {Tsuda, A. and Rogers, R.A. and Hydon, P.E. and Butler, J.P.},
title = {Chaotic mixing deep in the lung},
journal = {Proceedings of the National Academy of Sciences of the United States
of America},
year = {2002},
volume = {99},
pages = {10173--10178},
number = {15},
month = jul,
abstract = {Our current understanding of the transport and deposition of aerosols
(viruses, bacteria, air pollutants, aerosolized drugs) deep in the
lung has been grounded in dispersive theories based on untested assumptions
about the nature of acinar airflow fields. Traditionally, these have
been taken to be simple and kinematically reversible. In this article,
we apply the recently discovered fluid mechanical phenomenon of irreversible
low-Reynolds number flow to the lung. We demonstrate, through flow
visualization studies in rhythmically ventilated rat lungs, that
such a foundation is false, and that chaotic mixing may be key to
aerosol transport. We found substantial alveolar flow irreversibility
with stretched and folded fractal patterns, which lead to a sudden
increase in mixing. These findings support our theory that chaotic
alveolar flow-characterized by stagnation saddle points associated
with alveolar vortices-governs gas kinematics in the lung periphery,
and hence the transport, mixing, and ultimately the deposition of
fine aerosols. This mechanism calls for a rethinking of the relationship
of exposure and deposition of fine inhaled particles},
address = {Harvard Univ, Physiol Program, Boston, MA 02115 USA Univ Surrey,
Surrey GU2 7XH, England},
bdsk-url-1 = {http://dx.doi.org/10.1073/pnas.102318299},
comment = {Times Cited: 8 Article English Tsuda, A Harvard Univ, Physiol Program,
Boston, MA 02115 USA Cited References Count: 39},
file = {Tsuda2002.pdf:Tsuda2002.pdf:PDF},
keywords = {ADVECTION, aerosol, AIR-POLLUTION, DISEASE, FLOW, lung, MANAGEMENT,
PULMONARY ACINUS, UNITED-STATES},
owner = {habi},
refid = {TSUDA2002},
timestamp = {2006.11.30},
url = {http://dx.doi.org/10.1073/pnas.102318299}
}
@ARTICLE{Vanmeir1991,
author = {Van Meir, F.},
title = {{The alveolar pores of Kohn in young postnatal rat lungs and their
relation with type II pneumocytes.}},
journal = {Histology and histopathology},
year = {1991},
volume = {6},
pages = {55},
number = {1},
owner = {habi},
timestamp = {2010.04.06}
}
@ARTICLE{Vanhecke2007,
author = {Vanhecke, Dimitri and Studer, Daniel and Ochs, Matthias},
title = {Stereology meets electron tomography: Towards quantitative 3D electron
microscopy},
journal = {Journal of Structural Biology},
year = {2007},
volume = {In Press, Corrected Proof},
pages = {--},
abstract = {Stereological tools are the gold standard for accurate (i.e., unbiased)
and precise quantification of any microscopic sample. The past decades
have provided a broad spectrum of tools to estimate a variety of
parameters such as volumes, surfaces, lengths, and numbers. Some
of them require pairs of parallel sections that can be produced by
either physical or optical sectioning, with optical sectioning being
much more efficient when applicable. Unfortunately, transmission
electron microscopy could not fully profit from these riches, mainly
because of the large depth of field. Hence, optical sectioning was
a long-time desire for electron microscopists. This desire was fulfilled
with the development of electron tomography that yield stacks of
slices from electron microscopic sections. Now, parallel optical
slices of a previously unimagined small thickness (2-5 nm axial resolution)
can be produced. These optical slices minimize problems related to
overprojection effects, and allow for direct stereological analysis,
e.g., volume estimation with the Cavalieri principle and number estimation
with the optical disector method. Here, we demonstrate that the symbiosis
of stereology and electron tomography is an easy and efficient way
for quantitative analysis at the electron microscopic level. We call
this approach quantitative 3D electron microscopy.},
bdsk-url-1 = {http://dx.doi.org/10.1016/j.jsb.2007.05.003},
file = {Vanhecke.pdf:Vanhecke.pdf:PDF},
keywords = {Stereology, Electron tomography, Quantification, Depth of field, Overprojection,
Disector, Cavalieri principle, Transmission electron microscopy},
owner = {habi},
timestamp = {2007.08.13},
url = {http://dx.doi.org/10.1016/j.jsb.2007.05.003}
}
@ARTICLE{Vaucher2007,
author = {Vaucher, S. and Unifantowicz, P. and Ricard, C. and Dubois, L. and
Kuball, M. and Catala-Civera, J.M. and Bernard, D. and Stampanoni,
M. and Nicula, R.},
title = {{On-line tools for microscopic and macroscopic monitoring of microwave
processing}},
journal = {Physica B: Physics of Condensed Matter},
year = {2007},
volume = {398},
pages = {191--195},
number = {2},
owner = {habi},
publisher = {Elsevier},
timestamp = {2008.08.25}
}
@MISC{vedaldi08vlfeat,
author = {A. Vedaldi and B. Fulkerson},
title = {{VLFeat}: An Open and Portable Library of Computer Vision Algorithms},
howpublished = {http://www.vlfeat.org/},
year = {2008},
bdsk-url-1 = {http://www.vlfeat.org/},
owner = {habi},
timestamp = {2010.06.09},
url = {http://www.vlfeat.org/}
}
@MISC{HollowMan,
author = {Paul Verhoeven},
title = {{Hollow Man}},
howpublished = {Columbia Pictures Corporation},
month = {August},
year = {2000},
bdsk-url-1 = {http://www.imdb.com/title/tt0164052},
comment = {http://www.imdb.com/title/tt0164052/maindetails},
owner = {habi},
timestamp = {2010.03.02},
url = {http://www.imdb.com/title/tt0164052}
}
@ARTICLE{Voide2008,
author = {Voide, R. and van Lenthe, G.H. and Stauber, M. and Schneider, P.
and Thurner, P.J. and Wyss, P. and Stampanoni, M. and M{\"{u}}ller,
R.},
title = {{Functional microimaging: a hierarchical investigation of bone failure
behavior}},
journal = {J. Jpn. Soc. Bone Morphom.},
year = {2008},
volume = {18},
pages = {9-21},
owner = {habi},
timestamp = {2008.08.28}
}
@ARTICLE{Walgate1979,
author = {R. Walgate},
title = {35th prize for inventor of EMI X-ray scanner.},
journal = {Nature},
year = {1979},
volume = {281},
pages = {512},
number = {5732},
month = {Oct},
keywords = {Great Britain; History, 20th Century; Medicine; Nobel Prize; Tomography,
X-Ray Computed},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pmid = {386134},
timestamp = {2010.04.28}
}
@ARTICLE{Wang2004,
author = {Wang, Z. and Bovik, A.C. and Sheikh, H.R. and Simoncelli, E.P.},
title = {{Image quality assessment: From error visibility to structural similarity}},
journal = {IEEE transactions on image processing},
year = {2004},
volume = {13},
pages = {600--612},
number = {4},
bdsk-url-1 = {http://dx.doi.org/10.1109/TIP.2003.819861},
file = {Wang2004.pdf:Wang2004.pdf:PDF},
owner = {habi},
publisher = {Citeseer},
timestamp = {2009.11.18},
url = {http://dx.doi.org/10.1109/TIP.2003.819861}
}
@BOOK{Watterson1996,
title = {It's A Magical World: A Calvin and Hobbes Collection},
publisher = {Andrews McMeel Publishing},
year = {1996},
author = {Bill Watterson},
edition = {Original},
month = {9},
bdsk-url-1 = {http://books.google.com/books?id=wmjG5g4Yx7gC&lpg=PA4&pg=PA481},
isbn = {9780836221367},
owner = {habi},
price = {$16.99},
timestamp = {2010.02.15},
totalpages = {176},
url = {http://books.google.com/books?id=wmjG5g4Yx7gC&lpg=PA4&pg=PA481}
}
@ARTICLE{Watz2005,
author = {Watz, Henrik and Breithecker, Andreas and Rau, Wigbert Stephan and
Kriete, Andres},
title = {{Micro-CT of the Human Lung: Imaging of Alveoli and Virtual Endoscopy
of an Alveolar Duct in a Normal Lung and in a Lung with Centrilobular
Emphysema--Initial Observations}},
journal = {Radiology},
year = {2005},
volume = {236},
pages = {1053-1058},
number = {3},
abstract = {The appearance of human lung parenchyma at the structural level of
alveoli was investigated by the use of micro-computed tomography
(CT). Approval for use of autopsy lungs was given by the head of
the pathology institute of the university, in accordance with the
requirements of the State Ministry of Science and Arts and without
the need for institutional review board approval. Two human lungs
(one normal lung and one lung with centrilobular emphysema of a mild
to moderate degree) were inflated and fixed with hot formalin vapor.
Lung specimens excised from the superior segment of the left lower
lobe (B6) were stained with silver nitrate in a vacuum and investigated
at a volume of interest of 4 mm for each side with a voxel size of
14 {micro}m. Normal-size and enlarged alveoli became visible. A three-dimensional
reconstruction of the terminal airspaces made virtual endoscopy of
the alveolar ducts possible. (C) RSNA, 2005},
bdsk-url-1 = {http://dx.doi.org/10.1148/radiol.2363041142},
eprint = {http://radiology.rsnajnls.org/cgi/reprint/236/3/1053.pdf},
file = {Watz2005.pdf:Watz2005.pdf:PDF},
owner = {habi},
timestamp = {2008.12.15},
url = {http://dx.doi.org/10.1148/radiol.2363041142}
}
@INBOOK{Weibel1997,
chapter = {Design of airways and blood vessels considered as branching trees.},
pages = {1061-1071},
title = {The Lung: Scientific Foundations},
publisher = {Lippincott-Raven Publishers, Philadelphia},
year = {1997},
editor = {RG Crystal, JB West, ER Weibel, PJ Barnes,},
author = {Ewald R. Weibel},
volume = {Vol. 1},
owner = {habi},
timestamp = {2011.02.21}
}
@ARTICLE{Weibel2009,
author = {Ewald R Weibel},
title = {What makes a good lung?},
journal = {Swiss Med Wkly},
year = {2009},
volume = {139},
pages = {375--386},
number = {27-28},
month = {Jul},
abstract = {The functional capacity of the human lung as gas exchanger is to a
large extent determined by structural design. Quantitative structure-function
correlations can be established by morphometry. A very large surface
of air-blood contact, together with a very thin tissue barrier, are
required to permit adequate oxygen uptake under work conditions.
However, these design features also pose problems, such as how to
ventilate and perfuse this large surface evenly and efficiently,
or how to ensure mechanical stability against surface forces with
a minimum of supporting tissue. The discussion focuses on the extent
to which novel design principles are used to overcome such problems
by designing the airways as a fractal tree and the fibre support
system as a tensegrity structure.},
file = {Weibel2009.pdf:Weibel2009.pdf:PDF},
institution = {Institute of Anatomy, University of Bern, Bern, Switzerland. weibel@ana.unibe.ch},
keywords = {Humans; Lung, anatomy /&/ histology/physiology; Pulmonary Diffusing
Capacity, physiology},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pii = {smw-12270},
pmid = {19629765},
timestamp = {2009.11.25}
}
@ARTICLE{Weibel1991,
author = {E. R. Weibel},
title = {Fractal geometry: a design principle for living organisms.},
journal = {Am J Physiol},
year = {1991},
volume = {261},
pages = {L361--L369},
number = {6 Pt 1},
month = {Dec},
abstract = {Fractal geometry allows structures to be quantitatively characterized
in geometric terms even if their form is not even or regular, because
fractal geometry deals with the geometry of hierarchies and random
processes. The hypothesis is explored that fractal geometry serves
as a design principle in biological organisms. The internal membrane
surface of cells, or the inner lung surface, are difficult to describe
in terms of classical geometry, but they are found to show properties
describable by fractal geometry, at least sectionwise and within
certain bounds set by deterministic design properties. Concepts of
fractal geometry are most useful in characterizing the structure
of branching trees, such as those found in pulmonary airways and
in blood vessels. This explains how the large internal gas exchange
surface of the lung can be homogeneously and efficiently ventilated
and perfused at low energetic cost. It is concluded that to consider
fractal geometry as a biological design principle is heuristically
most productive and provides insights into possibilities of efficient
genetic programming of biological form.},
file = {Weibel1991.pdf:Weibel1991.pdf:PDF},
keywords = {Animals; Humans; Lung; Microscopy, Electron},
owner = {habi},
pmid = {1767856},
timestamp = {2007.08.15}
}
@BOOK{Weibel1963,
title = {Morphometry of the human lung},
publisher = {Springer-Verlag, Berlin, G\"{o}ttingen, etc.},
year = {1963},
author = {Weibel, Ewald R},
pages = {151},
owner = {habi},
timestamp = {2008.03.11}
}
@ARTICLE{Weibel2007,
author = {Ewald R Weibel and Connie C W Hsia and Matthias Ochs},
title = {How much is there really? Why stereology is essential in lung morphometry.},
journal = {J Appl Physiol},
year = {2007},
volume = {102},
pages = {459--467},
number = {1},
month = {Jan},
abstract = {Quantitative data on lung structure are essential to set up structure-function
models for assessing the functional performance of the lung or to
make statistically valid comparisons in experimental morphology,
physiology, or pathology. The methods of choice for microscopy-based
lung morphometry are those of stereology, the science of quantitative
characterization of irregular three-dimensional objects on the basis
of measurements made on two-dimensional sections. From a practical
perspective, stereology is an assumption-free set of methods of unbiased
sampling with geometric probes, based on a solid mathematical foundation.
Here, we discuss the pitfalls of lung morphometry and present solutions,
from specimen preparation to the sampling scheme in multiple stages,
for obtaining unbiased estimates of morphometric parameters such
as volumes, surfaces, lengths, and numbers. This is demonstrated
on various examples. Stereological methods are accurate, efficient,
simple, and transparent; the precision of the estimates depends on
the size and distribution of the sample. For obtaining quantitative
data on lung structure at all microscopic levels, state-of-the-art
stereology is the gold standard.},
bdsk-url-1 = {http://dx.doi.org/10.1152/japplphysiol.00808.2006},
file = {Weibel2007.pdf:Weibel2007.pdf:PDF},
keywords = {Animals; Anthropometry; Dogs; Humans; Imaging, Three-Dimensional;
Lung; Mathematics; Microscopy; Pulmonary Alveoli; Pulmonary Emphysema},
owner = {habi},
pii = {00808.2006},
pmid = {16973815},
timestamp = {2007.08.15},
url = {http://dx.doi.org/10.1152/japplphysiol.00808.2006}
}
@ARTICLE{Whimster1970,
author = {Whimster, WF},
title = {{The microanatomy of the alveolar duct system}},
journal = {British Medical Journal},
year = {1970},
volume = {25},
pages = {141},
number = {2},
bdsk-url-1 = {http://dx.doi.org/10.1136/thx.25.2.141},
owner = {habi},
publisher = {Br Thoracic Soc},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1136/thx.25.2.141}
}
@MISC{Cash,
author = {Wikipedia},
title = {{You'll Never Walk Alone (song) --- Wikipedia{,} The Free Encyclopedia}},
year = {2010},
note = {[Online; accessed 11-May-2010]},
bdsk-url-1 = {http://en.wikipedia.org/w/index.php?title=You'll_Never_Walk_Alone_(song)&oldid=360900902},
owner = {habi},
timestamp = {2010.05.11},
url = {http://en.wikipedia.org/w/index.php?title=You%27ll_Never_Walk_Alone_(song)&oldid=360900902}
}
@MISC{YawPitchRoll,
author = {Wikipedia},
title = {{Yaw, pitch, and roll --- Wikipedia{,} The Free Encyclopedia}},
year = {2010},
note = {[Online; accessed 3-May-2010]},
bdsk-url-1 = {http://en.wikipedia.org/w/index.php?title=Yaw,_pitch,_and_roll&oldid=354392227},
owner = {habi},
timestamp = {2010.05.04},
url = {http://en.wikipedia.org/w/index.php?title=Yaw,_pitch,_and_roll&oldid=354392227}
}
@MISC{Zim,
author = {Wikipedia},
title = {{Invader Zim --- Wikipedia{,} The Free Encyclopedia}},
year = {2010},
note = {[Online; accessed 29-April-2010]},
bdsk-url-1 = {http://en.wikipedia.org/w/index.php?title=Invader_Zim&oldid=359199292},
owner = {habi},
timestamp = {2010.04.29},
url = {http://en.wikipedia.org/w/index.php?title=Invader_Zim&oldid=359199292}
}
@MISC{wiki:dipolemagnet,
author = {Wikipedia},
title = {{Dipole magnet --- Wikipedia{,} The Free Encyclopedia}},
year = {2009},
note = {[Online; accessed 15-April-2010]},
bdsk-url-1 = {http://en.wikipedia.org/w/index.php?title=Dipole_magnet&oldid=332257500},
owner = {habi},
timestamp = {2010.04.15},
url = {http://en.wikipedia.org/w/index.php?title=Dipole_magnet&oldid=332257500}
}
@MISC{wwwszintillator,
author = {Wikipedia},
title = {{Szintillator --- Wikipedia{,} Die freie Enzyklop\"{a}die}},
year = {2009},
note = {[Online; 25. August 2008]},
bdsk-url-1 = {http://de.wikipedia.org/w/index.php?title=Szintillator&oldid=56899922},
owner = {habi},
timestamp = {2008.08.25},
url = {http://de.wikipedia.org/w/index.php?title=Szintillator&oldid=56899922}
}
@MISC{wiki:regiongrowing,
author = {Wikipedia},
title = {{Region growing --- Wikipedia{,} The Free Encyclopedia}},
year = {2008},
note = {[Online; accessed 11-March-2009]},
bdsk-url-1 = {http://en.wikipedia.org/w/index.php?title=Region_growing&oldid=260474814},
owner = {habi},
timestamp = {2009.03.11},
url = {http://en.wikipedia.org/w/index.php?title=Region_growing&oldid=260474814}
}
@ARTICLE{Wood1995,
author = {Wood, SA and Hoford, JD and Hoffman, EA and Zerhouni, E. and Mitzner,
W.},
title = {{A method for measurement of cross sectional area, segment length,
and branching angle of airway tree structures in situ}},
journal = {Computerized medical imaging and graphics},
year = {1995},
volume = {19},
pages = {145--152},
number = {1},
bdsk-url-1 = {http://dx.doi.org/10.1016/0895-6111(94)00034-4},
owner = {habi},
publisher = {Elsevier Science},
timestamp = {2010.04.30},
url = {http://dx.doi.org/10.1016/0895-6111(94)00034-4}
}
@ARTICLE{Wood1995a,
author = {Wood, SA and Zerhouni, EA and Hoford, JD and Hoffman, EA and Mitzner,
W.},
title = {{Measurement of three-dimensional lung tree structures by using computed
tomography}},
journal = {Journal of Applied Physiology},
year = {1995},
volume = {79},
pages = {1687},
number = {5},
owner = {habi},
publisher = {Am Physiological Soc},
timestamp = {2010.04.30}
}
@ARTICLE{Woodward2005,
author = {Woodward, J.D. and Maina, J.N.},
title = {{A 3D digital reconstruction of the components of the gas exchange
tissue of the lung of the muscovy duck, Cairina moschata}},
journal = {J.Anat.},
year = {2005},
volume = {206},
pages = {477--492},
number = {5},
month = may,
abstract = {To elucidate the shape, size, and spatial arrangement and association
of the terminal respiratory units of the avian lung, a three-dimensional
(3D) computer-aided voxel reconstruction was generated from serial
plastic sections of the lung of the adult muscovy duck, Cairina moschata.
The air capillaries (ACs) are rather rotund structures that interconnect
via short, narrow passageways, and the blood capillaries (BCs) comprise
proliferative segments of rather uniform dimensions. The ACs and
BCs anastomose profusely and closely intertwine with each other,
forming a complex network. The two sets of respiratory units are,
however, absolutely not mirror images of each other, as has been
claimed by some investigators. Historically, the terms 'air capillaries'
and 'blood capillaries' were derived from observations that the exchange
tissue of the avian lung mainly consisted of a network of minuscule
air- and vascular units. The entrenched notion that the ACs are straight
(non-branching), blind-ending tubules that project outwards from
the parabronchial lumen and that the BCs are direct tubules that
run inwards parallel to and in contact with the ACs is overly simplistic,
misleading and incorrect. The exact architectural properties of the
respiratory units of the avian lung need to be documented and applied
in formulating reliable physiological models. A few ostensibly isolated
ACs were identified. The mechanism through which such units form
and their functional significance, if any, are currently unclear},
address = {School of Anatomical Sciences, Faculty of Health Sciences, University
of the Witwatersrand, Johannesburg, South Africa},
bdsk-url-1 = {http://dx.doi.org/10.1111/j.1469-7580.2005.00413.x},
file = {Woodward2005.pdf:Woodward2005.pdf:PDF},
keywords = {anatomy & histology, Animals, Ducks, Image Processing,Computer-Assisted,
Imaging,Three-Dimensional, In, lung, metabolism, Microscopy,Confocal,
Microscopy,Electron,Transmission, Pulmonary Gas Exchange, Research
Support,Non-U.S.Gov't, Staining and Labeling, structure},
owner = {habi},
refid = {WOODWARD2005},
timestamp = {2006.11.30},
url = {http://dx.doi.org/10.1111/j.1469-7580.2005.00413.x}
}
@ARTICLE{Wulfson2009,
author = {Wulfsohn, D. and Knust, J. and Ochs, M. and Nyengaard, J.R. and Gundersen,
H.J.G.},
title = {Stereological estimation of the total number of ventilatory units
in mice lungs},
journal = {Journal of Microscopy},
year = {2010},
volume = {238},
pages = {75--89},
number = {1},
abstract = {Summary We present an unbiased estimator of the total number of alveolar
structures distal to the transition from a bronchiole to an alveolar
duct system (‘ventilatory units’, VUs). In species without respiratory
bronchioles, including mice, the number of VUs is equivalent to the
number of acini. The acinus is a functional unit of gas exchange,
defined as a parenchymal unit distal to a terminal bronchiole in
which all airways contain alveoli and thus participate in gas exchange.
The estimator combines two different estimators of the number of
VUs: (1) an estimator derived from the Euler number of all the openings
of the bronchial tree and (2) an estimator derived from direct counts
of topological changes occurring at bronchiole-alveolar duct junctions.
Combining the two estimators eliminates the requirement to be able
to identify even vanishingly small pieces of bronchial tissue in
physical disectors. We implemented the fractionator estimator in
five adult mice lungs using physical fractionators with varying but
known sampling fractions (Horvitz–Thompson estimator). We obtained
total values of about 4200 VUs (CV = 0.05) in 21-day-old and 4480
(CV = 0.06) in 69-day-old animals. Being fractionator estimates,
these total numbers are independent of shrinkage. The densities of
VUs per unit volume of tissue (values corrected for tissue shrinkage)
were similar in left and right lungs.},
doi = {10.1111/j.1365-2818.2009.03332.x},
file = {Wulfson2009.pdf:Wulfson2009.pdf:PDF},
issn = {1365-2818},
keywords = {Acini, disector, Euler number, fractionator, lung, quantitative microscopy,
topology},
owner = {habi},
publisher = {Blackwell Publishing Ltd},
timestamp = {2011.03.15},
url = {http://dx.doi.org/10.1111/j.1365-2818.2009.03332.x}
}
@ARTICLE{Xie2003,
author = {Xie, Wenjie and Thompson, Robert P. and Perucchio, Renato},
title = {A topology-preserving parallel 3D thinning algorithm for extracting
the curve skeleton},
journal = {Pattern Recognition},
year = {2003},
volume = {36},
pages = {1529--1544},
number = {7},
month = jul,
abstract = {We introduce a new topology-preserving 3D thinning procedure for deriving
the curve voxel skeleton from 3D binary digital images. Based on
a rigorously defined classification procedure, the algorithm consists
of sequential thinning iterations each characterized by six parallel
directional sub-iterations followed by a set of sequential sub-iterations.
The algorithm is shown to produce concise and geometrically accurate
3D curve skeletons. The thinning algorithm is also insensitive to
object rotation and only moderately sensitive to noise. Although
this thinning procedure is valid for curve skeleton extraction of
general elongated objects, in this paper, we specifically discuss
its application to the orientation modeling of trabecular biological
tissues.},
bdsk-url-1 = {http://dx.doi.org/10.1016/S0031-3203(02)00348-5},
file = {Xie2003.pdf:Xie2003.pdf:PDF},
keywords = {3D parallel thinning, Curve skeleton, Simple voxel, Ambiguous set,
Directional sub-iteration, Trabecular tissues},
owner = {habi},
timestamp = {2007.08.08},
url = {http://dx.doi.org/10.1016/S0031-3203(02)00348-5}
}
@ARTICLE{Yang2000,
author = {G. Z. Yang and D. N. Firmin},
title = {The birth of the first CT scanner.},
journal = {IEEE Eng Med Biol Mag},
year = {2000},
volume = {19},
pages = {120--125},
number = {1},
institution = {Medicine. gzy@doc.ic.ac.uk},
keywords = {Biomedical Engineering, history; Great Britain; History, 20th Century;
Humans; Physics, history; Tomography Scanners, X-Ray Computed, history;
Tomography, X-Ray Computed, history},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pmid = {10659438},
timestamp = {2010.04.28}
}
@ARTICLE{Yoo2002,
author = {Yoo, TS and Ackerman, MJ and Lorensen, WE and Schroeder, W. and Chalana,
V.A.},
title = {{Engineering and Algorithm Design for an Image Processing API: A
Technical Report on ITK-The Insight Toolkit}},
journal = {Studies in Health Technology and Informatics, Proceedings of Medicine
Meets Virtual Reality},
year = {2002},
volume = {85},
pages = {586--592},
number = {02/10},
file = {Yoo2002.pdf:Yoo2002.pdf:PDF},
owner = {habi},
timestamp = {2008.09.19}
}
@MISC{Morphologyfilter-Basics,
author = {I.T. Young AND J.J. Gerbrands AND L.J. van Vliet},
title = {Image Processing Fundamentals - Morphology-based Operations},
howpublished = {Website},
year = {2003},
note = {Available online at \url{http://www.ph.tn.tudelft.nl/Courses/FIP/noframes/fip-Morpholo.html};
visited on May 21st, 2007},
owner = {habi},
timestamp = {2007.05.21}
}
@ARTICLE{Yu2007,
author = {Kun-Chang Yu and Erik L. Ritman and William E. Higgins},
title = {System for the analysis and visualization of large 3D anatomical
trees},
journal = {Computers in Biology and Medicine},
year = {2007},
volume = {37},
pages = {1802 - 1820},
number = {12},
abstract = {Modern micro-CT and multi-detector helical CT scanners can produce
high-resolution 3D digital images of various anatomical trees. The
large size and complexity of these trees make it essentially impossible
to define them interactively. Automatic approaches have been proposed
for a few specific problems, but none of these approaches guarantee
extracting geometrically accurate multi-generational tree structures.
This paper proposes an interactive system for defining and visualizing
large anatomical trees and for subsequent quantitative data mining.
The system consists of a large number of tools for automatic image
analysis, semi-automatic and interactive tree editing, and an assortment
of visualization tools. Results are presented for a variety of 3D
high-resolution images.},
bdsk-url-1 = {http://dx.doi.org/10.1016/j.compbiomed.2007.06.005},
file = {Yu2007.pdf:Yu2007.pdf:PDF},
issn = {0010-4825},
keywords = {3D visualization},
owner = {habi},
timestamp = {2009.06.02},
url = {http://dx.doi.org/10.1016/j.compbiomed.2007.06.005}
}
@ARTICLE{Yushkevich06,
author = {Paul A. Yushkevich and Joseph Piven and Cody Hazlett, Heather and
Gimpel Smith, Rachel and Sean Ho and James C. Gee and Guido Gerig},
title = {User-Guided {3D} Active Contour Segmentation of Anatomical Structures:
Significantly Improved Efficiency and Reliability},
journal = {Neuroimage},
year = {2006},
volume = {31},
pages = {1116--1128},
number = {3},
file = {Yushkevich06.pdf:Yushkevich06.pdf:PDF},
owner = {habi},
timestamp = {2008.01.08}
}
@INPROCEEDINGS{Zhang2000,
author = {Zhang, Lei and Li, Lihua and Zheng, Yang and Clark, R.},
title = {3D-visualization of CT images under IDL environment},
booktitle = {Signal Processing Proceedings, 2000. WCCC-ICSP 2000. 5th International
Conference on},
year = {2000},
volume = {2},
pages = {869--872 vol.2},
bdsk-url-1 = {http://dx.doi.org/10.1109/ICOSP.2000.891653},
file = {Zhang2000.pdf:Zhang2000.pdf:PDF},
keywords = {cancer, computerised tomography, data visualisation, medical image
processing, patient diagnosis, patient treatment, rendering (computer
graphics), 2D CT images, 3D volume image, 3D-visualization, CT images,
IDL environment, X-ray film, cancer detection, clinical treatment,
computerised tomography, diagnosis, digital medical image processing,
image rendering, medicine, patient treatment, visualized 3D image},
owner = {habi},
timestamp = {2006.12.08},
url = {http://dx.doi.org/10.1109/ICOSP.2000.891653}
}
@ARTICLE{Zucker1976,
author = {Zucker, S.W.},
title = {{Region growing: Childhood and adolescence}},
journal = {Computer graphics and image processing},
year = {1976},
volume = {5},
pages = {382--399},
number = {3},
owner = {habi},
timestamp = {2009.12.14}
}
@ARTICLE{1979,
title = {Nobel prizewinner and his inventions (Dr. Godfrey Hounsfield).},
journal = {Nurs Focus},
year = {1979},
volume = {1},
pages = {159--160},
number = {4},
month = {Dec},
keywords = {Great Britain; History of Medicine; Humans; Nobel Prize; Tomography,
X-Ray Computed},
language = {eng},
medline-pst = {ppublish},
owner = {habi},
pmid = {390439},
timestamp = {2010.04.28}
}