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Phase-contrast zoom tomography reveals precise locations of macrophages in mouse lungs
2015
Scientific Reports
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The zoom capability and, in particular, the high dose efficiency are enabled by the near-perfect exit wavefront of an optimized x-ray waveguide channel. ...
Using a divergent x-ray beam generated by nanoscale focusing, we used zoom tomography to produce three-dimensional reconstructions with selectable magnification, resolution, and field of view. ...
Funding provided by the DFG collaborative research centre SFB 755 'Nanoscale Photonic Imaging' and ...
doi:10.1038/srep09973
pmid:25966338
pmcid:PMC4428069
fatcat:5zrmzd5robdbdlh2clhmzp5y6y
Toward Routine Use of 3D Histopathology as a Research Tool
2012
American Journal of Pathology
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We describe a novel system for 3D histological reconstruction, integrating whole-slide imaging (virtual slides), image serving, registration, and visualization into one user-friendly package. ...
It produces high-resolution 3D reconstructions with minimal user interaction and can be used in a histopathological laboratory without input from computing specialists. ...
Acknowledgments We thank Mike Hale, Martin Waterhouse, David Turner, and Alex Wright (Leeds Institute of Molecular Medicine Digital Pathology Group) for scanning and computing assistance. ...
doi:10.1016/j.ajpath.2012.01.033
pmid:22490922
pmcid:PMC3538002
fatcat:vhudcw3eqvhcxpso7or5fzt7ne
Three-dimensional digital reconstruction of human placental villus architecture in normal and complicated pregnancies
2016
European Journal of Obstetrics, Gynecology, and Reproductive Biology
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Slides were then scanned and the digitised images reconstructed using customised software. ...
Objective This study aimed to examine the use of digital technology in the three-dimensional reconstruction of human placentas. ...
Recent developments in imaging software and computational power have proved amenable to being harnessed for the creation of high-resolution 3D tissue images (15) . ...
doi:10.1016/j.ejogrb.2015.12.015
pmid:26745392
fatcat:7v5ezubmrvhirjnkw5jmcqg26q
Interactive Visualization of 3D Histopathology in Native Resolution
2018
IEEE Transactions on Visualization and Computer Graphics
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We present a visualization application that enables effective interactive visual analysis of large-scale 3D histopathology, that is, high-resolution 3D microscopy data of human tissue. ...
Despite this, our developed application supports interactive study of 3D histology datasets at native resolution. ...
The liver cirrhosis data, the healthy liver data, and the mouse embryo data are courtesy of University of Leeds, UK. The image slides of the colorectal polyp were provided by Prof. ...
doi:10.1109/tvcg.2018.2864816
pmid:30130214
fatcat:tiup5byainbqda6oxmygg5srs4
Histopathology: ditch the slides, because digital and 3D are on show
2018
World journal of urology
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WSI Whole slide image * Ilaria Jansen ...
Due to the growing field of digital pathology, more and more digital histology slides are becoming available. ...
By optically scanning the histologic glass slide, a 2D ultra-high-resolution digital image is created, a so-called whole slide image (WSI). ...
doi:10.1007/s00345-018-2202-1
pmid:29396786
pmcid:PMC5871638
fatcat:u44jncdeffg3hcipurx4iic5mm
Three-dimensional histopathological reconstruction of bladder tumours
2019
Diagnostic Pathology
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The aim of this study is to present three-dimensional (3D) reconstructions of histology images. ...
Conclusion: Digital scanning of en-bloc resected specimens allows a full-fledged 3D reconstruction and analysis and has a potential role to support pathologists in the staging of BCa. ...
Whole slide image (WSI) systems provide pathologists histopathologic glass slides as digital high resolution images with magnifications similar to conventional microscopy. ...
doi:10.1186/s13000-019-0803-7
fatcat:bmsjzhqhvjhodkpbj2ir4raeem
Deep Learning Based Large-scale Histological Tau Protein Mapping for Neuroimaging Biomarker Validation in Alzheimer's Disease
[article]
2019
bioRxiv
pre-print
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Our dataset is composed of histological slices stained for AT100, AT8. Each slide was imaged in our in-house built slide scanner at 1.22um resolution. Each image is about 82000x37000 pixel wide. ...
Manually locating and segmenting Tau in such images is unfeasible since a whole human brain slice, at the adequate resolution, spans several Gigabytes of data and carries thousands of inclusions. ...
created 3D maps of three different forms of abnormal tau protein in each case and registered each 3D histological map to the MRI volume. ...
doi:10.1101/698902
fatcat:ftrobwopezcjrm3uqc64zuslje
System for combined three-dimensional morphological and molecular analysis of thick tissue specimens
2002
Microscopy research and technique (Print)
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We describe the system in detail and illustrate its use by imaging, reconstructing and analyzing two complete tissue blocks which were differently processed and stained. ...
The second block contained a fully sectioned mammary gland of a mouse, stained for Histology with H&E. ...
Gray for their support and advice regarding the selection of the tissue and A. Harris for her help with tissue imaging and annotation. ...
doi:10.1002/jemt.10233
pmid:12467029
fatcat:2aoh6yw2dzfivmadbqcuteduni
Acquisition, Visualization, and Potential Applications of 3D Data in Anatomic Pathology
2016
Discoveries
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Although these technologies are yet to be adopted in routine surgical pathology, forensic pathology has embraced 3D scanning and model reconstruction. ...
Accompanying these advances are novel clinical and non-clinical applications of 3D data in pathology. ...
Acknowledgments We thank to the Mount Sinai Health System, the Department of Diagnostic Pathology and Laboratory, for support. ...
doi:10.15190/d.2016.15
pmid:32309587
pmcid:PMC6941555
fatcat:xiww6okr4befxpscmaibmx3rhy
Integrating histology and MRI in the first digital brain of common squirrel monkey, Saimiri sciureus
2015
Medical Imaging 2015: Biomedical Applications in Molecular, Structural, and Functional Imaging
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The central concept of this work is to use block face photography to establish an intermediate common space in coordinate system which preserves the high resolution in-plane resolution of histology while ...
In vivo MRI acquisitions include high resolution T2 structural imaging (300 µm isotropic) and low resolution diffusion tensor imaging (600 um isotropic). ...
This work was conducted in part using the resources of the Advanced Computing Center for Research and Education at Vanderbilt University, Nashville, TN. ...
doi:10.1117/12.2081443
pmid:25914510
pmcid:PMC4405811
dblp:conf/mibam/SunPSGJAL15
fatcat:ut543nqo65dlzpoq6ekbco4ycq
Sub-micrometer morphology of human atherosclerotic plaque revealed by synchrotron radiation-based μCT—A comparison with histology
2022
PLoS ONE
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In total, nine different regions with typical pathologic structures were identified and imaged with high-resolution SRμCT. ...
The tomography datasets were reconstructed with additional 3D volume rendering and compared to histology. ...
Acknowledgments We acknowledge the Paul Scherrer Institute, Villigen, Switzerland, for the provision of synchrotron radiation beamtime at beamline TOMCAT of the SLS. ...
doi:10.1371/journal.pone.0265598
pmid:35471989
pmcid:PMC9041845
fatcat:zifg3cauhnfc7clmqmlzjp6ta4
High-resolution episcopic microscopy: a rapid technique for high detailed 3D analysis of gene activity in the context of tissue architecture and morphology
2006
Anatomy and Embryology
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The quality of the episcopic images resembles the quality of digital images of true histological sections with respect to resolution and contrast. ...
We describe a new methodology for rapid 2D and 3D computer analysis and visualisation of gene expression and gene product pattern in the context of anatomy and tissue architecture. ...
The optical axis of a
Fig. 2 2 Images in different resolution, obtained with HREM using GFP filter sets. ...
doi:10.1007/s00429-005-0073-x
pmid:16429276
fatcat:sjd4a7wpojel5caxspailoglx4
Sensory epithelia of the fish inner ear in 3D: studied with high-resolution contrast enhanced microCT
2013
Frontiers in Zoology
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Comparison with maculae that have been 3D reconstructed based on histological serial sections and phalloidin-stained maculae showed high congruence in overall shape of the maculae studied here. ...
Results: High-resolution microCT imaging of black mollies Poecilia sp. ...
Ladich (Department of Behavioural Biology, Vienna, Austria) for providing the specimens of S. tinanti. This study was funded by the German Academic Exchange Service (TSM). ...
doi:10.1186/1742-9994-10-63
pmid:24160754
pmcid:PMC4177137
fatcat:rhbauxsv3rhl7aqbrgmmedpgri
A correlative imaging based methodology for accurate quantitative assessment of bone formation in additive manufactured implants
2016
Journal of materials science. Materials in medicine
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This semi-automatic methodology registered each modality using a coarse graining technique to speed the registration of 2D histology sections to high resolution 3D lCT datasets. ...
A correlative imaging methodology was developed to accurately quantify bone formation in the complex lattice structure of additive manufactured implants. ...
Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://crea tivecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution ...
doi:10.1007/s10856-016-5721-6
pmid:27153828
pmcid:PMC4859838
fatcat:olvyxsmxyzb6beelj3snfvhljm
Three-dimensional image reconstruction of distribution of Pnmt+ cell-derived cells in murine heart
2017
Scientific Data
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The final reconstructed 3D volume was 561 × 866 × 48 pixels (corresponding to spatial resolutions of 5.8, 8.9 and 2.5 mm in the x-, y-and z-direction respectively), and visualised in Paraview. ...
In this dataset, a 3D reconstruction was carried out to visualise the distribution of PdCMs throughout the murine heart. ...
In a previous study, Osuala et al. 9 showed a distinctive distribution of adrenergic-derived cells in murine heart through 3D reconstruction of stained histological images. ...
doi:10.1038/sdata.2017.134
pmid:28949324
pmcid:PMC5613735
fatcat:ocxh5whaczfjrkiil7urjmwmnq
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