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"Digital pathology"

Franck Pagès, Bernhard Mlecnik, Florence Marliot, Gabriela Bindea, Fang-Shu Ou, Carlo Bifulco, Alessandro Lugli, Inti Zlobec, Tilman T Rau, Martin D Berger, Iris D Nagtegaal, Elisa Vink-Börger, Arndt Hartmann, Carol Geppert, Julie Kolwelter, Susanne Merkel, Robert Grützmann, Marc Van den Eynde, Anne Jouret-Mourin, Alex Kartheuser, Daniel Léonard, Christophe Remue, Julia Y Wang, P Bavi, Michael H A Roehrl, Pamela S Ohashi, Linh T Nguyen, SeongJun Han, Heather L MacGregor, Sara Hafezi-Bakhtiari, Bradly G Wouters, Giuseppe V Masucci, Emilia K Andersson, Eva Zavadova, Michal Vocka, Jan Spacek, Lubos Petruzelka, Bohuslav Konopasek, Pavel Dundr, Helena Skalova, Kristyna Nemejcova, Gerardo Botti, Fabiana Tatangelo, Paolo Delrio, Gennaro Ciliberto, Michele Maio, Luigi Laghi, Fabio Grizzi, Tessa Fredriksen, Bénédicte Buttard, Mihaela Angelova, Angela Vasaturo, Pauline Maby, Sarah E Church, Helen K Angell, Lucie Lafontaine, Daniela Bruni, Carine El Sissy, Nacilla Haicheur, Amos Kirilovsky, Anne Berger, Christine Lagorce, Jeffrey P Meyers, Christopher Paustian, Zipei Feng, Carmen Ballesteros-Merino, Jeroen Dijkstra, Carlijn van de Water, Shannon van Lent-van Vliet, Nikki Knijn, Ana-Maria Mușină, Dragos-Viorel Scripcariu, Boryana Popivanova, Mingli Xu, Tomonobu Fujita, Shoichi Hazama, Nobuaki Suzuki, Hiroaki Nagano, Kiyotaka Okuno, Toshihiko Torigoe, Noriyuki Sato, Tomohisa Furuhata, Ichiro Takemasa, Kyogo Itoh, Prabhu S Patel, Hemangini H Vora, Birva Shah, Jayendrakumar B Patel, Kruti N Rajvik, Shashank J Pandya, Shilin N Shukla, Yili Wang, Guanjun Zhang, Yutaka Kawakami, Francesco M Marincola, Paolo A Ascierto, Daniel J Sargent, Bernard A Fox, Jérôme Galon
BACKGROUND: The estimation of risk of recurrence for patients with colon carcinoma must be improved. A robust immune score quantification is needed to introduce immune parameters into cancer classification. The aim of the study was to assess the prognostic value of total tumour-infiltrating T-cell counts and cytotoxic tumour-infiltrating T-cells counts with the consensus Immunoscore assay in patients with stage I-III colon cancer. METHODS: An international consortium of 14 centres in 13 countries, led by the Society for Immunotherapy of Cancer, assessed the Immunoscore assay in patients with TNM stage I-III colon cancer...
May 10, 2018: Lancet
Muhammad Khalid Khan Niazi, Fazly Salleh Abas, Caglar Senaras, Michael Pennell, Berkman Sahiner, Weijie Chen, John Opfer, Robert Hasserjian, Abner Louissaint, Arwa Shana'ah, Gerard Lozanski, Metin N Gurcan
Automatic and accurate detection of positive and negative nuclei from images of immunostained tissue biopsies is critical to the success of digital pathology. The evaluation of most nuclei detection algorithms relies on manually generated ground truth prepared by pathologists, which is unfortunately time-consuming and suffers from inter-pathologist variability. In this work, we developed a digital immunohistochemistry (IHC) phantom that can be used for evaluating computer algorithms for enumeration of IHC positive cells...
2018: PloS One
Andrew Janowczyk, Scott Doyle, Hannah Gilmore, Anant Madabhushi
Deep learning (DL) has recently been successfully applied to a number of image analysis problems. However, DL approaches tend to be inefficient for segmentation on large image data, such as high-resolution digital pathology slide images. For example, typical breast biopsy images scanned at 40× magnification contain billions of pixels, of which usually only a small percentage belong to the class of interest. For a typical naïve deep learning scheme, parsing through and interrogating all the image pixels would represent hundreds if not thousands of hours of compute time using high performance computing environments...
2018: Computer Methods in Biomechanics and Biomedical Engineering. Imaging & Visualization
Justin E Caron, Yong Ying, Qin Ye, Lirong Cheng, Jian Yu Rao
International telecytology can improve patient care by increasing access to regional and international expertise in cytopathology. The majority of international telecytology studies published to date have been based on static telepathology platforms. Overall concordance rates for these studies ranged from 71% to 93%. This is comparable to the concordance rates published for other studies comparing diagnoses made by digital still images to reference glass slides, which vary from 80% to 95%. Static telepathology systems are relatively cheap and easy to use, and have the potential to increase access to international experts in developing countries with limited resources...
May 4, 2018: Diagnostic Cytopathology
Sébastien Jodogne
This paper reviews the components of Orthanc, a free and open-source, highly versatile ecosystem for medical imaging. At the core of the Orthanc ecosystem, the Orthanc server is a lightweight vendor neutral archive that provides PACS managers with a powerful environment to automate and optimize the imaging flows that are very specific to each hospital. The Orthanc server can be extended with plugins that provide solutions for teleradiology, digital pathology, or enterprise-ready databases. It is shown how software developers and research engineers can easily develop external software or Web portals dealing with medical images, with minimal knowledge of the DICOM standard, thanks to the advanced programming interface of the Orthanc server...
May 3, 2018: Journal of Digital Imaging: the Official Journal of the Society for Computer Applications in Radiology
Andrew J Evans, Thomas W Bauer, Marilyn M Bui, Toby C Cornish, Helena Duncan, Eric F Glassy, Jason Hipp, Robert S McGee, Doug Murphy, Charles Myers, Dennis G O'Neill, Anil V Parwani, B Alan Rampy, Mohamed E Salama, Liron Pantanowitz
April 12, 2017, marked a significant day in the evolution of digital pathology in the United States, when the US Food and Drug Administration announced its approval of the Philips IntelliSite Pathology Solution for primary diagnosis in surgical pathology. Although this event is expected to facilitate more widespread adoption of whole slide imaging for clinical applications in the United States, it also raises a number of questions as to the means by which pathologists might choose to incorporate this technology into their clinical practice...
April 30, 2018: Archives of Pathology & Laboratory Medicine
P Hufnagl, S Lohmann, K Schlüns, N Zerbe
BACKGROUND: The "Digital Pathology in Diagnostics - Assessment of Digital Images" guideline describes the technical and legal framework under which the use of this digital technology is justifiable for the individual pathologist. The focus is on conducting a validation study, defining minimum requirements for the generation and management of whole slide images, and ensuring the functionality and quality of the virtual microscopy solution used. By establishing a special web-based service, supportive services can be provided to assist the pathologist in the introduction of virtual microscopy and quality assurance...
April 27, 2018: Der Pathologe
R Grobholz
BACKGROUND: Digital pathology (DP) and whole-slide imaging (WSI) technology have matured substantially over the last few years. Meanwhile, commercial systems are available that can be used in routine practice. AIMS: Illustration of DP experiences in a routine diagnostic setting. RESULTS AND CONCLUSIONS: A DP system offers several advantages: 1) glass slides are no longer unique; 2) access to cases is possible from any location; 3) digital image analysis can be applied; and 4) archived WSI can be easily accessed...
April 24, 2018: Der Pathologe
Ayoub Nahal, Crystal Mildred O Batac, Renee J Slaw, Thomas W Bauer
CONTEXT: - The production of whole slide images is the most advanced form of digital pathology, in which a high-resolution digital scanner is used to rapidly scan glass microscope slides and produce a computer-generated whole slide image that can be saved, stored in a network-attached storage device, and accessed through slide management software within the hospital domain and remotely by authorized users. Digital transformation of glass slides has revolutionized the practice of anatomic pathology by facilitating and expediting consultative services, improving clinical workflow, and becoming an indispensable tool in education and research...
April 24, 2018: Archives of Pathology & Laboratory Medicine
Kimmo Kartasalo, Leena Latonen, Jorma Vihinen, Tapio Visakorpi, Matti Nykter, Pekka Ruusuvuori
Motivation: Digital pathology enables new approaches that expand beyond storage, visualization or analysis of histological samples in digital format. One novel opportunity is 3D histology, where a three-dimensional reconstruction of the sample is formed computationally based on serial tissue sections. This allows examining tissue architecture in 3D, for example, for diagnostic purposes. Importantly, 3D histology enables joint mapping of cellular morphology with spatially resolved omics data in the true 3D context of the tissue at microscopic resolution...
April 19, 2018: Bioinformatics
Eric F Glassy
No abstract text is available yet for this article.
April 3, 2018: Pathology
G Haroske, R Zwönitzer, P Hufnagl
BACKGROUND: The digitization of medicine is gaining momentum in pathology. Long-known technologies have reached such a degree of maturity that their use in primary diagnostics in routine pathology will be possible. In spite of the complexity of technological solutions and the far-reaching consequences in terms of diagnostic reliability, as well as due to the high investments, the decision for a specific product may become highly sophisticated for a pathologist. AIM: An implementation guide for Digital Diagnostics in Pathology is presented to describe technical and legal conditions for making this new technology feasible for the single pathologist...
April 5, 2018: Der Pathologe
David Clunie, Dan Hosseinzadeh, Mikael Wintell, David De Mena, Nieves Lajara, Marcial Garcia-Rojo, Gloria Bueno, Kiran Saligrama, Aaron Stearrett, David Toomey, Esther Abels, Frank Van Apeldoorn, Stephane Langevin, Sean Nichols, Joachim Schmid, Uwe Horchner, Bruce Beckwith, Anil Parwani, Liron Pantanowitz
As digital pathology systems for clinical diagnostic work applications become mainstream, interoperability between these systems from different vendors becomes critical. For the first time, multiple digital pathology vendors have publicly revealed the use of the digital imaging and communications in medicine (DICOM) standard file format and network protocol to communicate between separate whole slide acquisition, storage, and viewing components. Note the use of DICOM for clinical diagnostic applications is still to be validated in the United States...
2018: Journal of Pathology Informatics
Caroline Uhler, G V Shivashankar
Abnormalities in nuclear and chromatin organization are hallmarks of many diseases including cancer. In this review, we highlight our understanding of how the cellular microenvironment regulates nuclear morphology and, with it, the spatial organization of chromosomes and genes, resulting in cell type-specific genomic programs. We also discuss the molecular basis for maintaining nuclear and genomic integrity and how alterations in nuclear mechanotransduction pathways result in various diseases. Finally, we highlight the importance of digital pathology based on nuclear morphometric features combined with single-cell genomics for early cancer diagnostics...
April 2018: Trends in Cancer
Maurice B Loughrey, Peter Bankhead, Helen G Coleman, Ryan S Hagan, Stephanie Craig, Amy M B McCorry, Ronan T Gray, Stephen McQuaid, Philip D Dunne, Peter W Hamilton, Jacqueline A James, Manuel Salto-Tellez
Output from biomarker studies involving immunohistochemistry applied to tissue microarrays (TMA) is limited by the lack of an efficient and reproducible scoring methodology. In this study, we examine the functionality and reproducibility of biomarker scoring using the new, open source, digital image analysis software, QuPath. Three different reviewers, with varying experience of digital pathology and image analysis, applied an agreed QuPath scoring methodology to CD3 and p53 immunohistochemically stained TMAs from a colon cancer cohort (n=661)...
March 25, 2018: Histopathology
Filippo Fraggetta, Esther Diana Rossi, Liron Pantanowitz
No abstract text is available yet for this article.
April 2018: Archives of Pathology & Laboratory Medicine
Bethany Jill Williams, David Bottoms, David Clark, Darren Treanor
Diagnostic histopathology departments are experiencing unprecedented economic and service pressures, and many institutions are now considering digital pathology as part of the solution. In this document, a follow on to our case for adoption report, we provide information and advice to help departments create their own clear, succinct, individualised business case for the clinical deployment of digital pathology.
March 16, 2018: Journal of Clinical Pathology
Roshanak Alialy, Sasan Tavakkol, Elham Tavakkol, Amir Ghorbani-Aghbologhi, Alireza Ghaffarieh, Seon Ho Kim, Cyrus Shahabi
The advent of the digital pathology has introduced new avenues of diagnostic medicine. Among them, crowdsourcing has attracted researchers' attention in the recent years, allowing them to engage thousands of untrained individuals in research and diagnosis. While there exist several articles in this regard, prior works have not collectively documented them. We, therefore, aim to review the applications of crowdsourcing in human pathology in a semi-systematic manner. We first, introduce a novel method to do a systematic search of the literature...
2018: Journal of Pathology Informatics
Pooya Mobadersany, Safoora Yousefi, Mohamed Amgad, David A Gutman, Jill S Barnholtz-Sloan, José E Velázquez Vega, Daniel J Brat, Lee A D Cooper
Cancer histology reflects underlying molecular processes and disease progression and contains rich phenotypic information that is predictive of patient outcomes. In this study, we show a computational approach for learning patient outcomes from digital pathology images using deep learning to combine the power of adaptive machine learning algorithms with traditional survival models. We illustrate how these survival convolutional neural networks (SCNNs) can integrate information from both histology images and genomic biomarkers into a single unified framework to predict time-to-event outcomes and show prediction accuracy that surpasses the current clinical paradigm for predicting the overall survival of patients diagnosed with glioma...
March 27, 2018: Proceedings of the National Academy of Sciences of the United States of America
Sharareh Bayat, Shekoofeh Azizi, Mohammad I Daoud, Guy Nir, Farhad Imani, Carlos D Gerardo, Pingkun Yan, Amir Tahmasebi, Francois Vignon, Samira Sojoudi, Storey Wilson, Kenneth A Iczkowski, M Scott Lucia, Larry Goldenberg, Septimiu E Salcudean, Purang Abolmaesumi, Parvin Mousavi
Temporal-enhanced ultrasound (TeUS) is a novel noninvasive imaging paradigm that captures information from a temporal sequence of backscattered US radio frequency data obtained from a fixed tissue location. This technology has been shown to be effective for classification of various in vivo and ex vivo tissue types including prostate cancer from benign tissue. Our previous studies have indicated two primary phenomena that influence TeUS: 1) changes in tissue temperature due to acoustic absorption and 2) micro vibrations of tissue due to physiological vibration...
March 2018: IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control
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