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"Digital 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 12, 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
Hsiang-Hsin Chen, Tsung-Tse Lee, Ann Chen, Yeukuang Hwu, Cyril Petibois
Determining the filtration function and biochemical status of kidney at the single glomerulus level remains hardly accessible, even from biopsies. Here, we provide evidence that IR spectro-microscopy is a suitable method to account for the filtration capacity of individual glomeruli along with related physio-pathological condition. A ~4-µm voxel resolution 3D IR image reconstruction is built from consecutive tissue sections, thus providing a 3D IR spectrum matrix of an individual glomerulus. The filtration capacity of glomeruli was quantitatively determined after BaSO4 perfusion, and additional chemical data could be used to determined oxidative stress effects and fibrosis, thus combining functional and biochemical information from the same 3D IR spectrum matrix...
March 5, 2018: Analytical Chemistry
Swetha Murali, Jayesh Vasudeva Adhikari, Veerendra Kalyan Jagannadh, Sai Siva Gorthi
Cost-effective and automated acquisition of whole slide images is a bottleneck for wide-scale deployment of digital pathology. In this article, a computation augmented approach for the development of an automated microscope slide scanner is presented. The realization of a prototype device built using inexpensive off-the-shelf optical components and motors is detailed. The applicability of the developed prototype to clinical diagnostic testing is demonstrated by generating good quality digital images of malaria-infected blood smears...
February 2018: Review of Scientific Instruments
Jarcy Zee, Jeffrey B Hodgin, Laura H Mariani, Joseph P Gaut, Matthew B Palmer, Serena M Bagnasco, Avi Z Rosenberg, Stephen M Hewitt, Lawrence B Holzman, Brenda W Gillespie, Laura Barisoni
CONTEXT: - Testing reproducibility is critical for the development of methodologies for morphologic assessment. Our previous study using the descriptor-based Nephrotic Syndrome Study Network Digital Pathology Scoring System (NDPSS) on glomerular images revealed variable reproducibility. OBJECTIVE: - To test reproducibility and feasibility of alternative scoring strategies for digital morphologic assessment of glomeruli and explore use of alternative agreement statistics...
February 19, 2018: Archives of Pathology & Laboratory Medicine
Tyler Bowman, Tanny Chavez, Kamrul Khan, Jingxian Wu, Avishek Chakraborty, Narasimhan Rajaram, Keith Bailey, Magda El-Shenawee
This paper investigates terahertz (THz) imaging and classification of freshly excised murine xenograft breast cancer tumors. These tumors are grown via injection of E0771 breast adenocarcinoma cells into the flank of mice maintained on high-fat diet. Within 1 h of excision, the tumor and adjacent tissues are imaged using a pulsed THz system in the reflection mode. The THz images are classified using a statistical Bayesian mixture model with unsupervised and supervised approaches. Correlation with digitized pathology images is conducted using classification images assigned by a modal class decision rule...
February 2018: Journal of Biomedical Optics
Benjamin F Dessauvagie, Andrew H S Lee, Katie Meehan, Anju Nijhawan, Puay Hoon Tan, Jeremy Thomas, Bibiana Tie, Darren Treanor, Seemeen Umar, Andrew M Hanby, Rebecca Millican-Slater
AIM: Fibroepithelial lesions (FELs) of the breast span a morphological continuum including lesions where distinction between cellular fibroadenoma (FA) and benign phyllodes tumour (PT) is difficult. The distinction is clinically important with FAs managed conservatively while equivocal lesions and PTs are managed with surgery. We sought to audit core biopsy diagnoses of equivocal FELs by digital pathology and to investigate whether digital point counting is useful in clarifying FEL diagnoses...
February 13, 2018: Journal of Clinical Pathology
Anna Vergani, Barbara Regis, Genny Jocollé, Roberta Patetta, Giulio Rossi
No abstract text is available yet for this article.
February 12, 2018: American Journal of Surgical Pathology
Koji Kasanuki, Tanis J Ferman, Melissa E Murray, Michael G Heckman, Otto Pedraza, Fadi S Hanna Al-Shaikh, Takayasu Mishima, Nancy N Diehl, Jay A van Gerpen, Ryan J Uitti, Zbigniew K Wszolek, Neill R Graff-Radford, Dennis W Dickson
INTRODUCTION: Excessive daytime sleepiness is a commonly reported clinical feature of dementia with Lewy bodies (DLB) that can occur early in the disease. Cholinergic depletion is known to be severe in DLB, even when dementia severity is mild. The nucleus basalis of Meynert serves as a primary source of cortical acetylcholine, and has a role in facilitating cortical activation and arousal. We sought to determine whether daytime sleepiness at the initial evaluation of patients with DLB was associated with neuronal loss in the nucleus basalis of Meynert...
February 3, 2018: Parkinsonism & related Disorders
Ilaria Jansen, Marit Lucas, C Dilara Savci-Heijink, Sybren L Meijer, Henk A Marquering, Daniel M de Bruin, Patricia J Zondervan
Due to the growing field of digital pathology, more and more digital histology slides are becoming available. This improves the accessibility, allows teleconsultations from specialized pathologists, improves education, and might give urologist the possibility to review the slides in patient management systems. Moreover, by stacking multiple two-dimensional (2D) digital slides, three-dimensional volumes can be created, allowing improved insight in the growth pattern of a tumor. With the addition of computer-aided diagnosis systems, pathologist can be guided to regions of interest, potentially reducing the workload and interobserver variation...
February 2, 2018: World Journal of Urology
Balazs Acs, David L Rimm
No abstract text is available yet for this article.
February 1, 2018: JAMA Oncology
Matthew G Hanna, Ishtiaque Ahmed, Jeffrey Nine, Shyam Prajapati, Liron Pantanowitz
CONTEXT: - Augmented reality (AR) devices such as the Microsoft HoloLens have not been well used in the medical field. OBJECTIVE: - To test the HoloLens for clinical and nonclinical applications in pathology. DESIGN: - A Microsoft HoloLens was tested for virtual annotation during autopsy, viewing 3D gross and microscopic pathology specimens, navigating whole slide images, telepathology, as well as real-time pathology-radiology correlation...
January 31, 2018: Archives of Pathology & Laboratory Medicine
Andrew P Norgan, Vera J Suman, Charlene L Brown, Thomas J Flotte, Taofic Mounajjed
Objectives: To examine the performance of a commercial off-the-shelf (COTS) monitor vs a medical-grade (MG) monitor for small object enumeration in standardized digital pathology images. Methods: Pathologists reviewed 35 melanoma or 35 gastric biopsy images using the MG and COTS displays, with a 2-week washout period. Mitotic figure or Helicobacter pylori burden enumerations were compared with reference values reported by an expert subspecialist pathologist using a light microscope...
January 20, 2018: American Journal of Clinical Pathology
Ismini E Papageorgiou, Nektarios A Valous, Bernd Lahrmann, Hana Janova, Zin-Juan Klaft, Arend Koch, Ulf C Schneider, Peter Vajkoczy, Frank L Heppner, Niels Grabe, Niels Halama, Uwe Heinemann, Oliver Kann
Human mesial temporal lobe epilepsy (MTLE) features subregion-specific hippocampal neurodegeneration and reactive astrogliosis, including up-regulation of the glial fibrillary acidic protein (GFAP) and down-regulation of glutamine synthetase (GS). However, the regional astrocytic expression pattern of GFAP and GS upon MTLE-associated neurodegeneration still remains elusive. We assessed GFAP and GS expression in strict correlation with the local neuronal number in cortical and hippocampal surgical specimens from 16 MTLE patients using immunohistochemistry, stereology and high-resolution image analysis for digital pathology and whole-slide imaging...
January 19, 2018: Glia
Daniel Siegismund, Vasily Tolkachev, Stephan Heyse, Beate Sick, Oliver Duerr, Stephan Steigele
Deep Learning has boosted artificial intelligence over the past 5 years and is seen now as one of the major technological innovation areas, predicted to replace lots of repetitive, but complex tasks of human labor within the next decade. It is also expected to be 'game changing' for research activities in pharma and life sciences, where large sets of similar yet complex data samples are systematically analyzed. Deep learning is currently conquering formerly expert domains especially in areas requiring perception, previously not amenable to standard machine learning...
January 16, 2018: Drug Research
Matthew S MacLennan, Miranda G M Kok, Laiel Soliman, Alan So, Antonio Hurtado-Coll, David D Y Chen
Targeted and untargeted analyses of the sub-5 kDa urine metabolome of genitourinary cancer patients (prostate and/or bladder) were performed without chemical derivatization using capillary electrophoresis-electrospray ionization-mass spectrometry (CE-ESI-MS). For targeted analysis, endogenous levels of sarcosine and 5 other amino acid metabolites implicated in the progression of prostate cancer were quantified in four patients and in a pooled urine sample from healthy volunteers. An untargeted analysis (m/z 50 to 850) of patient urine was performed using the same CE-ESI-MS system identifying over 400 distinct molecular features per patient...
January 7, 2018: Journal of Chromatography. B, Analytical Technologies in the Biomedical and Life Sciences
Bethany Jill Williams, Jessica Lee, Karin A Oien, Darren Treanor
AIM: To canvass the UK pathology community to ascertain current levels of digital pathology usage in clinical and academic histopathology departments, and prevalent attitudes to digital pathology. METHODS: A 15-item survey was circulated to National Health Service and academic pathology departments across the UK using the SurveyMonkey online survey tool. Responses were sought at a departmental or institutional level. Where possible, departmental heads were approached and asked to complete the survey, or forward it to the most relevant individual in their department...
January 9, 2018: Journal of Clinical Pathology
Lee A D Cooper, Elizabeth G Demicco, Joel H Saltz, Reid T Powell, Arvind Rao, Alexander J Lazar
The Cancer Genome Atlas (TCGA) represents one of several international consortia dedicated to performing comprehensive genomic and epigenomic analyses of selected tumor types to advance understanding of disease and provide an open-access resource for worldwide cancer research. Thirty-three tumor types (selected by histology or tissue of origin, to include both common and rare diseases), comprising over 11,000 specimens were subjected to DNA sequencing, copy number and methylation analysis, and transcriptomic, proteomic, and histologic evaluation...
December 30, 2017: Journal of Pathology
A I Shahin, Yanhui Guo, K M Amin, Amr A Sharawi
Background: White blood cells (WBCs) play a crucial role in the diagnosis of many diseases according to their numbers or morphology. The recent digital pathology equipments investigate and analyze the blood smear images automatically. The previous automated segmentation algorithms worked on healthy and non-healthy WBCs separately. Also, such algorithms had employed certain color components which leak adaptively with different datasets. Methods: In this paper, a novel segmentation algorithm for WBCs in the blood smear images is proposed using multi-scale similarity measure based on the neutrosophic domain...
December 2018: Health Information Science and Systems
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