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Journal of Pathology Informatics

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https://www.readbyqxmd.com/read/28828201/deep-learning-for-classification-of-colorectal-polyps-on-whole-slide-images
#1
Bruno Korbar, Andrea M Olofson, Allen P Miraflor, Catherine M Nicka, Matthew A Suriawinata, Lorenzo Torresani, Arief A Suriawinata, Saeed Hassanpour
CONTEXT: Histopathological characterization of colorectal polyps is critical for determining the risk of colorectal cancer and future rates of surveillance for patients. However, this characterization is a challenging task and suffers from significant inter- and intra-observer variability. AIMS: We built an automatic image analysis method that can accurately classify different types of colorectal polyps on whole-slide images to help pathologists with this characterization and diagnosis...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28828200/pathedex-uncovering-high-explanatory-visual-diagnostics-heuristics-using-digital-pathology-and-multiscale-gaze-data
#2
Dmitriy Shin, Mikhail Kovalenko, Ilker Ersoy, Yu Li, Donald Doll, Chi-Ren Shyu, Richard Hammer
BACKGROUND: Visual heuristics of pathology diagnosis is a largely unexplored area where reported studies only provided a qualitative insight into the subject. Uncovering and quantifying pathology visual and nonvisual diagnostic patterns have great potential to improve clinical outcomes and avoid diagnostic pitfalls. METHODS: Here, we present PathEdEx, an informatics computational framework that incorporates whole-slide digital pathology imaging with multiscale gaze-tracking technology to create web-based interactive pathology educational atlases and to datamine visual and nonvisual diagnostic heuristics...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28828199/implementation-of-automated-calculation-of-free-and-bioavailable-testosterone-in-epic-beaker-laboratory-information-system
#3
Michael C Chung, Saurabh Gombar, Run Zhang Shi
BACKGROUND: Automated calculations by laboratory information system (LIS) are efficient and accurate ways of providing calculated laboratory test results. Due to the lack of established advanced mathematical functions and equation logic in LIS software, calculations beyond simple arithmetic functions require a tedious workaround. Free and bioavailable testosterone (BT) calculations require a quadratic solver currently unavailable as ready to use the function on most commercial LIS platforms...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28828198/teaching-digital-pathology-the-international-school-of-digital-pathology-and-proposed-syllabus
#4
Vincenzo Della Mea, Antonino Carbone, Carla Di Loreto, Gloria Bueno, Paolo De Paoli, Marcial García-Rojo, David de Mena, Annunziata Gloghini, Mohammad Ilyas, Arvydas Laurinavicius, Allan Rasmusson, Massimo Milione, Riccardo Dolcetti, Marco Pagani, Andrea Stoppini, Sandro Sulfaro, Michelangelo Bartolo, Emanuela Mazzon, H Peter Soyer, Liron Pantanowitz
Digital pathology is an interdisciplinary field where competency in pathology, laboratory techniques, informatics, computer science, information systems, engineering, and even biology converge. This implies that teaching students about digital pathology requires coverage, expertise, and hands-on experience in all these disciplines. With this in mind, a syllabus was developed for a digital pathology summer school aimed at professionals in the aforementioned fields, as well as trainees and doctoral students. The aim of this communication is to share the context, rationale, and syllabus for this school of digital pathology...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28706751/development-and-implementation-of-a-coagulation-factor-testing-method-utilizing-autoverification-in-a-high-volume-clinical-reference-laboratory-environment
#5
Paul W Riley, Benoit Gallea, Andre Valcour
BACKGROUND: Testing coagulation factor activities requires that multiple dilutions be assayed and analyzed to produce a single result. The slope of the line created by plotting measured factor concentration against sample dilution is evaluated to discern the presence of inhibitors giving rise to nonparallelism. Moreover, samples producing results on initial dilution falling outside the analytic measurement range of the assay must be tested at additional dilutions to produce reportable results...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28706750/a-reduced-set-of-features-for-chronic-kidney-disease-prediction
#6
Rajesh Misir, Malay Mitra, Ranjit Kumar Samanta
Chronic kidney disease (CKD) is one of the life-threatening diseases. Early detection and proper management are solicited for augmenting survivability. As per the UCI data set, there are 24 attributes for predicting CKD or non-CKD. At least there are 16 attributes need pathological investigations involving more resources, money, time, and uncertainties. The objective of this work is to explore whether we can predict CKD or non-CKD with reasonable accuracy using less number of features. An intelligent system development approach has been used in this study...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28584684/current-state-of-the-regulatory-trajectory-for-whole-slide-imaging-devices-in-the-usa
#7
REVIEW
Esther Abels, Liron Pantanowitz
The regulatory field for digital pathology (DP) has advanced significantly. A major milestone was accomplished when the FDA allowed the first vendor to market their device for primary diagnostic use in the USA and published in the classification order that this device, and substantially equivalent devices of this generic type, should be classified into class II instead of class III as previously proposed. The Digital Pathology Association (DPA) regulatory task force had a major role in the accomplishment of getting the application request for Whole Slide Imaging (WSI) Systems recommended for a de novo...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28584683/training-nuclei-detection-algorithms-with-simple-annotations
#8
Henning Kost, André Homeyer, Jesper Molin, Claes Lundström, Horst Karl Hahn
BACKGROUND: Generating good training datasets is essential for machine learning-based nuclei detection methods. However, creating exhaustive nuclei contour annotations, to derive optimal training data from, is often infeasible. METHODS: We compared different approaches for training nuclei detection methods solely based on nucleus center markers. Such markers contain less accurate information, especially with regard to nuclear boundaries, but can be produced much easier and in greater quantities...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28480122/the-need-for-careful-data-collection-for-pattern-recognition-in-digital-pathology
#9
Raphaël Marée
Effective pattern recognition requires carefully designed ground-truth datasets. In this technical note, we first summarize potential data collection issues in digital pathology and then propose guidelines to build more realistic ground-truth datasets and to control their quality. We hope our comments will foster the effective application of pattern recognition approaches in digital pathology.
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28480121/alchemy-a-web-2-0-real-time-quality-assurance-platform-for-human-immunodeficiency-virus-hepatitis-c-virus-and-bk-virus-quantitation-assays
#10
Emmanuel Agosto-Arroyo, Gina M Coshatt, Thomas S Winokur, Shuko Harada, Seung L Park
BACKGROUND: The molecular diagnostics laboratory faces the challenge of improving test turnaround time (TAT). Low and consistent TATs are of great clinical and regulatory importance, especially for molecular virology tests. Laboratory information systems (LISs) contain all the data elements necessary to do accurate quality assurance (QA) reporting of TAT and other measures, but these reports are in most cases still performed manually: a time-consuming and error-prone task. The aim of this study was to develop a web-based real-time QA platform that would automate QA reporting in the molecular diagnostics laboratory at our institution, and minimize the time expended in preparing these reports...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28480120/compromising-the-security-of-generating-unique-identifiers-from-patient-identification-data-using-security-models
#11
Arran Schlosberg
No abstract text is available yet for this article.
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28480119/evaluation-of-android-smartphones-for-telepathology
#12
Donald Ekong, Fang Liu, G Thomas Brown, Arunima Ghosh, Paul Fontelo
BACKGROUND: In the year 2014, Android smartphones accounted for one-third of mobile connections globally but are predicted to increase to two-thirds by 2020. In developing countries, where teleconsultations can benefit health-care providers most, the ratio is even higher. This study compared the use of two Android phones, an 8 megapixel (MP) and a 16 MP phone, for capturing microscopic images. METHOD: The Android phones were used to capture images and videos of a gastrointestinal biopsy teaching set of referred cases from the Armed Forces Institute of Pathology (AFIP)...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28480118/predictive-nuclear-chromatin-characteristics-of-melanoma-and-dysplastic-nevi
#13
Matthew G Hanna, Chi Liu, Gustavo K Rohde, Rajendra Singh
BACKGROUND: The diagnosis of malignant melanoma (MM) is among the diagnostic challenges pathologists encounter on a routine basis. Melanoma may arise in patients with preexisting dysplastic nevi (DN) and it is still the cause of 1.7% of all cancer-related deaths. Melanomas often have overlapping histological features with DN, especially those with severe dysplasia. Nucleotyping for identifying nuclear textural features can analyze nuclear DNA structure and organization. The aim of this study is to differentiate MM and DN using these methodologies...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28480117/making-pathology-diagnoses-with-glass-or-digital-slides-which-modality-is-inferior
#14
COMMENT
Jonhan Ho, Liron Pantanowitz
No abstract text is available yet for this article.
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28400996/open-source-software-for-demand-forecasting-of-clinical-laboratory-test-volumes-using-time-series-analysis
#15
Emad A Mohammed, Christopher Naugler
BACKGROUND: Demand forecasting is the area of predictive analytics devoted to predicting future volumes of services or consumables. Fair understanding and estimation of how demand will vary facilitates the optimal utilization of resources. In a medical laboratory, accurate forecasting of future demand, that is, test volumes, can increase efficiency and facilitate long-term laboratory planning. Importantly, in an era of utilization management initiatives, accurately predicted volumes compared to the realized test volumes can form a precise way to evaluate utilization management initiatives...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28400995/whatsapp-for-teaching-pathology-postgraduates-a-pilot-study
#16
Aditi Goyal, Nadeem Tanveer, Pooja Sharma
INTRODUCTION: Postgraduate students spend a sizeable proportion of their time on social media platforms such as WhatsApp and Facebook. This change in our social interaction needs to be accommodated in our teaching methods. To engage them and arouse their curiosity, WhatsApp is an ideal platform. Digital photography by cell phone cameras has made it possible to share cases and discuss them with students round the clock. OBJECTIVE: The primary aim of the study was to develop sharing and discussion of images using WhatsApp...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28400994/pathological-diagnosis-of-gastric-cancers-with-a-novel-computerized-analysis-system
#17
Kosuke Oikawa, Akira Saito, Tomoharu Kiyuna, Hans Peter Graf, Eric Cosatto, Masahiko Kuroda
BACKGROUND: Recent studies of molecular biology have provided great advances for diagnostic molecular pathology. Automated diagnostic systems with computerized scanning for sampled cells in fluids or smears are now widely utilized. Automated analysis of tissue sections is, however, very difficult because they exhibit a complex mixture of overlapping malignant tumor cells, benign host-derived cells, and extracellular materials. Thus, traditional histological diagnosis is still the most powerful method for diagnosis of diseases...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28400993/criteria-to-screen-molecular-tests-for-the-diagnosis-of-herpes-simplex-virus-in-the-central-nervous-system-have-no-propensity-to-harm
#18
Ronald George Hauser, Cynthia A Brandt, Richard A Martinello
OBJECTIVES: Investigators have ruled out herpes simplex virus (HSV) infection without the detection of herpes simplex deoxyribonucleic acid in cerebrospinal fluid (CSF) (i.e., HSV polymerase chain reaction [PCR]) by laboratory (normal CSF white blood cell count and protein) and clinical criteria (age ≥2 years, no history of human immunodeficiency virus or solid-organ transplant). Compared to HSV PCR of all samples, the algorithm saves money in test costs and may decrease exposure to acyclovir by illustrating the low probability that the patient has HSV...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28400992/implementation-of-a-software-application-for-presurgical-case-history-review-of-frozen-section-pathology-cases
#19
Andrew P Norgan, Mathew L Okeson, Justin E Juskewitch, Kabeer K Shah, William R Sukov
BACKGROUND: The frozen section pathology practice at Mayo Clinic in Rochester performs ~20,000 intraoperative consultations a year (~70-80/weekday). To prepare for intraoperative consultations, surgical pathology fellows and residents review the case history, previous pathology, and relevant imaging the day before surgery. Before the work described herein, review of pending surgical pathology cases was a paper-based process requiring handwritten transcription from the electronic health record, a laborious and potentially error prone process...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28400991/computer-science-biology-and-biomedical-informatics-academy-outcomes-from-5-years-of-immersing-high-school-students-into-informatics-research
#20
EDITORIAL
Andrew J King, Arielle M Fisher, Michael J Becich, David N Boone
The University of Pittsburgh's Department of Biomedical Informatics and Division of Pathology Informatics created a Science, Technology, Engineering, and Mathematics (STEM) pipeline in 2011 dedicated to providing cutting-edge informatics research and career preparatory experiences to a diverse group of highly motivated high-school students. In this third editorial installment describing the program, we provide a brief overview of the pipeline, report on achievements of the past scholars, and present results from self-reported assessments by the 2015 cohort of scholars...
2017: Journal of Pathology Informatics
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