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Journal of Pathology Informatics

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https://www.readbyqxmd.com/read/29114436/preferred-names-preferred-pronouns-and-gender-identity-in-the-electronic-medical-record-and-laboratory-information-system-is-pathology-ready
#1
Katherine L Imborek, Nicole L Nisly, Michael J Hesseltine, Jana Grienke, Todd A Zikmund, Nicholas R Dreyer, John L Blau, Maia Hightower, Robert M Humble, Matthew D Krasowski
Background: Electronic medical records (EMRs) and laboratory information systems (LISs) commonly utilize patient identifiers such as legal name, sex, medical record number, and date of birth. There have been recommendations from some EMR working groups (e.g., the World Professional Association for Transgender Health) to include preferred name, pronoun preference, assigned sex at birth, and gender identity in the EMR. These practices are currently uncommon in the United States. There has been little published on the potential impact of these changes on pathology and LISs...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/29114435/hepatitis-c-virus-genie-a-web-2-0-interpretation-and-analytics-platform-for-the-versant-hepatitis-c-virus-genotype-line-probe-assay-version-2-0
#2
Alex M Dussaq, Abha Soni, Christopher Willey, Seung L Park, Shuko Harada
Context: Hepatitis C virus (HCV) genotyping at our institution is performed using the Versant HCV genotype 2.0 Line Probe Assay (LiPA). The last steps of this procedure are manual, laborious, and error-prone process that involves the comparison of the banding pattern on a test strip to a physical reference table. Aim: We developed a web-based HCV genotype interpretation platform that utilizes a scanned image to generate the genotypes, thus minimizing interpretation time and reducing error...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/29114434/usability-evaluation-of-laboratory-information-systems
#3
Althea Mathews, David Marc
Background: Numerous studies have revealed widespread clinician frustration with the usability of electronic health records (EHRs) that is counterproductive to adoption of EHR systems to meet the aims of health-care reform. With poor system usability comes increased risk of negative unintended consequences. Usability issues could lead to user error and workarounds that have the potential to compromise patient safety and negatively impact the quality of care.[1] While there is ample research on EHR usability, there is little information on the usability of laboratory information systems (LISs)...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28966838/impact-of-altering-various-image-parameters-on-human-epidermal-growth-factor-receptor-2-image-analysis-data-quality
#4
Liron Pantanowitz, Chi Liu, Yue Huang, Huazhang Guo, Gustavo K Rohde
INTRODUCTION: The quality of data obtained from image analysis can be directly affected by several preanalytical (e.g., staining, image acquisition), analytical (e.g., algorithm, region of interest [ROI]), and postanalytical (e.g., computer processing) variables. Whole-slide scanners generate digital images that may vary depending on the type of scanner and device settings. Our goal was to evaluate the impact of altering brightness, contrast, compression, and blurring on image analysis data quality...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28966837/a-methodology-for-texture-feature-based-quality-assessment-in-nucleus-segmentation-of-histopathology-image
#5
Si Wen, Tahsin M Kurc, Yi Gao, Tianhao Zhao, Joel H Saltz, Wei Zhu
CONTEXT: Image segmentation pipelines often are sensitive to algorithm input parameters. Algorithm parameters optimized for a set of images do not necessarily produce good-quality-segmentation results for other images. Even within an image, some regions may not be well segmented due to a number of factors, including multiple pieces of tissue with distinct characteristics, differences in staining of the tissue, normal versus tumor regions, and tumor heterogeneity. Evaluation of quality of segmentation results is an important step in image analysis...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28966836/three-dimensional-imaging-and-scanning-current-and-future-applications-for-pathology
#6
Navid Farahani, Alex Braun, Dylan Jutt, Todd Huffman, Nick Reder, Zheng Liu, Yukako Yagi, Liron Pantanowitz
Imaging is vital for the assessment of physiologic and phenotypic details. In the past, biomedical imaging was heavily reliant on analog, low-throughput methods, which would produce two-dimensional images. However, newer, digital, and high-throughput three-dimensional (3D) imaging methods, which rely on computer vision and computer graphics, are transforming the way biomedical professionals practice. 3D imaging has been useful in diagnostic, prognostic, and therapeutic decision-making for the medical and biomedical professions...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28966835/robotic-telecytology-for-remote-cytologic-evaluation-without-an-on-site-cytotechnologist-or-cytopathologist-an-active-quality-assessment-and-experience-of-over-400-cases
#7
Sahussapont Joseph Sirintrapun, Dorota Rudomina, Allix Mazzella, Rusmir Feratovic, William Alago, Robert Siegelbaum, Oscar Lin
BACKGROUND: The first satellite center to offer interventional radiology procedures at Memorial Sloan Kettering Cancer Center opened in October 2014. Two of the procedures offered, fine needle aspirations and core biopsies, required a rapid on-site cytologic evaluation of smears and biopsy touch imprints for cellular content and adequacy. The volume and frequency of such evaluations did not justify hiring on-site cytotechnologists, and therefore, a dynamic robotic telecytology (TC) solution was created...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28966834/determining-image-processing-features-describing-the-appearance-of-challenging-mitotic-figures-and-miscounted-nonmitotic-objects
#8
Ziba Gandomkar, Patrick C Brennan, Claudia Mello-Thoms
CONTEXT: Previous studies showed that the agreement among pathologists in recognition of mitoses in breast slides is fairly modest. AIMS: Determining the significantly different quantitative features among easily identifiable mitoses, challenging mitoses, and miscounted nonmitoses within breast slides and identifying which color spaces capture the difference among groups better than others. MATERIALS AND METHODS: The dataset contained 453 mitoses and 265 miscounted objects in breast slides...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28966833/successful-secure-high-definition-streaming-telecytology-for-remote-cytologic-evaluation
#9
Sahussapont Joseph Sirintrapun, Dorota Rudomina, Allix Mazzella, Rusmir Feratovic, Oscar Lin
BACKGROUND: The use of minimally invasive procedures to obtain material for diagnostic purposes has become more prevalent in recent years. As such, there is increased demand for immediate cytologic adequacy assessment of minimally invasive procedures. The array of different locations in which rapid on-site evaluation (ROSE) is expected requires an ever-increasing number of cytology personnel to provide support for adequacy assessment. In our study, we describe the implementation process of a telecytology (TC) system in a high case volume setting and evaluate the performance of this activity...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28966832/robotic-telecytology-for-remote-cytologic-evaluation-without-an-on-site-cytotechnologist-or-cytopathologist-a-tale-of-implementation-and-review-of-constraints
#10
Sahussapont Joseph Sirintrapun, Dorota Rudomina, Allix Mazzella, Rusmir Feratovic, William Alago, Robert Siegelbaum, Oscar Lin
BACKGROUND: The first satellite center to offer interventional radiology procedures at Memorial Sloan Kettering Cancer Center opened in October 2014. Two of the procedures offered, fine needle aspirations and core biopsies, required rapid on-site cytologic evaluation of smears and biopsy touch imprints for cellular content and adequacy. The volume and frequency of such evaluations did not justify hiring on-site cytotechnologists, and therefore, a dynamic robotic telecytology (TC) solution was created...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28966831/a-design-study-investigating-augmented-reality-and-photograph-annotation-in-a-digitalized-grossing-workstation
#11
Joyce A Chow, Martin E Törnros, Marie Waltersson, Helen Richard, Madeleine Kusoffsky, Claes F Lundström, Arianit Kurti
CONTEXT: Within digital pathology, digitalization of the grossing procedure has been relatively underexplored in comparison to digitalization of pathology slides. AIMS: Our investigation focuses on the interaction design of an augmented reality gross pathology workstation and refining the interface so that information and visualizations are easily recorded and displayed in a thoughtful view. SETTINGS AND DESIGN: The work in this project occurred in two phases: the first phase focused on implementation of an augmented reality grossing workstation prototype while the second phase focused on the implementation of an incremental prototype in parallel with a deeper design study...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28828201/deep-learning-for-classification-of-colorectal-polyps-on-whole-slide-images
#12
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
#13
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
#14
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
#15
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
#16
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
#17
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
#18
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
#19
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
#20
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
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