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Journal of Biomedical Informatics

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https://www.readbyqxmd.com/read/29462669/assessing-the-practice-of-biomedical-ontology-evaluation-gaps-and-opportunities
#1
REVIEW
Muhammad F Amith, Zhe He, Jiang Bian, Juan Antonio Lossio-Ventura, Cui Tao
With the proliferation of heterogeneous health care data in the last three decades, biomedical ontologies and controlled biomedical terminologies play a more and more important role in knowledge representation and management, data integration, natural language processing, as well as decision support for health information systems and biomedical research. Biomedical ontologies and controlled terminologies are intended to assure interoperability. Nevertheless, the quality of biomedical ontologies has hindered their applicability and subsequent adoption in real-world applications...
February 17, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29462668/mismatches-between-major-subhierarchies-and-semantic-tags-in-snomed-ct
#2
Jonathan P Bona, Werner Ceusters
The fully specified name of a concept in SNOMED CT is formed by a term to which in the typical case is added a semantic tag. The latter is meant to disambiguate homonymous terms and to indicate in which major subhierarchy of SNOMED CT that concept fits. We have developed a method to determine whether a concept's tag correctly identifies its place in the hierarchy, and applied this method to an analysis of all active concepts in every SNOMED CT release from January 2003 to January 2017. Our results show (1) that there are concepts in almost every release whose semantic tag does not match their placement in the hierarchy, (2) that it is primarily disorder concepts that are involved, and (3) that the number of such mismatches increase since the July 2012 version...
February 17, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29454911/the-ranking-of-scientists
#3
LETTER
Chunhua Weng, Andrew Goldstein, Chi Yuan, Zhiping Zhou
No abstract text is available yet for this article.
February 15, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29454910/the-ranking-of-scientists
#4
LETTER
Randolph A Miller
No abstract text is available yet for this article.
February 15, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29454909/letters-to-the-editor
#5
EDITORIAL
Edward H Shortliffe
No abstract text is available yet for this article.
February 15, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29454908/the-ranking-of-scientists
#6
LETTER
Enver Zerem
No abstract text is available yet for this article.
February 15, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29454107/archetype-modeling-methodology
#7
David Moner, José Alberto Maldonado, Montserrat Robles
Clinical Information Models (CIMs) expressed as archetypes play an essential role in the design and development of current Electronic Health Record (EHR) information structures. Although there exist many experiences about using archetypes in the literature, a comprehensive and formal methodology for archetype modeling does not exist. Having a modeling methodology is essential to develop quality archetypes, in order to guide the development of EHR systems and to allow the semantic interoperability of health data...
February 14, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29428411/a-sensor-based-wrist-pulse-signal-processing-and-lung-cancer-recognition
#8
Zhichao Zhang, Yuan Zhang, Houbing Song, Lina Yao, Anton Kos
Pulse diagnosis is an efficient method in traditional Chinese medicine for detecting the health status of a person in a non-invasive and convenient way. Jin's pulse diagnosis (JPD) is a very efficient recent development that is gradually recognized and well validated by the medical community in recent years. However, no acceptable results have been achieved for lung cancer recognition in the field of biomedical signal processing using JPD. More so, there is no standard JPD pulse feature defined with respect to pulse signals...
February 8, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29425732/exploration-of-association-rule-mining-for-coding-consistency-and-completeness-assessment-in-inpatient-administrative-health-data
#9
Mingkai Peng, Vijaya Sundararajan, Tyler Williamson, Evan P Minty, Tony C Smith, Chelsea T A Doktorchik, Hude Quan
OBJECTIVE: Data quality assessment is a challenging facet for research using coded administrative health data. Current assessment approaches are time and resource intensive. We explored whether association rule mining (ARM) can be used to develop rules for assessing data quality. MATERIALS AND METHODS: We extracted 2013 and 2014 records from the hospital discharge abstract database (DAD) for patients between the ages of 55 and 65 from five acute care hospitals in Alberta, Canada...
February 6, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29410356/a-shared-latent-space-matrix-factorisation-method-for-recommending-new-trial-evidence-for-systematic-review-updates
#10
Didi Surian, Adam G Dunn, Liat Orenstein, Rabia Bashir, Enrico Coiera, Florence T Bourgeois
BACKGROUND: Clinical trial registries can be used to monitor the production of trial evidence and signal when systematic reviews become out of date. However, this use has been limited to date due to the extensive manual review required to search for and screen relevant trial registrations. Our aim was to evaluate a new method that could partially automate the identification of trial registrations that may be relevant for systematic review updates. MATERIALS AND METHODS: We identified 179 systematic reviews of drug interventions for type 2 diabetes, which included 537 clinical trials that had registrations in ClinicalTrials...
February 1, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29410146/a-method-for-the-analysis-and-visualization-of-clinical-workflow-in-dynamic-environments
#11
Akshay Vankipuram, Stephen Traub, Vimla L Patel
The analysis of clinical workflow offers many challenges, especially in settings characterized by rapid dynamic change. Typically, some combination of approaches drawn from ethnography and grounded theory-based qualitative methods are used to develop relevant metrics. Medical institutions have recently attempted to introduce technological interventions to develop quantifiable quality metrics to supplement existing purely qualitative analyses. These interventions range from automated location tracking to repositories of clinical data (e...
February 1, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29409750/modeling-individual-differences-a-case-study-of-the-application-of-system-identification-for-personalizing-a-physical-activity-intervention
#12
Sayali S Phatak, Mohammad T Freigoun, César A Martín, Daniel E Rivera, Elizabeth V Korinek, Marc A Adams, Matthew P Buman, Predrag Klasnja, Eric B Hekler
BACKGROUND: Control systems engineering methods, particularly, system identification (system ID), offer an idiographic (i.e., person-specific) approach to develop dynamic models of physical activity (PA) that can be used to personalize interventions in a systematic, scalable way. The purpose of this work is to: 1) apply system ID to develop individual dynamical models of PA (steps/day measured using Fitbit Zip) in the context of a goal setting and positive reinforcement intervention informed by Social Cognitive Theory; and 2) compare insights on potential tailoring variables (i...
January 31, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29369797/estimating-summary-statistics-for-electronic-health-record-laboratory-data-for-use-in-high-throughput-phenotyping-algorithms
#13
D J Albers, N Elhadad, J Claassen, R Perotte, A Goldstein, G Hripcsak
We study the question of how to represent or summarize raw laboratory data taken from an electronic health record (EHR) using parametric model selection to reduce or cope with biases induced through clinical care. It has been previously demonstrated that the health care process [1,2], as defined by measurement context[2,3] and measurement patterns [4,5], can influence how EHR data are distributed statistically [6,7]. We construct an algorithm, PopKLD, which is based on information criterion model selection [8,9], is intended to reduce and cope with health care process biases and to produce an intuitively understandable continuous summary...
January 21, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29366586/computer-assisted-decision-support-system-in-pulmonary-cancer-detection-and-stage-classification-on-ct-images
#14
Anum Masood, Bin Sheng, Ping Li, Xuhong Hou, Xiaoer Wei, Jing Qin, Dagan Feng
Pulmonary cancer is considered as one of the major causes of death worldwide. For the detection of lung cancer, computer-assisted diagnosis (CADx) systems have been designed. Internet-of-Things (IoT) has enabled ubiquitous internet access to biomedical datasets and techniques; in result, the progress in CADx is significant. Unlike the conventional CADx, deep learning techniques have the basic advantage of an automatic exploitation feature as they have the ability to learn mid and high level image representations...
January 21, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29355783/a-standard-driven-approach-for-electronic-submission-to-pharmaceutical-regulatory-authorities
#15
Ching-Heáng Lin, Hsin-I Chou, Ueng-Cheng Yang
OBJECTIVE: Using standards is not only useful for data interchange during the process of a clinical trial, but also useful for analyzing data in a review process. Any step, which speeds up approval of new drugs, may benefit patients. As a result, adopting standards for regulatory submission becomes mandatory in some countries. However, preparing standard-compliant documents, such as annotated case report form (aCRF), needs a great deal of knowledge and experience. The process is complex and labor-intensive...
January 18, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29355784/user-acceptance-of-location-tracking-technologies-in-health-research-implications-for-study-design-and-data-quality
#16
J Hardy, T C Veinot, X Yan, V J Berrocal, P Clarke, R Goodspeed, I N Gomez, D Romero, V G V Vydiswaran
Research regarding place and health has undergone a revolution due to the availability of consumer-focused location-tracking devices that reveal fine-grained details of human mobility. Such research requires that participants accept such devices enough to use them in their daily lives. There is a need for a theoretically grounded understanding of acceptance of different location-tracking technology options, and its research implications. Guided by an extended Unified Theory of Acceptance and Use of Technology (UTAUT), we conducted a 28-day field study comparing 21 chronically ill people's acceptance of two leading, consumer-focused location-tracking technologies deployed for research purposes: 1) a location-enabled smartphone, and 2) a GPS watch/activity tracker...
January 17, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29337132/understanding-pivotal-experiences-in-behavior-change-for-the-design-of-technologies-for-personal-wellbeing
#17
Arpita Bhattacharya, Samantha Kolovson, Yi-Chen Sung, Mike Eacker, Michael Chen, Sean A Munson, Julie A Kientz
Most health technologies are designed to support people who have already decided to work toward better health. Thus, there remains an opportunity to design technologies to help motivate people who have not yet decided to make a change. Understanding the experiences of people who have already started to make a health behavior change and how they made a pivotal decision can be useful in understanding how to design such tools. In this paper, we describe results from data collected in 2 phases. Phase 1 consisted of 127 surveys and 13 interviews with adults who have already accomplished behavior change(s)...
January 11, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29331453/are-privacy-enhancing-technologies-for-genomic-data-ready-for-the-clinic-a-survey-of-medical-experts-of-the-swiss-hiv-cohort-study
#18
Jean-Louis Raisaro, Paul J McLaren, Jacques Fellay, Matthias Cavassini, Catherine Klersy, Jean-Pierre Hubaux
PURPOSE: Protecting patient privacy is a major obstacle for the implementation of genomic-based medicine. Emerging privacy-enhancing technologies can become key enablers for managing sensitive genetic data. We studied physicians' attitude toward this kind of technology in order to derive insights that might foster their future adoption for clinical care. METHODS: We conducted a questionnaire-based survey among 55 physicians of the Swiss HIV Cohort Study who tested the first implementation of a privacy-preserving model for delivering genomic test results...
January 10, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29329702/ten-factors-to-consider-when-developing-usability-scenarios-and-tasks-for-health-information-technology
#19
Alissa L Russ, Jason J Saleem
The quality of usability testing is highly dependent upon the associated usability scenarios. To promote usability testing as part of electronic health record (EHR) certification, the Office of the National Coordinator (ONC) for Health Information Technology requires that vendors test specific capabilities of EHRs with clinical end-users and report their usability testing process - including the test scenarios used - along with the results. The ONC outlines basic expectations for usability testing, but there is little guidance in usability texts or scientific literature on how to develop usability scenarios for healthcare applications...
January 9, 2018: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/29329701/automatic-information-extraction-from-unstructured-mammography-reports-using-distributed-semantics
#20
Anupama Gupta, Imon Banerjee, Daniel L Rubin
To date, the methods developed for automated extraction of information from radiology reports are mainly rule-based or dictionary-based, and, therefore, require substantial manual effort to build these systems. Recent efforts to develop automated systems for entity detection have been undertaken, but little work has been done to automatically extract relations and their associated named entities in narrative radiology reports that have comparable accuracy to rule-based methods. Our goal is to extract relations in a unsupervised way from radiology reports without specifying prior domain knowledge...
January 9, 2018: Journal of Biomedical Informatics
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