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Mismatches between major subhierarchies and semantic tags in SNOMED CT
Publication date: Available online 17 February 2018 Source:Journal of Biomedical Informatics Author(s): 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 ...
Source: Journal of Biomedical Informatics - February 23, 2018 Category: Information Technology Source Type: research

Assessing the Practice of Biomedical Ontology Evaluation: Gaps and Opportunities
Publication date: Available online 17 February 2018 Source:Journal of Biomedical Informatics Author(s): 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. ...
Source: Journal of Biomedical Informatics - February 23, 2018 Category: Information Technology Source Type: research

Mortality Prediction in Intensive Care Units (ICUs) Using a Deep Rule-based Fuzzy Classifier
Publication date: Available online 19 February 2018 Source:Journal of Biomedical Informatics Author(s): Raheleh Davoodi, Mohammad Hassan Moradi Electronic health records (EHRs) contain critical information useful for clinical studies. Early assessment of patients’ mortality in intensive care units is of great importance. In this paper, a Deep Rule-Based Fuzzy System (DRBFS) was proposed to develop an accurate in-hospital mortality prediction in the intensive care unit (ICU) patients employing a large number of input variables. Our main contribution is proposing a system, which is capable of dealing with big data wit...
Source: Journal of Biomedical Informatics - February 23, 2018 Category: Information Technology Source Type: research

Electronic Health Record Case Studies to Advance Environmental Public Health Tracking
Publication date: Available online 21 February 2018 Source:Journal of Biomedical Informatics Author(s): Gonza Namulanda, Judith Qualters, Ambarish Vaidyanathan, Eric Roberts, Max Richardson, Alicia Fraser, Katharine H. McVeigh, Scott Patterson Data from traditional public health surveillance systems can have some limitations, e.g., timeliness, geographic level, and amount of data accessible. Electronic health records (EHRs) could present an opportunity to supplement current sources of routinely collected surveillance data. The National Environmental Public Health Tracking Program (Tracking Program) sought to explore the u...
Source: Journal of Biomedical Informatics - February 23, 2018 Category: Information Technology Source Type: research

The ranking of scientists
Publication date: Available online 15 February 2018 Source:Journal of Biomedical Informatics Author(s): Randolph A. Miller (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - February 16, 2018 Category: Information Technology Source Type: research

Archetype Modeling Methodology
Publication date: Available online 14 February 2018 Source:Journal of Biomedical Informatics Author(s): 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 ...
Source: Journal of Biomedical Informatics - February 15, 2018 Category: Information Technology Source Type: research

Health Systems Science, Susan E. Skochelak, Richard E. Hawkins, Eds. AMA Education Consortium, Elsevier/Academic Press, Cambridge, MA (2017). 228 pp., ISBN-13:978-0323461160
Publication date: Available online 5 February 2018 Source:Journal of Biomedical Informatics Author(s): Blackford Middleton (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - February 6, 2018 Category: Information Technology Source Type: research

Exploration of association rule mining for coding consistency and completeness assessment in inpatient administrative health data
Conclusion The ARM is a promising technique to assess data quality. It offers a systematic way to derive coding association rules hidden in data, and potentially provides a sensitive and efficient method of assessing data quality compared to standard methods. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - February 6, 2018 Category: Information Technology Source Type: research

A shared latent space matrix factorisation method for recommending new trial evidence for systematic review updates
Conclusions A shared latent space matrix factorisation method was useful for ranking trial registrations to reduce the manual workload associated with finding relevant trials for systematic review updates. The results suggest that the approach could be used as part of a semi-automated pipeline for monitoring potentially new evidence for inclusion in a review update. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - February 3, 2018 Category: Information Technology Source Type: research

A method for the analysis and visualization of clinical workflow in dynamic environments
We describe the methods used in each of these modules, and provide a series of visualizations developed using location-tracking data collected at the Mayo Clinic ED (Phoenix, AZ). Our innovative analytics go beyond qualitative study, and includes user data collected from a relatively modern but increasingly ubiquitous technique of location tracking, with the goal of creating quantitative workflow metrics. Although we believe that the methods we have developed will generalize well to other settings, additional work will be required to demonstrate their broad utility beyond our single study environment. Graphical abstract (S...
Source: Journal of Biomedical Informatics - February 3, 2018 Category: Information Technology Source Type: research

Modeling Individual Differences: A Case Study of the Application of System Identification for Personalizing a Physical Activity Intervention
Conclusion The idiographic approach revealed person-specific predictors beyond traditional MLM analyses and unpacked the inherent complexity of PA; namely that people are different and context matters. System ID provides a feasible approach to develop personalized dynamical models of PA and inform person-specific tailoring variable selection for use in adaptive behavioral interventions. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - February 2, 2018 Category: Information Technology Source Type: research

Estimating summary statistics for electronic health record laboratory data for use in high-throughput phenotyping algorithms
Publication date: Available online 31 January 2018 Source:Journal of Biomedical Informatics Author(s): 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, Po...
Source: Journal of Biomedical Informatics - February 1, 2018 Category: Information Technology Source Type: research

User Acceptance of Location-Tracking Technologies in Health Research: Implications for Study Design and Data Quality
Publication date: Available online 31 January 2018 Source:Journal of Biomedical Informatics Author(s): 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...
Source: Journal of Biomedical Informatics - January 31, 2018 Category: Information Technology Source Type: research

A Standard-driven Approach for Electronic Submission to Pharmaceutical Regulatory Authorities
Conclusion This standard-driven approach accelerated CRF annotation and assured data tabulation integrity. The benefits of this approach include an improvement in the use of standards during the clinical trial and a reduction in missing and unexpected data during tabulation. The standard-driven approach is an advanced design idea that can be used for future clinical information system development. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - January 31, 2018 Category: Information Technology Source Type: research

Computer-Assisted Decision Support System in Pulmonary Cancer Detection and Stage Classification on CT Images
Publication date: Available online 31 January 2018 Source:Journal of Biomedical Informatics Author(s): 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 th...
Source: Journal of Biomedical Informatics - January 31, 2018 Category: Information Technology Source Type: research

Understanding Pivotal Experiences in Behavior Change for the Design of Technologies for Personal Wellbeing
Publication date: Available online 11 January 2018 Source:Journal of Biomedical Informatics Author(s): 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 desi...
Source: Journal of Biomedical Informatics - January 19, 2018 Category: Information Technology Source Type: research

Ten Factors to Consider when Developing Usability Scenarios and Tasks for Health Information Technology
This article is intended to aid usability researchers and practitioners in their efforts to advance health information technologies. The article provides broad guidance on usability scenario development and can be applied to a wide range of clinical information systems and applications. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - January 10, 2018 Category: Information Technology Source Type: research

Automatic Information Extraction from Unstructured Mammography Reports Using Distributed Semantics
Publication date: Available online 9 January 2018 Source:Journal of Biomedical Informatics Author(s): 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...
Source: Journal of Biomedical Informatics - January 10, 2018 Category: Information Technology Source Type: research

Are Privacy-Enhancing Technologies for Genomic Data Ready for the Clinic? A Survey of Medical Experts of the Swiss HIV Cohort Study
Conclusion This survey, although limited in size, represents the first evaluation of privacy-preserving models for genomic-based medicine. It has allowed us to derive unique insights that will improve the design of these new systems in the future. In particular, we have observed that a clinical information system that uses homomorphic encryption to provide clinicians with risk information based on sensitive genetic test results can offer information that clinicians feel sufficient for their needs and appropriately respectful of patients’ privacy. The ability of this kind of systems to ensure strong security and priva...
Source: Journal of Biomedical Informatics - January 10, 2018 Category: Information Technology Source Type: research

Combining usability evaluations to highlight the chain that leads from usability flaws to usage problems and then negative outcomes
Publication date: Available online 3 January 2018 Source:Journal of Biomedical Informatics Author(s): Ludivine Watbled, Romaric Marcilly, Sandra Guerlinger, J-M Christian Bastien, Marie-Catherine Beuscart-Zéphir, Régis Beuscart Poor usability of health technology is thought to diminish work system performance, increase error rates and, potentially, harm patients. The present study (i) used a combination of usability evaluation methods to highlight the chain that leads from usability flaws to usage problems experienced by users and, ultimately, to negative patient outcomes, and (ii) validated this approach by...
Source: Journal of Biomedical Informatics - January 4, 2018 Category: Information Technology Source Type: research

Yield and Bias In Defining a Cohort Study Baseline from Electronic Health Record Data
Conclusions Requiring same-day risk factor measurement in the creation of a virtual CVD cohort study from EHR data might exclude 40% of eligible patients, but including patients with infrequent visits might introduce bias. Data visualization can inform study-specific strategies to address these challenges for the research use of EHR data. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - January 4, 2018 Category: Information Technology Source Type: research

Discovering role interaction models in the Emergency Room using Process Mining
Conclusions This study allows the discovery of role interaction models through the use of real-life clinical data and process mining techniques. Results show a useful way of providing relevant insights about how healthcare professionals collaborate, uncovering opportunities for process improvement. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - December 29, 2017 Category: Information Technology Source Type: research

Practical and Secure Telemedicine Systems for User Mobility
Publication date: Available online 27 December 2017 Source:Journal of Biomedical Informatics Author(s): Fatemeh Rezaeibagha, Yi Mu The application of wireless devices has led to a significant improvement in the quality delivery of care in telemedicine systems. Patients who live in a remote area are able to communicate with the healthcare provider and benefit from the doctor consultations. However, it has been a challenge to provide a secure telemedicine system, which captures users (patients and doctors) mobility and patient privacy. In this work, we present several secure protocols for telemedicine systems, which ensure ...
Source: Journal of Biomedical Informatics - December 28, 2017 Category: Information Technology Source Type: research

A Hidden Semi-Markov Model based Approach for Rehabilitation Exercise Assessment
Publication date: Available online 22 December 2017 Source:Journal of Biomedical Informatics Author(s): Marianna Capecci, Maria Gabriella Ceravolo, Francesco Ferracuti, Sabrina Iarlori, Ville Kyrki, Andrea Monteriù, Luca Romeo, Federica Verdini In this paper, a Hidden Semi-Markov Model (HSMM) based approach is proposed to evaluate and monitor body motion during a rehabilitation training program. The approach extracts clinically relevant motion features from skeleton joint trajectories, acquired by the RGB-D camera, and provides a score for the subject’s performance. The approach combines different aspects of ...
Source: Journal of Biomedical Informatics - December 23, 2017 Category: Information Technology Source Type: research

Auditing SNOMED CT hierarchical relations based on lexical features of concepts in non-lattice subgraphs
Conclusions Our results demonstrate that analyzing the lexical features of concepts in non-lattice subgraphs is an effective approach for auditing SNOMED CT. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - December 21, 2017 Category: Information Technology Source Type: research

Patient Ranking with Temporally Annotated Data
Publication date: Available online 19 December 2017 Source:Journal of Biomedical Informatics Author(s): Luca Bonomi, Xiaoqian Jiang Modern medical information systems enable the collection of massive temporal health data. Albeit these data have great potentials for advancing medical research, the data exploration and extraction of useful knowledge present significant challenges. In this work, we develop a new pattern matching technique which aims to facilitate the discovery of clinically useful knowledge from large temporal datasets. Our approach receives in input a set of temporal patterns modeling specific events of int...
Source: Journal of Biomedical Informatics - December 20, 2017 Category: Information Technology Source Type: research

Standardization of immunotherapy adverse events in patient information leaflets and development of an interface terminology for outpatients ’ monitoring
Conclusion PILs provide a valuable source for determining adverse events. The resulting interface terminology includes Italian and English terms for patient-reportable adverse events for five immunotherapy drugs representative of their category. Further work will be undertaken to evaluate the usability of the interface terminology and the patients’ experience and satisfaction with the proposed terms, made available for example through an app, as well as its effectiveness on data quality and quality of care. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - December 19, 2017 Category: Information Technology Source Type: research

Systematic review of smartphone-based passive sensing for health and wellbeing
Conclusion As evolving passive sensing technology presents new possibilities for health and wellbeing, additional research must address methodological, clinical integration, and privacy issues. Doing so depends on interdisciplinary collaboration between informatics and clinical experts. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - December 15, 2017 Category: Information Technology Source Type: research

Clinical Decision Support Models and Frameworks: Seeking to Address Research Issues Underlying Implementation Successes and Failures
Publication date: Available online 12 December 2017 Source:Journal of Biomedical Informatics Author(s): Robert A. Greenes, David W. Bates, Kensaku Kawamoto, Blackford Middleton, Jerome Osheroff, Yuval Shahar Computer-based clinical decision support (CDS) has been pursued for more than five decades. Despite notable accomplishments and successes, wide adoption and broad use of CDS in clinical practice has not been achieved. Many issues have been identified as being partially responsible for the relatively slow adoption and lack of impact, including deficiencies in leadership, recognition of purpose, understanding of human i...
Source: Journal of Biomedical Informatics - December 13, 2017 Category: Information Technology Source Type: research

Vector representations of multi-word terms for semantic relatedness
Publication date: Available online 13 December 2017 Source:Journal of Biomedical Informatics Author(s): Sam Henry, Clint Cuffy, Bridget T. McInnes This paper presents a comparison between several multi-word term aggregation methods of distributional context vectors applied to the task of semantic similarity and relatedness in the biomedical domain. We compare the multi-word term aggregation methods of summation of component word vectors, mean of component word vectors, direct construction of compound term vectors using the compoundify tool, and direct construction of concept vectors using the MetaMap tool. Dimensionality ...
Source: Journal of Biomedical Informatics - December 13, 2017 Category: Information Technology Source Type: research

Using voice to create hospital progress notes: description of a mobile application and supporting system integrated with a commercial electronic health record
We describe the development and design of a smartphone app-based system to create inpatient progress notes using voice, commercial automatic speech recognition software, with text processing to recognize spoken voice commands and format the note, and integration with a commercial EHR. This new system fits hospital rounding workflow and was used to support a randomized clinical trial testing whether use of voice to create notes improves timeliness of note availability, note quality, and physician satisfaction with the note creation process. The system was used to create 709 notes which were placed in the corresponding patie...
Source: Journal of Biomedical Informatics - December 10, 2017 Category: Information Technology Source Type: research

Controlled Searching in Reversibly De-Identified Medical Imaging Archives
Publication date: Available online 7 December 2017 Source:Journal of Biomedical Informatics Author(s): Jorge Miguel Silva, Eduardo Pinho, Eriksson Monteiro, João Figueira Silva, Carlos Costa Nowadays, digital medical imaging in healthcare has become a fundamental tool for medical diagnosis. This growth has been accompanied by the development of technologies and standards, such as the DICOM standard and PACS. This environment led to the creation of collaborative projects where there is a need to share medical data between different institutions for research and educational purposes. In this context, it is necessary ...
Source: Journal of Biomedical Informatics - December 8, 2017 Category: Information Technology Source Type: research

Finding Representative Electrocardiogram Beat Morphologies with CUR
Publication date: Available online 7 December 2017 Source:Journal of Biomedical Informatics Author(s): Emily P. Hendryx, Béatrice M. Rivière, Danny C. Sorensen, Craig G. Rusin In this paper, we use the CUR matrix factorization as a means of dimension reduction to identify important subsequences in electrocardiogram (ECG) time series. As opposed to other factorizations typically used in dimension reduction that characterize data in terms of abstract representatives (for example, an orthogonal basis), the CUR factorization describes the data in terms of actual instances within the original data set. Therefore,...
Source: Journal of Biomedical Informatics - December 8, 2017 Category: Information Technology Source Type: research

Data Journeys: Identifying Social and Technical Barriers to Data Movement in Large, Complex Organisations
Publication date: Available online 6 December 2017 Source:Journal of Biomedical Informatics Author(s): Iliada Eleftheriou, Suzanne M. Embury, Rebecca Moden, Peter Dobinson, Andrew Brass Managers in complex organisations often have to make decisions on whether new software developments are worth undertaking or not. Such decisions are hard to make, especially at an enterprise level. Both costs and risks are regularly underestimated, despite the existence of a plethora of software and systems engineering methodologies aimed at predicting and controlling them. Our objective is to help managers and stakeholders of large, compl...
Source: Journal of Biomedical Informatics - December 7, 2017 Category: Information Technology Source Type: research

Definition of a SNOMED CT pathology subset and microglossary, based on 1.17 million biological samples from the Catalan Pathology Registry
This article explains the methodology used to: (a) identify the clinico-pathological entities and the molecular diagnostic procedures not included in SNOMED CT; (b) define the theoretical subset and microglossary of pathology; (c) describe the SNOMED CT concepts used by pathologists of 1.17 million samples of the Catalan Pathology Registry; and (d) adapt the theoretical subset and the microglossary according to the actual use of SNOMED CT. Of the 328,365 concepts available for coding the diagnoses (326,732 in SNOMED CT and 1576 in Catalan extension), only 2% have been used. Combining two axes of SNOMED CT, body structure a...
Source: Journal of Biomedical Informatics - December 6, 2017 Category: Information Technology Source Type: research

Flexible, Cluster-Based Analysis of the Electronic Medical Record of Sepsis with Composite Mixture Models
Publication date: Available online 2 December 2017 Source:Journal of Biomedical Informatics Author(s): Michael B. Mayhew, Brenden K. Petersen, Ana Paula Sales, John D. Greene, Vincent X. Liu, Todd S. Wasson The widespread adoption of electronic medical records (EMRs) in healthcare has provided vast new amounts of data for statistical machine learning researchers in their efforts to model and predict patient health status, potentially enabling novel advances in treatment. In the case of sepsis, a debilitating, dysregulated host response to infection, extracting subtle, uncataloged clinical phenotypes from the EMR with stat...
Source: Journal of Biomedical Informatics - December 6, 2017 Category: Information Technology Source Type: research

Heritable genotype contrast mining reveals novel gene associations specific to autism subgroups
This study analyzed 12 autism subgroups, but our informatics method can explore other meaningful divisions of autism patients, and can further be applied to reveal precise genetic associations within other phenotypically heterogeneous disorders, such as Alzheimer’s disease. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - December 6, 2017 Category: Information Technology Source Type: research

Clinical information extraction applications: A literature review
Conclusions Clinical IE has been used for a wide range of applications, however, there is a considerable gap between clinical studies using EHR data and studies using clinical IE. This study enabled us to gain a more concrete understanding of the gap and to provide potential solutions to bridge this gap. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - December 6, 2017 Category: Information Technology Source Type: research

A cloud-based framework for large-scale traditional Chinese medical record retrieval
Conclusions: In conclusion, compared with the current medical record retrieval systems, our system provides some advantages that are useful in improving the secondary use of large-scale traditional Chinese medical records in cloud environment. The proposed system is more easily integrated with existing clinical systems and be used in various scenarios. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - December 6, 2017 Category: Information Technology Source Type: research

Radiology report annotation using intelligent word embeddings: Applied to multi-institutional chest CT cohort
Publication date: January 2018 Source:Journal of Biomedical Informatics, Volume 77 Author(s): Imon Banerjee, Matthew C. Chen, Matthew P. Lungren, Daniel L. Rubin We proposed an unsupervised hybrid method – Intelligent Word Embedding (IWE) that combines neural embedding method with a semantic dictionary mapping technique for creating a dense vector representation of unstructured radiology reports. We applied IWE to generate embedding of chest CT radiology reports from two healthcare organizations and utilized the vector representations to semi-automate report categorization based on clinically relevant categorization...
Source: Journal of Biomedical Informatics - December 6, 2017 Category: Information Technology Source Type: research

Learning bundled care opportunities from electronic medical records
Conclusions The findings suggest that an automated EMR data-driven framework conducted can provide a basis for discovering bundled care opportunities. Still, translating such findings into actual care management will require further refinement, implementation, and evaluation. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - December 6, 2017 Category: Information Technology Source Type: research

IMA: Identifying disease-related genes using MeSH terms and association rules
In this study, we identified 20 genes for each disease. Among them, we presented 34 important candidate genes with evidence that supports the relationship of the candidate genes with diseases. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - November 16, 2017 Category: Information Technology Source Type: research

Logical Comparison over RDF Resources in Bio-Informatics
Publication date: Available online 7 November 2017 Source:Journal of Biomedical Informatics Author(s): S. Colucci, F.M. Donini, E. Di Sciascio Comparison of resources is a frequent task in different bio-informatics applications, including drug-target interaction, drug repositioning and mechanism of action understanding, among others. This paper proposes a general method for the logical comparison of resources modeled in Resource Description Framework and shows its distinguishing features with reference to the comparison of drugs. In particular, the method returns a description of the commonalities between resources, rathe...
Source: Journal of Biomedical Informatics - November 15, 2017 Category: Information Technology Source Type: research

Personalized Long-Term Prediction of Cognitive Function: Using Sequential Assessments to Improve Model Performance
Publication date: Available online 10 November 2017 Source:Journal of Biomedical Informatics Author(s): Chih-Lin Chi, Wenjun Zeng, Wonsuk Oh, Soo Borson, Tatiana Lenskaia, Xinpeng Shen, Peter J. Tonellato Prediction of onset and progression of cognitive decline and dementia is important both for understanding the underlying disease processes and for planning health care for populations at risk. Predictors identified in research studies are typically accessed at one point in time. In this manuscript, we argue that an accurate model for predicting cognitive status over relatively long periods requires inclusion of time-vary...
Source: Journal of Biomedical Informatics - November 15, 2017 Category: Information Technology Source Type: research

A Novel Bagging C4.5 Algorithm Based on Wrapper Feature Selection for Supporting Wise Clinical Decision Making
Publication date: Available online 11 November 2017 Source:Journal of Biomedical Informatics Author(s): Shin-Jye Lee, Zhaozhao Xu, Tong Li, Yun Yang From the perspective of clinical decision-making in a Medical IoT-based healthcare system, achieving effective and efficient analysis of long-term health data for supporting wise clinical decision-making is an extremely important objective, but determining how to effectively deal with the multi-dimensionality and high volume of generated data obtained from Medical IoT-based healthcare systems is an issue of increasing importance in IoT healthcare data exploration and manageme...
Source: Journal of Biomedical Informatics - November 15, 2017 Category: Information Technology Source Type: research

Multi-method laboratory user evaluation of an actionable clinical performance information system: implications for usability and patient safety
Conclusions Comparing our results with the wider usability literature we refine a previously published set of interface design recommendations for e-A&F. The implications for patient safety are significant regarding: user engagement; actionability; and information prioritisation. Our results also support adopting multi-method approaches in usability studies to maximise: issue discovery; and the credibility of findings. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - November 15, 2017 Category: Information Technology Source Type: research

Recurrent neural networks with specialized word embeddings for health-domain named-entity recognition
Conclusions We present a state-of-the-art system for DNR and CCE. Automated word embeddings has allowed us to avoid costly feature engineering and achieve higher accuracy. Nevertheless, the embeddings need to be retrained over datasets that are adequate for the domain, in order to adequately cover the domain-specific vocabulary. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - November 15, 2017 Category: Information Technology Source Type: research

Behavioural Informatics for Improving Water Hygiene Practice based on IoT Environment
In this study, we presented a behavioural information system and water use behaviour model using IoT platform. Using Expanded Theory of Planned Behaviour (ETPB) and adopted structure equation model, this study offers a solution for understanding the behaviour intervention mechanism and methodology for developing empirical model. A case study of behaviour intervention model is presented by utilising residential water conservation behaviour data collected in China. Results suggested that cultural differences have significant influences on the understanding of intervention drivers, promoting projects and increasing awareness,...
Source: Journal of Biomedical Informatics - November 15, 2017 Category: Information Technology Source Type: research

Predicting Age by Mining Electronic Medical Records with Deep Learning Characterizes Differences between Chronological and Physiological Age
In conclusion, we demonstrate how EMR data can be used to assess overall health via a scale that is based on deviation from the patient’s predicted chronological age. Graphical abstract (Source: Journal of Biomedical Informatics)
Source: Journal of Biomedical Informatics - November 5, 2017 Category: Information Technology Source Type: research

Validating EHR clinical models using ontology patterns
Publication date: Available online 4 November 2017 Source:Journal of Biomedical Informatics Author(s): Catalina Martínez-Costa, Stefan Schulz Clinical models are artefacts that specify how information is structured in electronic health records (EHRs). However, the makeup of clinical models is not guided by any formal constraint beyond a semantically vague information model. We address this gap by advocating ontology design patterns as a mechanism that makes the semantics of clinical models explicit. This paper demonstrates how ontology design patterns can validate existing clinical models using SHACL. Based on the ...
Source: Journal of Biomedical Informatics - November 5, 2017 Category: Information Technology Source Type: research