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PubMed Journal Database | Journal of biomedical informatics RSS

07:04 EDT 24th May 2019 | BioPortfolio

The US National Library of Medicine and National Institutes of Health manage PubMed.gov which comprises of more than 29 million records, papers, reports for biomedical literature, including MEDLINE, life science and medical journals, articles, reviews, reports and  books.

BioPortfolio aims to cross reference relevant information on published papers, clinical trials and news associated with selected topics - speciality.

For example view all recent relevant publications on Epigenetics and associated publications and clincial trials.

Showing PubMed Articles 1–25 of 261 from Journal of biomedical informatics

Concept to gain trust for a German Personal Health Record system using Public Cloud and FHIR.

Although a national Personal Health Record (PHR) infrastructure was supposed to have been introduced in Germany by law in 2006 and different providers are entering the market, no system has yet been widely adopted in Germany. There is also little information available on how current technical advancements affect German patients' and physicians' trust in PHR systems.

Study of gene expressions' correlation structures in subgroups of Chronic Lymphocytic Leukemia Patients.

In chronic lymphocytic leukemia (CLL) the interaction of leukemic cells with the microenvironment ultimately affects patient outcome. CLL cases can be divided in two subgroups with different clinical course based on the mutational status of the immunoglobulin heavy variable (IGHV) genes : mutated CLL (M-CLL) and unmutated CLL (U-CLL). Since in CLL, the differentiated relation of genes between the two subgroups is of greater importance than the individual gene behavior, this paper investigates the difference...

Document/Query Expansion based on Selecting Significant Concepts for Context Based Retrieval of Medical Images.

In the medical image retrieval literature, there are two main approaches: content-based retrieval using the visual information contained in the image itself and context-based retrieval using the metadata and the labels associated with the images. We present a work that fits in the context-based category, where queries are composed of medical keywords and the documents are metadata that succinctly describe the medical images. A main difference between the context-based image retrieval approach and the textua...

Creating Synthetic Patient Data to Support the Design and Evaluation of Novel Health Information Technology.

To ensure that new health information technology supports its intended users, researchers and developers need to follow human-centered methods during all stages of the software development lifecycle, including early stage evaluations. These evaluations need to include realistic testing scenarios to ensure that they provide valuable and accurate feedback to system developers. However, obtaining realistic patient data to support these evaluations has many challenges, including the risk of re-identifying anony...

The REDCap Consortium: Building an International Community of Software Platform Partners.

The Research Electronic Data Capture (REDCap) data management platform was developed in 2004 to address an institutional need at Vanderbilt University, then shared with a limited number of adopting sites beginning in 2006. Given bi-directional benefit in early sharing experiments, we created a broader consortium sharing and support model for any academic, non-profit, or government partner wishing to adopt the software. Our sharing framework and consortium-based support model have evolved over time along wit...

Continuing Challenges Swirl Around Bioinformatics Service Delivery.

A Cross-lingual Approach to Automatic ICD-10 Coding of Death Certificates by Exploring Machine Translation.

Automatic ICD-10 coding is an unresolved challenge in terms of Machine Learning tasks. Despite hospitals generating an enormous amount of clinical documents, data is considerably sparse, associated with a very skewed and unbalanced code distribution, what entails reduced interoperability. In addition, in some languages the availability of coded documents is very limited. This paper proposes a cross-lingual approach based on Machine Translation methods to code death certificates with ICD-10 using supervised ...

Disease networks and their contribution to disease understanding: A systematized review of their evolution, techniques and data sources.

Over a decade ago, a new discipline called network medicine emerged as an approach to understand human diseases from a network theory point-of-view. Disease networks proved to be an intuitive and powerful way to reveal hidden connections among apparently unconnected biomedical entities such as diseases, physiological processes, signaling pathways, and genes. One of the fields that has benefited most from this improvement is the identification of new opportunities for the use of old drugs, known as drug repu...

The use of bibliography enriched features for automatic citation screening.

Citation screening (also called study selection) is a phase of systematic review process that has attracted a growing interest on the use of text mining (TM) methods to support it to reduce time and effort. Search results are usually imbalanced between the relevant and the irrelevant classes of returned citations. Class imbalance among other factors has been a persistent problem that impairs the performance of TM models, particularly in the context of automatic citation screening for systematic reviews. Thi...

Incorporating User Feedback in the Design of a Genetics Analysis Tool: A Two-Part Approach.

While general usability assessment models for websites have been developed for a wide variety of contexts, research literature on incorporating user feedback in the design of online scientific tools is lacking. In this article, we present an approach that we developed and illustrate how it was used to elicit user feedback of the AnalyzeMyVariant tool, which enables geneticists to use family pedigree data to calculate pathogenicity likelihood ratios for variants of unknown significance. We reviewed existing ...

HEARTEN KMS - A knowledge management system targeting the management of patients with heart failure.

The aim of this work is to present the HEARTEN Knowledge Management System, one of the core modules of the HEARTEN platform. The HEARTEN platform is an mHealth collaborative environment enabling the Heart Failure patients to self-manage the disease and remain adherent, while allowing the other ecosystem actors (healthcare professionals, caregivers, nutritionists, physical activity experts, psychologists) to monitor the patient's health progress and offer personalized, predictive and preventive disease manag...

Impact of expert knowledge on the detection of patients at risk of antimicrobial therapy failure by clinical decision support systems.

Antimicrobial Susceptibility Tests (ASTs) are performed in hospitals to detect whether an infectious agent is resistant or susceptible to a set of antimicrobials. When AST results are available, the evaluation of the patient's antimicrobial therapy is a critical task to ensure its effectiveness against the found microorganism. Since not all the available antimicrobials can be tested in ASTs, clinicians rely on their expert knowledge to complement AST results and prescribe the most appropriate antimicrobials...

Using Hl7 FHIR to achieve interoperability in patient health record.

The rapid growth and acceptance of Electronic Health Records (EHRs) and standards to exchange EHRs have improved various aspects of health practices and patient care. However, the data captured in an EHR is only accessible to the providers and specialists within an organization, but not the patient. The concept of a Personal Health Record (PHR) is to allow the patients to record and manage their health data beyond EHR and if possible, see the EHR data in the PHR. Experts agree that bi-directional communicat...

CAMIRADA: Cancer microRNA association discovery algorithm, a case study on breast cancer.

In recent studies, non-coding protein RNAs have been identified as microRNA that can be used as biomarkers for early diagnosis and treatment of cancer, that decrease mortality in cancer. A microRNA may target hundreds or thousands of genes and a gene may regulate several microRNAs, so determining which microRNA is associated with which cancer is a big challenge. Many computational methods have been performed to detect micoRNAs association with cancer, but more effort is needed with higher accuracy. Increasi...

Covariance matrix based fall detection from multiple wearable sensors.

Falls are among the critical accidents experienced by elderly people and patients carrying some diseases. Subsequently, the detection and prevention of falls have become a hot research and industrial topic. This is due to the fact that falls are behind numerous irreversible injuries, or even death, and are weighting on the budgets of the health services. Automatic fall detection is one of the proposed solutions which aim at monitoring people who are likely to fall. Such solutions mitigate the fall impact by...

Machine Learning for Phenotyping Opioid Overdose Events.

To develop machine learning models for classifying the severity of opioid overdose events from clinical data.

A Multi-Faceted Approach to Characterizing User Behavior and Experience in a Digital Mental Health Intervention.

Digital interventions offer great promise for supporting health-related behavior change. However, there is much that we have yet to learn about how people respond to them. In this study, we present a novel mixed-methods approach to analysis of the complex and rich data that digital interventions collect. We perform secondary analysis of IntelliCare, an intervention in which participants are able to try 14 different mental health apps over the course of eight weeks. The goal of our analysis is to characteriz...

Supporting Integrated Care with a Flexible Data Management Framework built upon Linked Data, HL7 FHIR and Ontologies.

In this paper we present the methodology and decisions behind an implementation of a telehealth data management framework, aiming to support integrated care services for chronic and multimorbid patients. The framework leverages an OWL ontology, built upon HL7 FHIR resources, to provide storage and representation of semantically enriched EHR data following Linked Data principles. This is presented along with the realization of the persistent storage solution and communication web services that allow the mana...

The Transformation of a Gold Standard In-Person Substance Use Assessment to a Web-Based, REDCap Integrated Data Capture Tool.

The adoption of computer systems for gathering, managing, and analyzing health data is resulting in the replacement of pen-and-paper methods for collecting data and managing health records by computerized methods. One classic "pen-and-paper" assessment in health and substance use research is the Timeline Follow-Back (TLFB), the gold standard in self-reported substance use developed in 1996 by Sobell et al. to assess alcohol consumption patterns and later other substances such as marijuana or tobacco over di...

The European cross-border health data exchange roadmap: case study in the Italian setting.

Health data exchange is a major challenge due to the sensitive information and the privacy issues entailed. Considering the European context, in which health data must be exchanged between different European Union (EU) Member States, each having a different national regulatory framework as well as different national healthcare system structures/organizations, the challenge is even greater. Europe has tried to address this challenge by launching in 2008, the epSOS ("Smart Open Services for European Patients"...

Concept Embedding to Measure Semantic Relatedness for Biomedical Information Ontologies.

There have been many attempts to identify relationships among concepts corresponding to terms from biomedical information ontologies such as the Unified Medical Language System (UMLS). In particular, vector representation of such concepts using information from UMLS definition texts is widely used to measure the relatedness between two biological concepts. However, conventional relatedness measures have a limited range of applicable word coverage, which limits the performance of these models. In this paper,...

An Efficient Reachability Query based Pruning Algorithm in E-Health Scenario.

We propose a Disease-Symptom graph database for our mobile-assisted e-healthcare application. A large Disease-Symptom graph is stored in the cloud and accessed using mobile devices over the Internet. Query and search are the fundamental operations of graph databases. However, while searching the Disease-Symptom graph for making preliminary diagnosis of diseases, queries become complex due to the complex structure of data and also queries are too hard to write and interpret. Moreover, it is not possible to a...

A Graph-based Approach for Characterizing Resident and Nurse Handoff Conversations.

Prior research has used a variety of qualitative and quantitative approaches for studying handoff communication. Due to the dynamic and interactive nature of handoffs, characterizing the structure and content of these conversations is challenging. In this paper, we use a graph-based approach to characterize handoff communication as a conversation network. Conversation networks were used to compare the structural properties of resident-resident and nurse-nurse handoff communication. Resident (n=149) and nurs...

Evaluating automated entity extraction with respect to drug and non-drug treatment strategies.

Treatment used in a randomized clinical trial is a critical data element both for physicians at the point of care and reviewers who are evaluating different interventions. Much of existing work on treatment extraction from the biomedical literature has focused on the extraction of pharmacological interventions. However, non-pharmacological interventions (e.g., exercise, diet, etc.) that are frequently used to address chronic conditions are less well studied. The goal of this study is to compare knowledge-ba...

A Mixed-Methods Evaluation Framework for Electronic Health Records Usability Studies.

Poor EHR design adds further challenges, especially in the areas of order entry and information visualization, with a net effect of increased rates of incidents, accidents, and mortality in ICU settings.


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