journal
MENU ▼
Read by QxMD icon Read
search

Journal of Biomedical Informatics

journal
https://www.readbyqxmd.com/read/28104458/a-novel-approach-for-predicting-microrna-disease-associations-by-unbalanced-bi-random-walk-on-heterogeneous-network
#1
Jiawei Luo, Qiu Xiao
MicroRNAs (miRNAs) play a critical role by regulating their targets in post-transcriptional level. Identification of potential miRNA-disease associations will aid in deciphering the pathogenesis of human polygenic diseases. Several computational models have been developed to uncover novel miRNA-disease associations based on the predicted target genes. However, due to the insufficient number of experimentally validated miRNA-target interactions as well as the relatively high false-positive and false-negative rates of predicted target genes, it is still challenging for these prediction models to obtain remarkable performances...
January 16, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28089913/physicians-perception-of-alternative-displays-of-clinical-research-evidence-for-clinical-decision-support-a-study-with-case-vignettes
#2
Stacey L Slager, Charlene R Weir, Heejun Kim, Javed Mostafa, Guilherme Del Fiol
OBJECTIVE: To design alternate information displays that present summaries of clinical trial results to clinicians to support decision-making; and to compare the displays according to efficacy and acceptability. METHODS: A 6-between (information display presentation order) by 3-within (display type) factorial design. Two alternate displays were designed based on Information Foraging theory: a narrative summary that reduces the content to a few sentences; and a table format that structures the display according to the PICO (Population, Intervention, Comparison, Outcome) framework...
January 13, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28089912/hiding-clinical-information-in-medical-images-a-new-high-capacity-and-reversible-data-hiding-technique
#3
Shabir A Parah, Farhana Ahad, Javaid A Sheikh, G M Bhat
A new high capacity and reversible data hiding scheme for e-healthcare applications has been presented in this paper. Pixel to Block (PTB) conversion technique has been used as an effective and computationally efficient alternative to interpolation for the cover image generation to ensure reversibility of medical images. A fragile watermark and Block Checksum (computed for each 4 × 4 block) have been embedded in the cover image for facilitating tamper detection and tamper localization, and hence content authentication at receiver...
January 12, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28088527/navigation-in-the-electronic-health-record-a-review-of-the-safety-and-usability-literature
#4
REVIEW
Lisette C Roman, Jessica S Ancker, Stephen B Johnson, Yalini Senathirajah
OBJECTIVE: Inefficient navigation in electronic health records has been shown to increase users' cognitive load, which may increase potential for errors, reduce efficiency, and increase fatigue. However, navigation has received insufficient recognition and attention in the electronic health record (EHR) literature as an independent construct and contributor to overall usability. Our aims in this literature review were to (1) assess the prevalence of navigation-related topics within the EHR usability and safety research literature, (2) categorize types of navigation actions within the EHR, (3) capture relationships between these navigation actions and usability principles, and (4) collect terms and concepts related to EHR navigation...
January 11, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28087402/accuracy-is-in-the-eyes-of-the-pathologist-the-visual-interpretive-process-and-diagnostic-accuracy-with-digital-whole-slide-images
#5
Tad T Brunyé, Ezgi Mercan, Donald L Weaver, Joann G Elmore
Digital whole slide imaging is an increasingly common medium in pathology, with application to education, telemedicine, and rendering second opinions. It has also made it possible to use eye tracking devices to explore the dynamic visual inspection and interpretation of histopathological features of tissue while pathologists review cases. Using whole slide images, the present study examined how a pathologist's diagnosis is influenced by fixed case-level factors, their prior clinical experience, and their patterns of visual inspection...
January 10, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28069515/a-new-method-of-content-based-medical-image-retrieval-and-its-applications-to-ct-imaging-sign-retrieval
#6
Ling Ma, Xiabi Liu, Yan Gao, Yanfeng Zhao, Xinming Zhao, Chunwu Zhou
This paper proposes a new method of content based medical image retrieval through considering fused, context-sensitive similarity. Firstly, we fuse the semantic and visual similarities between the query image and each image in the database as their pairwise similarities. Then, we construct a weighted graph whose nodes represent the images and edges measure their pairwise similarities. By using the shortest path algorithm over the weighted graph, we obtain a new similarity measure, context-sensitive similarity measure, between the query image and each database image to complete the retrieval process...
January 6, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28065840/mace-prediction-of-acute-coronary-syndrome-via-boosted-resampling-classification-using-electronic-medical-records
#7
Zhengxing Huang, Tak-Ming Chan, Wei Dong
OBJECTIVES: Major adverse cardiac events (MACE) of acute coronary syndrome (ACS) often occur suddenly resulting in high mortality and morbidity. Recently, the rapid development of electronic medical records (EMR) provides the opportunity to utilize the potential of EMR to improve the performance of MACE prediction. In this study, we present a novel data-mining based approach specialized for MACE prediction from a large volume of EMR data. METHODS: The proposed approach presents a new classification algorithm by applying both over-sampling and under-sampling on minority-class and majority-class samples, respectively, and integrating the resampling strategy into a boosting framework so that it can effectively handle imbalance of MACE of ACS patients analogous to domain practice...
January 5, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28057566/semanticsco-a-platform-to-support-the-semantic-composition-of-services-for-gene-expression-analysis
#8
Gabriela D A Guardia, Luís Ferreira Pires, Eduardo G da Silva, Cléver R G de Farias
Gene expression studies often require the combined use of a number of analysis tools. However, manual integration of analysis tools can be cumbersome and error prone. To support a higher level of automation in the integration process, efforts have been made in the biomedical domain towards the development of semantic web services and supporting composition environments. Yet, most environments consider only the execution of simple service behaviours and requires users to focus on technical details of the composition process...
January 2, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28057565/development-and-validation-of-a-continuously-age-adjusted-measure-of-patient-condition-for-hospitalized-children-using-the-electronic-medical-record
#9
Michael J Rothman, Joseph J Tepas, Andrew J Nowalk, James E Levin, Joan M Rimar, Albert Marchetti, Allen L Hsiao
Awareness of a patient's clinical status during hospitalization is a primary responsibility for hospital providers. One tool to assess status is the Rothman Index (RI), a validated measure of patient condition for adults, based on empirically derived relationships between 1-year post-discharge mortality and each of 26 clinical measurements available in the electronic medical record. However, such an approach cannot be used for pediatrics, where the relationships between risk and clinical variables are distinct functions of patient age, and sufficient 1-year mortality data for each age group simply does not exist...
January 2, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28057564/temporal-electronic-phenotyping-by-mining-careflows-of-breast-cancer-patients
#10
A Dagliati, L Sacchi, A Zambelli, V Tibollo, L Pavesi, J H Holmes, R Bellazzi
In this work we present a careflow mining approach designed to analyze heterogeneous longitudinal data and to identify phenotypes in a patient cohort. The main idea underlying our approach is to combine methods derived from sequential pattern mining and temporal data mining to derive frequent healthcare histories (careflows) in a population of patients. This approach was applied to an integrated data repository containing clinical and administrative data of more than 4,000 breast cancer patients. We used the mined histories to identify sub-cohorts of patients grouped according to healthcare activities pathways, then we characterized these sub-cohorts with clinical data...
January 2, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28040499/machine-learned-cluster-identification-in-high-dimensional-data
#11
Alfred Ultsch, Jörn Lötsch
BACKGROUND: High-dimensional biomedical data are frequently clustered to identify subgroup structures pointing at distinct disease subtypes. It is crucial, that the used cluster algorithm works correctly. However, by imposing a predefined shape on the clusters, classical algorithms occasionally suggest a cluster structure in homogenously distributed data or assign data points to incorrect clusters. We analyzed whether this can be avoided when using Emergent Self-organizing feature maps (ESOM)...
December 28, 2016: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28034788/an-unsupervised-machine-learning-model-for-discovering-latent-infectious-diseases-using-social-media-data
#12
Sunghoon Lim, Conrad S Tucker, Soundar Kumara
INTRODUCTION: The authors of this work propose an unsupervised machine learning model that has the ability to identify real-world latent infectious diseases by mining social media data. In this study, a latent infectious disease is defined as a communicable disease that has not yet been formalized by national public health institutes and explicitly communicated to the general public. Most existing approaches to modeling infectious-disease-related knowledge discovery through social media networks are top-down approaches that are based on already known information, such as the names of diseases and their symptoms...
December 26, 2016: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28011233/septic-shock-prediction-for-icu-patients-via-coupled-hmm-walking-on-sequential-contrast-patterns
#13
Shameek Ghosh, Jinyan Li, Longbing Cao, Kotagiri Ramamohanarao
BACKGROUND AND OBJECTIVE: Critical care patient events like sepsis or septic shock in intensive care units (ICUs) are dangerous complications which can cause multiple organ failures and eventual death. Preventive prediction of such events will allow clinicians to stage effective interventions for averting these critical complications. METHODS: It is widely understood that physiological conditions of patients on variables such as blood pressure and heart rate are suggestive to gradual changes over a certain period of time, prior to the occurrence of a septic shock...
December 20, 2016: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28007583/towards-a-privacy-preserving-cohort-discovery-framework-for-clinical-research-networks
#14
Jiawei Yuan, Bradley Malin, François Modave, Yi Guo, William R Hogan, Elizabeth Shenkman, Jiang Bian
BACKGROUND: The last few years have witnessed an increasing number of clinical research networks (CRNs) focused on building large collections of data from electronic health records (EHRs), claims, and patient-reported outcomes (PROs). Many of these CRNs provide a service for the discovery of research cohorts with various health conditions, which is especially useful for rare diseases. Supporting patient privacy can enhance the scalability and efficiency of such processes; however, current practice mainly relies on policy, such as guidelines defined in the Health Insurance Portability and Accountability Act (HIPAA), which are insufficient for CRNs (e...
December 19, 2016: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28007582/kmen-analyzing-noisy-and-bidirectional-transcriptional-pathway-responses-in-single-subjects
#15
Qike Li, A Grant Schissler, Vincent Gardeux, Joanne Berghout, Ikbel Achour, Colleen Kenost, Haiquan Li, Hao Helen Zhang, Yves A Lussier
MOTIVATION: Understanding dynamic, patient-level transcriptomic response to therapy is an important step forward for precision medicine. However, conventional transcriptome analysis aims to discover cohort-level change, lacking the capacity to unveil patient-specific response to therapy. To address this gap, we previously developed two N-of-1-pathways methods, Wilcoxon and Mahalanobis distance, to detect unidirectionally responsive transcripts within a pathway using a pair of samples from a single subject...
December 19, 2016: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28003147/developing-the-quantitative-histopathology-image-ontology-qhio-a-case-study-using-hot-spot-detection-problem
#16
Metin N Gurcan, John Tomaszewski, James A Overton, Scott Doyle, Alan Ruttenberg, Barry Smith
Interoperability across data sets is a key challenge for quantitative histopathological imaging. There is a need for an ontology that can support effective merging of pathological image data with associated clinical and demographic data. To foster organized, cross-disciplinary, information-driven collaborations in the pathological imaging field, we propose to develop an ontology to represent imaging data and methods used in pathological imaging and analysis, and call it Quantitative Histopathological Imaging Ontology - QHIO...
December 18, 2016: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/27993748/coordinating-clinic-and-surgery-appointments-to-meet-access-service-levels-for-elective-surgery
#17
Pooyan Kazemian, Mustafa Y Sir, Mark P Van Oyen, Jenna K Lovely, David W Larson, Kalyan S Pasupathy
Providing timely access to surgery is crucial for patients with high acuity diseases like cancer. We present a methodological framework to make efficient use of scarce resources including surgeons, operating rooms, and clinic appointment slots with a goal of coordinating clinic and surgery appointments so that patients with different acuity levels can see a surgeon in the clinic and schedule their surgery within a maximum wait time target that is clinically safe for them. We propose six heuristic scheduling policies with two underlying ideas behind them: (1) proactively book a tentative surgery day along with the clinic appointment at the time an appointment request is received, and (2) intelligently space out clinic and surgery appointments such that if the patient does not need his/her surgery appointment there is sufficient time to offer it to another patient...
December 16, 2016: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/27993747/accuracy-of-an-automated-knowledge-base-for-identifying-drug-adverse-reactions
#18
E A Voss, R D Boyce, P B Ryan, J van der Lei, P R Rijnbeek, M J Schuemie
INTRODUCTION: Drug safety researchers seek to know the degree of certainty with which a particular drug is associated with an adverse drug reaction. There are different sources of information used in pharmacovigilance to identify, evaluate, and disseminate medical product safety evidence including spontaneous reports, published peer-reviewed literature, and product labels. Automated data processing and classification using these evidence sources can greatly reduce the manual curation currently required to develop reference sets of positive and negative controls (i...
December 16, 2016: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/27956266/what-s-ideal-a-case-study-exploring-handoff-routines-in-practice
#19
Saira N Haque, Carsten S Oesterlund, Lawrence M Fagan
BACKGROUND: Handoffs of care in the healthcare system between responsible providers have traditionally been conceptualized and studied at the point of patient transfer. Thus, clinical practice and associated information systems are designed with the concept of the handoff as a solitary event. This viewpoint does not consider the routine activities necessary for a successful handoff. We propose expanding the analysis of the handoff beyond the single point of transfer to include a routine of interrelated activities leading up to the transfer of responsibility...
December 9, 2016: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/27956265/single-reviewer-electronic-phenotyping-validation-in-operational-settings-comparison-of-strategies-and-recommendations
#20
Polina Kukhareva, Catherine Staes, Kevin W Noonan, Heather L Mueller, Phillip Warner, David E Shields, Howard Weeks, Kensaku Kawamoto
OBJECTIVE: Develop evidence-based recommendations for single-reviewer validation of electronic phenotyping results in operational settings. MATERIAL AND METHODS: We conducted a randomized controlled study to evaluate whether electronic phenotyping results should be used to support manual chart review during single-reviewer electronic phenotyping validation (N=3,104). We evaluated the accuracy, duration and cost of manual chart review with and without the availability of electronic phenotyping results, including relevant patient-specific details...
December 9, 2016: Journal of Biomedical Informatics
journal
journal
36930
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"