Abstract:
PURPOSE:Negative life events, such as the death of a family member, an argument with a spouse or the loss of a job, play an important role in triggering depressive episodes. Therefore, it is worthwhile to develop psychiatric services that can automatically identify such events. This study describes the use of association language patterns, i.e., meaningful combinations of words (e.g.,
journal_name
J Biomed Informjournal_title
Journal of biomedical informaticsauthors
Yu LC,Chan CL,Lin CC,Lin ICdoi
10.1016/j.jbi.2011.01.006subject
Has Abstractpub_date
2011-08-01 00:00:00pages
509-18issue
4eissn
1532-0464issn
1532-0480pii
S1532-0464(11)00008-6journal_volume
44pub_type
杂志文章abstract::The recent exponential growth of genomic databases has resulted in the common task of sequence alignment becoming one of the major bottlenecks in the field of computational biology. It is typical for these large datasets and complex computations to require cost prohibitive High Performance Computing (HPC) to function....
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2015.01.008
更新日期:2015-04-01 00:00:00
abstract::Computers allow describing the progress of a disease using computerized models. These models allow aggregating expert and clinical information to allow researchers and decision makers to forecast disease progression. To make this forecast reliable, good models and therefore good modeling tools are required. This paper...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2010.06.003
更新日期:2010-10-01 00:00:00
abstract::Literature Based Discovery (LBD) refers to the problem of inferring new and interesting knowledge by logically connecting independent fragments of information units through explicit or implicit means. This area of research, which incorporates techniques from Natural Language Processing (NLP), Information Retrieval and...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章,评审
doi:10.1016/j.jbi.2019.103141
更新日期:2019-05-01 00:00:00
abstract::The Strategic Health IT Advanced Research Projects (SHARP) Program, established by the Office of the National Coordinator for Health Information Technology in 2010 supports research findings that remove barriers for increased adoption of health IT. The improvements envisioned by the SHARP Area 4 Consortium (SHARPn) wi...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2012.01.009
更新日期:2012-08-01 00:00:00
abstract::Epidemiological time series forecasting plays an important role in health public systems, due to its ability to allow managers to develop strategic planning to avoid possible epidemics. In this paper, a hybrid learning framework is developed to forecast multi-step-ahead (one, two, and three-month-ahead) meningitis cas...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2020.103575
更新日期:2020-11-01 00:00:00
abstract::Identifying the symptom clusters (two or more related symptoms) with shared underlying molecular mechanisms has been a vital analysis task to promote the symptom science and precision health. Related studies have applied the clustering algorithms (e.g. k-means, latent class model) to detect the symptom clusters mostly...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2020.103482
更新日期:2020-07-01 00:00:00
abstract:INTRODUCTION:Heart disease remains a leading cause of global mortality. While acute myocardial infarction (colloquially: heart attack), has multiple proximate causes, proximate etiology cannot be determined by a blood-based diagnostic test. We enrolled a suitable patient cohort and conducted a non-targeted quantificati...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章,多中心研究
doi:10.1016/j.jbi.2018.03.007
更新日期:2018-05-01 00:00:00
abstract::An open research question when leveraging ontological knowledge is when to treat different concepts separately from each other and when to aggregate them. For instance, concepts for the terms "paroxysmal cough" and "nocturnal cough" might be aggregated in a kidney disease study, but should be left separate in a pneumo...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2012.01.002
更新日期:2012-06-01 00:00:00
abstract:BACKGROUND:Knowledge Organization Systems (KOS) and their associated mappings play a central role in several decision support systems. However, by virtue of knowledge evolution, KOS entities are modified over time, impacting mappings and potentially turning them invalid. This requires semi-automatic methods to maintain...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2015.04.001
更新日期:2015-06-01 00:00:00
abstract::Since the genome project in 1990s, a number of studies associated with genes have been conducted and researchers have confirmed that genes are involved in disease. For this reason, the identification of the relationships between diseases and genes is important in biology. We propose a method called LGscore, which iden...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2015.01.003
更新日期:2015-04-01 00:00:00
abstract::This paper presents a natural language processing (NLP) system that was designed to participate in the 2014 i2b2 de-identification challenge. The challenge task aims to identify and classify seven main Protected Health Information (PHI) categories and 25 associated sub-categories. A hybrid model was proposed which com...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2015.06.015
更新日期:2015-12-01 00:00:00
abstract::Modern biomedical data mining requires feature selection methods that can (1) be applied to large scale feature spaces (e.g. 'omics' data), (2) function in noisy problems, (3) detect complex patterns of association (e.g. gene-gene interactions), (4) be flexibly adapted to various problem domains and data types (e.g. g...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2018.07.015
更新日期:2018-09-01 00:00:00
abstract::A graphical representation of DNA sequences in which the distribution of a particular base B=A,C,G,T is represented by a set of discrete lines has been formulated. The methodology of this approach has been borrowed from two areas of physics: spectroscopy and dynamics. Consequently, the set of discrete lines is referre...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2017.06.001
更新日期:2017-08-01 00:00:00
abstract::Drug therapeutic indications and side-effects are both measurable patient phenotype changes in response to the treatment. Inferring potential drug therapeutic indications and identifying clinically interesting drug side-effects are both important and challenging tasks. Previous studies have utilized either chemical st...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2014.03.014
更新日期:2014-10-01 00:00:00
abstract::Medical abuse refers to a type of abnormal medical practice which is not in compliance with qualitative or ethical standards, such as excessive prescription or overbilling of medical services. Detection of such medical abuses is crucial, especially for the patients and insurance providers, because they become subject ...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2020.103423
更新日期:2020-07-01 00:00:00
abstract::Social media has been identified as a promising potential source of information for pharmacovigilance. The adoption of social media data has been hindered by the massive and noisy nature of the data. Initial attempts to use social media data have relied on exact text matches to drugs of interest, and therefore suffer ...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2019.103307
更新日期:2019-11-01 00:00:00
abstract::Mereological relations such as part-of and its inverse has-part are fundamental to the description of the structure of living organisms. Whereas classical mereology focuses on individual entities, mereological relations in biomedical ontologies are generally asserted between classes of individuals. In general, this pr...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2005.11.003
更新日期:2006-06-01 00:00:00
abstract::Big data technologies are critical to the medical field which requires new frameworks to leverage them. Such frameworks would benefit medical experts to test hypotheses by querying huge volumes of unstructured medical data to provide better patient care. The objective of this work is to implement and examine the feasi...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2015.12.005
更新日期:2016-02-01 00:00:00
abstract::In this paper we discuss the design and development of TRAK (Taxonomy for RehAbilitation of Knee conditions), an ontology that formally models information relevant for the rehabilitation of knee conditions. TRAK provides the framework that can be used to collect coded data in sufficient detail to support epidemiologic...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2013.04.009
更新日期:2013-08-01 00:00:00
abstract:BACKGROUND:The determination of risk factors and their temporal relations in natural language patient records is a complex task which has been addressed in the i2b2/UTHealth 2014 shared task. In this context, in most systems it was broadly decomposed into two sub-tasks implemented by two components: entity detection, a...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2015.06.014
更新日期:2015-12-01 00:00:00
abstract:OBJECTIVE:Clinicians face numerous information needs during patient care activities and most of these needs are not met. Infobuttons are information retrieval tools that help clinicians to fulfill their information needs by providing links to on-line health information resources from within an electronic medical record...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2008.07.001
更新日期:2009-02-01 00:00:00
abstract::Simulators for honing procedural skills (such as surgical skills and central venous catheter placement) have proven to be valuable tools for medical educators and students. While such simulations represent an effective paradigm in surgical education, there is an opportunity to add a layer of cognitive exercises to the...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2009.02.008
更新日期:2009-08-01 00:00:00
abstract::The explosive growth of biomedical literature has created a rich source of knowledge, such as that on protein-protein interactions (PPIs) and drug-drug interactions (DDIs), locked in unstructured free text. Biomedical relation classification aims to automatically detect and classify biomedical relations, which has gre...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章,评审
doi:10.1016/j.jbi.2019.103294
更新日期:2019-11-01 00:00:00
abstract:BACKGROUND:Identifying key variables such as disorders within the clinical narratives in electronic health records has wide-ranging applications within clinical practice and biomedical research. Previous research has demonstrated reduced performance of disorder named entity recognition (NER) and normalization (or groun...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2015.07.010
更新日期:2015-10-01 00:00:00
abstract::We propose a model-driven methodology aimed to shed light on complex disorders. Our approach enables exploring shared etiologies of comorbid diseases at the molecular pathway level. The method, Comparative Comorbidities Simulation (CCS), uses stochastic Petri net simulation for examining the phenotypic effects of pert...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2016.08.008
更新日期:2016-10-01 00:00:00
abstract:BACKGROUND:Allowing patients to access their own electronic health record (EHR) notes through online patient portals has the potential to improve patient-centered care. However, EHR notes contain abundant medical jargon that can be difficult for patients to comprehend. One way to help patients is to reduce information ...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2017.02.016
更新日期:2017-04-01 00:00:00
abstract::Outbreaks of infectious diseases such as influenza are a significant threat to human health. Because there are different strains of influenza which can cause independent outbreaks, and influenza can affect demographic groups at different rates and times, there is a need to recognize and characterize multiple outbreaks...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2017.08.003
更新日期:2017-09-01 00:00:00
abstract:OBJECTIVE:We have developed an automated knowledge base peer feedback system as part of an effort to facilitate the creation and refinement of sound clinical knowledge content within an enterprise-wide knowledge base. The program collects clinical data stored in our Clinical Data Repository during usage of a physician ...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2007.05.006
更新日期:2008-02-01 00:00:00
abstract:OBJECTIVE:To develop an effective and scalable individual-level patient cost prediction method by automatically learning hidden temporal patterns from multivariate time series data in patient insurance claims using a convolutional neural network (CNN) architecture. METHODS:We used three years of medical and pharmacy c...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2020.103565
更新日期:2020-11-01 00:00:00
abstract:INTRODUCTION:Machine learning (ML) and natural language processing have great potential to improve information extraction (IE) within electronic medical records (EMRs) for a wide variety of clinical search and summarization tools. Despite ML advancements, clinical adoption of real time IE tools for patient care remains...
journal_title:Journal of biomedical informatics
pub_type: 杂志文章
doi:10.1016/j.jbi.2019.103354
更新日期:2020-02-01 00:00:00