MACE prediction of acute coronary syndrome via boosted resampling classification using electronic medical records.

Abstract:

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. The method learns a new and stronger MACE prediction model each iteration from a more difficult subset of EMR data with wrongly predicted MACEs of ACS patients by a previous weak model. RESULTS:We verify the effectiveness of the proposed approach on a clinical dataset containing 2930 ACS patient samples with 268 feature types. While the imbalanced ratio does not seem extreme (25.7%), MACE prediction targets pose great challenge to traditional methods. As these methods degenerate dramatically with increasing imbalanced ratios, the performance of our approach for predicting MACE remains robust and reaches 0.672 in terms of AUC. On average, the proposed approach improves the performance of MACE prediction by 4.8%, 4.5%, 8.6% and 4.8% over the standard SVM, Adaboost, SMOTE, and the conventional GRACE risk scoring system for MACE prediction, respectively. CONCLUSIONS:We consider that the proposed iterative boosting approach has demonstrated great potential to meet the challenge of MACE prediction for ACS patients using a large volume of EMR.

journal_name

J Biomed Inform

authors

Huang Z,Chan TM,Dong W

doi

10.1016/j.jbi.2017.01.001

subject

Has Abstract

pub_date

2017-02-01 00:00:00

pages

161-170

eissn

1532-0464

issn

1532-0480

pii

S1532-0464(17)30001-1

journal_volume

66

pub_type

杂志文章
  • Analysis of microarray leukemia data using an efficient MapReduce-based K-nearest-neighbor classifier.

    abstract::Microarray-based gene expression profiling has emerged as an efficient technique for classification, prognosis, diagnosis, and treatment of cancer. Frequent changes in the behavior of this disease generates an enormous volume of data. Microarray data satisfies both the veracity and velocity properties of big data, as ...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2016.03.002

    authors: Kumar M,Rath NK,Rath SK

    更新日期:2016-04-01 00:00:00

  • Building a robust, scalable and standards-driven infrastructure for secondary use of EHR data: the SHARPn project.

    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

    authors: Rea S,Pathak J,Savova G,Oniki TA,Westberg L,Beebe CE,Tao C,Parker CG,Haug PJ,Huff SM,Chute CG

    更新日期:2012-08-01 00:00:00

  • Specifying computer-based counseling systems in health care: a new approach to user-interface and interaction design.

    abstract::Computer-based counseling systems in health care play an important role in the toolset available for medical doctors to inform, motivate and challenge their patients according to a well-defined therapeutic goal. The design, development and implementation of such systems require close collaboration between users, i.e. ...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2008.10.005

    authors: Herzberg D,Marsden N,Kübler P,Leonhardt C,Thomanek S,Jung H,Becker A

    更新日期:2009-04-01 00:00:00

  • Risk factor detection for heart disease by applying text analytics in electronic medical records.

    abstract::In the United States, about 600,000 people die of heart disease every year. The annual cost of care services, medications, and lost productivity reportedly exceeds 108.9 billion dollars. Effective disease risk assessment is critical to prevention, care, and treatment planning. Recent advancements in text analytics hav...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2015.08.011

    authors: Torii M,Fan JW,Yang WL,Lee T,Wiley MT,Zisook DS,Huang Y

    更新日期:2015-12-01 00:00:00

  • A private DNA motif finding algorithm.

    abstract::With the increasing availability of genomic sequence data, numerous methods have been proposed for finding DNA motifs. The discovery of DNA motifs serves a critical step in many biological applications. However, the privacy implication of DNA analysis is normally neglected in the existing methods. In this work, we pro...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2013.12.016

    authors: Chen R,Peng Y,Choi B,Xu J,Hu H

    更新日期:2014-08-01 00:00:00

  • Modelling and analysing the dynamics of disease progression from cross-sectional studies.

    abstract::Clinical trials are typically conducted over a population within a defined time period in order to illuminate certain characteristics of a health issue or disease process. These cross-sectional studies give us a 'snapshot' of this disease process over a large number of people but do not allow us to model the temporal ...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2012.11.003

    authors: Li Y,Swift S,Tucker A

    更新日期:2013-04-01 00:00:00

  • A machine-learned knowledge discovery method for associating complex phenotypes with complex genotypes. Application to pain.

    abstract:BACKGROUND:The association of genotyping information with common traits is not satisfactorily solved. One of the most complex traits is pain and association studies have failed so far to provide reproducible predictions of pain phenotypes from genotypes in the general population despite a well-established genetic basis...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2013.07.010

    authors: Lötsch J,Ultsch A

    更新日期:2013-10-01 00:00:00

  • MeSHy: Mining unanticipated PubMed information using frequencies of occurrences and concurrences of MeSH terms.

    abstract:MOTIVATION:PubMed is the most widely used database of biomedical literature. To the detriment of the user though, the ranking of the documents retrieved for a query is not content-based, and important semantic information in the form of assigned Medical Subject Headings (MeSH) terms is not readily presented or producti...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2011.05.009

    authors: Theodosiou T,Vizirianakis IS,Angelis L,Tsaftaris A,Darzentas N

    更新日期:2011-12-01 00:00:00

  • Patient empowerment for cancer patients through a novel ICT infrastructure.

    abstract::As a result of recent advances in cancer research and "precision medicine" approaches, i.e. the idea of treating each patient with the right drug at the right time, more and more cancer patients are being cured, or might have to cope with a life with cancer. For many people, cancer survival today means living with a c...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2019.103342

    authors: Kondylakis H,Bucur A,Crico C,Dong F,Graf N,Hoffman S,Koumakis L,Manenti A,Marias K,Mazzocco K,Pravettoni G,Renzi C,Schera F,Triberti S,Tsiknakis M,Kiefer S

    更新日期:2020-01-01 00:00:00

  • Predicting severe clinical events by learning about life-saving actions and outcomes using distant supervision.

    abstract::Medical error is a leading cause of patient death in the United States. Among the different types of medical errors, harm to patients caused by doctors missing early signs of deterioration is especially challenging to address due to the heterogeneity of patients' physiological patterns. In this study, we implemented r...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2020.103425

    authors: Lee DH,Yetisgen M,Vanderwende L,Horvitz E

    更新日期:2020-07-01 00:00:00

  • A Hidden Semi-Markov Model based approach for rehabilitation exercise assessment.

    abstract::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 perf...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2017.12.012

    authors: Capecci M,Ceravolo MG,Ferracuti F,Iarlori S,Kyrki V,Monteriù A,Romeo L,Verdini F

    更新日期:2018-02-01 00:00:00

  • Evaluation of relational and NoSQL database architectures to manage genomic annotations.

    abstract::While the adoption of next generation sequencing has rapidly expanded, the informatics infrastructure used to manage the data generated by this technology has not kept pace. Historically, relational databases have provided much of the framework for data storage and retrieval. Newer technologies based on NoSQL architec...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2016.10.015

    authors: Schulz WL,Nelson BG,Felker DK,Durant TJS,Torres R

    更新日期:2016-12-01 00:00:00

  • Concept and implementation of a study dashboard module for a continuous monitoring of trial recruitment and documentation.

    abstract:BACKGROUND:The difficulty of managing patient recruitment and documentation for clinical trials prompts a demand for instruments for closely monitoring these critical but unpredictable processes. Increasingly adopted Electronic Data Capture (EDC) applications provide novel opportunities to reutilize stored information ...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2016.10.010

    authors: Toddenroth D,Sivagnanasundaram J,Prokosch HU,Ganslandt T

    更新日期:2016-12-01 00:00:00

  • Lexical patterns, features and knowledge resources for coreference resolution in clinical notes.

    abstract::Generation of entity coreference chains provides a means to extract linked narrative events from clinical notes, but despite being a well-researched topic in natural language processing, general-purpose coreference tools perform poorly on clinical texts. This paper presents a knowledge-centric and pattern-based approa...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2012.02.012

    authors: Gooch P,Roudsari A

    更新日期:2012-10-01 00:00:00

  • DEEPEN: A negation detection system for clinical text incorporating dependency relation into NegEx.

    abstract::In Electronic Health Records (EHRs), much of valuable information regarding patients' conditions is embedded in free text format. Natural language processing (NLP) techniques have been developed to extract clinical information from free text. One challenge faced in clinical NLP is that the meaning of clinical entities...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2015.02.010

    authors: Mehrabi S,Krishnan A,Sohn S,Roch AM,Schmidt H,Kesterson J,Beesley C,Dexter P,Max Schmidt C,Liu H,Palakal M

    更新日期:2015-04-01 00:00:00

  • Biomedical ontologies: what part-of is and isn't.

    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

    authors: Schulz S,Kumar A,Bittner T

    更新日期:2006-06-01 00:00:00

  • Automated population of an i2b2 clinical data warehouse from an openEHR-based data repository.

    abstract:BACKGROUND:Detailed Clinical Model (DCM) approaches have recently seen wider adoption. More specifically, openEHR-based application systems are now used in production in several countries, serving diverse fields of application such as health information exchange, clinical registries and electronic medical record system...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2016.08.007

    authors: Haarbrandt B,Tute E,Marschollek M

    更新日期:2016-10-01 00:00:00

  • Comparison between passive vision-based system and a wearable inertial-based system for estimating temporal gait parameters related to the GAITRite electronic walkway.

    abstract::Quantitative gait analysis allows clinicians to assess the inherent gait variability over time which is a functional marker to aid in the diagnosis of disabilities or diseases such as frailty, the onset of cognitive decline and neurodegenerative diseases, among others. However, despite the accuracy achieved by the cur...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2016.07.009

    authors: González I,López-Nava IH,Fontecha J,Muñoz-Meléndez A,Pérez-SanPablo AI,Quiñones-Urióstegui I

    更新日期:2016-08-01 00:00:00

  • Knowledge-based personalized search engine for the Web-based Human Musculoskeletal System Resources (HMSR) in biomechanics.

    abstract::Human musculoskeletal system resources of the human body are valuable for the learning and medical purposes. Internet-based information from conventional search engines such as Google or Yahoo cannot response to the need of useful, accurate, reliable and good-quality human musculoskeletal resources related to medical ...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2012.11.001

    authors: Dao TT,Hoang TN,Ta XH,Tho MC

    更新日期:2013-02-01 00:00:00

  • A comparison of machine learning methods for the diagnosis of pigmented skin lesions.

    abstract::We analyze the discriminatory power of k-nearest neighbors, logistic regression, artificial neural networks (ANNs), decision tress, and support vector machines (SVMs) on the task of classifying pigmented skin lesions as common nevi, dysplastic nevi, or melanoma. Three different classification tasks were used as benchm...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1006/jbin.2001.1004

    authors: Dreiseitl S,Ohno-Machado L,Kittler H,Vinterbo S,Billhardt H,Binder M

    更新日期:2001-02-01 00:00:00

  • Classification of forensic autopsy reports through conceptual graph-based document representation model.

    abstract::Text categorization has been used extensively in recent years to classify plain-text clinical reports. This study employs text categorization techniques for the classification of open narrative forensic autopsy reports. One of the key steps in text classification is document representation. In document representation,...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2018.04.013

    authors: Mujtaba G,Shuib L,Raj RG,Rajandram R,Shaikh K,Al-Garadi MA

    更新日期:2018-06-01 00:00:00

  • Categorizing the world of registries.

    abstract::The term registry is widely used to refer to any database storing clinical information collected as a byproduct of patient care. Despite the use of this single characterizing term (registry), these databases exist in various forms and support functions ranging from biomedical informatics and clinical research, to publ...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2008.01.009

    authors: Drolet BC,Johnson KB

    更新日期:2008-12-01 00:00:00

  • Intradialytic blood pressure pattern recognition based on density peak clustering.

    abstract::End-stage renal disease (ESRD) is the final stage of chronic kidney disease (CKD) and requires hemodialysis (HD) for survival. Intradialytic blood pressure (IBP) measurements are necessary to ensure patient safety during HD treatments and have critical clinical and prognostic significance. Studies on IBP measurements,...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2018.05.013

    authors: Wang F,Zhou JY,Tian Y,Wang Y,Zhang P,Chen JH,Li JS

    更新日期:2018-07-01 00:00:00

  • A comparison of word embeddings for the biomedical natural language processing.

    abstract:BACKGROUND:Word embeddings have been prevalently used in biomedical Natural Language Processing (NLP) applications due to the ability of the vector representations being able to capture useful semantic properties and linguistic relationships between words. Different textual resources (e.g., Wikipedia and biomedical lit...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2018.09.008

    authors: Wang Y,Liu S,Afzal N,Rastegar-Mojarad M,Wang L,Shen F,Kingsbury P,Liu H

    更新日期:2018-11-01 00:00:00

  • Identifying complexity in infectious diseases inpatient settings: An observation study.

    abstract:BACKGROUND:Understanding complexity in healthcare has the potential to reduce decision and treatment uncertainty. Therefore, identifying both patient and task complexity may offer better task allocation and design recommendation for next-generation health information technology system design. OBJECTIVE:To identify spe...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2016.10.018

    authors: Roosan D,Weir C,Samore M,Jones M,Rahman M,Stoddard GJ,Del Fiol G

    更新日期:2017-07-01 00:00:00

  • Serum cancer biomarker discovery through analysis of gene expression data sets across multiple tumor and normal tissues.

    abstract::The development of convenient serum bioassays for cancer screening, diagnosis, prognosis, and monitoring of treatment is one of top priorities in cancer research community. Although numerous biomarker candidates have been generated by applying high-throughput technologies such as transcriptomics, proteomics, and metab...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2011.08.010

    authors: Jin H,Lee HC,Park SS,Jeong YS,Kim SY

    更新日期:2011-12-01 00:00:00

  • Task definition, annotated dataset, and supervised natural language processing models for symptom extraction from unstructured clinical notes.

    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

    authors: Steinkamp JM,Bala W,Sharma A,Kantrowitz JJ

    更新日期:2020-02-01 00:00:00

  • A new framework for the selection of tag SNPs by multimarker haplotypes.

    abstract::This paper proposes a new framework for the selection of tag SNPs based on haplotypes instead of on a single SNP. The tag SNPs found by this framework form a set of haplotypes completely predictive of the alleles of all untyped SNPs. We refer to this problem as MTMH, which is defined as follows: given a set of SNPs, f...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2008.04.003

    authors: Huang YT,Chao KM

    更新日期:2008-12-01 00:00:00

  • Exploiting the contextual cues for bio-entity name recognition in biomedical literature.

    abstract::To extract biomedical information about bio-entities from the huge amount of biomedical literature, the first key step is recognizing their names in these literatures, which remains a challenging task due to the irregularities and ambiguities in bio-entities nomenclature. The recognition performances of the current po...

    journal_title:Journal of biomedical informatics

    pub_type: 杂志文章

    doi:10.1016/j.jbi.2008.01.002

    authors: Yang Z,Lin H,Li Y

    更新日期:2008-08-01 00:00:00

  • Towards an on-demand peer feedback system for a clinical knowledge base: a case study with order sets.

    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

    authors: Hulse NC,Del Fiol G,Bradshaw RL,Roemer LK,Rocha RA

    更新日期:2008-02-01 00:00:00