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Medical informatics standards

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https://www.readbyqxmd.com/read/29154853/standards-and-guidelines-for-validating-next-generation-sequencing-bioinformatics-pipelines-a-joint-recommendation-of-the-association-for-molecular-pathology-and-the-college-of-american-pathologists
#1
REVIEW
Somak Roy, Christopher Coldren, Arivarasan Karunamurthy, Nefize S Kip, Eric W Klee, Stephen E Lincoln, Annette Leon, Mrudula Pullambhatla, Robyn L Temple-Smolkin, Karl V Voelkerding, Chen Wang, Alexis B Carter
Bioinformatics pipelines are an integral component of next-generation sequencing (NGS). Processing raw sequence data to detect genomic alterations has significant impact on disease management and patient care. Because of the lack of published guidance, there is currently a high degree of variability in how members of the global molecular genetics and pathology community establish and validate bioinformatics pipelines. Improperly developed, validated, and/or monitored pipelines may generate inaccurate results that may have negative consequences for patient care...
November 17, 2017: Journal of Molecular Diagnostics: JMD
https://www.readbyqxmd.com/read/29132622/know-thy-ehealth-user-development-of-biopsychosocial-personas-from-a-study-of-older-adults-with-heart-failure
#2
Richard J Holden, Anand Kulanthaivel, Saptarshi Purkayastha, Kathryn M Goggins, Sunil Kripalani
BACKGROUND: Personas are a canonical user-centered design method increasingly used in health informatics research. Personas-empirically-derived user archetypes-can be used by eHealth designers to gain a robust understanding of their target end users such as patients. OBJECTIVE: To develop biopsychosocial personas of older patients with heart failure using quantitative analysis of survey data. METHOD: Data were collected using standardized surveys and medical record abstraction from 32 older adults with heart failure recently hospitalized for acute heart failure exacerbation...
December 2017: International Journal of Medical Informatics
https://www.readbyqxmd.com/read/29114115/data-requirements-and-the-basis-for-designing-health-information-kiosks
#3
REVIEW
Mina Afzali, Maryam Ahmadi, Zahra Mahmoudvand
Introduction: Health kiosks are an innovative and cost-effective solution that organizations can easily implement to help educate people. Aim: To determine the data requirements and basis for designing health information kiosks as a new technology to maintain the health of society. Methods: By reviewing the literature, a list of information requirements was provided in 4 sections (demographic information, general information, diagnostic information and medical history), and questions related to the objectives, data elements, stakeholders, requirements, infrastructures and the applications of health information kiosks were provided...
September 2017: Acta Informatica Medica: AIM
https://www.readbyqxmd.com/read/29084368/electronic-health-record-phenotypes-for-precision-medicine-perspectives-and-caveats-from-treatment-of-breast-cancer-at-a-single-institution
#4
Matthew K Breitenstein, Hongfang Liu, Kara N Maxwell, Jyotishman Pathak, Rui Zhang
Precision medicine is at the forefront of biomedical research. Cancer registries provide rich perspectives and electronic health record(EHR)s are commonly utilized to gather additional clinical data elements needed for translational research. However, manual annotation is resource-intense and not readily scalable. Informatics-based phenotyping presents an ideal solution, but perspectives obtained can be impacted by both data source and algorithm selection. We derived breast cancer(BC) receptor status phenotypes from structured and unstructured EHR data using rule-based algorithms, including natural language processing(NLP)...
October 30, 2017: Clinical and Translational Science
https://www.readbyqxmd.com/read/29063565/clinical-research-informatics-supporting-the-research-study-lifecycle
#5
S B Johnson
Objectives: The primary goal of this review is to summarize significant developments in the field of Clinical Research Informatics (CRI) over the years 2015-2016. The secondary goal is to contribute to a deeper understanding of CRI as a field, through the development of a strategy for searching and classifying CRI publications. Methods: A search strategy was developed to query the PubMed database, using medical subject headings to both select and exclude articles, and filtering publications by date and other characteristics...
August 2017: Yearbook of Medical Informatics
https://www.readbyqxmd.com/read/29063556/knowledge-representation-and-management-it-s-time-to-integrate
#6
F Dhombres, J Charlet
Objectives: To select, present, and summarize the best papers published in 2016 in the field of Knowledge Representation and Management (KRM). Methods: A comprehensive and standardized review of the medical informatics literature was performed based on a PubMed query. Results: Among the 1,421 retrieved papers, the review process resulted in the selection of four best papers focused on the integration of heterogeneous data via the development and the alignment of terminological resources. In the first article, the authors provide a curated and standardized version of the publicly available US FDA Adverse Event Reporting System...
August 2017: Yearbook of Medical Informatics
https://www.readbyqxmd.com/read/29063555/representing-knowledge-consistently-across-health-systems
#7
S T Rosenbloom, R J Carroll, J L Warner, M E Matheny, J C Denny
Objectives: Electronic health records (EHRs) have increasingly emerged as a powerful source of clinical data that can be leveraged for reuse in research and in modular health apps that integrate into diverse health information technologies. A key challenge to these use cases is representing the knowledge contained within data from different EHR systems in a uniform fashion. Method: We reviewed several recent studies covering the knowledge representation in the common data models for the Observational Medical Outcomes Partnership (OMOP) and its Observational Health Data Sciences and Informatics program, and the United States Patient Centered Outcomes Research Network (PCORNet)...
August 2017: Yearbook of Medical Informatics
https://www.readbyqxmd.com/read/29063549/an-assessment-of-imaging-informatics-for-precision-medicine-in-cancer
#8
C Chennubhotla, L P Clarke, A Fedorov, D Foran, G Harris, E Helton, R Nordstrom, F Prior, D Rubin, J H Saltz, E Shalley, A Sharma
Objectives: Precision medicine requires the measurement, quantification, and cataloging of medical characteristics to identify the most effective medical intervention. However, the amount of available data exceeds our current capacity to extract meaningful information. We examine the informatics needs to achieve precision medicine from the perspective of quantitative imaging and oncology. Methods: The National Cancer Institute (NCI) organized several workshops on the topic of medical imaging and precision medicine...
August 2017: Yearbook of Medical Informatics
https://www.readbyqxmd.com/read/29063538/health-information-management-changing-with-time
#9
S H Fenton, S Low, K J Abrams, K Butler-Henderson
Objective: With the evolution of patient medical records from paper to electronic media and the changes to the way data is sourced, used, and managed, there is an opportunity for health information management (HIM) to learn and facilitate the increasing expanse of available patient data. Methods: This paper discusses the emerging trends and lessons learnt in relation with the following four areas: 1) data and information governance, 2) terminology standards certification, 3) International Classification of Diseases, 11th edition (ICD-11), and 4) data analytics and HIM...
August 2017: Yearbook of Medical Informatics
https://www.readbyqxmd.com/read/28903073/reconciling-disparate-information-in-continuity-of-care-documents-piloting-a-system-to-consolidate-structured-clinical-documents
#10
Masoud Hosseini, Josette Jones, Anthony Faiola, Daniel J Vreeman, Huanmei Wu, Brian E Dixon
BACKGROUND: Due to the nature of information generation in health care, clinical documents contain duplicate and sometimes conflicting information. Recent implementation of Health Information Exchange (HIE) mechanisms in which clinical summary documents are exchanged among disparate health care organizations can proliferate duplicate and conflicting information. MATERIALS AND METHODS: To reduce information overload, a system to automatically consolidate information across multiple clinical summary documents was developed for an HIE network...
October 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28895104/concordance-of-adherence-measurement-using-self-reported-adherence-questionnaires-and-medication-monitoring-devices-an-updated-review
#11
REVIEW
Alisha Monnette, Yichen Zhang, Hui Shao, Lizheng Shi
INTRODUCTION: As medication adherence continues to be a prevalent issue in today's society, the methods used to monitor medication-taking behaviors are constantly being re-evaluated and compared in search of the 'gold standard' measure. Our review aimed to assess the current literature surrounding the correlation between self-reported questionnaires (SRQs) and electronic monitoring devices to determine if these measures produce similar results. METHODS: We performed a literature search from 2009 to 2017 using PubMed, PubMed In-Process and Non-Indexed, EMBASE, Ovid MEDLINE, and Ovid MEDLINE In-Process...
September 11, 2017: PharmacoEconomics
https://www.readbyqxmd.com/read/28883196/from-a-content-delivery-portal-to-a-knowledge-management-system-for-standardized-cancer-documentation
#12
Danijela Schlue, Sebastian Mate, Jörg Haier, Dennis Kadioglu, Hans-Ulrich Prokosch, Bernhard Breil
Heterogeneous tumor documentation and its challenges of interpretation of medical terms lead to problems in analyses of data from clinical and epidemiological cancer registries. The objective of this project was to design, implement and improve a national content delivery portal for oncological terms. Data elements of existing handbooks and documentation sources were analyzed, combined and summarized by medical experts of different comprehensive cancer centers. Informatics experts created a generic data model based on an existing metadata repository...
2017: Studies in Health Technology and Informatics
https://www.readbyqxmd.com/read/28883166/standards-based-procedural-phenotyping-the-arden-syntax-on-i2b2
#13
Sebastian Mate, Ixchel Castellanos, Thomas Ganslandt, Hans-Ulrich Prokosch, Stefan Kraus
Phenotyping, or the identification of patient cohorts, is a recurring challenge in medical informatics. While there are open source tools such as i2b2 that address this problem by providing user-friendly querying interfaces, these platforms lack semantic expressiveness to model complex phenotyping algorithms. The Arden Syntax provides procedural programming language construct, designed specifically for medical decision support and knowledge transfer. In this work, we investigate how language constructs of the Arden Syntax can be used for generic phenotyping...
2017: Studies in Health Technology and Informatics
https://www.readbyqxmd.com/read/28840966/the-diy-digital-medical-centre
#14
James Kenneth Timmis, Kenneth Timmis
Healthcare systems worldwide are confronted with major economic, organizational and logistical challenges. Historic evolution of health care has led to significant healthcare sector fragmentation, resulting in systemic inefficiencies and suboptimal resource exploitation. To attain a sustainable healthcare model, fundamental, system-wide improvements that effectively network, and ensure fulfilment of potential synergies between sectors, and include and facilitate coherent strategic planning and organisation of healthcare infrastructure are needed...
September 2017: Microbial Biotechnology
https://www.readbyqxmd.com/read/28822794/lipidomics-informatics-for-life-science
#15
D Schwudke, A Shevchenko, N Hoffmann, R Ahrends
Lipidomics encompasses analytical approaches that aim to identify and quantify the complete set of lipids, defined as lipidome in a given cell, tissue or organism as well as their interactions with other molecules. The majority of lipidomics workflows is based on mass spectrometry and has been proven as a powerful tool in system biology in concert with other Omics disciplines. Unfortunately, bioinformatics infrastructures for this relatively young discipline are limited only to some specialists. Search engines, quantification algorithms, visualization tools and databases developed by the 'Lipidomics Informatics for Life-Science' (LIFS) partners will be restructured and standardized to provide broad access to these specialized bioinformatics pipelines...
November 10, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28815104/electronic-phenotyping-with-aphrodite-and-the-observational-health-sciences-and-informatics-ohdsi-data-network
#16
Juan M Banda, Yoni Halpern, David Sontag, Nigam H Shah
The widespread usage of electronic health records (EHRs) for clinical research has produced multiple electronic phenotyping approaches. Methods for electronic phenotyping range from those needing extensive specialized medical expert supervision to those based on semi-supervised learning techniques. We present Automated PHenotype Routine for Observational Definition, Identification, Training and Evaluation (APHRODITE), an R- package phenotyping framework that combines noisy labeling and anchor learning. APHRODITE makes these cutting-edge phenotyping approaches available for use with the Observational Health Data Sciences and Informatics (OHDSI) data model for standardized and scalable deployment...
2017: AMIA Summits on Translational Science Proceedings
https://www.readbyqxmd.com/read/28790076/implementation-of-a-formulary-management-process
#17
Lauren I Karel, Dennis R Delisle, Ellena A Anagnostis, Cindy J Wordell
PURPOSE: The application of lean methodology in an initiative to redesign the formulary maintenance process at an academic medical center is described. SUMMARY: Maintaining a hospital formulary requires clear communication and coordination among multiple members of the pharmacy department. Using principles of lean methodology, pharmacy department personnel within a multihospital health system launched a multifaceted initiative to optimize formulary management systemwide...
August 15, 2017: American Journal of Health-system Pharmacy: AJHP
https://www.readbyqxmd.com/read/28776047/an-interoperable-similarity-based-cohort-identification-method-using-the-omop-common-data-model-version-5-0
#18
Shreya Chakrabarti, Anando Sen, Vojtech Huser, Gregory W Hruby, Alexander Rusanov, David J Albers, Chunhua Weng
Cohort identification for clinical studies tends to be laborious, time-consuming, and expensive. Developing automated or semi-automated methods for cohort identification is one of the "holy grails" in the field of biomedical informatics. We propose a high-throughput similarity-based cohort identification algorithm by applying numerical abstractions on Electronic Health Records (EHR) data. We implement this algorithm using the Observational Medical Outcomes Partnership (OMOP) Common Data Model (CDM), which enables sites using this standardized EHR data representation to avail this algorithm with minimum effort for local implementation...
June 2017: J Healthc Inform Res
https://www.readbyqxmd.com/read/28754523/development-and-classification-of-a-robust-inventory-of-near-real-time-outcome-measurements-for-assessing-information-technology-interventions-in-health-care
#19
Tiago K Colicchio, Guilherme Del Fiol, Debra L Scammon, Watson A Bowes, Julio C Facelli, Scott P Narus
OBJECTIVE: To develop and classify an inventory of near real-time outcome measures for assessing information technology (IT) interventions in health care and assess their relevance as perceived by experts in the field. MATERIALS AND METHODS: To verify the robustness and coverage of a previously published inventory of measures and taxonomy, we conducted semi-structured interviews with clinical and administrative leaders from a large care delivery system to collect suggestions of outcome measures that can be calculated with data available in electronic format for near real-time monitoring of EHR implementations...
July 25, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28679943/an-overview-of-the-biomed-project
#20
John Mantas, Mohamed A Wageih
The purpose is to: 1) foster the national BioMedical Informatics (BMI) foundation aligning with the international medical informatics association (IMIA) in order to remodel the national strategies; 2) structure the BMHI strategic plans in Egypt and Jordan as models for other Arab States; 3) define the requirements for new joint EU-Mediterranean BMHI projects and initiatives; and 4) encourage and support the BMHI centres of excellence in Egypt and Jordan. BIOMed will synergistically apply up-to-date European and International methodologies & standards...
2017: Studies in Health Technology and Informatics
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