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Biomedical Informatics Insights

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https://www.readbyqxmd.com/read/29887730/automating-installation-of-the-integrating-biology-and-the-bedside-i2b2-platform
#1
REVIEW
Kavishwar B Wagholikar, Michael Mendis, Pralav Dessai, Javier Sanz, Sindy Law, Micheal Gilson, Stephan Sanders, Mahesh Vangala, Douglas S Bell, Shawn N Murphy
Informatics for Integrating Biology and the Bedside (i2b2) is an open source clinical data analytics platform used at more than 150 institutions for querying patient data. An i2b2 installation (called hive) comprises several i2b2 cells that provide different functionalities. Given the complex architecture of i2b2 installation, creating a working installation of the platform is challenging for new users. This is despite the availability of extensive documentation for i2b2 and access to a large and active mailing list community of i2b2 users...
2018: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/29872307/a-method-for-deriving-quasi-healthy-cohorts-from-clinical-data
#2
Satoshi Irino, Yukio Kurihara
We evaluated quasi-healthy cohorts (model cohorts), derived from clinical data, to determine how well they simulated control cohorts. Control cohorts comprised individuals extracted from a public checkup database in Japan, under the condition that their values for 3 basic laboratory tests fall within specific reference ranges (3Ts condition). Model cohorts comprised outpatients, extracted from a clinical database at a hospital, under the 3Ts condition or under the condition that their values for 4 laboratory tests fall within specific reference ranges (4Ts condition)...
2018: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/29636619/accommodating-grief-on-twitter-an-analysis-of-expressions-of-grief-among-gang-involved-youth-on-twitter-using-qualitative-analysis-and-natural-language-processing
#3
Desmond Upton Patton, Jamie MacBeth, Sarita Schoenebeck, Katherine Shear, Kathleen McKeown
There is a dearth of research investigating youths' experience of grief and mourning after the death of close friends or family. Even less research has explored the question of how youth use social media sites to engage in the grieving process. This study employs qualitative analysis and natural language processing to examine tweets that follow 2 deaths. First, we conducted a close textual read on a sample of tweets by Gakirah Barnes, a gang-involved teenaged girl in Chicago, and members of her Twitter network, over a 19-day period in 2014 during which 2 significant deaths occurred: that of Raason "Lil B" Shaw and Gakirah's own death...
2018: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/29623001/proceedings-from-the-digital-innovation-in-mental-health-conference-london-2017
#4
EDITORIAL
Becky Inkster
Aims and Scope: The conference aims were two-fold: (1) to explore how digital technology is implemented into personalized and/or group mental health interventions and (2) to promote digital equality through developing culturally sensitive ways of bringing technological innovation to disadvantaged groups. A broad scope of perspectives were welcomed and encouraged, from lived experience, academic, clinical, media, the arts, policy-making, tech innovation, and other perspectives.
2018: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/29242701/a-software-tool-for-the-annotation-of-embolic-events-in-echo-doppler-audio-signals
#5
Paola Pierleoni, Lorenzo Maurizi, Lorenzo Palma, Alberto Belli, Simone Valenti, Alessandro Marroni
The use of precordial Doppler monitoring to prevent decompression sickness (DS) is well known by the scientific community as an important instrument for early diagnosis of DS. However, the timely and correct diagnosis of DS without assistance from diving medical specialists is unreliable. Thus, a common protocol for the manual annotation of echo Doppler signals and a tool for their automated recording and annotation are necessary. We have implemented original software for efficient bubble appearance annotation and proposed a unified annotation protocol...
2017: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/28638239/using-transfer-learning-for-improved-mortality-prediction-in-a-data-scarce-hospital-setting
#6
Thomas Desautels, Jacob Calvert, Jana Hoffman, Qingqing Mao, Melissa Jay, Grant Fletcher, Chris Barton, Uli Chettipally, Yaniv Kerem, Ritankar Das
Algorithm-based clinical decision support (CDS) systems associate patient-derived health data with outcomes of interest, such as in-hospital mortality. However, the quality of such associations often depends on the availability of site-specific training data. Without sufficient quantities of data, the underlying statistical apparatus cannot differentiate useful patterns from noise and, as a result, may underperform. This initial training data burden limits the widespread, out-of-the-box, use of machine learning-based risk scoring systems...
2017: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/28634427/leveraging-food-and-drug-administration-adverse-event-reports-for-the-automated-monitoring-of-electronic-health-records-in-a-pediatric-hospital
#7
Huaxiu Tang, Imre Solti, Eric Kirkendall, Haijun Zhai, Todd Lingren, Jaroslaw Meller, Yizhao Ni
The objective of this study was to determine whether the Food and Drug Administration's Adverse Event Reporting System (FAERS) data set could serve as the basis of automated electronic health record (EHR) monitoring for the adverse drug reaction (ADR) subset of adverse drug events. We retrospectively collected EHR entries for 71 909 pediatric inpatient visits at Cincinnati Children's Hospital Medical Center. Natural language processing (NLP) techniques were used to identify positive diseases/disorders and signs/symptoms (DDSSs) from the patients' clinical narratives...
2017: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/28469434/analysis-of-individual-differences-in-vaccine-pharmacovigilance-using-vaers-data-and-meddra-system-organ-classes-a-use-case-study-with-trivalent-influenza-vaccine
#8
Jingcheng Du, Yi Cai, Yong Chen, Yongqun He, Cui Tao
Personalized and precision vaccination requires consideration of an individual's sex and age. This article proposed systematic methods to study individual differences in adverse reactions following vaccination and chose trivalent influenza vaccine as a use case. Data were extracted from the Vaccine Adverse Event Reporting System from years 1990 to 2014. We first grouped symptoms into the Medical Dictionary for Regulatory Activities System Organ Classes (SOCs). We then applied zero-truncated Poisson regression and logistic regression to identify reporting differences among different individual groups over the SOCs...
2017: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/28469433/using-spatial-analysis-to-inform-community-immunization-strategies
#9
REVIEW
Moises E Maravi, Lauren E Snyder, L Dean McEwen, Kathryn DeYoung, Arthur J Davidson
INTRODUCTION: Recent pertussis outbreaks in the United States suggest our response to local disease outbreaks (eg, vaccine-preventable Bordetella pertussis) may benefit from understanding and applying spatial analytical methods that use data from immunization information systems at a subcounty level. METHODS: A 2012 study on Denver, CO, residents less than 19 years of age confirmed pertussis cases and immunization information system records were geocoded and aggregated to the census tract (CT) level...
2017: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/28469432/systematic-review-of-medical-informatics-supported-medication-decision-making
#10
REVIEW
Brittany L Melton
This systematic review sought to assess the applications and implications of current medical informatics-based decision support systems related to medication prescribing and use. Studies published between January 2006 and July 2016 which were indexed in PubMed and written in English were reviewed, and 39 studies were ultimately included. Most of the studies looked at computerized provider order entry or clinical decision support systems. Most studies examined decision support systems as a means of reducing errors or risk, particularly associated with medication prescribing, whereas a few studies evaluated the impact medical informatics-based decision support systems have on workflow or operations efficiency...
2017: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/28469431/opportunities-and-challenges-of-adolescent-and-adult-vaccination-administration-within-pharmacies-in-the-united-states
#11
REVIEW
Jessica Y Islam, Joann F Gruber, Alexandre Lockhart, Manju Kunwar, Spencer Wilson, Sara B Smith, Noel T Brewer, Jennifer S Smith
Pharmacies have been endorsed as alternative vaccine delivery sites to improve vaccination rates through increased access to services. Our objective was to identify challenges and facilitators to adolescent and adult vaccination provision in pharmacy settings in the United States. We recruited 40 licensed pharmacists in states with different pharmacy vaccination laws. Eligible pharmacists previously administered or were currently administering human papillomavirus (HPV); tetanus, diphtheria, and pertussis (TDAP); or meningitis (meningococcal conjugate vaccine [MCV4]) vaccines to adolescents aged 9 to 17 years...
2017: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/28469430/immunization-information-system-and-informatics-to-promote-immunizations-perspective-from-minnesota-immunization-information-connection
#12
Miriam Halstead Muscoplat, Sripriya Rajamani
The vision for management of immunization information is availability of real-time consolidated data and services for all ages, to clinical, public health, and other stakeholders. This is being executed through Immunization Information Systems (IISs), which are population-based and confidential computerized systems present in most US states and territories. Immunization Information Systems offer many functionalities, such as immunization assessment reports, client follow-up, reminder/recall feature, vaccine management tools, state-supplied vaccine ordering, comprehensive immunization history, clinical decision support/vaccine forecasting and recommendations, data processing, and data exchange...
2017: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/28469429/a-machine-learning-approach-to-evaluating-illness-induced-religious-struggle
#13
Joshua Glauser, Brian Connolly, Paul Nash, Daniel H Grossoehme
Religious or spiritual struggles are clinically important to health care chaplains because they are related to poorer health outcomes, involving both mental and physical health problems. Identifying persons experiencing religious struggle poses a challenge for chaplains. One potentially underappreciated means of triaging chaplaincy effort are prayers written in chapel notebooks. We show that religious struggle can be identified in these notebooks through instances of negative religious coping, such as feeling anger or abandonment toward God...
2017: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/28469428/using-electronic-medical-record-to-identify-patients-with-dyslipidemia-in-primary-care-settings-international-classification-of-disease-code-matters-from-one-region-to-a-national-database
#14
Justin Oake, Erfan Aref-Eshghi, Marshall Godwin, Kayla Collins, Kris Aubrey-Bassler, Pauline Duke, Masoud Mahdavian, Shabnam Asghari
OBJECTIVE: To assess the validity of the International Classification of Disease (ICD) codes for identifying patients with dyslipidemia in electronic medical record (EMR) data. METHODS: The EMRs of patients receiving primary care in St. John's, Newfoundland and Labrador (NL), Canada, were retrieved from the Canadian Primary Care Sentinel Surveillance Network database. International Classification of Disease codes were first compared with laboratory lipid data as an independent criterion standard, and next with a "comprehensive criterion standard," defined as any existence of abnormal lipid test, lipid-lowering medication record, or dyslipidemia ICD codes...
2017: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/28050128/direct-and-electronic-health-record-access-to-the-clinical-decision-support-for-immunizations-in-the-minnesota-immunization-information-system
#15
Sripriya Rajamani, Aaron Bieringer, Stephanie Wallerius, Daniel Jensen, Tamara Winden, Miriam Halstead Muscoplat
Immunization information systems (IIS) are population-based and confidential computerized systems maintained by public health agencies containing individual data on immunizations from participating health care providers. IIS hold comprehensive vaccination histories given across providers and over time. An important aspect to IIS is the clinical decision support for immunizations (CDSi), consisting of vaccine forecasting algorithms to determine needed immunizations. The study objective was to analyze the CDSi presentation by IIS in Minnesota (Minnesota Immunization Information Connection [MIIC]) through direct access by IIS interface and by access through electronic health records (EHRs) to outline similarities and differences...
2016: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/27980415/tennessee-s-3-star-report-using-available-data-systems-to-reduce-missed-opportunities-to-vaccinate-preteens
#16
Kelly L Moore, Melissa K Fankhauser, Pamela C Hull
All preteens should receive tetanus-diphtheria-pertussis vaccine (Tdap), quadrivalent meningococcal vaccine (Men-ACWY), and the human papillomavirus (HPV) cancer vaccine series. In Tennessee, HPV vaccination rates have stagnated at low levels for a decade. Three fundamental strategies to reduce missed opportunities for immunization include administering all recommended vaccines at the same visit, making strong recommendations for vaccines, and auditing and feedback. In Tennessee, during each summer, a surge of preteens visit local health departments (LHDs) to receive a required Tdap vaccine before entering seventh grade, presenting an opportunity to administer Men-ACWY and HPV...
2016: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/27789956/clinical-decision-support-for-immunizations-cdsi-a-comprehensive-collaborative-strategy
#17
Noam H Arzt
This article focuses on the requirements and current developments in clinical decision support technologies for immunizations (CDSi) in both the public health and clinical communities, with an emphasis on shareable solutions. The requirements of the Electronic Health Record Incentive Programs have raised some unique challenges for the clinical community, including vocabulary mapping, update of changing guidelines, single immunization schedule, and scalability. This article discusses new, collaborative approaches whose long-term goal is to make CDSi more sustainable for both the public and private sectors...
2016: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/27478379/efficient-queries-of-stand-off-annotations-for-natural-language-processing-on-electronic-medical-records
#18
Yuan Luo, Peter Szolovits
In natural language processing, stand-off annotation uses the starting and ending positions of an annotation to anchor it to the text and stores the annotation content separately from the text. We address the fundamental problem of efficiently storing stand-off annotations when applying natural language processing on narrative clinical notes in electronic medical records (EMRs) and efficiently retrieving such annotations that satisfy position constraints. Efficient storage and retrieval of stand-off annotations can facilitate tasks such as mapping unstructured text to electronic medical record ontologies...
2016: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/27385912/toward-a-learning-health-care-system-knowledge-delivery-at-the-point-of-care-empowered-by-big-data-and-nlp
#19
Vinod C Kaggal, Ravikumar Komandur Elayavilli, Saeed Mehrabi, Joshua J Pankratz, Sunghwan Sohn, Yanshan Wang, Dingcheng Li, Majid Mojarad Rastegar, Sean P Murphy, Jason L Ross, Rajeev Chaudhry, James D Buntrock, Hongfang Liu
The concept of optimizing health care by understanding and generating knowledge from previous evidence, ie, the Learning Health-care System (LHS), has gained momentum and now has national prominence. Meanwhile, the rapid adoption of electronic health records (EHRs) enables the data collection required to form the basis for facilitating LHS. A prerequisite for using EHR data within the LHS is an infrastructure that enables access to EHR data longitudinally for health-care analytics and real time for knowledge delivery...
2016: Biomedical Informatics Insights
https://www.readbyqxmd.com/read/27375358/mining-health-related-issues-in-consumer-product-reviews-by-using-scalable-text-analytics
#20
Manabu Torii, Sameer S Tilak, Son Doan, Daniel S Zisook, Jung-Wei Fan
In an era when most of our life activities are digitized and recorded, opportunities abound to gain insights about population health. Online product reviews present a unique data source that is currently underexplored. Health-related information, although scarce, can be systematically mined in online product reviews. Leveraging natural language processing and machine learning tools, we were able to mine 1.3 million grocery product reviews for health-related information. The objectives of the study were as follows: (1) conduct quantitative and qualitative analysis on the types of health issues found in consumer product reviews; (2) develop a machine learning classifier to detect reviews that contain health-related issues; and (3) gain insights about the task characteristics and challenges for text analytics to guide future research...
2016: Biomedical Informatics Insights
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