A computable pathology report for precision medicine: extending an observables ontology unifying SNOMED CT and LOINC

Background The College of American Pathologists (CAP) introduced the first cancer synoptic reporting protocols in 1998. However, the objective of a fully computable and machine-readable cancer synoptic report remains elusive due to insufficient definitional content in Systematized Nomenclature of Medicine – Clinical Terms (SNOMED CT) and Logical Observation Identifiers Names and Codes (LOINC). To address this terminology gap, investigators at the University of Nebraska Medical Center (UNMC) are developing, authoring, and testing a SNOMED CT observable ontology to represent the data elements identified by the synoptic worksheets of CAP. Methods Investigators along with collaborators from the US National Library of Medicine, CAP, the International Health Terminology Standards Development Organization, and the UK Health and Social Care Information Centre analyzed and assessed required data elements for colorectal cancer and invasive breast cancer synoptic reporting. SNOMED CT concept expressions were developed at UNMC in the Nebraska Lexicon© SNOMED CT namespace. LOINC codes for each SNOMED CT expression were issued by the Regenstrief Institute. SNOMED CT concepts represented observation answer value sets. Results UNMC investigators created a total of 194 SNOMED CT observable entity concept definitions to represent required data elements for CAP colorectal and breast cancer synoptic worksheets, including biomarkers. Concepts were bound to colorectal and invasive breast cancer reports in the UNMC pathology system and successfully used to populate a UNMC biobank. Discussion The absence of a robust observables ontology represents a barrier to data capture and reuse in clinical areas founded upon observational information. Terminology developed in this project establishes the model to characterize pathology data for information exchange, public health, and research analytics

Computing Healthcare Quality Indicators Automatically: Secondary Use of Patient Data and Semantic Interoperability

Harmelen, F.A.H. van [Promotor]Keizer, N.F. de [Copromotor]Cornet, R. [Copromotor]Teije, A.C.M. [Copromotor

Clinical decision support in emergency medicine : exploring the prerequisites

A clinical decision support system is a technical system that combines individual patient data and evidence-based clinical knowledge to give advice and support to clinicians. For quite a long time, the emergence of such systems has been predicted and expected to impact health care dramatically by improving both quality and productivity. Three factors make Swedish emergency medicine an interesting context which could be mature for the introduction of clinical decision support systems. Firstly, Sweden is a leader in the implementation of health care information technology, and the coverage of electronic health records is around 100% in the country. Secondly, emergency medicine is a field with high patient turnover, frequent decisions, and substantial impact on patient outcome. Thirdly, although there are abundant publications on clinical decision support system development and implementation in general, there is less knowledge of such systems in the urgent care context. Therefore, this doctoral project aimed to explore the prerequisites prior to implementation of clinical decision support systems in emergency medicine. This thesis is based on a mixed-methods design and consists of four individual studies. Proctor’s conceptual model of implementation research was used as a framework for the project. Study I included semi-structured interviews with 16 medical doctors and nurses from nine Swedish emergency departments. Content analysis was used to describe factors affecting vital sign data quality in emergency care. Study II extracted vital signs from 330 000 emergency department visits to assess the effects of different documentation workflows on data quality. Study III prospectively explored 200 vital sign measurements from 50 emergency care visits to evaluate the impact of manual and automated documentation on vital sign data quality. Study III also used data from an adapted NASA TLX questionnaire to compare the workload of clinical staff (n=70) in manual and automatic documentation. Study IV used semi-structured interviews with 14 emergency medicine physicians from three different sites. Content analysis was used to explore participants’ expectations and concerns regarding clinical decision support systems. There are three main results and conclusions from the research. Firstly, documentation of vital signs in the emergency department is still surprisingly paper-based, which makes vital sign data unfit for reuse in clinical decision support. Secondly, automation of vital sign documentation is feasible in emergency care and should improve data quality and reduce workload. Thirdly, enthusiasts towards decision support are at risk of disappointment with the level of innovation in the currently available decision support systems, and this may affect the implementation strategy negatively

Syndromic surveillance: reports from a national conference, 2003

Overview of Syndromic Surveillance -- What is Syndromic Surveillance? -- Linking Better Surveillance to Better Outcomes -- Review of the 2003 National Syndromic Surveillance Conference - Lessons Learned and Questions To Be Answered -- -- System Descriptions -- New York City Syndromic Surveillance Systems -- Syndrome and Outbreak Detection Using Chief-Complaint Data - Experience of the Real-Time Outbreak and Disease Surveillance Project -- Removing a Barrier to Computer-Based Outbreak and Disease Surveillance - The RODS Open Source Project -- National Retail Data Monitor for Public Health Surveillance -- National Bioterrorism Syndromic Surveillance Demonstration Program -- Daily Emergency Department Surveillance System - Bergen County, New Jersey -- Hospital Admissions Syndromic Surveillance - Connecticut, September 2001-November 2003 -- BioSense - A National Initiative for Early Detection and Quantification of Public Health Emergencies -- Syndromic Surveillance at Hospital Emergency Departments - Southeastern Virginia -- -- Research Methods -- Bivariate Method for Spatio-Temporal Syndromic Surveillance -- Role of Data Aggregation in Biosurveillance Detection Strategies with Applications from ESSENCE -- Scan Statistics for Temporal Surveillance for Biologic Terrorism -- Approaches to Syndromic Surveillance When Data Consist of Small Regional Counts -- Algorithm for Statistical Detection of Peaks - Syndromic Surveillance System for the Athens 2004 Olympic Games -- Taming Variability in Free Text: Application to Health Surveillance -- Comparison of Two Major Emergency Department-Based Free-Text Chief-Complaint Coding Systems -- How Many Illnesses Does One Emergency Department Visit Represent? Using a Population-Based Telephone Survey To Estimate the Syndromic Multiplier -- Comparison of Office Visit and Nurse Advice Hotline Data for Syndromic Surveillance - Baltimore-Washington, D.C., Metropolitan Area, 2002 -- Progress in Understanding and Using Over-the-Counter Pharmaceuticals for Syndromic Surveillance -- -- Evaluation -- Evaluation Challenges for Syndromic Surveillance - Making Incremental Progress -- Measuring Outbreak-Detection Performance By Using Controlled Feature Set Simulations -- Evaluation of Syndromic Surveillance Systems - Design of an Epidemic Simulation Model -- Benchmark Data and Power Calculations for Evaluating Disease Outbreak Detection Methods -- Bio-ALIRT Biosurveillance Detection Algorithm Evaluation -- ESSENCE II and the Framework for Evaluating Syndromic Surveillance Systems -- Conducting Population Behavioral Health Surveillance by Using Automated Diagnostic and Pharmacy Data Systems -- Evaluation of an Electronic General-Practitioner-Based Syndromic Surveillance System -- National Symptom Surveillance Using Calls to a Telephone Health Advice Service - United Kingdom, December 2001-February 2003 -- Field Investigations of Emergency Department Syndromic Surveillance Signals - New York City -- Should We Be Worried? Investigation of Signals Generated by an Electronic Syndromic Surveillance System - Westchester County, New York -- -- Public Health Practice -- Public Health Information Network - Improving Early Detection by Using a Standards-Based Approach to Connecting Public Health and Clinical Medicine -- Information System Architectures for Syndromic Surveillance -- Perspective of an Emergency Physician Group as a Data Provider for Syndromic Surveillance -- SARS Surveillance Project - Internet-Enabled Multiregion Surveillance for Rapidly Emerging Disease -- Health Information Privacy and Syndromic Surveillance SystemsPapers from the second annual National Syndromic Surveillance Conference convened by the New York City Department of Health and Mental Hygiene, the New York Academy of Medicine, and the CDC in New York City during Oct. 23-24, 2003. Published as the September 24, 2004 supplement to vol. 53 of MMWR. Morbidity and mortality weekly report.1571461

Investigating regional electronic information exchange as a measure of healthcare system integration: Making the invisible visible

BACKGROUND Integrated healthcare systems are believed to be enabled by the electronic exchange of clinical information. Canada and other national health systems are making substantial investments in information technology, in order to liberate and share clinical information between providers, improve the quality and safety of care, and reduce costs, yet we currently have no way of measuring these information flows, nor of understanding whether they contribute to the integration of care delivery. METHODS A literature review and consensus development process (nominal group) were used to provide guidance on system integration measures which are enabled by electronic information exchange. In order to conceptualize the components of electronic information exchange, establish a reference vocabulary for terminology, and guide the development of a questionnaire to gather field data, a formal ontology was developed. Validation of a sub-group of the survey data quality was achieved using the ontology and an unrelated database, demonstrating how ontologies may be used to adapt performance measurement methodologies to systems where constraints such as time-compression, lack of resources or access to needed information are prevalent. RESULTS The survey tool gathered cross-sectoral data from a regional health system which populated a summary measure of inter-provider electronic health information exchange (the eHIE), and measured perceptions of system integration from a single health region. The eHIE indicated that 7 -12% of clinical information that could be shared, was being shared electronically in the health region. ANOVA confirmed a significant correlation between the amount of information being exchanged electronically in this system and respondent perceptions of system integration suggesting that the eHIE may be used as a leading indicator for healthcare system integration. CONCLUSIONS It is possible to conceptualize and quantify inter-provider electronic health information exchange. As complex adaptive systems, healthcare systems are dynamic and open to correction; the use of a leading or proximal indicator such as the eHIE may inform effective policy-making and resource allocation in our pursuit of the goal of seamlessly integrated care