ArticleJournal of the American Medical Informatics Association : JAMIA2018
A computable pathology report for precision medicine: extending an observables ontology unifying SNOMED CT and LOINC.
Article in Journal of the American Medical Informatics Association : JAMIA, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- From synoptic to structured reporting: real-world implementation and evaluation of a pathology reporting tool in lung cancer.Virchows Archiv : an international journal of pathology · 2026Article
- Performance of large language models for extracting clinical data from breast cancer pathology reports: a systematic review.NPJ digital medicine · 2026Article
- Digital pathology imaging artificial intelligence in cancer research and clinical trials: An NCI workshop report.Journal of pathology informatics · 2026Review
- Digital metrology in laboratory medicine: a call for bringing order to chaos to facilitate precision diagnostics.Clinical chemistry and laboratory medicine · 2025Article
- Diagnostic Value of MAML2 Rearrangements in Mucoepidermoid Carcinoma.International journal of molecular sciences · 2022Article
- Ontologies and Knowledge Graphs in Oncology Research.Cancers · 2022Review
- Cost of running a full-service receiving office at a centralised testing laboratory in South Africa.African journal of laboratory medicine · 2022Article
- Mapping the Korean National Health Checkup Questionnaire to Standard Terminologies.Healthcare informatics research · 2021Article
- Logical Observation Identifiers Names and Codes (LOINCDiagnostics (Basel, Switzerland) · 2021Article
- Structured Data Capture for Oncology.JCO clinical cancer informatics · 2021Article
- College of American Pathologists Cancer Protocols: From Optimizing Cancer Patient Care to Facilitating Interoperable Reporting and Downstream Data Use.JCO clinical cancer informatics · 2021Article
- Artificial Intelligence-Driven Structurization of Diagnostic Information in Free-Text Pathology Reports.Journal of pathology informatics · 2020Article
- SNOMEDtxt: Natural Language Generation from SNOMED Ontology.Studies in health technology and informatics · 2019Article
- Semantic data interoperability, digital medicine, and e-health in infectious disease management: a review.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2019Review
- A Model Information Management Plan for Molecular Pathology Sequence Data Using Standards: From Sequencer to Electronic Health Record.The Journal of molecular diagnostics : JMD · 2019Article
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
backgroundThe 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.
methodsInvestigators 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.
resultsUNMC 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.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.