Alexandr Uciteli
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View article: Tracking Changes for Inter-Version Interoperability in Heterogeneous Evolving Medical Terminologies
Tracking Changes for Inter-Version Interoperability in Heterogeneous Evolving Medical Terminologies Open
Introduction: Medical terminologies and code systems, which play a vital role in the health domain, are rarely static but undergo changes as knowledge and terminology evolves. This includes addition, deletion and relabeling of terms, and, …
View article: Extending the TOP Framework with an Ontology-Based Text Search Component
Extending the TOP Framework with an Ontology-Based Text Search Component Open
Introduction: Constructing search queries that deal with complex concepts is a challenging task without proficiency in the underlying query language – which holds true for either structured or unstructured data. Medical data might encompas…
View article: Concept Graphs: A Novel Approach for Textual Analysis of Medical Documents
Concept Graphs: A Novel Approach for Textual Analysis of Medical Documents Open
The task of automatically analyzing the textual content of documents faces a number of challenges in general but even more so when dealing with the medical domain. Here, we can’t normally rely on specifically pre-trained NLP models or even…
View article: Modelling Adverse Events with the TOP Phenotyping Framework
Modelling Adverse Events with the TOP Phenotyping Framework Open
The detection and prevention of medication-related health risks, such as medication-associated adverse events (AEs), is a major challenge in patient care. A systematic review on the incidence and nature of in-hospital AEs found that 9.2% o…
View article: Ontology-based surgical workflow recognition and prediction
Ontology-based surgical workflow recognition and prediction Open
In this work, a reference ontology was developed, which provides workflow support and a knowledge base for further applications in the intelligent operating room, for instance, context-aware medical device orchestration, (semi-) automatic …
View article: The Leipzig Health Atlas—An Open Platform to Present, Archive, and Share Biomedical Data, Analyses, and Models Online
The Leipzig Health Atlas—An Open Platform to Present, Archive, and Share Biomedical Data, Analyses, and Models Online Open
Background Clinical trials, epidemiological studies, clinical registries, and other prospective research projects, together with patient care services, are main sources of data in the medical research domain. They serve often as a basis fo…
View article: Towards an Ontology-Based Phenotypic Query Model
Towards an Ontology-Based Phenotypic Query Model Open
Clinical research based on data from patient or study data management systems plays an important role in transferring basic findings into the daily practices of physicians. To support study recruitment, diagnostic processes, and risk facto…
View article: Ontological Modelling and Execution of Phenotypic Queries in the Leipzig Health Atlas
Ontological Modelling and Execution of Phenotypic Queries in the Leipzig Health Atlas Open
Sharing data is of great importance for research in medical sciences. It is the basis for reproducibility and reuse of already generated outcomes in new projects and in new contexts. FAIR data principles are the basics for sharing data. Th…
View article: Ontological modelling and FHIR Search based representation of basic eligibility criteria
Ontological modelling and FHIR Search based representation of basic eligibility criteria Open
Planning clinical studies to check medical hypotheses requires the specification of eligibility criteria in order to identify potential study participants. Electronically available patient data allows to support the recruitment of patients…
View article: Using formal ontology for the representation of morphological properties of anatomical structures in endoscopic surgery
Using formal ontology for the representation of morphological properties of anatomical structures in endoscopic surgery Open
In this paper we present results to the problem of an adequate and compact symbolic representation of morphological features of anatomical structures that serve as surgical landmarks for automated assistance in endoscopic surgery using the…
View article: Spreadsheet Model Generator (SMOG): A Lightweight Tool for Object-Spreadsheet Mapping
Spreadsheet Model Generator (SMOG): A Lightweight Tool for Object-Spreadsheet Mapping Open
In the life science domain, experts are usually familiar with spreadsheet software and often use it in their daily work to collect and structure required domain knowledge. The processing and analysis of spreadsheet data is an important tas…
View article: Design and Concept of the SMITH Phenotyping Pipeline
Design and Concept of the SMITH Phenotyping Pipeline Open
Phenotyping means the determination of clinical relevant phenotypes, e.g. by classification or calculation based on EHR data. Within the German Medical Informatics Initiative, the SMITH consortium is working on the implementation of a phen…
View article: Ontology-Guided Markerless Navigation and Situational Awareness for Endoscopic Surgery
Ontology-Guided Markerless Navigation and Situational Awareness for Endoscopic Surgery Open
Optical navigation systems help surgeons find their way through the complex anatomy of a patient. However, such systems are accident-sensitive, time-consuming and difficult to use because of their complicated technical requirements such as…
View article: Using Fast Healthcare Interoperability Resources (FHIR) for the Integration of Risk Minimization Systems in Hospitals
Using Fast Healthcare Interoperability Resources (FHIR) for the Integration of Risk Minimization Systems in Hospitals Open
With the growing strain of medical staff and complexity of patient care, the risk of medical errors increases. In this work we present the use of Fast Healthcare Interoperability Resources (FHIR) as communication standard for the integrati…
View article: Querying standardized EHRs by a Search Ontology XML extension (SOX).
Querying standardized EHRs by a Search Ontology XML extension (SOX). Open
Motivation: The previously developed Search Ontology (SO) allows domain experts to formally specify domain concepts, search terms associated to a domain, and rules describing domain concepts. So far, Lucene search queries can be generated …