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Design and Implementation of a Semantic Dialogue System for Radiologists [article]

Daniel Sonntag and Martin Huber and Manuel Möller and Alassane Ndiaye and Sonja Zillner and Alexander Cavallaro
2017 arXiv   pre-print
We will describe the clinical workflow and interaction requirements and focus on the design and implementation of a multimodal user interface for patient/image search or annotation and its implementation  ...  Ontology modeling provides the backbone for knowledge representation in the dialogue shell and the specific medical application domain; ontology structures are the communication basis of our combined semantic  ...  ACKNOWLEDGEMENTS This research has been supported in part by the THESEUS Program which is funded by the German Federal Ministry of Economics and Technology under the grant number 01MQ07016.  ... 
arXiv:1701.07381v1 fatcat:f6ywhufuc5hnjlruhilzyeqh6a

Autonomous Comprehensive Geriatric Assessment

Luigi Asprino, Aldo Gangemi, Andrea Giovanni Nuzzolese, Valentina Presutti, Diego Reforgiato Recupero, Alessandro Russo
2017 Zenodo  
The application relies on the CGA ontology, which is part of the Mario Ontology Network (MON)4, as a support to the execution of the assessment process and a reference model for storing test information  ...  This paper presents the MARIO's CGA (Comprehensive Geriatric Assessment) module for the Kompai platform that aims at autonomously performing and managing the execution of specific tests required in the  ...  "Managing active and healthy aging with use of caring service robots".  ... 
doi:10.5281/zenodo.1204421 fatcat:whpqhwgpyrfezeosmfkqf5ar6q

Interactive knowledge discovery with the doctor-in-the-loop: a practical example of cerebral aneurysms research

Dominic Girardi, Josef Küng, Raimund Kleiser, Michael Sonnberger, Doris Csillag, Johannes Trenkler, Andreas Holzinger
2016 Brain Informatics  
In the field of biomedical research, it is necessary to move the domain-experts into the center of this process with far-reaching consequences for both their research output and the process itself.  ...  We evaluated this approach in the medical domain for the case of cerebral aneurysms research.  ...  We also present an ontology-based research-data infrastructure for medical research which is based upon the newly presented process model for knowledge discovery.  ... 
doi:10.1007/s40708-016-0038-2 pmid:27747590 pmcid:PMC4999567 fatcat:f7afypwnbjdqle7u3fhyh2tt7e

MEDCIS: Multi-Modality Epilepsy Data Capture and Integration System

Guo-Qiang Zhang, Licong Cui, Samden Lhatoo, Stephan U Schuele, Satya S Sahoo
2014 AMIA Annual Symposium Proceedings  
About 74% of the 40 open clinical questions of interest were answerable accurately using the EpSO-driven VISual AGregagator and Explorer (VISAGE) interface.  ...  free text processing using NLP, prospective structured data capture using an ontology-driven interface, interfaces for cohort search and signal visualization, all in a single integrated environment.  ...  This research was supported by the PRISM (Prevention and Risk Identification of SUDEP Mortality) Project (1-P20-NS076965-01) and in part by the Case Western Reserve University CTSA Grant NIH/NCATS UL1TR000439  ... 
pmid:25954436 pmcid:PMC4420009 fatcat:dotru6xnhzczbmt6qcw4vdkwoq

Analyzing user interactions with biomedical ontologies: A visual perspective

Maulik R. Kamdar, Simon Walk, Tania Tudorache, Mark A. Musen
2018 Journal of Web Semantics  
To inspect large amounts of interaction, reuse, and real-world usage data at a glance, we make use of and extend PolygOnto, a visualization method that has been successfully used to analyze reuse of ontologies  ...  by biomedical researchers.  ...  Acknowledgments The authors acknowledge Manuel Salvadores and Alex Screnchuk for providing a triplestore dump of BioPortal ontologies.  ... 
doi:10.1016/j.websem.2017.12.002 pmid:29657560 pmcid:PMC5895104 fatcat:6mzalymrgffvjcw6g34d2p2uqi

BrainFrame: a knowledge visualization system for the neurosciences

Steven J. Barnes, Chris D. Shaw, Katy Börner, Jinah Park
2009 Visualization and Data Analysis 2009  
At run-time, this 'BrainFrame' project accesses several web-based ontologies and generates a semantically zoomable representation of any one of many levels of the human nervous system.  ...  The purpose of the project described in the present paper is to create a visualization of the knowledge base of the neurosciences.  ...  Most internet-using patients do considerable amounts of research on their illness (e.g., [ABC*07]).  ... 
doi:10.1117/12.812290 dblp:conf/vda/BarnesS09 fatcat:icrqavoifbgxzfgihk4zlxjkhy

Towards event sequence representation, reasoning and visualization for EHR data

Cui Tao, Krist Wongsuphasawat, Kimberly Clark, Catherine Plaisant, Ben Shneiderman, Christopher G. Chute
2012 Proceedings of the 2nd ACM SIGHIT symposium on International health informatics - IHI '12  
The LifeFlow system is designed to support an interactive exploration of event sequences using visualization techniques.  ...  Efficient analysis of event sequences and the ability to answer time-related, clinically important questions can accelerate clinical research in several areas such as causality assessments, decision support  ...  This research is partially supported by the National Science Foundation under Grant #0937060 to the Computing Research Association for the CIFellows Project, and the ONC Strategic Health IT Advanced Research  ... 
doi:10.1145/2110363.2110461 dblp:conf/ihi/TaoWCPSC12 fatcat:dbpwe5lh5ve75pnv2zw6jf3of4

Towards Ontology Co-creation in Institutionalized Care Settings

Lizzy Bleumers, An Jacobs, Nicky Sulmon, Mathijs Verstraete, Mieke Van Gils, Femke Ongenae, Ann Ackaert, Saar De Zutter
2011 Proceedings of the 5th International ICST Conference on Pervasive Computing Technologies for Healthcare  
In return, we offer what we have learned from our ongoing research. Co-creation; methods; care; ontology; e-health I.  ...  We describe the goal and procedure of the co-creation workshops that we have already held.  ...  ACKNOWLEDGMENT Part of this research was supported by the IBBT Project ACCIO (see also http://www.ibbt.be/en/projects/overviewprojects/p/detail/accio-2).  ... 
doi:10.4108/icst.pervasivehealth.2011.246110 dblp:conf/ph/BleumersJOASVGZ11 fatcat:o37dv2lstvdtnohizcpfyekcey

Ontology-Based Visualization of Hierarchical Neuroanatomical Structures [article]

Anja Kuß, Steffen Prohaska, Björn Meyer, Jürgen Rybak, Hans-Christian Hege
2008 Eurographics Workshop on Visual Computing for Biomedicine  
This work presents a method for generating intuitive visualizations for high-level user queries to an hierarchical surface-based neuroanatomical atlas.  ...  We combine a spreading activation approach for computing focus and context in an ontology with a specific level-of-detail strategy for hierarchical structures.  ...  Acknowledgements Anja Kuß is supported by the German Research Foundation (DFG, Grant HE 2948/4-1).  ... 
doi:10.2312/vcbm/vcbm08/177-184 fatcat:g4n73wqmuzdmflnddmkxy24jti

Semantic Social Networks for Integrated Healthcare [chapter]

Eleni Kaldoudi, Nikolas Dovrolis
2013 IFIP Advances in Information and Communication Technology  
An important aspect of integrated care is the provision of personalized patient empowerment and decision support services, especially in case of the chronic patient with comorbidities.  ...  The paper discusses a blending of notions of social networks and semantic technologies in order to develop comprehensive personalized and dynamic models of the chronic comorbid patient, their environment  ...  This work has been funded in part by the Project HELCOHOP: Development of Electronic Clinical Protocols, 2012-2015, MIS 375876, co-funded by European and National funds.  ... 
doi:10.1007/978-3-642-40543-3_76 fatcat:se6lq22txrfu7ermyxou25rgei

Application of Bioinformatics Tools in Gel-Based Proteomics [chapter]

Kah Wai, Min Jia, Serhiy Souchelnytskyi
2012 Integrative Proteomics  
Fig. 2 . 2 Data visualization of ontological-based classification.  ...  Ontology-based approaches for data integration provide a platform of communication between researchers.  ...  In Integrative Proteomics, expert researchers contribute both historical perspectives, new developments in sample preparation, gel-based and non-gel-based protein separation and identification using mass  ... 
doi:10.5772/31275 fatcat:ypwoadb465evlpt3nnaorr7uie

Knowledge-based Biomedical Data Science 2019 [article]

Tiffany J. Callahan, Ignacio J. Tripodi Computational Bioscience Program, Department of Pharmacology, University of Colorado Denver Anschutz Medical Campus
2019 arXiv   pre-print
Knowledge-based biomedical data science (KBDS) involves the design and implementation of computer systems that act as if they knew about biomedicine.  ...  Major themes include the relationships between knowledge graphs and machine learning, the use of natural language processing, and the expansion of knowledge-based approaches to novel domains, such as Chinese  ...  SUPPLEMENTAL MATERIAL The full versions of Tables 1-3 are submitted as Supplemental Tables 1-3.  ... 
arXiv:1910.06710v1 fatcat:kvz5k643zvhpdiq67blc2v33wi

An Overview of Ontologies in Virtual Reality-Based Training for Healthcare Domain

Ummul Hanan Mohamad, Mohammad Nazir Ahmad, Youcef Benferdia, Azrulhizam Shapi'i, Mohd Yazid Bajuri
2021 Frontiers in Medicine  
One major aspect of VR applications in this domain includes virtual reality-based training (VRT), which simplifies the complicated visualization process of diagnosis, treatment, disease analysis, and prevention  ...  From this overview, a base of knowledge for VRT development is proposed to initiate a comprehensive strategy in creating an effective ontology design for VRT applications in the healthcare domain.  ...  By answering this question, the researcher would be able to make contributions to the BOK of ontology engineering, BOK-OE in short.  ... 
doi:10.3389/fmed.2021.698855 fatcat:gzcbeti6tnhqrhlucrfjzvr2cq

Leveraging domain knowledge to facilitate visual exploration of large population datasets

William Hsu, Alex A T Bui
2013 AMIA Annual Symposium Proceedings  
Observational patient data provides an unprecedented opportunity to gleam new insights into diseases and assess patient quality of care, but a challenge lies in matching our ability to collect data with  ...  Visual analytic techniques are promising as they permit the exploration and manipulation of complex datasets through a graphical user interface.  ...  Bernard Churchill, Mark Litwin, and Jenny Yiee for their insights and support of this project.  ... 
pmid:24551363 pmcid:PMC3900204 fatcat:nlqpb5tflngjdddgaywxkddk5m

Semantic Medical Prescriptions -- Towards Intelligent and Interoperable Medical Prescriptions

Ali Khalili, Bita Sedaghati
2013 2013 IEEE Seventh International Conference on Semantic Computing  
Semantic prescriptions provide an interoperable interface which helps patients, physicians, pharmacists, researchers, pharmaceutical and insurance companies to collaboratively improve the quality of pharmaceutical  ...  There already exists different sources of information addressing different aspects of pharmaceutical research (e.g. chemical, pharmacological and pharmaceutical drug data, clinical trials, approved prescription  ...  ACKNOWLEDGEMENT We would to thank the AKSW research group members especially Prof. Sören Auer for their support during the development of Pharmer.  ... 
doi:10.1109/icsc.2013.66 dblp:conf/semco/KhaliliS13 fatcat:mgivw725sbdfbnp5s4wpuw22iy
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